changeset 8:768ed7cc0978 draft

planemo upload for repository https://github.com/brsynth/synbiocad-galaxy-wrappers commit aa5a9ac47997d9c1718b9c7eaff1b83c63ac1d58
author tduigou
date Fri, 29 Sep 2023 09:03:09 +0000
parents 8dc4d3964ab5
children 6a2871e89352
files get_infos.py get_sbml_model.xml model.sbml
diffstat 3 files changed, 169932 insertions(+), 43 deletions(-) [+]
line wrap: on
line diff
--- a/get_infos.py	Mon Sep 04 14:19:43 2023 +0000
+++ b/get_infos.py	Fri Sep 29 09:03:09 2023 +0000
@@ -5,7 +5,86 @@
 from requests import get as r_get
 
 
-def entry_point():
+def get_biomass_rxn(sbml_doc):
+    '''
+    Returns the biomass reaction of the model
+    
+    Parameters
+    ----------
+    sbml_doc: libsbml.SBMLDocument
+        SBML model
+        
+    Returns
+    -------
+    biomass_rxn: libsbml.Reaction
+        Biomass reaction
+    '''
+    reactions = sbml_doc.getModel().getListOfReactions()
+    # Search for 'biomass' keyword in reaction name
+    for rxn in reactions:
+        if 'biomass' in rxn.getName().lower():
+            return rxn
+    # Search for 'biomass' keyword in products
+    # AND not in reactants
+    for rxn in reactions:
+        in_reactants = False
+        for reac in rxn.getListOfReactants():
+            if 'biomass' in reac.getSpecies().lower():
+                in_reactants = True
+                break
+        if not in_reactants:
+            for prod in rxn.getListOfProducts():
+                if 'biomass' in prod.getSpecies().lower():
+                    return rxn
+    return None
+
+
+def get_taxon_id(hostid):
+    '''
+    Returns the taxonomy ID of the host organism
+    
+    Parameters
+    ----------
+    hostid: str
+        Extended name of the host organism
+        
+    Returns
+    -------
+    taxid: str
+        Taxonomy ID of the host organism
+    '''
+    taxid = get_taxon_id(hostid)
+    hostname = ''
+    # Extended Name
+    server = 'http://bigg.ucsd.edu/api/v2/models/'
+    ext = hostid
+    r = r_get(server+ext, headers={ "Content-Type" : "application/json"})
+    if not r.ok:
+        print(f"Warning: unable to retrieve host name for id {hostid}")
+    else:
+        try:
+            hostname = r.json()["organism"]
+        except KeyError:
+            print(f"Warning: unable to retrieve host name for id {hostid}")
+    if not hostname:
+        taxid = ''
+    else:
+        # TAXON ID
+        server = 'https://rest.ensembl.org'
+        ext = f'/taxonomy/id/{hostname}?'
+        r = r_get(server+ext, headers={ "Content-Type" : "application/json"})
+        if not r.ok:
+            print(f"Warning: unable to retrieve taxonomy ID for host organism {hostname}")
+        else:
+            try:
+                taxid = r.json()["id"]
+            except KeyError:
+                print(f"Warning: unable to retrieve taxonomy ID for host organism {hostname}")
+                taxid = ''
+    return taxid
+
+
+def args():
     parser = ArgumentParser('Returns cell informations')
     parser.add_argument(
         'infile',
@@ -29,6 +108,11 @@
         help='Path to store biomass reaction ID'
     )
     parser.add_argument(
+        '--biomass-id',
+        type=str,
+        help='ID of biomass reaction'
+    )
+    parser.add_argument(
         '--hostid',
         type=str,
         help='Extended name of the host organism'
@@ -39,63 +123,57 @@
         help='Path to store host taxonomy ID'
     )
     params = parser.parse_args()
+    return params
+
+
+def entry_point():
+
+    params = args()
 
     sbml_doc = readSBMLFromFile(params.infile)
 
+    compartments = sbml_doc.getModel().getListOfCompartments()
+    comp_str = ''
+    for comp in compartments:
+        comp_str += f'{comp.getId()}\t{comp.getName()}\n'
     if params.comp:
-        compartments = sbml_doc.getModel().getListOfCompartments()
         with open(params.comp, 'w') as f:
             f.write('#ID\tNAME\n')
-            for comp in compartments:
-                f.write(f'{comp.getId()}\t{comp.getName()}\n')
+            f.write(comp_str)
+    else:
+        print('Compartments:')
+        for comp in compartments:
+            print(f'{comp.getId()}\t{comp.getName()}'.replace('\n', ' | '))
 
+    if params.biomass_id:
+        biomass_rxn = sbml_doc.getModel().getReaction(params.biomass_id)
+    else:
+        biomass_rxn = get_biomass_rxn(sbml_doc)
+    if not biomass_rxn:
+        print('Warning: unable to retrieve biomass reaction')
+        biomass_id = ''
+    else:
+        biomass_id = biomass_rxn.getId()
     if params.biomass:
-        reactions = sbml_doc.getModel().getListOfReactions()
         with open(params.biomass, 'w') as f:
             f.write('#ID\n')
-            for rxn in reactions:
-                if 'biomass' in rxn.getId().lower():
-                    f.write(f'{rxn.getId()}\n')
+            f.write(f'{biomass_id}\n')
+    else:
+        print(f'Biomass reaction ID: {biomass_id}')
+
+    # Model from BiGG
+    if params.bigg:
+        taxid = get_taxon_id(params.hostid)
+    # Model from user
+    else:
+        taxid = params.hostid
 
     if params.taxid:
-        hostname = ''
-
-        # Model from BiGG
-        if params.bigg:
-            # Extended Name
-            server = 'http://bigg.ucsd.edu/api/v2/models/'
-            ext = params.hostid
-            r = r_get(server+ext, headers={ "Content-Type" : "application/json"})
-            if not r.ok:
-                print(f"Warning: unable to retrieve host name for id {params.hostid}")
-            else:
-                try:
-                    hostname = r.json()["organism"]
-                except KeyError:
-                    print(f"Warning: unable to retrieve host name for id {params.hostid}")
-            if not hostname:
-                taxid = ''
-            else:
-                # TAXON ID
-                server = 'https://rest.ensembl.org'
-                ext = f'/taxonomy/id/{hostname}?'
-                r = r_get(server+ext, headers={ "Content-Type" : "application/json"})
-                if not r.ok:
-                    print(f"Warning: unable to retrieve taxonomy ID for host organism {hostname}")
-                else:
-                    try:
-                        taxid = r.json()["id"]
-                    except KeyError:
-                        print(f"Warning: unable to retrieve taxonomy ID for host organism {hostname}")
-                        taxid = ''
-
-        # Model from user
-        else:
-            taxid = params.hostid
-
         with open(params.taxid, 'w') as f:
             f.write('#ID\n')
             f.write(f'{taxid}\n')
+    else:
+        print(f'Taxonomy ID: {taxid}')
 
 
 if __name__ == "__main__":
--- a/get_sbml_model.xml	Mon Sep 04 14:19:43 2023 +0000
+++ b/get_sbml_model.xml	Fri Sep 29 09:03:09 2023 +0000
@@ -20,6 +20,7 @@
         python '$__tool_directory__/'get_infos.py
             #if str($cond_src.from_src) == 'from_bigg'
                 '$model'
+                --bigg
                 --taxid '$taxid'
             #else
                 '${cond_src.input_file}'
--- /dev/null	Thu Jan 01 00:00:00 1970 +0000
+++ b/model.sbml	Fri Sep 29 09:03:09 2023 +0000
@@ -0,0 +1,169810 @@
+<?xml version='1.0' encoding='UTF-8'?>
+<sbml xmlns:fbc="http://www.sbml.org/sbml/level3/version1/fbc/version2" xmlns="http://www.sbml.org/sbml/level3/version1/core" level="3" version="1" sboTerm="SBO:0000624" fbc:required="false">
+  <model fbc:strict="true" id="iML1515">
+    <listOfUnitDefinitions>
+      <unitDefinition id="mmol_per_gDW_per_hr">
+        <listOfUnits>
+          <unit kind="mole" scale="-3" multiplier="1" exponent="1"/>
+          <unit kind="gram" scale="0" multiplier="1" exponent="-1"/>
+          <unit kind="second" scale="0" multiplier="3600" exponent="-1"/>
+        </listOfUnits>
+      </unitDefinition>
+    </listOfUnitDefinitions>
+    <fbc:listOfObjectives fbc:activeObjective="obj">
+      <fbc:objective fbc:id="obj" fbc:type="maximize">
+        <fbc:listOfFluxObjectives>
+          <fbc:fluxObjective fbc:reaction="R_BIOMASS_Ec_iML1515_core_75p37M" fbc:coefficient="1"/>
+        </fbc:listOfFluxObjectives>
+      </fbc:objective>
+    </fbc:listOfObjectives>
+    <listOfParameters>
+      <parameter value="-1000" id="cobra_default_lb" sboTerm="SBO:0000626" constant="true" units="mmol_per_gDW_per_hr"/>
+      <parameter value="1000" id="cobra_default_ub" sboTerm="SBO:0000626" constant="true" units="mmol_per_gDW_per_hr"/>
+      <parameter value="0" id="cobra_0_bound" sboTerm="SBO:0000626" constant="true" units="mmol_per_gDW_per_hr"/>
+      <parameter id="R_EX_glc__D_e_lower_bound" value="-10" sboTerm="SBO:0000625" constant="true" units="mmol_per_gDW_per_hr"/>
+      <parameter id="R_ATPM_lower_bound" value="6.86" sboTerm="SBO:0000625" constant="true" units="mmol_per_gDW_per_hr"/>
+    </listOfParameters>
+    <listOfCompartments>
+      <compartment id="c" name="cytosol" constant="true"/>
+      <compartment id="e" name="extracellular space" constant="true"/>
+      <compartment id="p" name="periplasm" constant="true"/>
+    </listOfCompartments>
+    <listOfSpecies>
+      <species id="M_octapb_c" constant="false" boundaryCondition="false" hasOnlySubstanceUnits="false" name="Octanoate (protein bound)" metaid="M_octapb_c" sboTerm="SBO:0000247" compartment="c" fbc:charge="1" fbc:chemicalFormula="C8H15O">
+        <sbml:annotation xmlns:sbml="http://www.sbml.org/sbml/level3/version1/core">
+          <rdf:RDF xmlns:rdf="http://www.w3.org/1999/02/22-rdf-syntax-ns#">
+            <rdf:Description rdf:about="#M_octapb_c">
+              <bqbiol:is xmlns:bqbiol="http://biomodels.net/biology-qualifiers/">
+                <rdf:Bag>
+                  <rdf:li rdf:resource="http://identifiers.org/bigg.metabolite/octapb"/>
+                  <rdf:li rdf:resource="http://identifiers.org/metanetx.chemical/MNXM147531"/>
+                </rdf:Bag>
+              </bqbiol:is>
+            </rdf:Description>
+          </rdf:RDF>
+        </sbml:annotation>
+      </species>
+      <species id="M_cysi__L_e" constant="false" boundaryCondition="false" hasOnlySubstanceUnits="false" name="L Cystine C6H12N2O4S2" metaid="M_cysi__L_e" sboTerm="SBO:0000247" compartment="e" fbc:charge="0" fbc:chemicalFormula="C6H12N2O4S2">
+        <sbml:annotation xmlns:sbml="http://www.sbml.org/sbml/level3/version1/core">
+          <rdf:RDF xmlns:rdf="http://www.w3.org/1999/02/22-rdf-syntax-ns#">
+            <rdf:Description rdf:about="#M_cysi__L_e">
+              <bqbiol:is xmlns:bqbiol="http://biomodels.net/biology-qualifiers/">
+                <rdf:Bag>
+                  <rdf:li rdf:resource="http://identifiers.org/bigg.metabolite/cysi__L"/>
+                  <rdf:li rdf:resource="http://identifiers.org/biocyc/META:CYSTINE"/>
+                  <rdf:li rdf:resource="http://identifiers.org/chebi/CHEBI:6209"/>
+                  <rdf:li rdf:resource="http://identifiers.org/chebi/CHEBI:35491"/>
+                  <rdf:li rdf:resource="http://identifiers.org/chebi/CHEBI:63163"/>
+                  <rdf:li rdf:resource="http://identifiers.org/chebi/CHEBI:13097"/>
+                  <rdf:li rdf:resource="http://identifiers.org/chebi/CHEBI:16283"/>
+                  <rdf:li rdf:resource="http://identifiers.org/chebi/CHEBI:21278"/>
+                  <rdf:li rdf:resource="http://identifiers.org/hmdb/HMDB00192"/>
+                  <rdf:li rdf:resource="http://identifiers.org/inchi_key/LEVWYRKDKASIDU-IMJSIDKUSA-N"/>
+                  <rdf:li rdf:resource="http://identifiers.org/kegg.compound/C00491"/>
+                  <rdf:li rdf:resource="http://identifiers.org/kegg.drug/D03636"/>
+                  <rdf:li rdf:resource="http://identifiers.org/metanetx.chemical/MNXM927"/>
+                  <rdf:li rdf:resource="http://identifiers.org/sabiork/2060"/>
+                  <rdf:li rdf:resource="http://identifiers.org/seed.compound/cpd00381"/>
+                </rdf:Bag>
+              </bqbiol:is>
+            </rdf:Description>
+          </rdf:RDF>
+        </sbml:annotation>
+      </species>
+      <species id="M_dhap_c" constant="false" boundaryCondition="false" hasOnlySubstanceUnits="false" name="Dihydroxyacetone phosphate" metaid="M_dhap_c" sboTerm="SBO:0000247" compartment="c" fbc:charge="-2" fbc:chemicalFormula="C3H5O6P">
+        <sbml:annotation xmlns:sbml="http://www.sbml.org/sbml/level3/version1/core">
+          <rdf:RDF xmlns:rdf="http://www.w3.org/1999/02/22-rdf-syntax-ns#">
+            <rdf:Description rdf:about="#M_dhap_c">
+              <bqbiol:is xmlns:bqbiol="http://biomodels.net/biology-qualifiers/">
+                <rdf:Bag>
+                  <rdf:li rdf:resource="http://identifiers.org/bigg.metabolite/dhap"/>
+                  <rdf:li rdf:resource="http://identifiers.org/biocyc/META:DIHYDROXY-ACETONE-PHOSPHATE"/>
+                  <rdf:li rdf:resource="http://identifiers.org/chebi/CHEBI:14341"/>
+                  <rdf:li rdf:resource="http://identifiers.org/chebi/CHEBI:5454"/>
+                  <rdf:li rdf:resource="http://identifiers.org/chebi/CHEBI:16108"/>
+                  <rdf:li rdf:resource="http://identifiers.org/chebi/CHEBI:14342"/>
+                  <rdf:li rdf:resource="http://identifiers.org/chebi/CHEBI:24355"/>
+                  <rdf:li rdf:resource="http://identifiers.org/chebi/CHEBI:39571"/>
+                  <rdf:li rdf:resource="http://identifiers.org/chebi/CHEBI:57642"/>
+                  <rdf:li rdf:resource="http://identifiers.org/hmdb/HMDB11735"/>
+                  <rdf:li rdf:resource="http://identifiers.org/hmdb/HMDB01473"/>
+                  <rdf:li rdf:resource="http://identifiers.org/inchi_key/GNGACRATGGDKBX-UHFFFAOYSA-L"/>
+                  <rdf:li rdf:resource="http://identifiers.org/kegg.compound/C00111"/>
+                  <rdf:li rdf:resource="http://identifiers.org/metanetx.chemical/MNXM77"/>
+                  <rdf:li rdf:resource="http://identifiers.org/reactome.compound/390404"/>
+                  <rdf:li rdf:resource="http://identifiers.org/reactome.compound/75970"/>
+                  <rdf:li rdf:resource="http://identifiers.org/reactome.compound/188451"/>
+                  <rdf:li rdf:resource="http://identifiers.org/sabiork/28"/>
+                  <rdf:li rdf:resource="http://identifiers.org/seed.compound/cpd00095"/>
+                </rdf:Bag>
+              </bqbiol:is>
+            </rdf:Description>
+          </rdf:RDF>
+        </sbml:annotation>
+      </species>
+      <species id="M_prbatp_c" constant="false" boundaryCondition="false" hasOnlySubstanceUnits="false" name="1-(5-Phosphoribosyl)-ATP" metaid="M_prbatp_c" sboTerm="SBO:0000247" compartment="c" fbc:charge="-6" fbc:chemicalFormula="C15H19N5O20P4">
+        <sbml:annotation xmlns:sbml="http://www.sbml.org/sbml/level3/version1/core">
+          <rdf:RDF xmlns:rdf="http://www.w3.org/1999/02/22-rdf-syntax-ns#">
+            <rdf:Description rdf:about="#M_prbatp_c">
+              <bqbiol:is xmlns:bqbiol="http://biomodels.net/biology-qualifiers/">
+                <rdf:Bag>
+                  <rdf:li rdf:resource="http://identifiers.org/bigg.metabolite/prbatp"/>
+                  <rdf:li rdf:resource="http://identifiers.org/biocyc/META:PHOSPHORIBOSYL-ATP"/>
+                  <rdf:li rdf:resource="http://identifiers.org/chebi/CHEBI:73200"/>
+                  <rdf:li rdf:resource="http://identifiers.org/chebi/CHEBI:58424"/>
+                  <rdf:li rdf:resource="http://identifiers.org/chebi/CHEBI:11196"/>
+                  <rdf:li rdf:resource="http://identifiers.org/chebi/CHEBI:18263"/>
+                  <rdf:li rdf:resource="http://identifiers.org/chebi/CHEBI:73183"/>
+                  <rdf:li rdf:resource="http://identifiers.org/chebi/CHEBI:8167"/>
+                  <rdf:li rdf:resource="http://identifiers.org/chebi/CHEBI:18970"/>
+                  <rdf:li rdf:resource="http://identifiers.org/chebi/CHEBI:59460"/>
+                  <rdf:li rdf:resource="http://identifiers.org/chebi/CHEBI:11192"/>
+                  <rdf:li rdf:resource="http://identifiers.org/hmdb/HMDB03665"/>
+                  <rdf:li rdf:resource="http://identifiers.org/inchi_key/RKNHJBVBFHDXGR-KEOHHSTQSA-H"/>
+                  <rdf:li rdf:resource="http://identifiers.org/kegg.compound/C02739"/>
+                  <rdf:li rdf:resource="http://identifiers.org/metanetx.chemical/MNXM1351"/>
+                  <rdf:li rdf:resource="http://identifiers.org/seed.compound/cpd01775"/>
+                </rdf:Bag>
+              </bqbiol:is>
+            </rdf:Description>
+          </rdf:RDF>
+        </sbml:annotation>
+      </species>
+      <species id="M_10fthf_c" constant="false" boundaryCondition="false" hasOnlySubstanceUnits="false" name="10-Formyltetrahydrofolate" metaid="M_10fthf_c" sboTerm="SBO:0000247" compartment="c" fbc:charge="-2" fbc:chemicalFormula="C20H21N7O7">
+        <sbml:annotation xmlns:sbml="http://www.sbml.org/sbml/level3/version1/core">
+          <rdf:RDF xmlns:rdf="http://www.w3.org/1999/02/22-rdf-syntax-ns#">
+            <rdf:Description rdf:about="#M_10fthf_c">
+              <bqbiol:is xmlns:bqbiol="http://biomodels.net/biology-qualifiers/">
+                <rdf:Bag>
+                  <rdf:li rdf:resource="http://identifiers.org/bigg.metabolite/10fthf"/>
+                  <rdf:li rdf:resource="http://identifiers.org/biocyc/META:10-FORMYL-THF"/>
+                  <rdf:li rdf:resource="http://identifiers.org/chebi/CHEBI:19108"/>
+                  <rdf:li rdf:resource="http://identifiers.org/chebi/CHEBI:15637"/>
+                  <rdf:li rdf:resource="http://identifiers.org/chebi/CHEBI:698"/>
+                  <rdf:li rdf:resource="http://identifiers.org/chebi/CHEBI:19109"/>
+                  <rdf:li rdf:resource="http://identifiers.org/chebi/CHEBI:11304"/>
+                  <rdf:li rdf:resource="http://identifiers.org/chebi/CHEBI:57454"/>
+                  <rdf:li rdf:resource="http://identifiers.org/hmdb/HMDB00972"/>
+                  <rdf:li rdf:resource="http://identifiers.org/inchi_key/AUFGTPPARQZWDO-YPMHNXCESA-L"/>
+                  <rdf:li rdf:resource="http://identifiers.org/kegg.compound/C00234"/>
+                  <rdf:li rdf:resource="http://identifiers.org/metanetx.chemical/MNXM237"/>
+                  <rdf:li rdf:resource="http://identifiers.org/reactome.compound/5389850"/>
+                  <rdf:li rdf:resource="http://identifiers.org/reactome.compound/419151"/>
+                  <rdf:li rdf:resource="http://identifiers.org/sabiork/1318"/>
+                  <rdf:li rdf:resource="http://identifiers.org/seed.compound/cpd00201"/>
+                </rdf:Bag>
+              </bqbiol:is>
+            </rdf:Description>
+          </rdf:RDF>
+        </sbml:annotation>
+      </species>
+      <species id="M_btal_c" constant="false" boundaryCondition="false" hasOnlySubstanceUnits="false" name="Butanal C4H8O" metaid="M_btal_c" sboTerm="SBO:0000247" compartment="c" fbc:charge="0" fbc:chemicalFormula="C4H8O">
+        <sbml:annotation xmlns:sbml="http://www.sbml.org/sbml/level3/version1/core">
+          <rdf:RDF xmlns:rdf="http://www.w3.org/1999/02/22-rdf-syntax-ns#">
+            <rdf:Description rdf:about="#M_btal_c">
+              <bqbiol:is xmlns:bqbiol="http://biomodels.net/biology-qualifiers/">
+                <rdf:Bag>
+                  <rdf:li rdf:resource="http://identifiers.org/bigg.metabolite/btal"/>
+                  <rdf:li rdf:resource="http://identifiers.org/biocyc/META:BUTANAL"/>
+                  <rdf:li rdf:resource="http://identifiers.org/chebi/CHEBI:22938"/>
+                  <rdf:li rdf:resource="http://identifiers.org/chebi/CHEBI:3233"/>
+                  <rdf:li rdf:resource="http://identifiers.org/chebi/CHEBI:15743"/>
+                  <rdf:li rdf:resource="http://identifiers.org/chebi/CHEBI:13923"/>
+                  <rdf:li rdf:resource="http://identifiers.org/envipath/650babc9-9d68-4b73-9332-11972ca26f7b/compound/242f8a4e-2a91-4c5f-a129-d044d115b969"/>
+                  <rdf:li rdf:resource="http://identifiers.org/hmdb/HMDB03543"/>
+                  <rdf:li rdf:resource="http://identifiers.org/inchi_key/ZTQSAGDEMFDKMZ-UHFFFAOYSA-N"/>
+                  <rdf:li rdf:resource="http://identifiers.org/kegg.compound/C01412"/>
+                  <rdf:li rdf:resource="http://identifiers.org/metanetx.chemical/MNXM1017"/>
+                  <rdf:li rdf:resource="http://identifiers.org/sabiork/2281"/>
+                  <rdf:li rdf:resource="http://identifiers.org/seed.compound/cpd01011"/>
+                </rdf:Bag>
+              </bqbiol:is>
+            </rdf:Description>
+          </rdf:RDF>
+        </sbml:annotation>
+      </species>
+      <species id="M_6pgg_c" constant="false" boundaryCondition="false" hasOnlySubstanceUnits="false" name="6-Phospho-beta-D-glucosyl-(1,4)-D-glucose" metaid="M_6pgg_c" sboTerm="SBO:0000247" compartment="c" fbc:charge="-2" fbc:chemicalFormula="C12H21O14P">
+        <sbml:annotation xmlns:sbml="http://www.sbml.org/sbml/level3/version1/core">
+          <rdf:RDF xmlns:rdf="http://www.w3.org/1999/02/22-rdf-syntax-ns#">
+            <rdf:Description rdf:about="#M_6pgg_c">
+              <bqbiol:is xmlns:bqbiol="http://biomodels.net/biology-qualifiers/">
+                <rdf:Bag>
+                  <rdf:li rdf:resource="http://identifiers.org/bigg.metabolite/6pgg"/>
+                  <rdf:li rdf:resource="http://identifiers.org/metanetx.chemical/MNXM147389"/>
+                </rdf:Bag>
+              </bqbiol:is>
+            </rdf:Description>
+          </rdf:RDF>
+        </sbml:annotation>
+      </species>
+      <species id="M_co2_e" constant="false" boundaryCondition="false" hasOnlySubstanceUnits="false" name="CO2 CO2" metaid="M_co2_e" sboTerm="SBO:0000247" compartment="e" fbc:charge="0" fbc:chemicalFormula="CO2">
+        <sbml:annotation xmlns:sbml="http://www.sbml.org/sbml/level3/version1/core">
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+                </rdf:Bag>
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+                  <rdf:li rdf:resource="http://identifiers.org/refseq_synonym/tynP?"/>
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+                  <rdf:li rdf:resource="http://identifiers.org/seed.reaction/rxn00369"/>
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+          <speciesReference species="M_cytd_c" stoichiometry="1" constant="true"/>
+          <speciesReference species="M_gtp_c" stoichiometry="1" constant="true"/>
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+        <listOfProducts>
+          <speciesReference species="M_cmp_c" stoichiometry="1" constant="true"/>
+          <speciesReference species="M_gdp_c" stoichiometry="1" constant="true"/>
+          <speciesReference species="M_h_c" stoichiometry="1" constant="true"/>
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+        <fbc:geneProductAssociation>
+          <fbc:geneProductRef fbc:geneProduct="G_b2066"/>
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+                  <rdf:li rdf:resource="http://identifiers.org/seed.reaction/rxn01544"/>
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+        <listOfReactants>
+          <speciesReference species="M_prpp_c" stoichiometry="1" constant="true"/>
+          <speciesReference species="M_xan_c" stoichiometry="1" constant="true"/>
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+        <listOfProducts>
+          <speciesReference species="M_ppi_c" stoichiometry="1" constant="true"/>
+          <speciesReference species="M_xmp_c" stoichiometry="1" constant="true"/>
+        </listOfProducts>
+        <fbc:geneProductAssociation>
+          <fbc:geneProductRef fbc:geneProduct="G_b0238"/>
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+      <reaction id="R_HXPRT" fast="false" reversible="false" name="Hypoxanthine phosphoribosyltransferase (Hypoxanthine)" metaid="R_HXPRT" sboTerm="SBO:0000176" fbc:upperFluxBound="cobra_default_ub" fbc:lowerFluxBound="cobra_0_bound">
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+              <bqbiol:is xmlns:bqbiol="http://biomodels.net/biology-qualifiers/">
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+                  <rdf:li rdf:resource="http://identifiers.org/ec-code/2.4.2.8"/>
+                  <rdf:li rdf:resource="http://identifiers.org/kegg.reaction/R01132"/>
+                  <rdf:li rdf:resource="http://identifiers.org/metanetx.reaction/MNXR100752"/>
+                  <rdf:li rdf:resource="http://identifiers.org/rhea/17976"/>
+                  <rdf:li rdf:resource="http://identifiers.org/rhea/17974"/>
+                  <rdf:li rdf:resource="http://identifiers.org/rhea/17973"/>
+                  <rdf:li rdf:resource="http://identifiers.org/rhea/17975"/>
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+                  <rdf:li rdf:resource="http://identifiers.org/seed.reaction/rxn00836"/>
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+          <speciesReference species="M_hxan_c" stoichiometry="1" constant="true"/>
+          <speciesReference species="M_prpp_c" stoichiometry="1" constant="true"/>
+        </listOfReactants>
+        <listOfProducts>
+          <speciesReference species="M_imp_c" stoichiometry="1" constant="true"/>
+          <speciesReference species="M_ppi_c" stoichiometry="1" constant="true"/>
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+            <fbc:geneProductRef fbc:geneProduct="G_b0238"/>
+            <fbc:geneProductRef fbc:geneProduct="G_b0125"/>
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+        <sbml:annotation xmlns:sbml="http://www.sbml.org/sbml/level3/version1/core">
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+              <bqbiol:is xmlns:bqbiol="http://biomodels.net/biology-qualifiers/">
+                <rdf:Bag>
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+                  <rdf:li rdf:resource="http://identifiers.org/biocyc/META:DGDPKIN-RXN"/>
+                  <rdf:li rdf:resource="http://identifiers.org/ec-code/2.7.4.6"/>
+                  <rdf:li rdf:resource="http://identifiers.org/kegg.reaction/R01857"/>
+                  <rdf:li rdf:resource="http://identifiers.org/metanetx.reaction/MNXR96118"/>
+                  <rdf:li rdf:resource="http://identifiers.org/rhea/27692"/>
+                  <rdf:li rdf:resource="http://identifiers.org/rhea/27690"/>
+                  <rdf:li rdf:resource="http://identifiers.org/rhea/27691"/>
+                  <rdf:li rdf:resource="http://identifiers.org/rhea/27693"/>
+                  <rdf:li rdf:resource="http://identifiers.org/sabiork/183"/>
+                  <rdf:li rdf:resource="http://identifiers.org/seed.reaction/rxn01353"/>
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+        </sbml:annotation>
+        <listOfReactants>
+          <speciesReference species="M_atp_c" stoichiometry="1" constant="true"/>
+          <speciesReference species="M_dgdp_c" stoichiometry="1" constant="true"/>
+        </listOfReactants>
+        <listOfProducts>
+          <speciesReference species="M_adp_c" stoichiometry="1" constant="true"/>
+          <speciesReference species="M_dgtp_c" stoichiometry="1" constant="true"/>
+        </listOfProducts>
+        <fbc:geneProductAssociation>
+          <fbc:or>
+            <fbc:geneProductRef fbc:geneProduct="G_b0474"/>
+            <fbc:geneProductRef fbc:geneProduct="G_b2518"/>
+          </fbc:or>
+        </fbc:geneProductAssociation>
+      </reaction>
+      <reaction id="R_SHK3Dr" fast="false" reversible="true" name="Shikimate dehydrogenase" metaid="R_SHK3Dr" sboTerm="SBO:0000176" fbc:upperFluxBound="cobra_default_ub" fbc:lowerFluxBound="cobra_default_lb">
+        <sbml:annotation xmlns:sbml="http://www.sbml.org/sbml/level3/version1/core">
+          <rdf:RDF xmlns:rdf="http://www.w3.org/1999/02/22-rdf-syntax-ns#">
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+                <rdf:Bag>
+                  <rdf:li rdf:resource="http://identifiers.org/bigg.reaction/SHK3Dr"/>
+                  <rdf:li rdf:resource="http://identifiers.org/biocyc/META:SHIKIMATE-5-DEHYDROGENASE-RXN"/>
+                  <rdf:li rdf:resource="http://identifiers.org/ec-code/1.1.1.25"/>
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+                  <rdf:li rdf:resource="http://identifiers.org/kegg.reaction/R02413"/>
+                  <rdf:li rdf:resource="http://identifiers.org/metanetx.reaction/MNXR104378"/>
+                  <rdf:li rdf:resource="http://identifiers.org/reactome.reaction/R-MTU-964842"/>
+                  <rdf:li rdf:resource="http://identifiers.org/rhea/17739"/>
+                  <rdf:li rdf:resource="http://identifiers.org/rhea/17738"/>
+                  <rdf:li rdf:resource="http://identifiers.org/rhea/17737"/>
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+            <fbc:geneProductRef fbc:geneProduct="G_b2551"/>
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+            <fbc:geneProductRef fbc:geneProduct="G_b4384"/>
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+          <speciesReference species="M_nadh_c" stoichiometry="1" constant="true"/>
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+          <speciesReference species="M_glu__L_c" stoichiometry="1" constant="true"/>
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+        <fbc:geneProductAssociation>
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+          <speciesReference species="M_pi_c" stoichiometry="1" constant="true"/>
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+          <speciesReference species="M_h2o_c" stoichiometry="2" constant="true"/>
+          <speciesReference species="M_pppg9_c" stoichiometry="1" constant="true"/>
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+                  <rdf:li rdf:resource="http://identifiers.org/rhea/16295"/>
+                  <rdf:li rdf:resource="http://identifiers.org/rhea/16296"/>
+                  <rdf:li rdf:resource="http://identifiers.org/rhea/16294"/>
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+          <speciesReference species="M_2ippm_c" stoichiometry="1" constant="true"/>
+          <speciesReference species="M_h2o_c" stoichiometry="1" constant="true"/>
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+        <listOfProducts>
+          <speciesReference species="M_3c3hmp_c" stoichiometry="1" constant="true"/>
+        </listOfProducts>
+        <fbc:geneProductAssociation>
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+            <fbc:geneProductRef fbc:geneProduct="G_b0071"/>
+            <fbc:geneProductRef fbc:geneProduct="G_b0072"/>
+          </fbc:and>
+        </fbc:geneProductAssociation>
+      </reaction>
+      <reaction id="R_GLYCTO4" fast="false" reversible="false" name="Glycolate oxidase" metaid="R_GLYCTO4" sboTerm="SBO:0000176" fbc:upperFluxBound="cobra_default_ub" fbc:lowerFluxBound="cobra_0_bound">
+        <sbml:annotation xmlns:sbml="http://www.sbml.org/sbml/level3/version1/core">
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+                  <rdf:li rdf:resource="http://identifiers.org/seed.reaction/rxn08657"/>
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+            </rdf:Description>
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+        </sbml:annotation>
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+          <speciesReference species="M_2dmmq8_c" stoichiometry="1" constant="true"/>
+          <speciesReference species="M_glyclt_c" stoichiometry="1" constant="true"/>
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+        <listOfProducts>
+          <speciesReference species="M_2dmmql8_c" stoichiometry="1" constant="true"/>
+          <speciesReference species="M_glx_c" stoichiometry="1" constant="true"/>
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+        <fbc:geneProductAssociation>
+          <fbc:and>
+            <fbc:geneProductRef fbc:geneProduct="G_b2979"/>
+            <fbc:geneProductRef fbc:geneProduct="G_b4468"/>
+            <fbc:geneProductRef fbc:geneProduct="G_b4467"/>
+          </fbc:and>
+        </fbc:geneProductAssociation>
+      </reaction>
+      <reaction id="R_ORPT" fast="false" reversible="true" name="Orotate phosphoribosyltransferase" metaid="R_ORPT" sboTerm="SBO:0000176" fbc:upperFluxBound="cobra_default_ub" fbc:lowerFluxBound="cobra_default_lb">
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+                  <rdf:li rdf:resource="http://identifiers.org/rhea/10383"/>
+                  <rdf:li rdf:resource="http://identifiers.org/rhea/10382"/>
+                  <rdf:li rdf:resource="http://identifiers.org/rhea/10380"/>
+                  <rdf:li rdf:resource="http://identifiers.org/sabiork/401"/>
+                  <rdf:li rdf:resource="http://identifiers.org/seed.reaction/rxn01362"/>
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+          <speciesReference species="M_orot5p_c" stoichiometry="1" constant="true"/>
+          <speciesReference species="M_ppi_c" stoichiometry="1" constant="true"/>
+        </listOfReactants>
+        <listOfProducts>
+          <speciesReference species="M_orot_c" stoichiometry="1" constant="true"/>
+          <speciesReference species="M_prpp_c" stoichiometry="1" constant="true"/>
+        </listOfProducts>
+        <fbc:geneProductAssociation>
+          <fbc:geneProductRef fbc:geneProduct="G_b3642"/>
+        </fbc:geneProductAssociation>
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+      <reaction id="R_RBFSa" fast="false" reversible="false" name="Riboflavin synthase" metaid="R_RBFSa" sboTerm="SBO:0000176" fbc:upperFluxBound="cobra_default_ub" fbc:lowerFluxBound="cobra_0_bound">
+        <sbml:annotation xmlns:sbml="http://www.sbml.org/sbml/level3/version1/core">
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+              <bqbiol:is xmlns:bqbiol="http://biomodels.net/biology-qualifiers/">
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+                  <rdf:li rdf:resource="http://identifiers.org/ec-code/2.5.1.78"/>
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+                  <rdf:li rdf:resource="http://identifiers.org/metanetx.reaction/MNXR97501"/>
+                  <rdf:li rdf:resource="http://identifiers.org/sabiork/8561"/>
+                  <rdf:li rdf:resource="http://identifiers.org/seed.reaction/rxn03080"/>
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+          <speciesReference species="M_db4p_c" stoichiometry="1" constant="true"/>
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+        <listOfProducts>
+          <speciesReference species="M_dmlz_c" stoichiometry="1" constant="true"/>
+          <speciesReference species="M_h2o_c" stoichiometry="2" constant="true"/>
+          <speciesReference species="M_pi_c" stoichiometry="1" constant="true"/>
+        </listOfProducts>
+        <fbc:geneProductAssociation>
+          <fbc:geneProductRef fbc:geneProduct="G_b0415"/>
+        </fbc:geneProductAssociation>
+      </reaction>
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+        <sbml:annotation xmlns:sbml="http://www.sbml.org/sbml/level3/version1/core">
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+                  <rdf:li rdf:resource="http://identifiers.org/rhea/27656"/>
+                  <rdf:li rdf:resource="http://identifiers.org/sabiork/6688"/>
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+        </sbml:annotation>
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+          <speciesReference species="M_2obut_c" stoichiometry="1" constant="true"/>
+          <speciesReference species="M_h_c" stoichiometry="1" constant="true"/>
+          <speciesReference species="M_pyr_c" stoichiometry="1" constant="true"/>
+        </listOfReactants>
+        <listOfProducts>
+          <speciesReference species="M_2ahbut_c" stoichiometry="1" constant="true"/>
+          <speciesReference species="M_co2_c" stoichiometry="1" constant="true"/>
+        </listOfProducts>
+        <fbc:geneProductAssociation>
+          <fbc:or>
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+              <fbc:geneProductRef fbc:geneProduct="G_b3670"/>
+              <fbc:geneProductRef fbc:geneProduct="G_b3671"/>
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+            <fbc:and>
+              <fbc:geneProductRef fbc:geneProduct="G_b0077"/>
+              <fbc:geneProductRef fbc:geneProduct="G_b0078"/>
+            </fbc:and>
+          </fbc:or>
+        </fbc:geneProductAssociation>
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+        <sbml:annotation xmlns:sbml="http://www.sbml.org/sbml/level3/version1/core">
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+              <bqbiol:is xmlns:bqbiol="http://biomodels.net/biology-qualifiers/">
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+                  <rdf:li rdf:resource="http://identifiers.org/biocyc/META:RXN0-6541"/>
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+                  <rdf:li rdf:resource="http://identifiers.org/rhea/31445"/>
+                  <rdf:li rdf:resource="http://identifiers.org/rhea/31446"/>
+                  <rdf:li rdf:resource="http://identifiers.org/rhea/31444"/>
+                  <rdf:li rdf:resource="http://identifiers.org/rhea/31443"/>
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+                  <rdf:li rdf:resource="http://identifiers.org/seed.reaction/rxn01343"/>
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+        </sbml:annotation>
+        <listOfReactants>
+          <speciesReference species="M_atp_c" stoichiometry="1" constant="true"/>
+          <speciesReference species="M_s7p_c" stoichiometry="1" constant="true"/>
+        </listOfReactants>
+        <listOfProducts>
+          <speciesReference species="M_adp_c" stoichiometry="1" constant="true"/>
+          <speciesReference species="M_h_c" stoichiometry="1" constant="true"/>
+          <speciesReference species="M_s17bp_c" stoichiometry="1" constant="true"/>
+        </listOfProducts>
+        <fbc:geneProductAssociation>
+          <fbc:geneProductRef fbc:geneProduct="G_b3916"/>
+        </fbc:geneProductAssociation>
+      </reaction>
+      <reaction id="R_DHAD2" fast="false" reversible="false" name="Dihydroxy-acid dehydratase (2,3-dihydroxy-3-methylpentanoate)" metaid="R_DHAD2" sboTerm="SBO:0000176" fbc:upperFluxBound="cobra_default_ub" fbc:lowerFluxBound="cobra_0_bound">
+        <sbml:annotation xmlns:sbml="http://www.sbml.org/sbml/level3/version1/core">
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+              <bqbiol:is xmlns:bqbiol="http://biomodels.net/biology-qualifiers/">
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+                  <rdf:li rdf:resource="http://identifiers.org/biocyc/META:DIHYDROXYMETVALDEHYDRAT-RXN"/>
+                  <rdf:li rdf:resource="http://identifiers.org/ec-code/4.2.1.9"/>
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+                  <rdf:li rdf:resource="http://identifiers.org/metanetx.reaction/MNXR97359"/>
+                  <rdf:li rdf:resource="http://identifiers.org/rhea/27694"/>
+                  <rdf:li rdf:resource="http://identifiers.org/rhea/27696"/>
+                  <rdf:li rdf:resource="http://identifiers.org/rhea/27697"/>
+                  <rdf:li rdf:resource="http://identifiers.org/rhea/27695"/>
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+          <speciesReference species="M_23dhmp_c" stoichiometry="1" constant="true"/>
+        </listOfReactants>
+        <listOfProducts>
+          <speciesReference species="M_3mop_c" stoichiometry="1" constant="true"/>
+          <speciesReference species="M_h2o_c" stoichiometry="1" constant="true"/>
+        </listOfProducts>
+        <fbc:geneProductAssociation>
+          <fbc:geneProductRef fbc:geneProduct="G_b3771"/>
+        </fbc:geneProductAssociation>
+      </reaction>
+      <reaction id="R_ACLS" fast="false" reversible="false" name="Acetolactate synthase" metaid="R_ACLS" sboTerm="SBO:0000176" fbc:upperFluxBound="cobra_default_ub" fbc:lowerFluxBound="cobra_0_bound">
+        <sbml:annotation xmlns:sbml="http://www.sbml.org/sbml/level3/version1/core">
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+            <rdf:Description rdf:about="#R_ACLS">
+              <bqbiol:is xmlns:bqbiol="http://biomodels.net/biology-qualifiers/">
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+                  <rdf:li rdf:resource="http://identifiers.org/biocyc/META:ACETOLACTSYN-RXN"/>
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+                  <rdf:li rdf:resource="http://identifiers.org/metanetx.reaction/MNXR95271"/>
+                  <rdf:li rdf:resource="http://identifiers.org/rhea/25252"/>
+                  <rdf:li rdf:resource="http://identifiers.org/rhea/25251"/>
+                  <rdf:li rdf:resource="http://identifiers.org/rhea/25249"/>
+                  <rdf:li rdf:resource="http://identifiers.org/rhea/25250"/>
+                  <rdf:li rdf:resource="http://identifiers.org/sabiork/749"/>
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+          </rdf:RDF>
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+          <speciesReference species="M_h_c" stoichiometry="1" constant="true"/>
+          <speciesReference species="M_pyr_c" stoichiometry="2" constant="true"/>
+        </listOfReactants>
+        <listOfProducts>
+          <speciesReference species="M_alac__S_c" stoichiometry="1" constant="true"/>
+          <speciesReference species="M_co2_c" stoichiometry="1" constant="true"/>
+        </listOfProducts>
+        <fbc:geneProductAssociation>
+          <fbc:or>
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+              <fbc:geneProductRef fbc:geneProduct="G_b0077"/>
+              <fbc:geneProductRef fbc:geneProduct="G_b0078"/>
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+            <fbc:and>
+              <fbc:geneProductRef fbc:geneProduct="G_b3670"/>
+              <fbc:geneProductRef fbc:geneProduct="G_b3671"/>
+            </fbc:and>
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+        </fbc:geneProductAssociation>
+      </reaction>
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+        <sbml:annotation xmlns:sbml="http://www.sbml.org/sbml/level3/version1/core">
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+                  <rdf:li rdf:resource="http://identifiers.org/sabiork/1054"/>
+                  <rdf:li rdf:resource="http://identifiers.org/seed.reaction/rxn00474"/>
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+        </sbml:annotation>
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+          <speciesReference species="M_indole_c" stoichiometry="1" constant="true"/>
+          <speciesReference species="M_ser__L_c" stoichiometry="1" constant="true"/>
+        </listOfReactants>
+        <listOfProducts>
+          <speciesReference species="M_h2o_c" stoichiometry="1" constant="true"/>
+          <speciesReference species="M_trp__L_c" stoichiometry="1" constant="true"/>
+        </listOfProducts>
+        <fbc:geneProductAssociation>
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+            <fbc:geneProductRef fbc:geneProduct="G_b1260"/>
+            <fbc:geneProductRef fbc:geneProduct="G_b1261"/>
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+        </fbc:geneProductAssociation>
+      </reaction>
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+                  <rdf:li rdf:resource="http://identifiers.org/ec-code/2.5.1.19"/>
+                  <rdf:li rdf:resource="http://identifiers.org/kegg.reaction/R03460"/>
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+                  <rdf:li rdf:resource="http://identifiers.org/reactome.reaction/R-MTU-964886"/>
+                  <rdf:li rdf:resource="http://identifiers.org/rhea/21259"/>
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+          <speciesReference species="M_skm5p_c" stoichiometry="1" constant="true"/>
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+        <listOfProducts>
+          <speciesReference species="M_3psme_c" stoichiometry="1" constant="true"/>
+          <speciesReference species="M_pi_c" stoichiometry="1" constant="true"/>
+        </listOfProducts>
+        <fbc:geneProductAssociation>
+          <fbc:geneProductRef fbc:geneProduct="G_b0908"/>
+        </fbc:geneProductAssociation>
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+                  <rdf:li rdf:resource="http://identifiers.org/rhea/28752"/>
+                  <rdf:li rdf:resource="http://identifiers.org/rhea/28754"/>
+                  <rdf:li rdf:resource="http://identifiers.org/rhea/28751"/>
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+          <speciesReference species="M_dhap_c" stoichiometry="1" constant="true"/>
+          <speciesReference species="M_q8h2_c" stoichiometry="1" constant="true"/>
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+              <fbc:geneProductRef fbc:geneProduct="G_b2242"/>
+              <fbc:geneProductRef fbc:geneProduct="G_b2241"/>
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+            <fbc:geneProductRef fbc:geneProduct="G_b3426"/>
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+        </fbc:geneProductAssociation>
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+          <speciesReference species="M_h2o_c" stoichiometry="1" constant="true"/>
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+        <listOfProducts>
+          <speciesReference species="M_glc__D_c" stoichiometry="1" constant="true"/>
+          <speciesReference species="M_pi_c" stoichiometry="1" constant="true"/>
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+            <fbc:geneProductRef fbc:geneProduct="G_b3885"/>
+            <fbc:geneProductRef fbc:geneProduct="G_b3697"/>
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+        </fbc:geneProductAssociation>
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+                  <rdf:li rdf:resource="http://identifiers.org/biocyc/META:PYRUVFORMLY-RXN"/>
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+        <listOfProducts>
+          <speciesReference species="M_accoa_c" stoichiometry="1" constant="true"/>
+          <speciesReference species="M_for_c" stoichiometry="1" constant="true"/>
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+              <fbc:geneProductRef fbc:geneProduct="G_b0903"/>
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+              <fbc:geneProductRef fbc:geneProduct="G_b0902"/>
+              <fbc:geneProductRef fbc:geneProduct="G_b3114"/>
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+              <fbc:geneProductRef fbc:geneProduct="G_b3952"/>
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+              <fbc:geneProductRef fbc:geneProduct="G_b2579"/>
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+        </fbc:geneProductAssociation>
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+          <speciesReference species="M_glu__L_c" stoichiometry="1" constant="true"/>
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+          <speciesReference species="M_pyr_c" stoichiometry="1" constant="true"/>
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+            <fbc:geneProductRef fbc:geneProduct="G_b1264"/>
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+        <listOfProducts>
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+            <fbc:geneProductRef fbc:geneProduct="G_b4154"/>
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+        </fbc:geneProductAssociation>
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+        <listOfProducts>
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+            <fbc:geneProductRef fbc:geneProduct="G_b4154"/>
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+        </fbc:geneProductAssociation>
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+          <fbc:geneProductRef fbc:geneProduct="G_b1263"/>
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+          <speciesReference species="M_q8_c" stoichiometry="1" constant="true"/>
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+          <speciesReference species="M_co2_c" stoichiometry="1" constant="true"/>
+          <speciesReference species="M_q8h2_c" stoichiometry="1" constant="true"/>
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+          <fbc:geneProductRef fbc:geneProduct="G_b0871"/>
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+      </reaction>
+      <reaction id="R_PTAr" fast="false" reversible="true" name="Phosphotransacetylase" metaid="R_PTAr" sboTerm="SBO:0000176" fbc:upperFluxBound="cobra_default_ub" fbc:lowerFluxBound="cobra_default_lb">
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+          <rdf:RDF xmlns:rdf="http://www.w3.org/1999/02/22-rdf-syntax-ns#">
+            <rdf:Description rdf:about="#R_PTAr">
+              <bqbiol:is xmlns:bqbiol="http://biomodels.net/biology-qualifiers/">
+                <rdf:Bag>
+                  <rdf:li rdf:resource="http://identifiers.org/bigg.reaction/PTAr"/>
+                  <rdf:li rdf:resource="http://identifiers.org/biocyc/META:PHOSACETYLTRANS-RXN"/>
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+                  <rdf:li rdf:resource="http://identifiers.org/metanetx.reaction/MNXR103319"/>
+                  <rdf:li rdf:resource="http://identifiers.org/rhea/19521"/>
+                  <rdf:li rdf:resource="http://identifiers.org/rhea/19523"/>
+                  <rdf:li rdf:resource="http://identifiers.org/rhea/19522"/>
+                  <rdf:li rdf:resource="http://identifiers.org/rhea/19524"/>
+                  <rdf:li rdf:resource="http://identifiers.org/sabiork/72"/>
+                  <rdf:li rdf:resource="http://identifiers.org/seed.reaction/rxn00173"/>
+                </rdf:Bag>
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+          </rdf:RDF>
+        </sbml:annotation>
+        <listOfReactants>
+          <speciesReference species="M_accoa_c" stoichiometry="1" constant="true"/>
+          <speciesReference species="M_pi_c" stoichiometry="1" constant="true"/>
+        </listOfReactants>
+        <listOfProducts>
+          <speciesReference species="M_actp_c" stoichiometry="1" constant="true"/>
+          <speciesReference species="M_coa_c" stoichiometry="1" constant="true"/>
+        </listOfProducts>
+        <fbc:geneProductAssociation>
+          <fbc:or>
+            <fbc:geneProductRef fbc:geneProduct="G_b2297"/>
+            <fbc:geneProductRef fbc:geneProduct="G_b2458"/>
+          </fbc:or>
+        </fbc:geneProductAssociation>
+      </reaction>
+      <reaction id="R_CHORS" fast="false" reversible="false" name="Chorismate synthase" metaid="R_CHORS" sboTerm="SBO:0000176" fbc:upperFluxBound="cobra_default_ub" fbc:lowerFluxBound="cobra_0_bound">
+        <sbml:annotation xmlns:sbml="http://www.sbml.org/sbml/level3/version1/core">
+          <rdf:RDF xmlns:rdf="http://www.w3.org/1999/02/22-rdf-syntax-ns#">
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+              <bqbiol:is xmlns:bqbiol="http://biomodels.net/biology-qualifiers/">
+                <rdf:Bag>
+                  <rdf:li rdf:resource="http://identifiers.org/bigg.reaction/CHORS"/>
+                  <rdf:li rdf:resource="http://identifiers.org/biocyc/META:CHORISMATE-SYNTHASE-RXN"/>
+                  <rdf:li rdf:resource="http://identifiers.org/ec-code/4.2.3.5"/>
+                  <rdf:li rdf:resource="http://identifiers.org/kegg.reaction/R01714"/>
+                  <rdf:li rdf:resource="http://identifiers.org/metanetx.reaction/MNXR96709"/>
+                  <rdf:li rdf:resource="http://identifiers.org/rhea/21020"/>
+                  <rdf:li rdf:resource="http://identifiers.org/rhea/21023"/>
+                  <rdf:li rdf:resource="http://identifiers.org/rhea/21022"/>
+                  <rdf:li rdf:resource="http://identifiers.org/rhea/21021"/>
+                  <rdf:li rdf:resource="http://identifiers.org/sabiork/1826"/>
+                  <rdf:li rdf:resource="http://identifiers.org/seed.reaction/rxn01255"/>
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+        </sbml:annotation>
+        <listOfReactants>
+          <speciesReference species="M_3psme_c" stoichiometry="1" constant="true"/>
+        </listOfReactants>
+        <listOfProducts>
+          <speciesReference species="M_chor_c" stoichiometry="1" constant="true"/>
+          <speciesReference species="M_pi_c" stoichiometry="1" constant="true"/>
+        </listOfProducts>
+        <fbc:geneProductAssociation>
+          <fbc:geneProductRef fbc:geneProduct="G_b2329"/>
+        </fbc:geneProductAssociation>
+      </reaction>
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+        <sbml:annotation xmlns:sbml="http://www.sbml.org/sbml/level3/version1/core">
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+              <bqbiol:is xmlns:bqbiol="http://biomodels.net/biology-qualifiers/">
+                <rdf:Bag>
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+                  <rdf:li rdf:resource="http://identifiers.org/biocyc/META:IGPSYN-RXN"/>
+                  <rdf:li rdf:resource="http://identifiers.org/ec-code/4.1.1.48"/>
+                  <rdf:li rdf:resource="http://identifiers.org/kegg.reaction/R03508"/>
+                  <rdf:li rdf:resource="http://identifiers.org/metanetx.reaction/MNXR100814"/>
+                  <rdf:li rdf:resource="http://identifiers.org/rhea/23476"/>
+                  <rdf:li rdf:resource="http://identifiers.org/rhea/23479"/>
+                  <rdf:li rdf:resource="http://identifiers.org/rhea/23477"/>
+                  <rdf:li rdf:resource="http://identifiers.org/rhea/23478"/>
+                  <rdf:li rdf:resource="http://identifiers.org/seed.reaction/rxn02507"/>
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+        </sbml:annotation>
+        <listOfReactants>
+          <speciesReference species="M_2cpr5p_c" stoichiometry="1" constant="true"/>
+          <speciesReference species="M_h_c" stoichiometry="1" constant="true"/>
+        </listOfReactants>
+        <listOfProducts>
+          <speciesReference species="M_3ig3p_c" stoichiometry="1" constant="true"/>
+          <speciesReference species="M_co2_c" stoichiometry="1" constant="true"/>
+          <speciesReference species="M_h2o_c" stoichiometry="1" constant="true"/>
+        </listOfProducts>
+        <fbc:geneProductAssociation>
+          <fbc:geneProductRef fbc:geneProduct="G_b1262"/>
+        </fbc:geneProductAssociation>
+      </reaction>
+      <reaction id="R_ACKr" fast="false" reversible="true" name="Acetate kinase" metaid="R_ACKr" sboTerm="SBO:0000176" fbc:upperFluxBound="cobra_default_ub" fbc:lowerFluxBound="cobra_default_lb">
+        <sbml:annotation xmlns:sbml="http://www.sbml.org/sbml/level3/version1/core">
+          <rdf:RDF xmlns:rdf="http://www.w3.org/1999/02/22-rdf-syntax-ns#">
+            <rdf:Description rdf:about="#R_ACKr">
+              <bqbiol:is xmlns:bqbiol="http://biomodels.net/biology-qualifiers/">
+                <rdf:Bag>
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+                  <rdf:li rdf:resource="http://identifiers.org/biocyc/META:ACETATEKIN-RXN"/>
+                  <rdf:li rdf:resource="http://identifiers.org/ec-code/2.7.2.15"/>
+                  <rdf:li rdf:resource="http://identifiers.org/ec-code/2.7.2.1"/>
+                  <rdf:li rdf:resource="http://identifiers.org/kegg.reaction/R00315"/>
+                  <rdf:li rdf:resource="http://identifiers.org/metanetx.reaction/MNXR95269"/>
+                  <rdf:li rdf:resource="http://identifiers.org/rhea/11354"/>
+                  <rdf:li rdf:resource="http://identifiers.org/rhea/11355"/>
+                  <rdf:li rdf:resource="http://identifiers.org/rhea/11353"/>
+                  <rdf:li rdf:resource="http://identifiers.org/rhea/11352"/>
+                  <rdf:li rdf:resource="http://identifiers.org/sabiork/71"/>
+                  <rdf:li rdf:resource="http://identifiers.org/seed.reaction/rxn00225"/>
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+        </sbml:annotation>
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+          <speciesReference species="M_ac_c" stoichiometry="1" constant="true"/>
+          <speciesReference species="M_atp_c" stoichiometry="1" constant="true"/>
+        </listOfReactants>
+        <listOfProducts>
+          <speciesReference species="M_actp_c" stoichiometry="1" constant="true"/>
+          <speciesReference species="M_adp_c" stoichiometry="1" constant="true"/>
+        </listOfProducts>
+        <fbc:geneProductAssociation>
+          <fbc:or>
+            <fbc:geneProductRef fbc:geneProduct="G_b2296"/>
+            <fbc:geneProductRef fbc:geneProduct="G_b1849"/>
+            <fbc:geneProductRef fbc:geneProduct="G_b3115"/>
+          </fbc:or>
+        </fbc:geneProductAssociation>
+      </reaction>
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+        <sbml:annotation xmlns:sbml="http://www.sbml.org/sbml/level3/version1/core">
+          <rdf:RDF xmlns:rdf="http://www.w3.org/1999/02/22-rdf-syntax-ns#">
+            <rdf:Description rdf:about="#R_EX_cellb_e">
+              <bqbiol:is xmlns:bqbiol="http://biomodels.net/biology-qualifiers/">
+                <rdf:Bag>
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+          </rdf:RDF>
+        </sbml:annotation>
+        <listOfReactants>
+          <speciesReference species="M_cellb_e" stoichiometry="1" constant="true"/>
+        </listOfReactants>
+      </reaction>
+      <reaction id="R_EX_crn_e" fast="false" reversible="false" name="L-Carnitine exchange" metaid="R_EX_crn_e" sboTerm="SBO:0000627" fbc:upperFluxBound="cobra_default_ub" fbc:lowerFluxBound="cobra_0_bound">
+        <sbml:annotation xmlns:sbml="http://www.sbml.org/sbml/level3/version1/core">
+          <rdf:RDF xmlns:rdf="http://www.w3.org/1999/02/22-rdf-syntax-ns#">
+            <rdf:Description rdf:about="#R_EX_crn_e">
+              <bqbiol:is xmlns:bqbiol="http://biomodels.net/biology-qualifiers/">
+                <rdf:Bag>
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+                  <rdf:li rdf:resource="http://identifiers.org/metanetx.reaction/MNXR96906"/>
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+                  <rdf:li rdf:resource="http://identifiers.org/rhea/34960"/>
+                  <rdf:li rdf:resource="http://identifiers.org/rhea/34959"/>
+                  <rdf:li rdf:resource="http://identifiers.org/rhea/34961"/>
+                  <rdf:li rdf:resource="http://identifiers.org/seed.reaction/rxn09773"/>
+                  <rdf:li rdf:resource="http://identifiers.org/seed.reaction/rxn09858"/>
+                  <rdf:li rdf:resource="http://identifiers.org/seed.reaction/rxn09691"/>
+                  <rdf:li rdf:resource="http://identifiers.org/seed.reaction/rxn08265"/>
+                </rdf:Bag>
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+            </rdf:Description>
+          </rdf:RDF>
+        </sbml:annotation>
+        <listOfReactants>
+          <speciesReference species="M_crn_e" stoichiometry="1" constant="true"/>
+        </listOfReactants>
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+        <sbml:annotation xmlns:sbml="http://www.sbml.org/sbml/level3/version1/core">
+          <rdf:RDF xmlns:rdf="http://www.w3.org/1999/02/22-rdf-syntax-ns#">
+            <rdf:Description rdf:about="#R_EX_hxan_e">
+              <bqbiol:is xmlns:bqbiol="http://biomodels.net/biology-qualifiers/">
+                <rdf:Bag>
+                  <rdf:li rdf:resource="http://identifiers.org/bigg.reaction/EX_hxan_e"/>
+                  <rdf:li rdf:resource="http://identifiers.org/biocyc/META:TRANS-RXN0-579"/>
+                  <rdf:li rdf:resource="http://identifiers.org/biocyc/META:TRANS-RXN0-562"/>
+                  <rdf:li rdf:resource="http://identifiers.org/metanetx.reaction/MNXR100749"/>
+                  <rdf:li rdf:resource="http://identifiers.org/seed.reaction/rxn10143"/>
+                  <rdf:li rdf:resource="http://identifiers.org/seed.reaction/rxn08737"/>
+                  <rdf:li rdf:resource="http://identifiers.org/seed.reaction/rxn08738"/>
+                </rdf:Bag>
+              </bqbiol:is>
+            </rdf:Description>
+          </rdf:RDF>
+        </sbml:annotation>
+        <listOfReactants>
+          <speciesReference species="M_hxan_e" stoichiometry="1" constant="true"/>
+        </listOfReactants>
+      </reaction>
+      <reaction id="R_EX_ile__L_e" fast="false" reversible="false" name="L-Isoleucine exchange" metaid="R_EX_ile__L_e" sboTerm="SBO:0000627" fbc:upperFluxBound="cobra_default_ub" fbc:lowerFluxBound="cobra_0_bound">
+        <sbml:annotation xmlns:sbml="http://www.sbml.org/sbml/level3/version1/core">
+          <rdf:RDF xmlns:rdf="http://www.w3.org/1999/02/22-rdf-syntax-ns#">
+            <rdf:Description rdf:about="#R_EX_ile__L_e">
+              <bqbiol:is xmlns:bqbiol="http://biomodels.net/biology-qualifiers/">
+                <rdf:Bag>
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+                  <rdf:li rdf:resource="http://identifiers.org/sabiork/13467"/>
+                  <rdf:li rdf:resource="http://identifiers.org/seed.reaction/rxn08747"/>
+                  <rdf:li rdf:resource="http://identifiers.org/seed.reaction/rxn13323"/>
+                  <rdf:li rdf:resource="http://identifiers.org/seed.reaction/rxn10933"/>
+                </rdf:Bag>
+              </bqbiol:is>
+            </rdf:Description>
+          </rdf:RDF>
+        </sbml:annotation>
+        <listOfReactants>
+          <speciesReference species="M_ile__L_e" stoichiometry="1" constant="true"/>
+        </listOfReactants>
+      </reaction>
+      <reaction id="R_EX_chol_e" fast="false" reversible="false" name="Choline exchange" metaid="R_EX_chol_e" sboTerm="SBO:0000627" fbc:upperFluxBound="cobra_default_ub" fbc:lowerFluxBound="cobra_0_bound">
+        <sbml:annotation xmlns:sbml="http://www.sbml.org/sbml/level3/version1/core">
+          <rdf:RDF xmlns:rdf="http://www.w3.org/1999/02/22-rdf-syntax-ns#">
+            <rdf:Description rdf:about="#R_EX_chol_e">
+              <bqbiol:is xmlns:bqbiol="http://biomodels.net/biology-qualifiers/">
+                <rdf:Bag>
+                  <rdf:li rdf:resource="http://identifiers.org/bigg.reaction/EX_chol_e"/>
+                  <rdf:li rdf:resource="http://identifiers.org/biocyc/META:TRANS-RXN-319"/>
+                  <rdf:li rdf:resource="http://identifiers.org/metanetx.reaction/MNXR96693"/>
+                  <rdf:li rdf:resource="http://identifiers.org/reactome.reaction/R-GGA-6797956"/>
+                  <rdf:li rdf:resource="http://identifiers.org/reactome.reaction/R-DDI-6797956"/>
+                  <rdf:li rdf:resource="http://identifiers.org/reactome.reaction/R-XTR-444433"/>
+                  <rdf:li rdf:resource="http://identifiers.org/reactome.reaction/R-CFA-6797956"/>
+                  <rdf:li rdf:resource="http://identifiers.org/reactome.reaction/R-SSC-6797956"/>
+                  <rdf:li rdf:resource="http://identifiers.org/reactome.reaction/R-HSA-444433"/>
+                  <rdf:li rdf:resource="http://identifiers.org/reactome.reaction/R-OSA-444433"/>
+                  <rdf:li rdf:resource="http://identifiers.org/reactome.reaction/R-MMU-6797956"/>
+                  <rdf:li rdf:resource="http://identifiers.org/reactome.reaction/R-DME-444433"/>
+                  <rdf:li rdf:resource="http://identifiers.org/reactome.reaction/R-GGA-444433"/>
+                  <rdf:li rdf:resource="http://identifiers.org/reactome.reaction/R-MMU-444433"/>
+                  <rdf:li rdf:resource="http://identifiers.org/reactome.reaction/R-DDI-444433"/>
+                  <rdf:li rdf:resource="http://identifiers.org/reactome.reaction/R-SCE-444433"/>
+                  <rdf:li rdf:resource="http://identifiers.org/reactome.reaction/R-SSC-444433"/>
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+                  <rdf:li rdf:resource="http://identifiers.org/reactome.reaction/R-OSA-6797956"/>
+                  <rdf:li rdf:resource="http://identifiers.org/reactome.reaction/R-DME-6797956"/>
+                  <rdf:li rdf:resource="http://identifiers.org/reactome.reaction/R-ATH-444433"/>
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+                  <rdf:li rdf:resource="http://identifiers.org/reactome.reaction/R-DRE-6797956"/>
+                  <rdf:li rdf:resource="http://identifiers.org/rhea/32753"/>
+                  <rdf:li rdf:resource="http://identifiers.org/rhea/32754"/>
+                  <rdf:li rdf:resource="http://identifiers.org/rhea/32752"/>
+                  <rdf:li rdf:resource="http://identifiers.org/rhea/32751"/>
+                  <rdf:li rdf:resource="http://identifiers.org/seed.reaction/rxn08214"/>
+                </rdf:Bag>
+              </bqbiol:is>
+            </rdf:Description>
+          </rdf:RDF>
+        </sbml:annotation>
+        <listOfReactants>
+          <speciesReference species="M_chol_e" stoichiometry="1" constant="true"/>
+        </listOfReactants>
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+        <sbml:annotation xmlns:sbml="http://www.sbml.org/sbml/level3/version1/core">
+          <rdf:RDF xmlns:rdf="http://www.w3.org/1999/02/22-rdf-syntax-ns#">
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+                  <rdf:li rdf:resource="http://identifiers.org/reactome.reaction/R-SSC-442368"/>
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+                  <rdf:li rdf:resource="http://identifiers.org/reactome.reaction/R-TGU-442368"/>
+                  <rdf:li rdf:resource="http://identifiers.org/rhea/34973"/>
+                  <rdf:li rdf:resource="http://identifiers.org/rhea/34972"/>
+                  <rdf:li rdf:resource="http://identifiers.org/rhea/34974"/>
+                  <rdf:li rdf:resource="http://identifiers.org/rhea/34971"/>
+                  <rdf:li rdf:resource="http://identifiers.org/seed.reaction/rxn05292"/>
+                  <rdf:li rdf:resource="http://identifiers.org/seed.reaction/rxn08492"/>
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+        <listOfReactants>
+          <speciesReference species="M_fe3_e" stoichiometry="1" constant="true"/>
+        </listOfReactants>
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+      <reaction id="R_LEUTAi" fast="false" reversible="false" name="Leucine transaminase (irreversible)" metaid="R_LEUTAi" sboTerm="SBO:0000176" fbc:upperFluxBound="cobra_default_ub" fbc:lowerFluxBound="cobra_0_bound">
+        <sbml:annotation xmlns:sbml="http://www.sbml.org/sbml/level3/version1/core">
+          <rdf:RDF xmlns:rdf="http://www.w3.org/1999/02/22-rdf-syntax-ns#">
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+              <bqbiol:is xmlns:bqbiol="http://biomodels.net/biology-qualifiers/">
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+      <reaction id="R_EX_ade_e" fast="false" reversible="false" name="Adenine exchange" metaid="R_EX_ade_e" sboTerm="SBO:0000627" fbc:upperFluxBound="cobra_default_ub" fbc:lowerFluxBound="cobra_0_bound">
+        <sbml:annotation xmlns:sbml="http://www.sbml.org/sbml/level3/version1/core">
+          <rdf:RDF xmlns:rdf="http://www.w3.org/1999/02/22-rdf-syntax-ns#">
+            <rdf:Description rdf:about="#R_EX_ade_e">
+              <bqbiol:is xmlns:bqbiol="http://biomodels.net/biology-qualifiers/">
+                <rdf:Bag>
+                  <rdf:li rdf:resource="http://identifiers.org/bigg.reaction/EX_ade_e"/>
+                  <rdf:li rdf:resource="http://identifiers.org/biocyc/META:TRANS-RXN0-577"/>
+                  <rdf:li rdf:resource="http://identifiers.org/metanetx.reaction/MNXR95445"/>
+                  <rdf:li rdf:resource="http://identifiers.org/seed.reaction/rxn10918"/>
+                  <rdf:li rdf:resource="http://identifiers.org/seed.reaction/rxn08065"/>
+                  <rdf:li rdf:resource="http://identifiers.org/seed.reaction/rxn09786"/>
+                </rdf:Bag>
+              </bqbiol:is>
+            </rdf:Description>
+          </rdf:RDF>
+        </sbml:annotation>
+        <listOfReactants>
+          <speciesReference species="M_ade_e" stoichiometry="1" constant="true"/>
+        </listOfReactants>
+      </reaction>
+      <reaction id="R_EX_mn2_e" fast="false" reversible="true" name="Mn2+ exchange" metaid="R_EX_mn2_e" sboTerm="SBO:0000627" fbc:upperFluxBound="cobra_default_ub" fbc:lowerFluxBound="cobra_default_lb">
+        <sbml:annotation xmlns:sbml="http://www.sbml.org/sbml/level3/version1/core">
+          <rdf:RDF xmlns:rdf="http://www.w3.org/1999/02/22-rdf-syntax-ns#">
+            <rdf:Description rdf:about="#R_EX_mn2_e">
+              <bqbiol:is xmlns:bqbiol="http://biomodels.net/biology-qualifiers/">
+                <rdf:Bag>
+                  <rdf:li rdf:resource="http://identifiers.org/bigg.reaction/EX_mn2_e"/>
+                  <rdf:li rdf:resource="http://identifiers.org/biocyc/META:RXN0-16"/>
+                  <rdf:li rdf:resource="http://identifiers.org/biocyc/META:TRANS-RXN0-487"/>
+                  <rdf:li rdf:resource="http://identifiers.org/metanetx.reaction/MNXR101670"/>
+                  <rdf:li rdf:resource="http://identifiers.org/rhea/28702"/>
+                  <rdf:li rdf:resource="http://identifiers.org/rhea/28699"/>
+                  <rdf:li rdf:resource="http://identifiers.org/rhea/28700"/>
+                  <rdf:li rdf:resource="http://identifiers.org/rhea/28701"/>
+                  <rdf:li rdf:resource="http://identifiers.org/seed.reaction/rxn08952"/>
+                  <rdf:li rdf:resource="http://identifiers.org/seed.reaction/rxn08947"/>
+                </rdf:Bag>
+              </bqbiol:is>
+            </rdf:Description>
+          </rdf:RDF>
+        </sbml:annotation>
+        <listOfReactants>
+          <speciesReference species="M_mn2_e" stoichiometry="1" constant="true"/>
+        </listOfReactants>
+      </reaction>
+      <reaction id="R_EX_4abut_e" fast="false" reversible="false" name="4-Aminobutanoate exchange" metaid="R_EX_4abut_e" sboTerm="SBO:0000627" fbc:upperFluxBound="cobra_default_ub" fbc:lowerFluxBound="cobra_0_bound">
+        <sbml:annotation xmlns:sbml="http://www.sbml.org/sbml/level3/version1/core">
+          <rdf:RDF xmlns:rdf="http://www.w3.org/1999/02/22-rdf-syntax-ns#">
+            <rdf:Description rdf:about="#R_EX_4abut_e">
+              <bqbiol:is xmlns:bqbiol="http://biomodels.net/biology-qualifiers/">
+                <rdf:Bag>
+                  <rdf:li rdf:resource="http://identifiers.org/bigg.reaction/EX_4abut_e"/>
+                  <rdf:li rdf:resource="http://identifiers.org/metanetx.reaction/MNXR94993"/>
+                  <rdf:li rdf:resource="http://identifiers.org/reactome.reaction/R-XTR-888592"/>
+                  <rdf:li rdf:resource="http://identifiers.org/reactome.reaction/R-DRE-888592"/>
+                  <rdf:li rdf:resource="http://identifiers.org/reactome.reaction/R-OSA-888592"/>
+                  <rdf:li rdf:resource="http://identifiers.org/reactome.reaction/R-GGA-888592"/>
+                  <rdf:li rdf:resource="http://identifiers.org/reactome.reaction/R-SSC-888592"/>
+                  <rdf:li rdf:resource="http://identifiers.org/reactome.reaction/R-DME-888592"/>
+                  <rdf:li rdf:resource="http://identifiers.org/reactome.reaction/R-CFA-888592"/>
+                  <rdf:li rdf:resource="http://identifiers.org/reactome.reaction/R-BTA-888592"/>
+                  <rdf:li rdf:resource="http://identifiers.org/reactome.reaction/R-RNO-888592"/>
+                  <rdf:li rdf:resource="http://identifiers.org/reactome.reaction/R-SCE-888592"/>
+                  <rdf:li rdf:resource="http://identifiers.org/reactome.reaction/R-TGU-888592"/>
+                  <rdf:li rdf:resource="http://identifiers.org/reactome.reaction/R-ATH-888592"/>
+                  <rdf:li rdf:resource="http://identifiers.org/reactome.reaction/R-MMU-888592"/>
+                  <rdf:li rdf:resource="http://identifiers.org/reactome.reaction/R-HSA-888592"/>
+                  <rdf:li rdf:resource="http://identifiers.org/reactome.reaction/R-CEL-888592"/>
+                  <rdf:li rdf:resource="http://identifiers.org/rhea/35035"/>
+                  <rdf:li rdf:resource="http://identifiers.org/rhea/35036"/>
+                  <rdf:li rdf:resource="http://identifiers.org/rhea/35037"/>
+                  <rdf:li rdf:resource="http://identifiers.org/rhea/35038"/>
+                  <rdf:li rdf:resource="http://identifiers.org/sabiork/13098"/>
+                  <rdf:li rdf:resource="http://identifiers.org/seed.reaction/rxn08028"/>
+                  <rdf:li rdf:resource="http://identifiers.org/seed.reaction/rxn11326"/>
+                  <rdf:li rdf:resource="http://identifiers.org/seed.reaction/rxn09795"/>
+                </rdf:Bag>
+              </bqbiol:is>
+            </rdf:Description>
+          </rdf:RDF>
+        </sbml:annotation>
+        <listOfReactants>
+          <speciesReference species="M_4abut_e" stoichiometry="1" constant="true"/>
+        </listOfReactants>
+      </reaction>
+      <reaction id="R_EX_ac_e" fast="false" reversible="false" name="Acetate exchange" metaid="R_EX_ac_e" sboTerm="SBO:0000627" fbc:upperFluxBound="cobra_default_ub" fbc:lowerFluxBound="cobra_0_bound">
+        <sbml:annotation xmlns:sbml="http://www.sbml.org/sbml/level3/version1/core">
+          <rdf:RDF xmlns:rdf="http://www.w3.org/1999/02/22-rdf-syntax-ns#">
+            <rdf:Description rdf:about="#R_EX_ac_e">
+              <bqbiol:is xmlns:bqbiol="http://biomodels.net/biology-qualifiers/">
+                <rdf:Bag>
+                  <rdf:li rdf:resource="http://identifiers.org/bigg.reaction/EX_ac_e"/>
+                  <rdf:li rdf:resource="http://identifiers.org/biocyc/META:RXN0-1981"/>
+                  <rdf:li rdf:resource="http://identifiers.org/biocyc/META:TRANS-RXN0-567"/>
+                  <rdf:li rdf:resource="http://identifiers.org/metanetx.reaction/MNXR95431"/>
+                  <rdf:li rdf:resource="http://identifiers.org/rhea/27817"/>
+                  <rdf:li rdf:resource="http://identifiers.org/rhea/27814"/>
+                  <rdf:li rdf:resource="http://identifiers.org/rhea/27816"/>
+                  <rdf:li rdf:resource="http://identifiers.org/rhea/27815"/>
+                  <rdf:li rdf:resource="http://identifiers.org/sabiork/12184"/>
+                  <rdf:li rdf:resource="http://identifiers.org/seed.reaction/rxn09787"/>
+                  <rdf:li rdf:resource="http://identifiers.org/seed.reaction/rxn09866"/>
+                  <rdf:li rdf:resource="http://identifiers.org/seed.reaction/rxn10904"/>
+                  <rdf:li rdf:resource="http://identifiers.org/seed.reaction/rxn08063"/>
+                </rdf:Bag>
+              </bqbiol:is>
+            </rdf:Description>
+          </rdf:RDF>
+        </sbml:annotation>
+        <listOfReactants>
+          <speciesReference species="M_ac_e" stoichiometry="1" constant="true"/>
+        </listOfReactants>
+      </reaction>
+      <reaction id="R_EX_akg_e" fast="false" reversible="false" name="2-Oxoglutarate exchange" metaid="R_EX_akg_e" sboTerm="SBO:0000627" fbc:upperFluxBound="cobra_default_ub" fbc:lowerFluxBound="cobra_0_bound">
+        <sbml:annotation xmlns:sbml="http://www.sbml.org/sbml/level3/version1/core">
+          <rdf:RDF xmlns:rdf="http://www.w3.org/1999/02/22-rdf-syntax-ns#">
+            <rdf:Description rdf:about="#R_EX_akg_e">
+              <bqbiol:is xmlns:bqbiol="http://biomodels.net/biology-qualifiers/">
+                <rdf:Bag>
+                  <rdf:li rdf:resource="http://identifiers.org/bigg.reaction/EX_akg_e"/>
+                  <rdf:li rdf:resource="http://identifiers.org/metanetx.reaction/MNXR95663"/>
+                  <rdf:li rdf:resource="http://identifiers.org/sabiork/13794"/>
+                  <rdf:li rdf:resource="http://identifiers.org/seed.reaction/rxn10923"/>
+                  <rdf:li rdf:resource="http://identifiers.org/seed.reaction/rxn08096"/>
+                  <rdf:li rdf:resource="http://identifiers.org/seed.reaction/rxn13220"/>
+                </rdf:Bag>
+              </bqbiol:is>
+            </rdf:Description>
+          </rdf:RDF>
+        </sbml:annotation>
+        <listOfReactants>
+          <speciesReference species="M_akg_e" stoichiometry="1" constant="true"/>
+        </listOfReactants>
+      </reaction>
+      <reaction id="R_EX_ala__L_e" fast="false" reversible="false" name="L-Alanine exchange" metaid="R_EX_ala__L_e" sboTerm="SBO:0000627" fbc:upperFluxBound="cobra_default_ub" fbc:lowerFluxBound="cobra_0_bound">
+        <sbml:annotation xmlns:sbml="http://www.sbml.org/sbml/level3/version1/core">
+          <rdf:RDF xmlns:rdf="http://www.w3.org/1999/02/22-rdf-syntax-ns#">
+            <rdf:Description rdf:about="#R_EX_ala__L_e">
+              <bqbiol:is xmlns:bqbiol="http://biomodels.net/biology-qualifiers/">
+                <rdf:Bag>
+                  <rdf:li rdf:resource="http://identifiers.org/bigg.reaction/EX_ala__L_e"/>
+                  <rdf:li rdf:resource="http://identifiers.org/metanetx.reaction/MNXR95706"/>
+                  <rdf:li rdf:resource="http://identifiers.org/sabiork/10375"/>
+                  <rdf:li rdf:resource="http://identifiers.org/seed.reaction/rxn08104"/>
+                  <rdf:li rdf:resource="http://identifiers.org/seed.reaction/rxn10921"/>
+                  <rdf:li rdf:resource="http://identifiers.org/seed.reaction/rxn13221"/>
+                </rdf:Bag>
+              </bqbiol:is>
+            </rdf:Description>
+          </rdf:RDF>
+        </sbml:annotation>
+        <listOfReactants>
+          <speciesReference species="M_ala__L_e" stoichiometry="1" constant="true"/>
+        </listOfReactants>
+      </reaction>
+      <reaction id="R_EX_arg__L_e" fast="false" reversible="false" name="L-Arginine exchange" metaid="R_EX_arg__L_e" sboTerm="SBO:0000627" fbc:upperFluxBound="cobra_default_ub" fbc:lowerFluxBound="cobra_0_bound">
+        <sbml:annotation xmlns:sbml="http://www.sbml.org/sbml/level3/version1/core">
+          <rdf:RDF xmlns:rdf="http://www.w3.org/1999/02/22-rdf-syntax-ns#">
+            <rdf:Description rdf:about="#R_EX_arg__L_e">
+              <bqbiol:is xmlns:bqbiol="http://biomodels.net/biology-qualifiers/">
+                <rdf:Bag>
+                  <rdf:li rdf:resource="http://identifiers.org/bigg.reaction/EX_arg__L_e"/>
+                  <rdf:li rdf:resource="http://identifiers.org/biocyc/META:RXN66-448"/>
+                  <rdf:li rdf:resource="http://identifiers.org/metanetx.reaction/MNXR95951"/>
+                  <rdf:li rdf:resource="http://identifiers.org/rhea/32145"/>
+                  <rdf:li rdf:resource="http://identifiers.org/rhea/32143"/>
+                  <rdf:li rdf:resource="http://identifiers.org/rhea/32144"/>
+                  <rdf:li rdf:resource="http://identifiers.org/rhea/32146"/>
+                  <rdf:li rdf:resource="http://identifiers.org/sabiork/7983"/>
+                  <rdf:li rdf:resource="http://identifiers.org/seed.reaction/rxn10840"/>
+                  <rdf:li rdf:resource="http://identifiers.org/seed.reaction/rxn08155"/>
+                </rdf:Bag>
+              </bqbiol:is>
+            </rdf:Description>
+          </rdf:RDF>
+        </sbml:annotation>
+        <listOfReactants>
+          <speciesReference species="M_arg__L_e" stoichiometry="1" constant="true"/>
+        </listOfReactants>
+      </reaction>
+      <reaction id="R_EX_asp__L_e" fast="false" reversible="false" name="L-Aspartate exchange" metaid="R_EX_asp__L_e" sboTerm="SBO:0000627" fbc:upperFluxBound="cobra_default_ub" fbc:lowerFluxBound="cobra_0_bound">
+        <sbml:annotation xmlns:sbml="http://www.sbml.org/sbml/level3/version1/core">
+          <rdf:RDF xmlns:rdf="http://www.w3.org/1999/02/22-rdf-syntax-ns#">
+            <rdf:Description rdf:about="#R_EX_asp__L_e">
+              <bqbiol:is xmlns:bqbiol="http://biomodels.net/biology-qualifiers/">
+                <rdf:Bag>
+                  <rdf:li rdf:resource="http://identifiers.org/bigg.reaction/EX_asp__L_e"/>
+                  <rdf:li rdf:resource="http://identifiers.org/biocyc/META:TRANS-RXN0-554"/>
+                  <rdf:li rdf:resource="http://identifiers.org/metanetx.reaction/MNXR96107"/>
+                  <rdf:li rdf:resource="http://identifiers.org/seed.reaction/rxn10906"/>
+                  <rdf:li rdf:resource="http://identifiers.org/seed.reaction/rxn08170"/>
+                  <rdf:li rdf:resource="http://identifiers.org/seed.reaction/rxn13232"/>
+                </rdf:Bag>
+              </bqbiol:is>
+            </rdf:Description>
+          </rdf:RDF>
+        </sbml:annotation>
+        <listOfReactants>
+          <speciesReference species="M_asp__L_e" stoichiometry="1" constant="true"/>
+        </listOfReactants>
+      </reaction>
+      <reaction id="R_EX_pyr_e" fast="false" reversible="false" name="Pyruvate exchange" metaid="R_EX_pyr_e" sboTerm="SBO:0000627" fbc:upperFluxBound="cobra_default_ub" fbc:lowerFluxBound="cobra_0_bound">
+        <sbml:annotation xmlns:sbml="http://www.sbml.org/sbml/level3/version1/core">
+          <rdf:RDF xmlns:rdf="http://www.w3.org/1999/02/22-rdf-syntax-ns#">
+            <rdf:Description rdf:about="#R_EX_pyr_e">
+              <bqbiol:is xmlns:bqbiol="http://biomodels.net/biology-qualifiers/">
+                <rdf:Bag>
+                  <rdf:li rdf:resource="http://identifiers.org/bigg.reaction/EX_pyr_e"/>
+                  <rdf:li rdf:resource="http://identifiers.org/biocyc/META:TRANS-RXN0-506"/>
+                  <rdf:li rdf:resource="http://identifiers.org/biocyc/META:TRANS-RXN0-570"/>
+                  <rdf:li rdf:resource="http://identifiers.org/metanetx.reaction/MNXR103384"/>
+                  <rdf:li rdf:resource="http://identifiers.org/sabiork/12168"/>
+                  <rdf:li rdf:resource="http://identifiers.org/seed.reaction/rxn10929"/>
+                  <rdf:li rdf:resource="http://identifiers.org/seed.reaction/rxn09218"/>
+                </rdf:Bag>
+              </bqbiol:is>
+            </rdf:Description>
+          </rdf:RDF>
+        </sbml:annotation>
+        <listOfReactants>
+          <speciesReference species="M_pyr_e" stoichiometry="1" constant="true"/>
+        </listOfReactants>
+      </reaction>
+      <reaction id="R_EX_succ_e" fast="false" reversible="false" name="Succinate exchange" metaid="R_EX_succ_e" sboTerm="SBO:0000627" fbc:upperFluxBound="cobra_default_ub" fbc:lowerFluxBound="cobra_0_bound">
+        <sbml:annotation xmlns:sbml="http://www.sbml.org/sbml/level3/version1/core">
+          <rdf:RDF xmlns:rdf="http://www.w3.org/1999/02/22-rdf-syntax-ns#">
+            <rdf:Description rdf:about="#R_EX_succ_e">
+              <bqbiol:is xmlns:bqbiol="http://biomodels.net/biology-qualifiers/">
+                <rdf:Bag>
+                  <rdf:li rdf:resource="http://identifiers.org/bigg.reaction/EX_succ_e"/>
+                  <rdf:li rdf:resource="http://identifiers.org/biocyc/META:TRANS-RXN0-552"/>
+                  <rdf:li rdf:resource="http://identifiers.org/metanetx.reaction/MNXR104619"/>
+                  <rdf:li rdf:resource="http://identifiers.org/seed.reaction/rxn10952"/>
+                  <rdf:li rdf:resource="http://identifiers.org/seed.reaction/rxn09271"/>
+                </rdf:Bag>
+              </bqbiol:is>
+            </rdf:Description>
+          </rdf:RDF>
+        </sbml:annotation>
+        <listOfReactants>
+          <speciesReference species="M_succ_e" stoichiometry="1" constant="true"/>
+        </listOfReactants>
+      </reaction>
+      <reaction id="R_EX_thymd_e" fast="false" reversible="false" name="Thymidine exchange" metaid="R_EX_thymd_e" sboTerm="SBO:0000627" fbc:upperFluxBound="cobra_default_ub" fbc:lowerFluxBound="cobra_0_bound">
+        <sbml:annotation xmlns:sbml="http://www.sbml.org/sbml/level3/version1/core">
+          <rdf:RDF xmlns:rdf="http://www.w3.org/1999/02/22-rdf-syntax-ns#">
+            <rdf:Description rdf:about="#R_EX_thymd_e">
+              <bqbiol:is xmlns:bqbiol="http://biomodels.net/biology-qualifiers/">
+                <rdf:Bag>
+                  <rdf:li rdf:resource="http://identifiers.org/bigg.reaction/EX_thymd_e"/>
+                  <rdf:li rdf:resource="http://identifiers.org/metanetx.reaction/MNXR104821"/>
+                  <rdf:li rdf:resource="http://identifiers.org/seed.reaction/rxn10916"/>
+                  <rdf:li rdf:resource="http://identifiers.org/seed.reaction/rxn09299"/>
+                </rdf:Bag>
+              </bqbiol:is>
+            </rdf:Description>
+          </rdf:RDF>
+        </sbml:annotation>
+        <listOfReactants>
+          <speciesReference species="M_thymd_e" stoichiometry="1" constant="true"/>
+        </listOfReactants>
+      </reaction>
+      <reaction id="R_EX_rib__D_e" fast="false" reversible="false" name="D-Ribose exchange" metaid="R_EX_rib__D_e" sboTerm="SBO:0000627" fbc:upperFluxBound="cobra_default_ub" fbc:lowerFluxBound="cobra_0_bound">
+        <sbml:annotation xmlns:sbml="http://www.sbml.org/sbml/level3/version1/core">
+          <rdf:RDF xmlns:rdf="http://www.w3.org/1999/02/22-rdf-syntax-ns#">
+            <rdf:Description rdf:about="#R_EX_rib__D_e">
+              <bqbiol:is xmlns:bqbiol="http://biomodels.net/biology-qualifiers/">
+                <rdf:Bag>
+                  <rdf:li rdf:resource="http://identifiers.org/bigg.reaction/EX_rib__D_e"/>
+                  <rdf:li rdf:resource="http://identifiers.org/metanetx.reaction/MNXR104036"/>
+                  <rdf:li rdf:resource="http://identifiers.org/seed.reaction/rxn09228"/>
+                </rdf:Bag>
+              </bqbiol:is>
+            </rdf:Description>
+          </rdf:RDF>
+        </sbml:annotation>
+        <listOfReactants>
+          <speciesReference species="M_rib__D_e" stoichiometry="1" constant="true"/>
+        </listOfReactants>
+      </reaction>
+      <reaction id="R_EX_tyr__L_e" fast="false" reversible="false" name="L-Tyrosine exchange" metaid="R_EX_tyr__L_e" sboTerm="SBO:0000627" fbc:upperFluxBound="cobra_default_ub" fbc:lowerFluxBound="cobra_0_bound">
+        <sbml:annotation xmlns:sbml="http://www.sbml.org/sbml/level3/version1/core">
+          <rdf:RDF xmlns:rdf="http://www.w3.org/1999/02/22-rdf-syntax-ns#">
+            <rdf:Description rdf:about="#R_EX_tyr__L_e">
+              <bqbiol:is xmlns:bqbiol="http://biomodels.net/biology-qualifiers/">
+                <rdf:Bag>
+                  <rdf:li rdf:resource="http://identifiers.org/bigg.reaction/EX_tyr__L_e"/>
+                  <rdf:li rdf:resource="http://identifiers.org/biocyc/META:RXN66-446"/>
+                  <rdf:li rdf:resource="http://identifiers.org/metanetx.reaction/MNXR105002"/>
+                  <rdf:li rdf:resource="http://identifiers.org/sabiork/13471"/>
+                  <rdf:li rdf:resource="http://identifiers.org/seed.reaction/rxn09339"/>
+                  <rdf:li rdf:resource="http://identifiers.org/seed.reaction/rxn10974"/>
+                </rdf:Bag>
+              </bqbiol:is>
+            </rdf:Description>
+          </rdf:RDF>
+        </sbml:annotation>
+        <listOfReactants>
+          <speciesReference species="M_tyr__L_e" stoichiometry="1" constant="true"/>
+        </listOfReactants>
+      </reaction>
+      <reaction id="R_EX_cytd_e" fast="false" reversible="false" name="Cytidine exchange" metaid="R_EX_cytd_e" sboTerm="SBO:0000627" fbc:upperFluxBound="cobra_default_ub" fbc:lowerFluxBound="cobra_0_bound">
+        <sbml:annotation xmlns:sbml="http://www.sbml.org/sbml/level3/version1/core">
+          <rdf:RDF xmlns:rdf="http://www.w3.org/1999/02/22-rdf-syntax-ns#">
+            <rdf:Description rdf:about="#R_EX_cytd_e">
+              <bqbiol:is xmlns:bqbiol="http://biomodels.net/biology-qualifiers/">
+                <rdf:Bag>
+                  <rdf:li rdf:resource="http://identifiers.org/bigg.reaction/EX_cytd_e"/>
+                  <rdf:li rdf:resource="http://identifiers.org/metanetx.reaction/MNXR97043"/>
+                  <rdf:li rdf:resource="http://identifiers.org/seed.reaction/rxn13338"/>
+                  <rdf:li rdf:resource="http://identifiers.org/seed.reaction/rxn08290"/>
+                  <rdf:li rdf:resource="http://identifiers.org/seed.reaction/rxn10997"/>
+                </rdf:Bag>
+              </bqbiol:is>
+            </rdf:Description>
+          </rdf:RDF>
+        </sbml:annotation>
+        <listOfReactants>
+          <speciesReference species="M_cytd_e" stoichiometry="1" constant="true"/>
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+          <speciesReference species="M_kdolipid4_c" stoichiometry="1" constant="true"/>
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+          <speciesReference species="M_g6p_c" stoichiometry="1" constant="true"/>
+        </listOfReactants>
+        <listOfProducts>
+          <speciesReference species="M_f6p_c" stoichiometry="1" constant="true"/>
+        </listOfProducts>
+        <fbc:geneProductAssociation>
+          <fbc:geneProductRef fbc:geneProduct="G_b4025"/>
+        </fbc:geneProductAssociation>
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+        <sbml:annotation xmlns:sbml="http://www.sbml.org/sbml/level3/version1/core">
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+                  <rdf:li rdf:resource="http://identifiers.org/metanetx.reaction/MNXR104908"/>
+                  <rdf:li rdf:resource="http://identifiers.org/rhea/22328"/>
+                  <rdf:li rdf:resource="http://identifiers.org/rhea/22329"/>
+                  <rdf:li rdf:resource="http://identifiers.org/rhea/22331"/>
+                  <rdf:li rdf:resource="http://identifiers.org/rhea/22330"/>
+                  <rdf:li rdf:resource="http://identifiers.org/sabiork/3049"/>
+                  <rdf:li rdf:resource="http://identifiers.org/seed.reaction/rxn02305"/>
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+          <speciesReference species="M_2mahmp_c" stoichiometry="1" constant="true"/>
+          <speciesReference species="M_4mpetz_c" stoichiometry="1" constant="true"/>
+          <speciesReference species="M_h_c" stoichiometry="1" constant="true"/>
+        </listOfReactants>
+        <listOfProducts>
+          <speciesReference species="M_ppi_c" stoichiometry="1" constant="true"/>
+          <speciesReference species="M_thmmp_c" stoichiometry="1" constant="true"/>
+        </listOfProducts>
+        <fbc:geneProductAssociation>
+          <fbc:geneProductRef fbc:geneProduct="G_b3993"/>
+        </fbc:geneProductAssociation>
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+      <reaction id="R_EX_btn_e" fast="false" reversible="false" name="Biotin exchange" metaid="R_EX_btn_e" sboTerm="SBO:0000627" fbc:upperFluxBound="cobra_default_ub" fbc:lowerFluxBound="cobra_0_bound">
+        <sbml:annotation xmlns:sbml="http://www.sbml.org/sbml/level3/version1/core">
+          <rdf:RDF xmlns:rdf="http://www.w3.org/1999/02/22-rdf-syntax-ns#">
+            <rdf:Description rdf:about="#R_EX_btn_e">
+              <bqbiol:is xmlns:bqbiol="http://biomodels.net/biology-qualifiers/">
+                <rdf:Bag>
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+                  <rdf:li rdf:resource="http://identifiers.org/biocyc/META:TRANS-RXN0-240"/>
+                  <rdf:li rdf:resource="http://identifiers.org/metanetx.reaction/MNXR96333"/>
+                  <rdf:li rdf:resource="http://identifiers.org/rhea/28459"/>
+                  <rdf:li rdf:resource="http://identifiers.org/rhea/28461"/>
+                  <rdf:li rdf:resource="http://identifiers.org/rhea/28460"/>
+                  <rdf:li rdf:resource="http://identifiers.org/rhea/28458"/>
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+          <speciesReference species="M_btn_e" stoichiometry="1" constant="true"/>
+        </listOfReactants>
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+        <sbml:annotation xmlns:sbml="http://www.sbml.org/sbml/level3/version1/core">
+          <rdf:RDF xmlns:rdf="http://www.w3.org/1999/02/22-rdf-syntax-ns#">
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+                  <rdf:li rdf:resource="http://identifiers.org/biocyc/META:PHOSGLYPHOS-RXN"/>
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+                  <rdf:li rdf:resource="http://identifiers.org/metanetx.reaction/MNXR102538"/>
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+                  <rdf:li rdf:resource="http://identifiers.org/reactome.reaction/R-GGA-353023"/>
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+                  <rdf:li rdf:resource="http://identifiers.org/reactome.reaction/R-PFA-70486"/>
+                  <rdf:li rdf:resource="http://identifiers.org/reactome.reaction/R-SSC-70486"/>
+                  <rdf:li rdf:resource="http://identifiers.org/reactome.reaction/R-ATH-70486"/>
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+                  <rdf:li rdf:resource="http://identifiers.org/rhea/14802"/>
+                  <rdf:li rdf:resource="http://identifiers.org/rhea/14803"/>
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+          <speciesReference species="M_atp_c" stoichiometry="1" constant="true"/>
+        </listOfReactants>
+        <listOfProducts>
+          <speciesReference species="M_13dpg_c" stoichiometry="1" constant="true"/>
+          <speciesReference species="M_adp_c" stoichiometry="1" constant="true"/>
+        </listOfProducts>
+        <fbc:geneProductAssociation>
+          <fbc:geneProductRef fbc:geneProduct="G_b2926"/>
+        </fbc:geneProductAssociation>
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+        <sbml:annotation xmlns:sbml="http://www.sbml.org/sbml/level3/version1/core">
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+                <rdf:Bag>
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+                  <rdf:li rdf:resource="http://identifiers.org/seed.reaction/rxn13393"/>
+                </rdf:Bag>
+              </bqbiol:is>
+            </rdf:Description>
+          </rdf:RDF>
+        </sbml:annotation>
+        <listOfReactants>
+          <speciesReference species="M_ptrc_e" stoichiometry="1" constant="true"/>
+        </listOfReactants>
+      </reaction>
+      <reaction id="R_EDA" fast="false" reversible="false" name="2-dehydro-3-deoxy-phosphogluconate aldolase" metaid="R_EDA" sboTerm="SBO:0000176" fbc:upperFluxBound="cobra_default_ub" fbc:lowerFluxBound="cobra_0_bound">
+        <sbml:annotation xmlns:sbml="http://www.sbml.org/sbml/level3/version1/core">
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+              <bqbiol:is xmlns:bqbiol="http://biomodels.net/biology-qualifiers/">
+                <rdf:Bag>
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+                  <rdf:li rdf:resource="http://identifiers.org/biocyc/META:KDPGALDOL-RXN"/>
+                  <rdf:li rdf:resource="http://identifiers.org/ec-code/4.1.2.14"/>
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+                  <rdf:li rdf:resource="http://identifiers.org/metanetx.reaction/MNXR97897"/>
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+                  <rdf:li rdf:resource="http://identifiers.org/rhea/17091"/>
+                  <rdf:li rdf:resource="http://identifiers.org/rhea/17089"/>
+                  <rdf:li rdf:resource="http://identifiers.org/rhea/17090"/>
+                  <rdf:li rdf:resource="http://identifiers.org/seed.reaction/rxn03884"/>
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+            </rdf:Description>
+          </rdf:RDF>
+        </sbml:annotation>
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+          <speciesReference species="M_2ddg6p_c" stoichiometry="1" constant="true"/>
+        </listOfReactants>
+        <listOfProducts>
+          <speciesReference species="M_g3p_c" stoichiometry="1" constant="true"/>
+          <speciesReference species="M_pyr_c" stoichiometry="1" constant="true"/>
+        </listOfProducts>
+        <fbc:geneProductAssociation>
+          <fbc:geneProductRef fbc:geneProduct="G_b1850"/>
+        </fbc:geneProductAssociation>
+      </reaction>
+      <reaction id="R_EX_spmd_e" fast="false" reversible="false" name="Spermidine exchange" metaid="R_EX_spmd_e" sboTerm="SBO:0000627" fbc:upperFluxBound="cobra_default_ub" fbc:lowerFluxBound="cobra_0_bound">
+        <sbml:annotation xmlns:sbml="http://www.sbml.org/sbml/level3/version1/core">
+          <rdf:RDF xmlns:rdf="http://www.w3.org/1999/02/22-rdf-syntax-ns#">
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+              <bqbiol:is xmlns:bqbiol="http://biomodels.net/biology-qualifiers/">
+                <rdf:Bag>
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+                  <rdf:li rdf:resource="http://identifiers.org/rhea/35039"/>
+                  <rdf:li rdf:resource="http://identifiers.org/rhea/35042"/>
+                  <rdf:li rdf:resource="http://identifiers.org/rhea/35041"/>
+                  <rdf:li rdf:resource="http://identifiers.org/sabiork/13767"/>
+                  <rdf:li rdf:resource="http://identifiers.org/seed.reaction/rxn13397"/>
+                  <rdf:li rdf:resource="http://identifiers.org/seed.reaction/rxn09266"/>
+                </rdf:Bag>
+              </bqbiol:is>
+            </rdf:Description>
+          </rdf:RDF>
+        </sbml:annotation>
+        <listOfReactants>
+          <speciesReference species="M_spmd_e" stoichiometry="1" constant="true"/>
+        </listOfReactants>
+      </reaction>
+      <reaction id="R_EX_thym_e" fast="false" reversible="false" name="Thymine exchange" metaid="R_EX_thym_e" sboTerm="SBO:0000627" fbc:upperFluxBound="cobra_default_ub" fbc:lowerFluxBound="cobra_0_bound">
+        <sbml:annotation xmlns:sbml="http://www.sbml.org/sbml/level3/version1/core">
+          <rdf:RDF xmlns:rdf="http://www.w3.org/1999/02/22-rdf-syntax-ns#">
+            <rdf:Description rdf:about="#R_EX_thym_e">
+              <bqbiol:is xmlns:bqbiol="http://biomodels.net/biology-qualifiers/">
+                <rdf:Bag>
+                  <rdf:li rdf:resource="http://identifiers.org/bigg.reaction/EX_thym_e"/>
+                  <rdf:li rdf:resource="http://identifiers.org/biocyc/META:TRANS-RXN0-524"/>
+                  <rdf:li rdf:resource="http://identifiers.org/metanetx.reaction/MNXR104853"/>
+                  <rdf:li rdf:resource="http://identifiers.org/seed.reaction/rxn09309"/>
+                </rdf:Bag>
+              </bqbiol:is>
+            </rdf:Description>
+          </rdf:RDF>
+        </sbml:annotation>
+        <listOfReactants>
+          <speciesReference species="M_thym_e" stoichiometry="1" constant="true"/>
+        </listOfReactants>
+      </reaction>
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+        <sbml:annotation xmlns:sbml="http://www.sbml.org/sbml/level3/version1/core">
+          <rdf:RDF xmlns:rdf="http://www.w3.org/1999/02/22-rdf-syntax-ns#">
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+              <bqbiol:is xmlns:bqbiol="http://biomodels.net/biology-qualifiers/">
+                <rdf:Bag>
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+                  <rdf:li rdf:resource="http://identifiers.org/metanetx.reaction/MNXR105247"/>
+                  <rdf:li rdf:resource="http://identifiers.org/seed.reaction/rxn09382"/>
+                </rdf:Bag>
+              </bqbiol:is>
+            </rdf:Description>
+          </rdf:RDF>
+        </sbml:annotation>
+        <listOfReactants>
+          <speciesReference species="M_xtsn_e" stoichiometry="1" constant="true"/>
+        </listOfReactants>
+      </reaction>
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+        <sbml:annotation xmlns:sbml="http://www.sbml.org/sbml/level3/version1/core">
+          <rdf:RDF xmlns:rdf="http://www.w3.org/1999/02/22-rdf-syntax-ns#">
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+              <bqbiol:is xmlns:bqbiol="http://biomodels.net/biology-qualifiers/">
+                <rdf:Bag>
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+                  <rdf:li rdf:resource="http://identifiers.org/rhea/28365"/>
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+                  <rdf:li rdf:resource="http://identifiers.org/seed.reaction/rxn01351"/>
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+              </bqbiol:is>
+            </rdf:Description>
+          </rdf:RDF>
+        </sbml:annotation>
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+          <speciesReference species="M_h2o_c" stoichiometry="1" constant="true"/>
+        </listOfReactants>
+        <listOfProducts>
+          <speciesReference species="M_dgmp_c" stoichiometry="1" constant="true"/>
+          <speciesReference species="M_h_c" stoichiometry="1" constant="true"/>
+          <speciesReference species="M_ppi_c" stoichiometry="1" constant="true"/>
+        </listOfProducts>
+        <fbc:geneProductAssociation>
+          <fbc:or>
+            <fbc:geneProductRef fbc:geneProduct="G_b0099"/>
+            <fbc:geneProductRef fbc:geneProduct="G_b2781"/>
+          </fbc:or>
+        </fbc:geneProductAssociation>
+      </reaction>
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+                  <rdf:li rdf:resource="http://identifiers.org/biocyc/META:URIDINEKIN-RXN"/>
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+                  <rdf:li rdf:resource="http://identifiers.org/rhea/16826"/>
+                  <rdf:li rdf:resource="http://identifiers.org/rhea/16825"/>
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+                  <rdf:li rdf:resource="http://identifiers.org/seed.reaction/rxn00709"/>
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+            </rdf:Description>
+          </rdf:RDF>
+        </sbml:annotation>
+        <listOfReactants>
+          <speciesReference species="M_3dhq_c" stoichiometry="1" constant="true"/>
+        </listOfReactants>
+        <listOfProducts>
+          <speciesReference species="M_3dhsk_c" stoichiometry="1" constant="true"/>
+          <speciesReference species="M_h2o_c" stoichiometry="1" constant="true"/>
+        </listOfProducts>
+        <fbc:geneProductAssociation>
+          <fbc:geneProductRef fbc:geneProduct="G_b1693"/>
+        </fbc:geneProductAssociation>
+      </reaction>
+      <reaction id="R_IPMD" fast="false" reversible="false" name="3-isopropylmalate dehydrogenase" metaid="R_IPMD" sboTerm="SBO:0000176" fbc:upperFluxBound="cobra_default_ub" fbc:lowerFluxBound="cobra_0_bound">
+        <sbml:annotation xmlns:sbml="http://www.sbml.org/sbml/level3/version1/core">
+          <rdf:RDF xmlns:rdf="http://www.w3.org/1999/02/22-rdf-syntax-ns#">
+            <rdf:Description rdf:about="#R_IPMD">
+              <bqbiol:is xmlns:bqbiol="http://biomodels.net/biology-qualifiers/">
+                <rdf:Bag>
+                  <rdf:li rdf:resource="http://identifiers.org/bigg.reaction/IPMD"/>
+                  <rdf:li rdf:resource="http://identifiers.org/biocyc/META:3-ISOPROPYLMALDEHYDROG-RXN"/>
+                  <rdf:li rdf:resource="http://identifiers.org/ec-code/1.1.1.85"/>
+                  <rdf:li rdf:resource="http://identifiers.org/kegg.reaction/R04426"/>
+                  <rdf:li rdf:resource="http://identifiers.org/metanetx.reaction/MNXR100878"/>
+                  <rdf:li rdf:resource="http://identifiers.org/rhea/10894"/>
+                  <rdf:li rdf:resource="http://identifiers.org/rhea/10893"/>
+                  <rdf:li rdf:resource="http://identifiers.org/rhea/10895"/>
+                  <rdf:li rdf:resource="http://identifiers.org/rhea/10892"/>
+                  <rdf:li rdf:resource="http://identifiers.org/seed.reaction/rxn03062"/>
+                </rdf:Bag>
+              </bqbiol:is>
+            </rdf:Description>
+          </rdf:RDF>
+        </sbml:annotation>
+        <listOfReactants>
+          <speciesReference species="M_3c2hmp_c" stoichiometry="1" constant="true"/>
+          <speciesReference species="M_nad_c" stoichiometry="1" constant="true"/>
+        </listOfReactants>
+        <listOfProducts>
+          <speciesReference species="M_3c4mop_c" stoichiometry="1" constant="true"/>
+          <speciesReference species="M_h_c" stoichiometry="1" constant="true"/>
+          <speciesReference species="M_nadh_c" stoichiometry="1" constant="true"/>
+        </listOfProducts>
+        <fbc:geneProductAssociation>
+          <fbc:or>
+            <fbc:geneProductRef fbc:geneProduct="G_b0073"/>
+            <fbc:geneProductRef fbc:geneProduct="G_b1800"/>
+          </fbc:or>
+        </fbc:geneProductAssociation>
+      </reaction>
+      <reaction id="R_AIRC3" fast="false" reversible="true" name="Phosphoribosylaminoimidazole carboxylase (mutase rxn)" metaid="R_AIRC3" sboTerm="SBO:0000176" fbc:upperFluxBound="cobra_default_ub" fbc:lowerFluxBound="cobra_default_lb">
+        <sbml:annotation xmlns:sbml="http://www.sbml.org/sbml/level3/version1/core">
+          <rdf:RDF xmlns:rdf="http://www.w3.org/1999/02/22-rdf-syntax-ns#">
+            <rdf:Description rdf:about="#R_AIRC3">
+              <bqbiol:is xmlns:bqbiol="http://biomodels.net/biology-qualifiers/">
+                <rdf:Bag>
+                  <rdf:li rdf:resource="http://identifiers.org/bigg.reaction/AIRC3"/>
+                  <rdf:li rdf:resource="http://identifiers.org/biocyc/META:RXN0-743"/>
+                  <rdf:li rdf:resource="http://identifiers.org/ec-code/5.4.99.18"/>
+                  <rdf:li rdf:resource="http://identifiers.org/kegg.reaction/R07405"/>
+                  <rdf:li rdf:resource="http://identifiers.org/metanetx.reaction/MNXR95645"/>
+                  <rdf:li rdf:resource="http://identifiers.org/rhea/13194"/>
+                  <rdf:li rdf:resource="http://identifiers.org/rhea/13196"/>
+                  <rdf:li rdf:resource="http://identifiers.org/rhea/13195"/>
+                  <rdf:li rdf:resource="http://identifiers.org/rhea/13193"/>
+                  <rdf:li rdf:resource="http://identifiers.org/seed.reaction/rxn05115"/>
+                </rdf:Bag>
+              </bqbiol:is>
+            </rdf:Description>
+          </rdf:RDF>
+        </sbml:annotation>
+        <listOfReactants>
+          <speciesReference species="M_5aizc_c" stoichiometry="1" constant="true"/>
+        </listOfReactants>
+        <listOfProducts>
+          <speciesReference species="M_5caiz_c" stoichiometry="1" constant="true"/>
+        </listOfProducts>
+        <fbc:geneProductAssociation>
+          <fbc:geneProductRef fbc:geneProduct="G_b0523"/>
+        </fbc:geneProductAssociation>
+      </reaction>
+      <reaction id="R_TALA" fast="false" reversible="true" name="Transaldolase" metaid="R_TALA" sboTerm="SBO:0000176" fbc:upperFluxBound="cobra_default_ub" fbc:lowerFluxBound="cobra_default_lb">
+        <sbml:annotation xmlns:sbml="http://www.sbml.org/sbml/level3/version1/core">
+          <rdf:RDF xmlns:rdf="http://www.w3.org/1999/02/22-rdf-syntax-ns#">
+            <rdf:Description rdf:about="#R_TALA">
+              <bqbiol:is xmlns:bqbiol="http://biomodels.net/biology-qualifiers/">
+                <rdf:Bag>
+                  <rdf:li rdf:resource="http://identifiers.org/bigg.reaction/TALA"/>
+                  <rdf:li rdf:resource="http://identifiers.org/biocyc/META:TRANSALDOL-RXN"/>
+                  <rdf:li rdf:resource="http://identifiers.org/ec-code/2.2.1.2"/>
+                  <rdf:li rdf:resource="http://identifiers.org/kegg.reaction/R01827"/>
+                  <rdf:li rdf:resource="http://identifiers.org/metanetx.reaction/MNXR104715"/>
+                  <rdf:li rdf:resource="http://identifiers.org/rhea/17056"/>
+                  <rdf:li rdf:resource="http://identifiers.org/rhea/17055"/>
+                  <rdf:li rdf:resource="http://identifiers.org/rhea/17054"/>
+                  <rdf:li rdf:resource="http://identifiers.org/rhea/17053"/>
+                </rdf:Bag>
+              </bqbiol:is>
+            </rdf:Description>
+          </rdf:RDF>
+        </sbml:annotation>
+        <listOfReactants>
+          <speciesReference species="M_g3p_c" stoichiometry="1" constant="true"/>
+          <speciesReference species="M_s7p_c" stoichiometry="1" constant="true"/>
+        </listOfReactants>
+        <listOfProducts>
+          <speciesReference species="M_e4p_c" stoichiometry="1" constant="true"/>
+          <speciesReference species="M_f6p_c" stoichiometry="1" constant="true"/>
+        </listOfProducts>
+        <fbc:geneProductAssociation>
+          <fbc:or>
+            <fbc:geneProductRef fbc:geneProduct="G_b0008"/>
+            <fbc:geneProductRef fbc:geneProduct="G_b2464"/>
+          </fbc:or>
+        </fbc:geneProductAssociation>
+      </reaction>
+      <reaction id="R_PUNP1" fast="false" reversible="true" name="Purine-nucleoside phosphorylase (Adenosine)" metaid="R_PUNP1" sboTerm="SBO:0000176" fbc:upperFluxBound="cobra_default_ub" fbc:lowerFluxBound="cobra_default_lb">
+        <sbml:annotation xmlns:sbml="http://www.sbml.org/sbml/level3/version1/core">
+          <rdf:RDF xmlns:rdf="http://www.w3.org/1999/02/22-rdf-syntax-ns#">
+            <rdf:Description rdf:about="#R_PUNP1">
+              <bqbiol:is xmlns:bqbiol="http://biomodels.net/biology-qualifiers/">
+                <rdf:Bag>
+                  <rdf:li rdf:resource="http://identifiers.org/bigg.reaction/PUNP1"/>
+                  <rdf:li rdf:resource="http://identifiers.org/biocyc/META:ADENPHOSPHOR-RXN"/>
+                  <rdf:li rdf:resource="http://identifiers.org/ec-code/2.4.2.1"/>
+                  <rdf:li rdf:resource="http://identifiers.org/kegg.reaction/R01561"/>
+                  <rdf:li rdf:resource="http://identifiers.org/metanetx.reaction/MNXR103343"/>
+                  <rdf:li rdf:resource="http://identifiers.org/rhea/27644"/>
+                  <rdf:li rdf:resource="http://identifiers.org/rhea/27645"/>
+                  <rdf:li rdf:resource="http://identifiers.org/rhea/27643"/>
+                  <rdf:li rdf:resource="http://identifiers.org/rhea/27642"/>
+                  <rdf:li rdf:resource="http://identifiers.org/sabiork/133"/>
+                  <rdf:li rdf:resource="http://identifiers.org/seed.reaction/rxn01138"/>
+                </rdf:Bag>
+              </bqbiol:is>
+            </rdf:Description>
+          </rdf:RDF>
+        </sbml:annotation>
+        <listOfReactants>
+          <speciesReference species="M_adn_c" stoichiometry="1" constant="true"/>
+          <speciesReference species="M_pi_c" stoichiometry="1" constant="true"/>
+        </listOfReactants>
+        <listOfProducts>
+          <speciesReference species="M_ade_c" stoichiometry="1" constant="true"/>
+          <speciesReference species="M_r1p_c" stoichiometry="1" constant="true"/>
+        </listOfProducts>
+        <fbc:geneProductAssociation>
+          <fbc:geneProductRef fbc:geneProduct="G_b4384"/>
+        </fbc:geneProductAssociation>
+      </reaction>
+      <reaction id="R_PUNP2" fast="false" reversible="true" name="Purine-nucleoside phosphorylase (Deoxyadenosine)" metaid="R_PUNP2" sboTerm="SBO:0000176" fbc:upperFluxBound="cobra_default_ub" fbc:lowerFluxBound="cobra_default_lb">
+        <sbml:annotation xmlns:sbml="http://www.sbml.org/sbml/level3/version1/core">
+          <rdf:RDF xmlns:rdf="http://www.w3.org/1999/02/22-rdf-syntax-ns#">
+            <rdf:Description rdf:about="#R_PUNP2">
+              <bqbiol:is xmlns:bqbiol="http://biomodels.net/biology-qualifiers/">
+                <rdf:Bag>
+                  <rdf:li rdf:resource="http://identifiers.org/bigg.reaction/PUNP2"/>
+                  <rdf:li rdf:resource="http://identifiers.org/biocyc/META:DEOXYADENPHOSPHOR-RXN"/>
+                  <rdf:li rdf:resource="http://identifiers.org/ec-code/2.4.2.1"/>
+                  <rdf:li rdf:resource="http://identifiers.org/kegg.reaction/R02557"/>
+                  <rdf:li rdf:resource="http://identifiers.org/metanetx.reaction/MNXR103344"/>
+                  <rdf:li rdf:resource="http://identifiers.org/rhea/27743"/>
+                  <rdf:li rdf:resource="http://identifiers.org/rhea/27742"/>
+                  <rdf:li rdf:resource="http://identifiers.org/rhea/27745"/>
+                  <rdf:li rdf:resource="http://identifiers.org/rhea/27744"/>
+                  <rdf:li rdf:resource="http://identifiers.org/sabiork/342"/>
+                  <rdf:li rdf:resource="http://identifiers.org/seed.reaction/rxn01859"/>
+                </rdf:Bag>
+              </bqbiol:is>
+            </rdf:Description>
+          </rdf:RDF>
+        </sbml:annotation>
+        <listOfReactants>
+          <speciesReference species="M_dad_2_c" stoichiometry="1" constant="true"/>
+          <speciesReference species="M_pi_c" stoichiometry="1" constant="true"/>
+        </listOfReactants>
+        <listOfProducts>
+          <speciesReference species="M_2dr1p_c" stoichiometry="1" constant="true"/>
+          <speciesReference species="M_ade_c" stoichiometry="1" constant="true"/>
+        </listOfProducts>
+        <fbc:geneProductAssociation>
+          <fbc:geneProductRef fbc:geneProduct="G_b4384"/>
+        </fbc:geneProductAssociation>
+      </reaction>
+      <reaction id="R_PUNP3" fast="false" reversible="true" name="Purine-nucleoside phosphorylase (Guanosine)" metaid="R_PUNP3" sboTerm="SBO:0000176" fbc:upperFluxBound="cobra_default_ub" fbc:lowerFluxBound="cobra_default_lb">
+        <sbml:annotation xmlns:sbml="http://www.sbml.org/sbml/level3/version1/core">
+          <rdf:RDF xmlns:rdf="http://www.w3.org/1999/02/22-rdf-syntax-ns#">
+            <rdf:Description rdf:about="#R_PUNP3">
+              <bqbiol:is xmlns:bqbiol="http://biomodels.net/biology-qualifiers/">
+                <rdf:Bag>
+                  <rdf:li rdf:resource="http://identifiers.org/bigg.reaction/PUNP3"/>
+                  <rdf:li rdf:resource="http://identifiers.org/biocyc/META:RXN0-5199"/>
+                  <rdf:li rdf:resource="http://identifiers.org/ec-code/2.4.2.15"/>
+                  <rdf:li rdf:resource="http://identifiers.org/ec-code/2.4.2.1"/>
+                  <rdf:li rdf:resource="http://identifiers.org/kegg.reaction/R02147"/>
+                  <rdf:li rdf:resource="http://identifiers.org/metanetx.reaction/MNXR103345"/>
+                  <rdf:li rdf:resource="http://identifiers.org/rhea/13236"/>
+                  <rdf:li rdf:resource="http://identifiers.org/rhea/13234"/>
+                  <rdf:li rdf:resource="http://identifiers.org/rhea/13235"/>
+                  <rdf:li rdf:resource="http://identifiers.org/rhea/13233"/>
+                  <rdf:li rdf:resource="http://identifiers.org/sabiork/187"/>
+                  <rdf:li rdf:resource="http://identifiers.org/seed.reaction/rxn01548"/>
+                </rdf:Bag>
+              </bqbiol:is>
+            </rdf:Description>
+          </rdf:RDF>
+        </sbml:annotation>
+        <listOfReactants>
+          <speciesReference species="M_gsn_c" stoichiometry="1" constant="true"/>
+          <speciesReference species="M_pi_c" stoichiometry="1" constant="true"/>
+        </listOfReactants>
+        <listOfProducts>
+          <speciesReference species="M_gua_c" stoichiometry="1" constant="true"/>
+          <speciesReference species="M_r1p_c" stoichiometry="1" constant="true"/>
+        </listOfProducts>
+        <fbc:geneProductAssociation>
+          <fbc:or>
+            <fbc:geneProductRef fbc:geneProduct="G_b2407"/>
+            <fbc:geneProductRef fbc:geneProduct="G_b4384"/>
+          </fbc:or>
+        </fbc:geneProductAssociation>
+      </reaction>
+      <reaction id="R_ADSL2r" fast="false" reversible="true" name="Adenylosuccinate lyase" metaid="R_ADSL2r" sboTerm="SBO:0000176" fbc:upperFluxBound="cobra_default_ub" fbc:lowerFluxBound="cobra_default_lb">
+        <sbml:annotation xmlns:sbml="http://www.sbml.org/sbml/level3/version1/core">
+          <rdf:RDF xmlns:rdf="http://www.w3.org/1999/02/22-rdf-syntax-ns#">
+            <rdf:Description rdf:about="#R_ADSL2r">
+              <bqbiol:is xmlns:bqbiol="http://biomodels.net/biology-qualifiers/">
+                <rdf:Bag>
+                  <rdf:li rdf:resource="http://identifiers.org/bigg.reaction/ADSL2r"/>
+                  <rdf:li rdf:resource="http://identifiers.org/biocyc/META:AICARSYN-RXN"/>
+                  <rdf:li rdf:resource="http://identifiers.org/ec-code/4.3.2.2"/>
+                  <rdf:li rdf:resource="http://identifiers.org/kegg.reaction/R04559"/>
+                  <rdf:li rdf:resource="http://identifiers.org/metanetx.reaction/MNXR108966"/>
+                  <rdf:li rdf:resource="http://identifiers.org/reactome.reaction/R-BTA-73800"/>
+                  <rdf:li rdf:resource="http://identifiers.org/reactome.reaction/R-SCE-73800"/>
+                  <rdf:li rdf:resource="http://identifiers.org/reactome.reaction/R-DME-73800"/>
+                  <rdf:li rdf:resource="http://identifiers.org/reactome.reaction/R-RNO-73800"/>
+                  <rdf:li rdf:resource="http://identifiers.org/reactome.reaction/R-ATH-73800"/>
+                  <rdf:li rdf:resource="http://identifiers.org/reactome.reaction/R-CEL-73800"/>
+                  <rdf:li rdf:resource="http://identifiers.org/reactome.reaction/R-TGU-73800"/>
+                  <rdf:li rdf:resource="http://identifiers.org/reactome.reaction/R-SSC-73800"/>
+                  <rdf:li rdf:resource="http://identifiers.org/reactome.reaction/R-PFA-73800"/>
+                  <rdf:li rdf:resource="http://identifiers.org/reactome.reaction/R-SPO-73800"/>
+                  <rdf:li rdf:resource="http://identifiers.org/reactome.reaction/R-GGA-419255"/>
+                  <rdf:li rdf:resource="http://identifiers.org/reactome.reaction/R-DDI-73800"/>
+                  <rdf:li rdf:resource="http://identifiers.org/reactome.reaction/R-OSA-73800"/>
+                  <rdf:li rdf:resource="http://identifiers.org/reactome.reaction/R-MMU-73800"/>
+                  <rdf:li rdf:resource="http://identifiers.org/reactome.reaction/R-GGA-73800"/>
+                  <rdf:li rdf:resource="http://identifiers.org/reactome.reaction/R-XTR-73800"/>
+                  <rdf:li rdf:resource="http://identifiers.org/reactome.reaction/R-DRE-73800"/>
+                  <rdf:li rdf:resource="http://identifiers.org/reactome.reaction/R-HSA-73800"/>
+                  <rdf:li rdf:resource="http://identifiers.org/rhea/23920"/>
+                  <rdf:li rdf:resource="http://identifiers.org/rhea/23923"/>
+                  <rdf:li rdf:resource="http://identifiers.org/rhea/23922"/>
+                  <rdf:li rdf:resource="http://identifiers.org/rhea/23921"/>
+                  <rdf:li rdf:resource="http://identifiers.org/sabiork/121"/>
+                </rdf:Bag>
+              </bqbiol:is>
+            </rdf:Description>
+          </rdf:RDF>
+        </sbml:annotation>
+        <listOfReactants>
+          <speciesReference species="M_25aics_c" stoichiometry="1" constant="true"/>
+        </listOfReactants>
+        <listOfProducts>
+          <speciesReference species="M_aicar_c" stoichiometry="1" constant="true"/>
+          <speciesReference species="M_fum_c" stoichiometry="1" constant="true"/>
+        </listOfProducts>
+        <fbc:geneProductAssociation>
+          <fbc:geneProductRef fbc:geneProduct="G_b1131"/>
+        </fbc:geneProductAssociation>
+      </reaction>
+      <reaction id="R_TKT1" fast="false" reversible="true" name="Transketolase" metaid="R_TKT1" sboTerm="SBO:0000176" fbc:upperFluxBound="cobra_default_ub" fbc:lowerFluxBound="cobra_default_lb">
+        <sbml:annotation xmlns:sbml="http://www.sbml.org/sbml/level3/version1/core">
+          <rdf:RDF xmlns:rdf="http://www.w3.org/1999/02/22-rdf-syntax-ns#">
+            <rdf:Description rdf:about="#R_TKT1">
+              <bqbiol:is xmlns:bqbiol="http://biomodels.net/biology-qualifiers/">
+                <rdf:Bag>
+                  <rdf:li rdf:resource="http://identifiers.org/bigg.reaction/TKT1"/>
+                  <rdf:li rdf:resource="http://identifiers.org/ec-code/2.2.1.1"/>
+                  <rdf:li rdf:resource="http://identifiers.org/metanetx.reaction/MNXR104868"/>
+                </rdf:Bag>
+              </bqbiol:is>
+            </rdf:Description>
+          </rdf:RDF>
+        </sbml:annotation>
+        <listOfReactants>
+          <speciesReference species="M_r5p_c" stoichiometry="1" constant="true"/>
+          <speciesReference species="M_xu5p__D_c" stoichiometry="1" constant="true"/>
+        </listOfReactants>
+        <listOfProducts>
+          <speciesReference species="M_g3p_c" stoichiometry="1" constant="true"/>
+          <speciesReference species="M_s7p_c" stoichiometry="1" constant="true"/>
+        </listOfProducts>
+        <fbc:geneProductAssociation>
+          <fbc:or>
+            <fbc:geneProductRef fbc:geneProduct="G_b2935"/>
+            <fbc:geneProductRef fbc:geneProduct="G_b2465"/>
+          </fbc:or>
+        </fbc:geneProductAssociation>
+      </reaction>
+      <reaction id="R_EX_fe2_e" fast="false" reversible="true" name="Fe2+ exchange" metaid="R_EX_fe2_e" sboTerm="SBO:0000627" fbc:upperFluxBound="cobra_default_ub" fbc:lowerFluxBound="cobra_default_lb">
+        <sbml:annotation xmlns:sbml="http://www.sbml.org/sbml/level3/version1/core">
+          <rdf:RDF xmlns:rdf="http://www.w3.org/1999/02/22-rdf-syntax-ns#">
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+              <bqbiol:is xmlns:bqbiol="http://biomodels.net/biology-qualifiers/">
+                <rdf:Bag>
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+                  <rdf:li rdf:resource="http://identifiers.org/biocyc/META:TRANS-RXN-8"/>
+                  <rdf:li rdf:resource="http://identifiers.org/metanetx.reaction/MNXR99505"/>
+                  <rdf:li rdf:resource="http://identifiers.org/rhea/28488"/>
+                  <rdf:li rdf:resource="http://identifiers.org/rhea/28487"/>
+                  <rdf:li rdf:resource="http://identifiers.org/rhea/28489"/>
+                  <rdf:li rdf:resource="http://identifiers.org/rhea/28486"/>
+                  <rdf:li rdf:resource="http://identifiers.org/seed.reaction/rxn08476"/>
+                  <rdf:li rdf:resource="http://identifiers.org/seed.reaction/rxn08475"/>
+                  <rdf:li rdf:resource="http://identifiers.org/seed.reaction/rxn13286"/>
+                  <rdf:li rdf:resource="http://identifiers.org/seed.reaction/rxn10963"/>
+                </rdf:Bag>
+              </bqbiol:is>
+            </rdf:Description>
+          </rdf:RDF>
+        </sbml:annotation>
+        <listOfReactants>
+          <speciesReference species="M_fe2_e" stoichiometry="1" constant="true"/>
+        </listOfReactants>
+      </reaction>
+      <reaction id="R_PUNP5" fast="false" reversible="true" name="Purine-nucleoside phosphorylase (Inosine)" metaid="R_PUNP5" sboTerm="SBO:0000176" fbc:upperFluxBound="cobra_default_ub" fbc:lowerFluxBound="cobra_default_lb">
+        <sbml:annotation xmlns:sbml="http://www.sbml.org/sbml/level3/version1/core">
+          <rdf:RDF xmlns:rdf="http://www.w3.org/1999/02/22-rdf-syntax-ns#">
+            <rdf:Description rdf:about="#R_PUNP5">
+              <bqbiol:is xmlns:bqbiol="http://biomodels.net/biology-qualifiers/">
+                <rdf:Bag>
+                  <rdf:li rdf:resource="http://identifiers.org/bigg.reaction/PUNP5"/>
+                  <rdf:li rdf:resource="http://identifiers.org/biocyc/META:INOPHOSPHOR-RXN"/>
+                  <rdf:li rdf:resource="http://identifiers.org/ec-code/2.4.2.15"/>
+                  <rdf:li rdf:resource="http://identifiers.org/ec-code/2.4.2.1"/>
+                  <rdf:li rdf:resource="http://identifiers.org/kegg.reaction/R01863"/>
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+                  <rdf:li rdf:resource="http://identifiers.org/reactome.reaction/R-GGA-421174"/>
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+                  <rdf:li rdf:resource="http://identifiers.org/rhea/27648"/>
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+                  <rdf:li rdf:resource="http://identifiers.org/seed.reaction/rxn01358"/>
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+        </sbml:annotation>
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+          <speciesReference species="M_ins_c" stoichiometry="1" constant="true"/>
+          <speciesReference species="M_pi_c" stoichiometry="1" constant="true"/>
+        </listOfReactants>
+        <listOfProducts>
+          <speciesReference species="M_hxan_c" stoichiometry="1" constant="true"/>
+          <speciesReference species="M_r1p_c" stoichiometry="1" constant="true"/>
+        </listOfProducts>
+        <fbc:geneProductAssociation>
+          <fbc:or>
+            <fbc:geneProductRef fbc:geneProduct="G_b2407"/>
+            <fbc:geneProductRef fbc:geneProduct="G_b4384"/>
+          </fbc:or>
+        </fbc:geneProductAssociation>
+      </reaction>
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+                  <rdf:li rdf:resource="http://identifiers.org/rhea/27750"/>
+                  <rdf:li rdf:resource="http://identifiers.org/rhea/27751"/>
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+          <speciesReference species="M_pi_c" stoichiometry="1" constant="true"/>
+        </listOfReactants>
+        <listOfProducts>
+          <speciesReference species="M_2dr1p_c" stoichiometry="1" constant="true"/>
+          <speciesReference species="M_hxan_c" stoichiometry="1" constant="true"/>
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+            <fbc:geneProductRef fbc:geneProduct="G_b2407"/>
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+        </fbc:geneProductAssociation>
+      </reaction>
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+                  <rdf:li rdf:resource="http://identifiers.org/ec-code/2.4.2.1"/>
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+                  <rdf:li rdf:resource="http://identifiers.org/rhea/27639"/>
+                  <rdf:li rdf:resource="http://identifiers.org/rhea/27638"/>
+                  <rdf:li rdf:resource="http://identifiers.org/rhea/27640"/>
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+          <speciesReference species="M_xtsn_c" stoichiometry="1" constant="true"/>
+        </listOfReactants>
+        <listOfProducts>
+          <speciesReference species="M_r1p_c" stoichiometry="1" constant="true"/>
+          <speciesReference species="M_xan_c" stoichiometry="1" constant="true"/>
+        </listOfProducts>
+        <fbc:geneProductAssociation>
+          <fbc:geneProductRef fbc:geneProduct="G_b2407"/>
+        </fbc:geneProductAssociation>
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+      <reaction id="R_G6PDA" fast="false" reversible="false" name="Glucosamine-6-phosphate deaminase" metaid="R_G6PDA" sboTerm="SBO:0000176" fbc:upperFluxBound="cobra_default_ub" fbc:lowerFluxBound="cobra_0_bound">
+        <sbml:annotation xmlns:sbml="http://www.sbml.org/sbml/level3/version1/core">
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+                  <rdf:li rdf:resource="http://identifiers.org/kegg.reaction/R00765"/>
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+                  <rdf:li rdf:resource="http://identifiers.org/seed.reaction/rxn00552"/>
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+          <speciesReference species="M_h2o_c" stoichiometry="1" constant="true"/>
+        </listOfReactants>
+        <listOfProducts>
+          <speciesReference species="M_f6p_c" stoichiometry="1" constant="true"/>
+          <speciesReference species="M_nh4_c" stoichiometry="1" constant="true"/>
+        </listOfProducts>
+        <fbc:geneProductAssociation>
+          <fbc:geneProductRef fbc:geneProduct="G_b0678"/>
+        </fbc:geneProductAssociation>
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+      <reaction id="R_RNDR1" fast="false" reversible="false" name="Ribonucleoside-diphosphate reductase (ADP)" metaid="R_RNDR1" sboTerm="SBO:0000176" fbc:upperFluxBound="cobra_default_ub" fbc:lowerFluxBound="cobra_0_bound">
+        <sbml:annotation xmlns:sbml="http://www.sbml.org/sbml/level3/version1/core">
+          <rdf:RDF xmlns:rdf="http://www.w3.org/1999/02/22-rdf-syntax-ns#">
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+              <bqbiol:is xmlns:bqbiol="http://biomodels.net/biology-qualifiers/">
+                <rdf:Bag>
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+                  <rdf:li rdf:resource="http://identifiers.org/biocyc/META:ADPREDUCT-RXN"/>
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+                  <rdf:li rdf:resource="http://identifiers.org/metanetx.reaction/MNXR104060"/>
+                  <rdf:li rdf:resource="http://identifiers.org/seed.reaction/rxn05231"/>
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+        <listOfReactants>
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+          <speciesReference species="M_trdrd_c" stoichiometry="1" constant="true"/>
+        </listOfReactants>
+        <listOfProducts>
+          <speciesReference species="M_dadp_c" stoichiometry="1" constant="true"/>
+          <speciesReference species="M_h2o_c" stoichiometry="1" constant="true"/>
+          <speciesReference species="M_trdox_c" stoichiometry="1" constant="true"/>
+        </listOfProducts>
+        <fbc:geneProductAssociation>
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+            <fbc:and>
+              <fbc:geneProductRef fbc:geneProduct="G_b2582"/>
+              <fbc:and>
+                <fbc:geneProductRef fbc:geneProduct="G_b2234"/>
+                <fbc:geneProductRef fbc:geneProduct="G_b2235"/>
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+            </fbc:and>
+            <fbc:and>
+              <fbc:geneProductRef fbc:geneProduct="G_b3781"/>
+              <fbc:and>
+                <fbc:geneProductRef fbc:geneProduct="G_b2234"/>
+                <fbc:geneProductRef fbc:geneProduct="G_b2235"/>
+              </fbc:and>
+            </fbc:and>
+          </fbc:or>
+        </fbc:geneProductAssociation>
+      </reaction>
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+        <sbml:annotation xmlns:sbml="http://www.sbml.org/sbml/level3/version1/core">
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+          <speciesReference species="M_nad_c" stoichiometry="1" constant="true"/>
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+          <speciesReference species="M_nadh_c" stoichiometry="1" constant="true"/>
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+            <fbc:geneProductRef fbc:geneProduct="G_b1241"/>
+            <fbc:geneProductRef fbc:geneProduct="G_b1478"/>
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+        </fbc:geneProductAssociation>
+      </reaction>
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+        <sbml:annotation xmlns:sbml="http://www.sbml.org/sbml/level3/version1/core">
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+                  <rdf:li rdf:resource="http://identifiers.org/seed.reaction/rxn06076"/>
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+          <speciesReference species="M_trdrd_c" stoichiometry="1" constant="true"/>
+        </listOfReactants>
+        <listOfProducts>
+          <speciesReference species="M_dcdp_c" stoichiometry="1" constant="true"/>
+          <speciesReference species="M_h2o_c" stoichiometry="1" constant="true"/>
+          <speciesReference species="M_trdox_c" stoichiometry="1" constant="true"/>
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+                <fbc:geneProductRef fbc:geneProduct="G_b2235"/>
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+                <fbc:geneProductRef fbc:geneProduct="G_b2235"/>
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+            </fbc:and>
+          </fbc:or>
+        </fbc:geneProductAssociation>
+      </reaction>
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+                  <rdf:li rdf:resource="http://identifiers.org/seed.reaction/rxn06075"/>
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+          <speciesReference species="M_udp_c" stoichiometry="1" constant="true"/>
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+        <listOfProducts>
+          <speciesReference species="M_dudp_c" stoichiometry="1" constant="true"/>
+          <speciesReference species="M_h2o_c" stoichiometry="1" constant="true"/>
+          <speciesReference species="M_trdox_c" stoichiometry="1" constant="true"/>
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+              <fbc:geneProductRef fbc:geneProduct="G_b3781"/>
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+                <fbc:geneProductRef fbc:geneProduct="G_b2234"/>
+                <fbc:geneProductRef fbc:geneProduct="G_b2235"/>
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+              <fbc:and>
+                <fbc:geneProductRef fbc:geneProduct="G_b2234"/>
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+              <fbc:geneProductRef fbc:geneProduct="G_b2582"/>
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+          </fbc:or>
+        </fbc:geneProductAssociation>
+      </reaction>
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+          <speciesReference species="M_nadp_c" stoichiometry="1" constant="true"/>
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+        <listOfProducts>
+          <speciesReference species="M_ac_c" stoichiometry="1" constant="true"/>
+          <speciesReference species="M_h_c" stoichiometry="2" constant="true"/>
+          <speciesReference species="M_nadph_c" stoichiometry="1" constant="true"/>
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+            <fbc:geneProductRef fbc:geneProduct="G_b3011"/>
+            <fbc:geneProductRef fbc:geneProduct="G_b3003"/>
+            <fbc:geneProductRef fbc:geneProduct="G_b0493"/>
+            <fbc:geneProductRef fbc:geneProduct="G_b4269"/>
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+        </fbc:geneProductAssociation>
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+                  <rdf:li rdf:resource="http://identifiers.org/kegg.reaction/R02101"/>
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+                  <rdf:li rdf:resource="http://identifiers.org/rhea/12106"/>
+                  <rdf:li rdf:resource="http://identifiers.org/rhea/12104"/>
+                  <rdf:li rdf:resource="http://identifiers.org/rhea/12107"/>
+                  <rdf:li rdf:resource="http://identifiers.org/rhea/12105"/>
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+          <speciesReference species="M_dump_c" stoichiometry="1" constant="true"/>
+          <speciesReference species="M_mlthf_c" stoichiometry="1" constant="true"/>
+        </listOfReactants>
+        <listOfProducts>
+          <speciesReference species="M_dhf_c" stoichiometry="1" constant="true"/>
+          <speciesReference species="M_dtmp_c" stoichiometry="1" constant="true"/>
+        </listOfProducts>
+        <fbc:geneProductAssociation>
+          <fbc:geneProductRef fbc:geneProduct="G_b2827"/>
+        </fbc:geneProductAssociation>
+      </reaction>
+      <reaction id="R_RMI" fast="false" reversible="true" name="L-rhamnose isomerase" metaid="R_RMI" sboTerm="SBO:0000176" fbc:upperFluxBound="cobra_default_ub" fbc:lowerFluxBound="cobra_default_lb">
+        <sbml:annotation xmlns:sbml="http://www.sbml.org/sbml/level3/version1/core">
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+              <bqbiol:is xmlns:bqbiol="http://biomodels.net/biology-qualifiers/">
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+                  <rdf:li rdf:resource="http://identifiers.org/kegg.reaction/R02437"/>
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+                  <rdf:li rdf:resource="http://identifiers.org/rhea/23161"/>
+                  <rdf:li rdf:resource="http://identifiers.org/rhea/23163"/>
+                  <rdf:li rdf:resource="http://identifiers.org/rhea/23160"/>
+                  <rdf:li rdf:resource="http://identifiers.org/rhea/23162"/>
+                  <rdf:li rdf:resource="http://identifiers.org/sabiork/2372"/>
+                  <rdf:li rdf:resource="http://identifiers.org/seed.reaction/rxn01761"/>
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+          <speciesReference species="M_rmn_c" stoichiometry="1" constant="true"/>
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+        <listOfProducts>
+          <speciesReference species="M_rml_c" stoichiometry="1" constant="true"/>
+        </listOfProducts>
+        <fbc:geneProductAssociation>
+          <fbc:geneProductRef fbc:geneProduct="G_b3903"/>
+        </fbc:geneProductAssociation>
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+        <sbml:annotation xmlns:sbml="http://www.sbml.org/sbml/level3/version1/core">
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+                  <rdf:li rdf:resource="http://identifiers.org/biocyc/META:THYKI-RXN"/>
+                  <rdf:li rdf:resource="http://identifiers.org/ec-code/2.7.1.145"/>
+                  <rdf:li rdf:resource="http://identifiers.org/ec-code/2.7.1.21"/>
+                  <rdf:li rdf:resource="http://identifiers.org/kegg.reaction/R01567"/>
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+                  <rdf:li rdf:resource="http://identifiers.org/reactome.reaction/R-RNO-73632"/>
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+                  <rdf:li rdf:resource="http://identifiers.org/reactome.reaction/R-TGU-73632"/>
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+                  <rdf:li rdf:resource="http://identifiers.org/rhea/19130"/>
+                  <rdf:li rdf:resource="http://identifiers.org/rhea/19132"/>
+                  <rdf:li rdf:resource="http://identifiers.org/rhea/19131"/>
+                  <rdf:li rdf:resource="http://identifiers.org/rhea/19129"/>
+                  <rdf:li rdf:resource="http://identifiers.org/sabiork/90"/>
+                  <rdf:li rdf:resource="http://identifiers.org/seed.reaction/rxn01143"/>
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+          <speciesReference species="M_atp_c" stoichiometry="1" constant="true"/>
+          <speciesReference species="M_thymd_c" stoichiometry="1" constant="true"/>
+        </listOfReactants>
+        <listOfProducts>
+          <speciesReference species="M_adp_c" stoichiometry="1" constant="true"/>
+          <speciesReference species="M_dtmp_c" stoichiometry="1" constant="true"/>
+          <speciesReference species="M_h_c" stoichiometry="1" constant="true"/>
+        </listOfProducts>
+        <fbc:geneProductAssociation>
+          <fbc:geneProductRef fbc:geneProduct="G_b1238"/>
+        </fbc:geneProductAssociation>
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+        <sbml:annotation xmlns:sbml="http://www.sbml.org/sbml/level3/version1/core">
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+            <rdf:Description rdf:about="#R_LYSAM">
+              <bqbiol:is xmlns:bqbiol="http://biomodels.net/biology-qualifiers/">
+                <rdf:Bag>
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+                  <rdf:li rdf:resource="http://identifiers.org/biocyc/META:LYSINE-23-AMINOMUTASE-RXN"/>
+                  <rdf:li rdf:resource="http://identifiers.org/ec-code/5.4.3.2"/>
+                  <rdf:li rdf:resource="http://identifiers.org/kegg.reaction/R00461"/>
+                  <rdf:li rdf:resource="http://identifiers.org/metanetx.reaction/MNXR101254"/>
+                  <rdf:li rdf:resource="http://identifiers.org/rhea/19177"/>
+                  <rdf:li rdf:resource="http://identifiers.org/rhea/19180"/>
+                  <rdf:li rdf:resource="http://identifiers.org/rhea/19178"/>
+                  <rdf:li rdf:resource="http://identifiers.org/rhea/19179"/>
+                  <rdf:li rdf:resource="http://identifiers.org/seed.reaction/rxn00321"/>
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+          <speciesReference species="M_lys__L_c" stoichiometry="1" constant="true"/>
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+        <listOfProducts>
+          <speciesReference species="M_36dahx_c" stoichiometry="1" constant="true"/>
+        </listOfProducts>
+        <fbc:geneProductAssociation>
+          <fbc:geneProductRef fbc:geneProduct="G_b4146"/>
+        </fbc:geneProductAssociation>
+      </reaction>
+      <reaction id="R_PPCDC" fast="false" reversible="false" name="Phosphopantothenoylcysteine decarboxylase" metaid="R_PPCDC" sboTerm="SBO:0000176" fbc:upperFluxBound="cobra_default_ub" fbc:lowerFluxBound="cobra_0_bound">
+        <sbml:annotation xmlns:sbml="http://www.sbml.org/sbml/level3/version1/core">
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+            <rdf:Description rdf:about="#R_PPCDC">
+              <bqbiol:is xmlns:bqbiol="http://biomodels.net/biology-qualifiers/">
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+                  <rdf:li rdf:resource="http://identifiers.org/biocyc/META:P-PANTOCYSDECARB-RXN"/>
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+                  <rdf:li rdf:resource="http://identifiers.org/kegg.reaction/R03269"/>
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+                  <rdf:li rdf:resource="http://identifiers.org/rhea/16796"/>
+                  <rdf:li rdf:resource="http://identifiers.org/rhea/16794"/>
+                  <rdf:li rdf:resource="http://identifiers.org/rhea/16795"/>
+                  <rdf:li rdf:resource="http://identifiers.org/sabiork/3090"/>
+                  <rdf:li rdf:resource="http://identifiers.org/seed.reaction/rxn02341"/>
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+        </sbml:annotation>
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+          <speciesReference species="M_4ppcys_c" stoichiometry="1" constant="true"/>
+          <speciesReference species="M_h_c" stoichiometry="1" constant="true"/>
+        </listOfReactants>
+        <listOfProducts>
+          <speciesReference species="M_co2_c" stoichiometry="1" constant="true"/>
+          <speciesReference species="M_pan4p_c" stoichiometry="1" constant="true"/>
+        </listOfProducts>
+        <fbc:geneProductAssociation>
+          <fbc:geneProductRef fbc:geneProduct="G_b3639"/>
+        </fbc:geneProductAssociation>
+      </reaction>
+      <reaction id="R_FTHFD" fast="false" reversible="false" name="Formyltetrahydrofolate deformylase" metaid="R_FTHFD" sboTerm="SBO:0000176" fbc:upperFluxBound="cobra_default_ub" fbc:lowerFluxBound="cobra_0_bound">
+        <sbml:annotation xmlns:sbml="http://www.sbml.org/sbml/level3/version1/core">
+          <rdf:RDF xmlns:rdf="http://www.w3.org/1999/02/22-rdf-syntax-ns#">
+            <rdf:Description rdf:about="#R_FTHFD">
+              <bqbiol:is xmlns:bqbiol="http://biomodels.net/biology-qualifiers/">
+                <rdf:Bag>
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+                  <rdf:li rdf:resource="http://identifiers.org/ec-code/3.5.1.10"/>
+                  <rdf:li rdf:resource="http://identifiers.org/kegg.reaction/R00944"/>
+                  <rdf:li rdf:resource="http://identifiers.org/metanetx.reaction/MNXR99669"/>
+                  <rdf:li rdf:resource="http://identifiers.org/rhea/19833"/>
+                  <rdf:li rdf:resource="http://identifiers.org/rhea/19835"/>
+                  <rdf:li rdf:resource="http://identifiers.org/rhea/19834"/>
+                  <rdf:li rdf:resource="http://identifiers.org/rhea/19836"/>
+                  <rdf:li rdf:resource="http://identifiers.org/sabiork/1259"/>
+                </rdf:Bag>
+              </bqbiol:is>
+            </rdf:Description>
+          </rdf:RDF>
+        </sbml:annotation>
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+          <speciesReference species="M_10fthf_c" stoichiometry="1" constant="true"/>
+          <speciesReference species="M_h2o_c" stoichiometry="1" constant="true"/>
+        </listOfReactants>
+        <listOfProducts>
+          <speciesReference species="M_for_c" stoichiometry="1" constant="true"/>
+          <speciesReference species="M_h_c" stoichiometry="1" constant="true"/>
+          <speciesReference species="M_thf_c" stoichiometry="1" constant="true"/>
+        </listOfProducts>
+        <fbc:geneProductAssociation>
+          <fbc:geneProductRef fbc:geneProduct="G_b1232"/>
+        </fbc:geneProductAssociation>
+      </reaction>
+      <reaction id="R_EX_glc__D_e" fast="false" reversible="true" name="D-Glucose exchange" metaid="R_EX_glc__D_e" sboTerm="SBO:0000627" fbc:upperFluxBound="cobra_default_ub" fbc:lowerFluxBound="R_EX_glc__D_e_lower_bound">
+        <sbml:annotation xmlns:sbml="http://www.sbml.org/sbml/level3/version1/core">
+          <rdf:RDF xmlns:rdf="http://www.w3.org/1999/02/22-rdf-syntax-ns#">
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+              <bqbiol:is xmlns:bqbiol="http://biomodels.net/biology-qualifiers/">
+                <rdf:Bag>
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+                  <rdf:li rdf:resource="http://identifiers.org/biocyc/META:TRANS-RXN0-574"/>
+                  <rdf:li rdf:resource="http://identifiers.org/metanetx.reaction/MNXR100188"/>
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+                  <rdf:li rdf:resource="http://identifiers.org/sabiork/601"/>
+                  <rdf:li rdf:resource="http://identifiers.org/seed.reaction/rxn09875"/>
+                  <rdf:li rdf:resource="http://identifiers.org/seed.reaction/rxn09679"/>
+                  <rdf:li rdf:resource="http://identifiers.org/seed.reaction/rxn08617"/>
+                </rdf:Bag>
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+            </rdf:Description>
+          </rdf:RDF>
+        </sbml:annotation>
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+          <speciesReference species="M_glc__D_e" stoichiometry="1" constant="true"/>
+        </listOfReactants>
+      </reaction>
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+        <sbml:annotation xmlns:sbml="http://www.sbml.org/sbml/level3/version1/core">
+          <rdf:RDF xmlns:rdf="http://www.w3.org/1999/02/22-rdf-syntax-ns#">
+            <rdf:Description rdf:about="#R_DHAD1">
+              <bqbiol:is xmlns:bqbiol="http://biomodels.net/biology-qualifiers/">
+                <rdf:Bag>
+                  <rdf:li rdf:resource="http://identifiers.org/bigg.reaction/DHAD1"/>
+                  <rdf:li rdf:resource="http://identifiers.org/biocyc/META:DIHYDROXYISOVALDEHYDRAT-RXN"/>
+                  <rdf:li rdf:resource="http://identifiers.org/ec-code/4.2.1.9"/>
+                  <rdf:li rdf:resource="http://identifiers.org/kegg.reaction/R04441"/>
+                  <rdf:li rdf:resource="http://identifiers.org/metanetx.reaction/MNXR97358"/>
+                  <rdf:li rdf:resource="http://identifiers.org/rhea/24810"/>
+                  <rdf:li rdf:resource="http://identifiers.org/rhea/24811"/>
+                  <rdf:li rdf:resource="http://identifiers.org/rhea/24809"/>
+                  <rdf:li rdf:resource="http://identifiers.org/rhea/24812"/>
+                </rdf:Bag>
+              </bqbiol:is>
+            </rdf:Description>
+          </rdf:RDF>
+        </sbml:annotation>
+        <listOfReactants>
+          <speciesReference species="M_23dhmb_c" stoichiometry="1" constant="true"/>
+        </listOfReactants>
+        <listOfProducts>
+          <speciesReference species="M_3mob_c" stoichiometry="1" constant="true"/>
+          <speciesReference species="M_h2o_c" stoichiometry="1" constant="true"/>
+        </listOfProducts>
+        <fbc:geneProductAssociation>
+          <fbc:geneProductRef fbc:geneProduct="G_b3771"/>
+        </fbc:geneProductAssociation>
+      </reaction>
+      <reaction id="R_IPPMIa" fast="false" reversible="true" name="3-isopropylmalate dehydratase" metaid="R_IPPMIa" sboTerm="SBO:0000176" fbc:upperFluxBound="cobra_default_ub" fbc:lowerFluxBound="cobra_default_lb">
+        <sbml:annotation xmlns:sbml="http://www.sbml.org/sbml/level3/version1/core">
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+              <bqbiol:is xmlns:bqbiol="http://biomodels.net/biology-qualifiers/">
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+                  <rdf:li rdf:resource="http://identifiers.org/metanetx.reaction/MNXR100827"/>
+                  <rdf:li rdf:resource="http://identifiers.org/rhea/10679"/>
+                  <rdf:li rdf:resource="http://identifiers.org/rhea/10677"/>
+                  <rdf:li rdf:resource="http://identifiers.org/rhea/10678"/>
+                  <rdf:li rdf:resource="http://identifiers.org/rhea/10676"/>
+                  <rdf:li rdf:resource="http://identifiers.org/sabiork/3736"/>
+                  <rdf:li rdf:resource="http://identifiers.org/seed.reaction/rxn02811"/>
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+            </rdf:Description>
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+        </sbml:annotation>
+        <listOfReactants>
+          <speciesReference species="M_3c2hmp_c" stoichiometry="1" constant="true"/>
+        </listOfReactants>
+        <listOfProducts>
+          <speciesReference species="M_2ippm_c" stoichiometry="1" constant="true"/>
+          <speciesReference species="M_h2o_c" stoichiometry="1" constant="true"/>
+        </listOfProducts>
+        <fbc:geneProductAssociation>
+          <fbc:and>
+            <fbc:geneProductRef fbc:geneProduct="G_b0071"/>
+            <fbc:geneProductRef fbc:geneProduct="G_b0072"/>
+          </fbc:and>
+        </fbc:geneProductAssociation>
+      </reaction>
+      <reaction id="R_EX_alltn_e" fast="false" reversible="false" name="Allantoin exchange" metaid="R_EX_alltn_e" sboTerm="SBO:0000627" fbc:upperFluxBound="cobra_default_ub" fbc:lowerFluxBound="cobra_0_bound">
+        <sbml:annotation xmlns:sbml="http://www.sbml.org/sbml/level3/version1/core">
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+            <rdf:Description rdf:about="#R_EX_alltn_e">
+              <bqbiol:is xmlns:bqbiol="http://biomodels.net/biology-qualifiers/">
+                <rdf:Bag>
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+                  <rdf:li rdf:resource="http://identifiers.org/biocyc/META:TRANS-RXN0-557"/>
+                  <rdf:li rdf:resource="http://identifiers.org/metanetx.reaction/MNXR95771"/>
+                  <rdf:li rdf:resource="http://identifiers.org/seed.reaction/rxn08117"/>
+                  <rdf:li rdf:resource="http://identifiers.org/seed.reaction/rxn09698"/>
+                </rdf:Bag>
+              </bqbiol:is>
+            </rdf:Description>
+          </rdf:RDF>
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+          <speciesReference species="M_nad_c" stoichiometry="1" constant="true"/>
+          <speciesReference species="M_sucsal_c" stoichiometry="1" constant="true"/>
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+        <listOfProducts>
+          <speciesReference species="M_h_c" stoichiometry="2" constant="true"/>
+          <speciesReference species="M_nadh_c" stoichiometry="1" constant="true"/>
+          <speciesReference species="M_succ_c" stoichiometry="1" constant="true"/>
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+          <fbc:geneProductRef fbc:geneProduct="G_b1525"/>
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+          <speciesReference species="M_nh4_c" stoichiometry="1" constant="true"/>
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+          <speciesReference species="M_akg_c" stoichiometry="1" constant="true"/>
+          <speciesReference species="M_phthr_c" stoichiometry="1" constant="true"/>
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+          <fbc:geneProductRef fbc:geneProduct="G_b0907"/>
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+          <speciesReference species="M_pyr_c" stoichiometry="1" constant="true"/>
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+            <fbc:geneProductRef fbc:geneProduct="G_b1814"/>
+            <fbc:geneProductRef fbc:geneProduct="G_b2797"/>
+            <fbc:geneProductRef fbc:geneProduct="G_b3708"/>
+            <fbc:geneProductRef fbc:geneProduct="G_b3117"/>
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+          <speciesReference species="M_amp_c" stoichiometry="1" constant="true"/>
+          <speciesReference species="M_h_c" stoichiometry="2" constant="true"/>
+          <speciesReference species="M_nmn_c" stoichiometry="1" constant="true"/>
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+            <fbc:geneProductRef fbc:geneProduct="G_b2411"/>
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+        <sbml:annotation xmlns:sbml="http://www.sbml.org/sbml/level3/version1/core">
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+        <sbml:annotation xmlns:sbml="http://www.sbml.org/sbml/level3/version1/core">
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+                  <rdf:li rdf:resource="http://identifiers.org/seed.reaction/rxn08537"/>
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+          <speciesReference species="M_thr__L_c" stoichiometry="1" constant="true"/>
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+          <speciesReference species="M_h_c" stoichiometry="1" constant="true"/>
+          <speciesReference species="M_nadh_c" stoichiometry="1" constant="true"/>
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+            <fbc:geneProductRef fbc:geneProduct="G_b3589"/>
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+          <speciesReference species="M_man_c" stoichiometry="1" constant="true"/>
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+          <speciesReference species="M_adp_c" stoichiometry="1" constant="true"/>
+          <speciesReference species="M_h_c" stoichiometry="1" constant="true"/>
+          <speciesReference species="M_man6p_c" stoichiometry="1" constant="true"/>
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+              <bqbiol:is xmlns:bqbiol="http://biomodels.net/biology-qualifiers/">
+                <rdf:Bag>
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+                  <rdf:li rdf:resource="http://identifiers.org/rhea/34918"/>
+                  <rdf:li rdf:resource="http://identifiers.org/rhea/34917"/>
+                  <rdf:li rdf:resource="http://identifiers.org/rhea/34916"/>
+                  <rdf:li rdf:resource="http://identifiers.org/rhea/34915"/>
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+                  <rdf:li rdf:resource="http://identifiers.org/seed.reaction/rxn10911"/>
+                  <rdf:li rdf:resource="http://identifiers.org/seed.reaction/rxn08585"/>
+                </rdf:Bag>
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+        </sbml:annotation>
+        <listOfReactants>
+          <speciesReference species="M_gal_e" stoichiometry="1" constant="true"/>
+        </listOfReactants>
+      </reaction>
+      <reaction id="R_NMNAT" fast="false" reversible="false" name="Nicotinamide-nucleotide adenylyltransferase" metaid="R_NMNAT" sboTerm="SBO:0000176" fbc:upperFluxBound="cobra_default_ub" fbc:lowerFluxBound="cobra_0_bound">
+        <sbml:annotation xmlns:sbml="http://www.sbml.org/sbml/level3/version1/core">
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+              <bqbiol:is xmlns:bqbiol="http://biomodels.net/biology-qualifiers/">
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+                  <rdf:li rdf:resource="http://identifiers.org/reactome.reaction/R-XTR-8939959"/>
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+                  <rdf:li rdf:resource="http://identifiers.org/reactome.reaction/R-CEL-8939959"/>
+                  <rdf:li rdf:resource="http://identifiers.org/rhea/21361"/>
+                  <rdf:li rdf:resource="http://identifiers.org/rhea/21362"/>
+                  <rdf:li rdf:resource="http://identifiers.org/rhea/21360"/>
+                  <rdf:li rdf:resource="http://identifiers.org/rhea/21363"/>
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+                  <rdf:li rdf:resource="http://identifiers.org/seed.reaction/rxn00105"/>
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+          <speciesReference species="M_atp_c" stoichiometry="1" constant="true"/>
+          <speciesReference species="M_h_c" stoichiometry="1" constant="true"/>
+          <speciesReference species="M_nmn_c" stoichiometry="1" constant="true"/>
+        </listOfReactants>
+        <listOfProducts>
+          <speciesReference species="M_nad_c" stoichiometry="1" constant="true"/>
+          <speciesReference species="M_ppi_c" stoichiometry="1" constant="true"/>
+        </listOfProducts>
+        <fbc:geneProductAssociation>
+          <fbc:or>
+            <fbc:geneProductRef fbc:geneProduct="G_b4390"/>
+            <fbc:geneProductRef fbc:geneProduct="G_b0639"/>
+          </fbc:or>
+        </fbc:geneProductAssociation>
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+        <sbml:annotation xmlns:sbml="http://www.sbml.org/sbml/level3/version1/core">
+          <rdf:RDF xmlns:rdf="http://www.w3.org/1999/02/22-rdf-syntax-ns#">
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+              <bqbiol:is xmlns:bqbiol="http://biomodels.net/biology-qualifiers/">
+                <rdf:Bag>
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+                  <rdf:li rdf:resource="http://identifiers.org/seed.reaction/rxn09385"/>
+                  <rdf:li rdf:resource="http://identifiers.org/seed.reaction/rxn09650"/>
+                </rdf:Bag>
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+            </rdf:Description>
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+        </sbml:annotation>
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+          <speciesReference species="M_xyl__D_e" stoichiometry="1" constant="true"/>
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+      <reaction id="R_KARA1" fast="false" reversible="true" name="Ketol-acid reductoisomerase (2,3-dihydroxy-3-methylbutanoate)" metaid="R_KARA1" sboTerm="SBO:0000176" fbc:upperFluxBound="cobra_default_ub" fbc:lowerFluxBound="cobra_default_lb">
+        <sbml:annotation xmlns:sbml="http://www.sbml.org/sbml/level3/version1/core">
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+                  <rdf:li rdf:resource="http://identifiers.org/biocyc/META:ACETOLACTREDUCTOISOM-RXN"/>
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+                  <rdf:li rdf:resource="http://identifiers.org/metanetx.reaction/MNXR97523"/>
+                  <rdf:li rdf:resource="http://identifiers.org/rhea/22070"/>
+                  <rdf:li rdf:resource="http://identifiers.org/rhea/22068"/>
+                  <rdf:li rdf:resource="http://identifiers.org/rhea/22069"/>
+                  <rdf:li rdf:resource="http://identifiers.org/rhea/22071"/>
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+          <speciesReference species="M_23dhmb_c" stoichiometry="1" constant="true"/>
+          <speciesReference species="M_nadp_c" stoichiometry="1" constant="true"/>
+        </listOfReactants>
+        <listOfProducts>
+          <speciesReference species="M_alac__S_c" stoichiometry="1" constant="true"/>
+          <speciesReference species="M_h_c" stoichiometry="1" constant="true"/>
+          <speciesReference species="M_nadph_c" stoichiometry="1" constant="true"/>
+        </listOfProducts>
+        <fbc:geneProductAssociation>
+          <fbc:geneProductRef fbc:geneProduct="G_b3774"/>
+        </fbc:geneProductAssociation>
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+      <reaction id="R_HMPK1" fast="false" reversible="false" name="Hydroxymethylpyrimidine kinase (ATP)" metaid="R_HMPK1" sboTerm="SBO:0000176" fbc:upperFluxBound="cobra_default_ub" fbc:lowerFluxBound="cobra_0_bound">
+        <sbml:annotation xmlns:sbml="http://www.sbml.org/sbml/level3/version1/core">
+          <rdf:RDF xmlns:rdf="http://www.w3.org/1999/02/22-rdf-syntax-ns#">
+            <rdf:Description rdf:about="#R_HMPK1">
+              <bqbiol:is xmlns:bqbiol="http://biomodels.net/biology-qualifiers/">
+                <rdf:Bag>
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+                  <rdf:li rdf:resource="http://identifiers.org/ec-code/2.7.1.49"/>
+                  <rdf:li rdf:resource="http://identifiers.org/metanetx.reaction/MNXR143164"/>
+                  <rdf:li rdf:resource="http://identifiers.org/sabiork/3265"/>
+                  <rdf:li rdf:resource="http://identifiers.org/seed.reaction/rxn02484"/>
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+            </rdf:Description>
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+        </sbml:annotation>
+        <listOfReactants>
+          <speciesReference species="M_4ahmmp_c" stoichiometry="1" constant="true"/>
+          <speciesReference species="M_atp_c" stoichiometry="1" constant="true"/>
+        </listOfReactants>
+        <listOfProducts>
+          <speciesReference species="M_4ampm_c" stoichiometry="1" constant="true"/>
+          <speciesReference species="M_adp_c" stoichiometry="1" constant="true"/>
+          <speciesReference species="M_h_c" stoichiometry="1" constant="true"/>
+        </listOfProducts>
+        <fbc:geneProductAssociation>
+          <fbc:or>
+            <fbc:geneProductRef fbc:geneProduct="G_b2103"/>
+            <fbc:geneProductRef fbc:geneProduct="G_b2418"/>
+          </fbc:or>
+        </fbc:geneProductAssociation>
+      </reaction>
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+        <sbml:annotation xmlns:sbml="http://www.sbml.org/sbml/level3/version1/core">
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+              <bqbiol:is xmlns:bqbiol="http://biomodels.net/biology-qualifiers/">
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+                  <rdf:li rdf:resource="http://identifiers.org/rhea/13496"/>
+                  <rdf:li rdf:resource="http://identifiers.org/rhea/13494"/>
+                  <rdf:li rdf:resource="http://identifiers.org/rhea/13495"/>
+                  <rdf:li rdf:resource="http://identifiers.org/rhea/13493"/>
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+        <listOfReactants>
+          <speciesReference species="M_2ahbut_c" stoichiometry="1" constant="true"/>
+          <speciesReference species="M_h_c" stoichiometry="1" constant="true"/>
+          <speciesReference species="M_nadph_c" stoichiometry="1" constant="true"/>
+        </listOfReactants>
+        <listOfProducts>
+          <speciesReference species="M_23dhmp_c" stoichiometry="1" constant="true"/>
+          <speciesReference species="M_nadp_c" stoichiometry="1" constant="true"/>
+        </listOfProducts>
+        <fbc:geneProductAssociation>
+          <fbc:geneProductRef fbc:geneProduct="G_b3774"/>
+        </fbc:geneProductAssociation>
+      </reaction>
+      <reaction id="R_EX_duri_e" fast="false" reversible="false" name="Deoxyuridine exchange" metaid="R_EX_duri_e" sboTerm="SBO:0000627" fbc:upperFluxBound="cobra_default_ub" fbc:lowerFluxBound="cobra_0_bound">
+        <sbml:annotation xmlns:sbml="http://www.sbml.org/sbml/level3/version1/core">
+          <rdf:RDF xmlns:rdf="http://www.w3.org/1999/02/22-rdf-syntax-ns#">
+            <rdf:Description rdf:about="#R_EX_duri_e">
+              <bqbiol:is xmlns:bqbiol="http://biomodels.net/biology-qualifiers/">
+                <rdf:Bag>
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+                  <rdf:li rdf:resource="http://identifiers.org/metanetx.reaction/MNXR97819"/>
+                  <rdf:li rdf:resource="http://identifiers.org/seed.reaction/rxn10984"/>
+                  <rdf:li rdf:resource="http://identifiers.org/seed.reaction/rxn08377"/>
+                </rdf:Bag>
+              </bqbiol:is>
+            </rdf:Description>
+          </rdf:RDF>
+        </sbml:annotation>
+        <listOfReactants>
+          <speciesReference species="M_duri_e" stoichiometry="1" constant="true"/>
+        </listOfReactants>
+      </reaction>
+      <reaction id="R_EX_for_e" fast="false" reversible="false" name="Formate exchange" metaid="R_EX_for_e" sboTerm="SBO:0000627" fbc:upperFluxBound="cobra_default_ub" fbc:lowerFluxBound="cobra_0_bound">
+        <sbml:annotation xmlns:sbml="http://www.sbml.org/sbml/level3/version1/core">
+          <rdf:RDF xmlns:rdf="http://www.w3.org/1999/02/22-rdf-syntax-ns#">
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+              <bqbiol:is xmlns:bqbiol="http://biomodels.net/biology-qualifiers/">
+                <rdf:Bag>
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+                  <rdf:li rdf:resource="http://identifiers.org/reactome.reaction/R-HSA-6803255"/>
+                  <rdf:li rdf:resource="http://identifiers.org/rhea/29681"/>
+                  <rdf:li rdf:resource="http://identifiers.org/rhea/29680"/>
+                  <rdf:li rdf:resource="http://identifiers.org/rhea/29682"/>
+                  <rdf:li rdf:resource="http://identifiers.org/rhea/29679"/>
+                  <rdf:li rdf:resource="http://identifiers.org/sabiork/12483"/>
+                  <rdf:li rdf:resource="http://identifiers.org/seed.reaction/rxn09754"/>
+                  <rdf:li rdf:resource="http://identifiers.org/seed.reaction/rxn08525"/>
+                  <rdf:li rdf:resource="http://identifiers.org/seed.reaction/rxn09682"/>
+                  <rdf:li rdf:resource="http://identifiers.org/seed.reaction/rxn08526"/>
+                </rdf:Bag>
+              </bqbiol:is>
+            </rdf:Description>
+          </rdf:RDF>
+        </sbml:annotation>
+        <listOfReactants>
+          <speciesReference species="M_for_e" stoichiometry="1" constant="true"/>
+        </listOfReactants>
+      </reaction>
+      <reaction id="R_EX_gly_e" fast="false" reversible="false" name="Glycine exchange" metaid="R_EX_gly_e" sboTerm="SBO:0000627" fbc:upperFluxBound="cobra_default_ub" fbc:lowerFluxBound="cobra_0_bound">
+        <sbml:annotation xmlns:sbml="http://www.sbml.org/sbml/level3/version1/core">
+          <rdf:RDF xmlns:rdf="http://www.w3.org/1999/02/22-rdf-syntax-ns#">
+            <rdf:Description rdf:about="#R_EX_gly_e">
+              <bqbiol:is xmlns:bqbiol="http://biomodels.net/biology-qualifiers/">
+                <rdf:Bag>
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+                  <rdf:li rdf:resource="http://identifiers.org/biocyc/META:TRANS-RXN0-537"/>
+                  <rdf:li rdf:resource="http://identifiers.org/metanetx.reaction/MNXR100371"/>
+                  <rdf:li rdf:resource="http://identifiers.org/reactome.reaction/R-CEL-351963"/>
+                  <rdf:li rdf:resource="http://identifiers.org/reactome.reaction/R-GGA-351963"/>
+                  <rdf:li rdf:resource="http://identifiers.org/reactome.reaction/R-SSC-351963"/>
+                  <rdf:li rdf:resource="http://identifiers.org/reactome.reaction/R-TGU-351963"/>
+                  <rdf:li rdf:resource="http://identifiers.org/reactome.reaction/R-BTA-351963"/>
+                  <rdf:li rdf:resource="http://identifiers.org/reactome.reaction/R-DRE-351963"/>
+                  <rdf:li rdf:resource="http://identifiers.org/reactome.reaction/R-RNO-351963"/>
+                  <rdf:li rdf:resource="http://identifiers.org/reactome.reaction/R-MMU-351963"/>
+                  <rdf:li rdf:resource="http://identifiers.org/reactome.reaction/R-CFA-351963"/>
+                  <rdf:li rdf:resource="http://identifiers.org/reactome.reaction/R-HSA-351963"/>
+                  <rdf:li rdf:resource="http://identifiers.org/sabiork/13462"/>
+                  <rdf:li rdf:resource="http://identifiers.org/seed.reaction/rxn05218"/>
+                  <rdf:li rdf:resource="http://identifiers.org/seed.reaction/rxn08662"/>
+                  <rdf:li rdf:resource="http://identifiers.org/seed.reaction/rxn13111"/>
+                </rdf:Bag>
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+            </rdf:Description>
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+        </sbml:annotation>
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+          <speciesReference species="M_gly_e" stoichiometry="1" constant="true"/>
+        </listOfReactants>
+      </reaction>
+      <reaction id="R_EX_h2_e" fast="false" reversible="false" name="H2 exchange" metaid="R_EX_h2_e" sboTerm="SBO:0000627" fbc:upperFluxBound="cobra_default_ub" fbc:lowerFluxBound="cobra_0_bound">
+        <sbml:annotation xmlns:sbml="http://www.sbml.org/sbml/level3/version1/core">
+          <rdf:RDF xmlns:rdf="http://www.w3.org/1999/02/22-rdf-syntax-ns#">
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+              <bqbiol:is xmlns:bqbiol="http://biomodels.net/biology-qualifiers/">
+                <rdf:Bag>
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+                  <rdf:li rdf:resource="http://identifiers.org/metanetx.reaction/MNXR100495"/>
+                  <rdf:li rdf:resource="http://identifiers.org/seed.reaction/rxn10542"/>
+                  <rdf:li rdf:resource="http://identifiers.org/seed.reaction/rxn08691"/>
+                  <rdf:li rdf:resource="http://identifiers.org/seed.reaction/rxn08692"/>
+                </rdf:Bag>
+              </bqbiol:is>
+            </rdf:Description>
+          </rdf:RDF>
+        </sbml:annotation>
+        <listOfReactants>
+          <speciesReference species="M_h2_e" stoichiometry="1" constant="true"/>
+        </listOfReactants>
+      </reaction>
+      <reaction id="R_EX_lys__L_e" fast="false" reversible="false" name="L-Lysine exchange" metaid="R_EX_lys__L_e" sboTerm="SBO:0000627" fbc:upperFluxBound="cobra_default_ub" fbc:lowerFluxBound="cobra_0_bound">
+        <sbml:annotation xmlns:sbml="http://www.sbml.org/sbml/level3/version1/core">
+          <rdf:RDF xmlns:rdf="http://www.w3.org/1999/02/22-rdf-syntax-ns#">
+            <rdf:Description rdf:about="#R_EX_lys__L_e">
+              <bqbiol:is xmlns:bqbiol="http://biomodels.net/biology-qualifiers/">
+                <rdf:Bag>
+                  <rdf:li rdf:resource="http://identifiers.org/bigg.reaction/EX_lys__L_e"/>
+                  <rdf:li rdf:resource="http://identifiers.org/biocyc/META:TRANS-RXN0-569"/>
+                  <rdf:li rdf:resource="http://identifiers.org/metanetx.reaction/MNXR101269"/>
+                  <rdf:li rdf:resource="http://identifiers.org/sabiork/7984"/>
+                  <rdf:li rdf:resource="http://identifiers.org/seed.reaction/rxn10834"/>
+                  <rdf:li rdf:resource="http://identifiers.org/seed.reaction/rxn08856"/>
+                </rdf:Bag>
+              </bqbiol:is>
+            </rdf:Description>
+          </rdf:RDF>
+        </sbml:annotation>
+        <listOfReactants>
+          <speciesReference species="M_lys__L_e" stoichiometry="1" constant="true"/>
+        </listOfReactants>
+      </reaction>
+      <reaction id="R_ACCOAC" fast="false" reversible="false" name="Acetyl-CoA carboxylase" metaid="R_ACCOAC" sboTerm="SBO:0000176" fbc:upperFluxBound="cobra_default_ub" fbc:lowerFluxBound="cobra_0_bound">
+        <sbml:annotation xmlns:sbml="http://www.sbml.org/sbml/level3/version1/core">
+          <rdf:RDF xmlns:rdf="http://www.w3.org/1999/02/22-rdf-syntax-ns#">
+            <rdf:Description rdf:about="#R_ACCOAC">
+              <bqbiol:is xmlns:bqbiol="http://biomodels.net/biology-qualifiers/">
+                <rdf:Bag>
+                  <rdf:li rdf:resource="http://identifiers.org/bigg.reaction/ACCOAC"/>
+                  <rdf:li rdf:resource="http://identifiers.org/biocyc/META:ACETYL-COA-CARBOXYLTRANSFER-RXN"/>
+                  <rdf:li rdf:resource="http://identifiers.org/ec-code/6.4.1.2"/>
+                  <rdf:li rdf:resource="http://identifiers.org/kegg.reaction/R00742"/>
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+          <speciesReference species="M_ser__L_e" stoichiometry="1" constant="true"/>
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+                  <rdf:li rdf:resource="http://identifiers.org/seed.reaction/rxn11006"/>
+                  <rdf:li rdf:resource="http://identifiers.org/seed.reaction/rxn09300"/>
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+                  <rdf:li rdf:resource="http://identifiers.org/sabiork/13425"/>
+                  <rdf:li rdf:resource="http://identifiers.org/seed.reaction/rxn09327"/>
+                  <rdf:li rdf:resource="http://identifiers.org/seed.reaction/rxn05222"/>
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+                  <rdf:li rdf:resource="http://identifiers.org/sabiork/9145"/>
+                  <rdf:li rdf:resource="http://identifiers.org/seed.reaction/rxn06591"/>
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+          <speciesReference species="M_glutrna_c" stoichiometry="1" constant="true"/>
+          <speciesReference species="M_h_c" stoichiometry="1" constant="true"/>
+          <speciesReference species="M_nadph_c" stoichiometry="1" constant="true"/>
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+        <listOfProducts>
+          <speciesReference species="M_glu1sa_c" stoichiometry="1" constant="true"/>
+          <speciesReference species="M_nadp_c" stoichiometry="1" constant="true"/>
+          <speciesReference species="M_trnaglu_c" stoichiometry="1" constant="true"/>
+        </listOfProducts>
+        <fbc:geneProductAssociation>
+          <fbc:geneProductRef fbc:geneProduct="G_b1210"/>
+        </fbc:geneProductAssociation>
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+        <sbml:annotation xmlns:sbml="http://www.sbml.org/sbml/level3/version1/core">
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+                  <rdf:li rdf:resource="http://identifiers.org/seed.reaction/rxn13643"/>
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+        <listOfProducts>
+          <speciesReference species="M_adp_c" stoichiometry="1" constant="true"/>
+          <speciesReference species="M_glycogen_c" stoichiometry="1" constant="true"/>
+          <speciesReference species="M_h_c" stoichiometry="1" constant="true"/>
+        </listOfProducts>
+        <fbc:geneProductAssociation>
+          <fbc:geneProductRef fbc:geneProduct="G_b3429"/>
+        </fbc:geneProductAssociation>
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+      <reaction id="R_GLCP" fast="false" reversible="false" name="Glycogen phosphorylase" metaid="R_GLCP" sboTerm="SBO:0000176" fbc:upperFluxBound="cobra_default_ub" fbc:lowerFluxBound="cobra_0_bound">
+        <sbml:annotation xmlns:sbml="http://www.sbml.org/sbml/level3/version1/core">
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+                  <rdf:li rdf:resource="http://identifiers.org/seed.reaction/rxn13299"/>
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+          <speciesReference species="M_pi_c" stoichiometry="1" constant="true"/>
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+        <listOfProducts>
+          <speciesReference species="M_g1p_c" stoichiometry="1" constant="true"/>
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+        <fbc:geneProductAssociation>
+          <fbc:or>
+            <fbc:geneProductRef fbc:geneProduct="G_b3428"/>
+            <fbc:geneProductRef fbc:geneProduct="G_b3417"/>
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+        </fbc:geneProductAssociation>
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+        <sbml:annotation xmlns:sbml="http://www.sbml.org/sbml/level3/version1/core">
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+          <speciesReference species="M_din_e" stoichiometry="1" constant="true"/>
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+        <sbml:annotation xmlns:sbml="http://www.sbml.org/sbml/level3/version1/core">
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+          <speciesReference species="M_rbl__L_c" stoichiometry="1" constant="true"/>
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+        <listOfProducts>
+          <speciesReference species="M_adp_c" stoichiometry="1" constant="true"/>
+          <speciesReference species="M_h_c" stoichiometry="1" constant="true"/>
+          <speciesReference species="M_ru5p__L_c" stoichiometry="1" constant="true"/>
+        </listOfProducts>
+        <fbc:geneProductAssociation>
+          <fbc:geneProductRef fbc:geneProduct="G_b0063"/>
+        </fbc:geneProductAssociation>
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+        <sbml:annotation xmlns:sbml="http://www.sbml.org/sbml/level3/version1/core">
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+                  <rdf:li rdf:resource="http://identifiers.org/seed.reaction/rxn04082"/>
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+          <speciesReference species="M_ru5p__L_c" stoichiometry="1" constant="true"/>
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+        <listOfProducts>
+          <speciesReference species="M_xu5p__D_c" stoichiometry="1" constant="true"/>
+        </listOfProducts>
+        <fbc:geneProductAssociation>
+          <fbc:or>
+            <fbc:geneProductRef fbc:geneProduct="G_b0061"/>
+            <fbc:geneProductRef fbc:geneProduct="G_b4198"/>
+            <fbc:geneProductRef fbc:geneProduct="G_b3583"/>
+          </fbc:or>
+        </fbc:geneProductAssociation>
+      </reaction>
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+        <sbml:annotation xmlns:sbml="http://www.sbml.org/sbml/level3/version1/core">
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+                  <rdf:li rdf:resource="http://identifiers.org/biocyc/META:LTARTDEHYDRA-RXN"/>
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+                  <rdf:li rdf:resource="http://identifiers.org/metanetx.reaction/MNXR104718"/>
+                  <rdf:li rdf:resource="http://identifiers.org/rhea/15413"/>
+                  <rdf:li rdf:resource="http://identifiers.org/rhea/15416"/>
+                  <rdf:li rdf:resource="http://identifiers.org/rhea/15415"/>
+                  <rdf:li rdf:resource="http://identifiers.org/rhea/15414"/>
+                  <rdf:li rdf:resource="http://identifiers.org/seed.reaction/rxn00245"/>
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+          <speciesReference species="M_tartr__L_c" stoichiometry="1" constant="true"/>
+        </listOfReactants>
+        <listOfProducts>
+          <speciesReference species="M_h2o_c" stoichiometry="1" constant="true"/>
+          <speciesReference species="M_oaa_c" stoichiometry="1" constant="true"/>
+        </listOfProducts>
+        <fbc:geneProductAssociation>
+          <fbc:and>
+            <fbc:geneProductRef fbc:geneProduct="G_b3062"/>
+            <fbc:geneProductRef fbc:geneProduct="G_b3061"/>
+          </fbc:and>
+        </fbc:geneProductAssociation>
+      </reaction>
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+        <sbml:annotation xmlns:sbml="http://www.sbml.org/sbml/level3/version1/core">
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+                  <rdf:li rdf:resource="http://identifiers.org/rhea/29361"/>
+                  <rdf:li rdf:resource="http://identifiers.org/rhea/29359"/>
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+          <speciesReference species="M_ump_c" stoichiometry="1" constant="true"/>
+        </listOfReactants>
+        <listOfProducts>
+          <speciesReference species="M_pi_c" stoichiometry="1" constant="true"/>
+          <speciesReference species="M_uri_c" stoichiometry="1" constant="true"/>
+        </listOfProducts>
+        <fbc:geneProductAssociation>
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+            <fbc:geneProductRef fbc:geneProduct="G_b2744"/>
+            <fbc:geneProductRef fbc:geneProduct="G_b4374"/>
+            <fbc:geneProductRef fbc:geneProduct="G_b0675"/>
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+        </fbc:geneProductAssociation>
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+      <reaction id="R_GLCRAL" fast="false" reversible="false" name="5-dehydro-4-deoxyglucarate aldolase" metaid="R_GLCRAL" sboTerm="SBO:0000176" fbc:upperFluxBound="cobra_default_ub" fbc:lowerFluxBound="cobra_0_bound">
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+                  <rdf:li rdf:resource="http://identifiers.org/kegg.reaction/R02754"/>
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+                  <rdf:li rdf:resource="http://identifiers.org/rhea/27728"/>
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+                  <rdf:li rdf:resource="http://identifiers.org/seed.reaction/rxn01990"/>
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+          <speciesReference species="M_5dh4dglc_c" stoichiometry="1" constant="true"/>
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+        <listOfProducts>
+          <speciesReference species="M_2h3oppan_c" stoichiometry="1" constant="true"/>
+          <speciesReference species="M_pyr_c" stoichiometry="1" constant="true"/>
+        </listOfProducts>
+        <fbc:geneProductAssociation>
+          <fbc:geneProductRef fbc:geneProduct="G_b3126"/>
+        </fbc:geneProductAssociation>
+      </reaction>
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+              <bqbiol:is xmlns:bqbiol="http://biomodels.net/biology-qualifiers/">
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+                  <rdf:li rdf:resource="http://identifiers.org/ec-code/3.1.3.91"/>
+                  <rdf:li rdf:resource="http://identifiers.org/kegg.reaction/R00511"/>
+                  <rdf:li rdf:resource="http://identifiers.org/metanetx.reaction/MNXR102034"/>
+                  <rdf:li rdf:resource="http://identifiers.org/rhea/29370"/>
+                  <rdf:li rdf:resource="http://identifiers.org/rhea/29368"/>
+                  <rdf:li rdf:resource="http://identifiers.org/rhea/29369"/>
+                  <rdf:li rdf:resource="http://identifiers.org/rhea/29367"/>
+                  <rdf:li rdf:resource="http://identifiers.org/sabiork/211"/>
+                  <rdf:li rdf:resource="http://identifiers.org/seed.reaction/rxn00363"/>
+                </rdf:Bag>
+              </bqbiol:is>
+            </rdf:Description>
+          </rdf:RDF>
+        </sbml:annotation>
+        <listOfReactants>
+          <speciesReference species="M_cmp_c" stoichiometry="1" constant="true"/>
+          <speciesReference species="M_h2o_c" stoichiometry="1" constant="true"/>
+        </listOfReactants>
+        <listOfProducts>
+          <speciesReference species="M_cytd_c" stoichiometry="1" constant="true"/>
+          <speciesReference species="M_pi_c" stoichiometry="1" constant="true"/>
+        </listOfProducts>
+        <fbc:geneProductAssociation>
+          <fbc:or>
+            <fbc:geneProductRef fbc:geneProduct="G_b2744"/>
+            <fbc:geneProductRef fbc:geneProduct="G_b0675"/>
+          </fbc:or>
+        </fbc:geneProductAssociation>
+      </reaction>
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+        <sbml:annotation xmlns:sbml="http://www.sbml.org/sbml/level3/version1/core">
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+                  <rdf:li rdf:resource="http://identifiers.org/biocyc/META:THYMIDYLATE-5-PHOSPHATASE-RXN"/>
+                  <rdf:li rdf:resource="http://identifiers.org/ec-code/3.1.3.35"/>
+                  <rdf:li rdf:resource="http://identifiers.org/ec-code/3.1.3.89"/>
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+                  <rdf:li rdf:resource="http://identifiers.org/metanetx.reaction/MNXR102035"/>
+                  <rdf:li rdf:resource="http://identifiers.org/rhea/11081"/>
+                  <rdf:li rdf:resource="http://identifiers.org/rhea/11083"/>
+                  <rdf:li rdf:resource="http://identifiers.org/rhea/11082"/>
+                  <rdf:li rdf:resource="http://identifiers.org/rhea/11080"/>
+                  <rdf:li rdf:resource="http://identifiers.org/sabiork/479"/>
+                  <rdf:li rdf:resource="http://identifiers.org/seed.reaction/rxn01145"/>
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+              </bqbiol:is>
+            </rdf:Description>
+          </rdf:RDF>
+        </sbml:annotation>
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+          <speciesReference species="M_dtmp_c" stoichiometry="1" constant="true"/>
+          <speciesReference species="M_h2o_c" stoichiometry="1" constant="true"/>
+        </listOfReactants>
+        <listOfProducts>
+          <speciesReference species="M_pi_c" stoichiometry="1" constant="true"/>
+          <speciesReference species="M_thymd_c" stoichiometry="1" constant="true"/>
+        </listOfProducts>
+        <fbc:geneProductAssociation>
+          <fbc:or>
+            <fbc:geneProductRef fbc:geneProduct="G_b2744"/>
+            <fbc:geneProductRef fbc:geneProduct="G_b4374"/>
+            <fbc:geneProductRef fbc:geneProduct="G_b2291"/>
+            <fbc:geneProductRef fbc:geneProduct="G_b2361"/>
+          </fbc:or>
+        </fbc:geneProductAssociation>
+      </reaction>
+      <reaction id="R_EX_fmn_e" fast="false" reversible="false" name="FMN exchange" metaid="R_EX_fmn_e" sboTerm="SBO:0000627" fbc:upperFluxBound="cobra_default_ub" fbc:lowerFluxBound="cobra_0_bound">
+        <sbml:annotation xmlns:sbml="http://www.sbml.org/sbml/level3/version1/core">
+          <rdf:RDF xmlns:rdf="http://www.w3.org/1999/02/22-rdf-syntax-ns#">
+            <rdf:Description rdf:about="#R_EX_fmn_e">
+              <bqbiol:is xmlns:bqbiol="http://biomodels.net/biology-qualifiers/">
+                <rdf:Bag>
+                  <rdf:li rdf:resource="http://identifiers.org/bigg.reaction/EX_fmn_e"/>
+                  <rdf:li rdf:resource="http://identifiers.org/biocyc/META:TRANS-RXN0-595"/>
+                  <rdf:li rdf:resource="http://identifiers.org/metanetx.reaction/MNXR124060"/>
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+              </bqbiol:is>
+            </rdf:Description>
+          </rdf:RDF>
+        </sbml:annotation>
+        <listOfReactants>
+          <speciesReference species="M_fmn_e" stoichiometry="1" constant="true"/>
+        </listOfReactants>
+      </reaction>
+      <reaction id="R_EX_gthox_e" fast="false" reversible="false" name="Oxidized glutathione exchange" metaid="R_EX_gthox_e" sboTerm="SBO:0000627" fbc:upperFluxBound="cobra_default_ub" fbc:lowerFluxBound="cobra_0_bound">
+        <sbml:annotation xmlns:sbml="http://www.sbml.org/sbml/level3/version1/core">
+          <rdf:RDF xmlns:rdf="http://www.w3.org/1999/02/22-rdf-syntax-ns#">
+            <rdf:Description rdf:about="#R_EX_gthox_e">
+              <bqbiol:is xmlns:bqbiol="http://biomodels.net/biology-qualifiers/">
+                <rdf:Bag>
+                  <rdf:li rdf:resource="http://identifiers.org/bigg.reaction/EX_gthox_e"/>
+                  <rdf:li rdf:resource="http://identifiers.org/metanetx.reaction/MNXR100443"/>
+                  <rdf:li rdf:resource="http://identifiers.org/seed.reaction/rxn09677"/>
+                  <rdf:li rdf:resource="http://identifiers.org/seed.reaction/rxn08674"/>
+                </rdf:Bag>
+              </bqbiol:is>
+            </rdf:Description>
+          </rdf:RDF>
+        </sbml:annotation>
+        <listOfReactants>
+          <speciesReference species="M_gthox_e" stoichiometry="1" constant="true"/>
+        </listOfReactants>
+      </reaction>
+      <reaction id="R_KAS14" fast="false" reversible="false" name="Beta-ketoacyl-ACP synthase" metaid="R_KAS14" sboTerm="SBO:0000176" fbc:upperFluxBound="cobra_default_ub" fbc:lowerFluxBound="cobra_0_bound">
+        <sbml:annotation xmlns:sbml="http://www.sbml.org/sbml/level3/version1/core">
+          <rdf:RDF xmlns:rdf="http://www.w3.org/1999/02/22-rdf-syntax-ns#">
+            <rdf:Description rdf:about="#R_KAS14">
+              <bqbiol:is xmlns:bqbiol="http://biomodels.net/biology-qualifiers/">
+                <rdf:Bag>
+                  <rdf:li rdf:resource="http://identifiers.org/bigg.reaction/KAS14"/>
+                  <rdf:li rdf:resource="http://identifiers.org/biocyc/META:3-OXOACYL-ACP-SYNTH-BASE-RXN"/>
+                  <rdf:li rdf:resource="http://identifiers.org/ec-code/2.3.1.180"/>
+                  <rdf:li rdf:resource="http://identifiers.org/ec-code/2.3.1.85"/>
+                  <rdf:li rdf:resource="http://identifiers.org/ec-code/2.3.1.86"/>
+                  <rdf:li rdf:resource="http://identifiers.org/ec-code/2.3.1.179"/>
+                  <rdf:li rdf:resource="http://identifiers.org/ec-code/2.3.1.-"/>
+                  <rdf:li rdf:resource="http://identifiers.org/ec-code/2.3.1.41"/>
+                  <rdf:li rdf:resource="http://identifiers.org/kegg.reaction/R04355"/>
+                  <rdf:li rdf:resource="http://identifiers.org/metanetx.reaction/MNXR100912"/>
+                  <rdf:li rdf:resource="http://identifiers.org/seed.reaction/rxn05347"/>
+                </rdf:Bag>
+              </bqbiol:is>
+            </rdf:Description>
+          </rdf:RDF>
+        </sbml:annotation>
+        <listOfReactants>
+          <speciesReference species="M_acACP_c" stoichiometry="1" constant="true"/>
+          <speciesReference species="M_h_c" stoichiometry="1" constant="true"/>
+          <speciesReference species="M_malACP_c" stoichiometry="1" constant="true"/>
+        </listOfReactants>
+        <listOfProducts>
+          <speciesReference species="M_ACP_c" stoichiometry="1" constant="true"/>
+          <speciesReference species="M_actACP_c" stoichiometry="1" constant="true"/>
+          <speciesReference species="M_co2_c" stoichiometry="1" constant="true"/>
+        </listOfProducts>
+        <fbc:geneProductAssociation>
+          <fbc:or>
+            <fbc:geneProductRef fbc:geneProduct="G_b2323"/>
+            <fbc:geneProductRef fbc:geneProduct="G_b1095"/>
+          </fbc:or>
+        </fbc:geneProductAssociation>
+      </reaction>
+      <reaction id="R_HEMEOS" fast="false" reversible="false" name="Heme O synthase" metaid="R_HEMEOS" sboTerm="SBO:0000176" fbc:upperFluxBound="cobra_default_ub" fbc:lowerFluxBound="cobra_0_bound">
+        <sbml:annotation xmlns:sbml="http://www.sbml.org/sbml/level3/version1/core">
+          <rdf:RDF xmlns:rdf="http://www.w3.org/1999/02/22-rdf-syntax-ns#">
+            <rdf:Description rdf:about="#R_HEMEOS">
+              <bqbiol:is xmlns:bqbiol="http://biomodels.net/biology-qualifiers/">
+                <rdf:Bag>
+                  <rdf:li rdf:resource="http://identifiers.org/bigg.reaction/HEMEOS"/>
+                  <rdf:li rdf:resource="http://identifiers.org/ec-code/2.5.1.-"/>
+                  <rdf:li rdf:resource="http://identifiers.org/kegg.reaction/R07411"/>
+                  <rdf:li rdf:resource="http://identifiers.org/metanetx.reaction/MNXR100596"/>
+                  <rdf:li rdf:resource="http://identifiers.org/reactome.reaction/R-OSA-2995330"/>
+                  <rdf:li rdf:resource="http://identifiers.org/reactome.reaction/R-SPO-2995330"/>
+                  <rdf:li rdf:resource="http://identifiers.org/reactome.reaction/R-HSA-2995330"/>
+                  <rdf:li rdf:resource="http://identifiers.org/reactome.reaction/R-BTA-2995330"/>
+                  <rdf:li rdf:resource="http://identifiers.org/reactome.reaction/R-ATH-2995330"/>
+                  <rdf:li rdf:resource="http://identifiers.org/reactome.reaction/R-SSC-2995330"/>
+                  <rdf:li rdf:resource="http://identifiers.org/reactome.reaction/R-DDI-2995330"/>
+                  <rdf:li rdf:resource="http://identifiers.org/reactome.reaction/R-PFA-2995330"/>
+                  <rdf:li rdf:resource="http://identifiers.org/reactome.reaction/R-DRE-2995330"/>
+                  <rdf:li rdf:resource="http://identifiers.org/reactome.reaction/R-MMU-2995330"/>
+                  <rdf:li rdf:resource="http://identifiers.org/reactome.reaction/R-DME-2995330"/>
+                  <rdf:li rdf:resource="http://identifiers.org/reactome.reaction/R-RNO-2995330"/>
+                  <rdf:li rdf:resource="http://identifiers.org/reactome.reaction/R-TGU-2995330"/>
+                  <rdf:li rdf:resource="http://identifiers.org/reactome.reaction/R-SCE-2995330"/>
+                  <rdf:li rdf:resource="http://identifiers.org/reactome.reaction/R-XTR-2995330"/>
+                  <rdf:li rdf:resource="http://identifiers.org/reactome.reaction/R-CEL-2995330"/>
+                  <rdf:li rdf:resource="http://identifiers.org/reactome.reaction/R-GGA-2995330"/>
+                  <rdf:li rdf:resource="http://identifiers.org/reactome.reaction/R-CFA-2995330"/>
+                  <rdf:li rdf:resource="http://identifiers.org/rhea/28073"/>
+                  <rdf:li rdf:resource="http://identifiers.org/rhea/28070"/>
+                  <rdf:li rdf:resource="http://identifiers.org/rhea/28071"/>
+                  <rdf:li rdf:resource="http://identifiers.org/rhea/28072"/>
+                </rdf:Bag>
+              </bqbiol:is>
+            </rdf:Description>
+          </rdf:RDF>
+        </sbml:annotation>
+        <listOfReactants>
+          <speciesReference species="M_frdp_c" stoichiometry="1" constant="true"/>
+          <speciesReference species="M_h2o_c" stoichiometry="1" constant="true"/>
+          <speciesReference species="M_pheme_c" stoichiometry="1" constant="true"/>
+        </listOfReactants>
+        <listOfProducts>
+          <speciesReference species="M_hemeO_c" stoichiometry="1" constant="true"/>
+          <speciesReference species="M_ppi_c" stoichiometry="1" constant="true"/>
+        </listOfProducts>
+        <fbc:geneProductAssociation>
+          <fbc:geneProductRef fbc:geneProduct="G_b0428"/>
+        </fbc:geneProductAssociation>
+      </reaction>
+      <reaction id="R_ADMDC" fast="false" reversible="false" name="Adenosylmethionine decarboxylase" metaid="R_ADMDC" sboTerm="SBO:0000176" fbc:upperFluxBound="cobra_default_ub" fbc:lowerFluxBound="cobra_0_bound">
+        <sbml:annotation xmlns:sbml="http://www.sbml.org/sbml/level3/version1/core">
+          <rdf:RDF xmlns:rdf="http://www.w3.org/1999/02/22-rdf-syntax-ns#">
+            <rdf:Description rdf:about="#R_ADMDC">
+              <bqbiol:is xmlns:bqbiol="http://biomodels.net/biology-qualifiers/">
+                <rdf:Bag>
+                  <rdf:li rdf:resource="http://identifiers.org/bigg.reaction/ADMDC"/>
+                  <rdf:li rdf:resource="http://identifiers.org/biocyc/META:SAMDECARB-RXN"/>
+                  <rdf:li rdf:resource="http://identifiers.org/ec-code/4.1.1.50"/>
+                  <rdf:li rdf:resource="http://identifiers.org/kegg.reaction/R00178"/>
+                  <rdf:li rdf:resource="http://identifiers.org/metanetx.reaction/MNXR95455"/>
+                  <rdf:li rdf:resource="http://identifiers.org/rhea/15982"/>
+                  <rdf:li rdf:resource="http://identifiers.org/rhea/15983"/>
+                  <rdf:li rdf:resource="http://identifiers.org/rhea/15984"/>
+                  <rdf:li rdf:resource="http://identifiers.org/rhea/15981"/>
+                  <rdf:li rdf:resource="http://identifiers.org/sabiork/731"/>
+                  <rdf:li rdf:resource="http://identifiers.org/seed.reaction/rxn00127"/>
+                </rdf:Bag>
+              </bqbiol:is>
+            </rdf:Description>
+          </rdf:RDF>
+        </sbml:annotation>
+        <listOfReactants>
+          <speciesReference species="M_amet_c" stoichiometry="1" constant="true"/>
+          <speciesReference species="M_h_c" stoichiometry="1" constant="true"/>
+        </listOfReactants>
+        <listOfProducts>
+          <speciesReference species="M_ametam_c" stoichiometry="1" constant="true"/>
+          <speciesReference species="M_co2_c" stoichiometry="1" constant="true"/>
+        </listOfProducts>
+        <fbc:geneProductAssociation>
+          <fbc:geneProductRef fbc:geneProduct="G_b0120"/>
+        </fbc:geneProductAssociation>
+      </reaction>
+      <reaction id="R_AGMT" fast="false" reversible="false" name="Agmatinase" metaid="R_AGMT" sboTerm="SBO:0000176" fbc:upperFluxBound="cobra_default_ub" fbc:lowerFluxBound="cobra_0_bound">
+        <sbml:annotation xmlns:sbml="http://www.sbml.org/sbml/level3/version1/core">
+          <rdf:RDF xmlns:rdf="http://www.w3.org/1999/02/22-rdf-syntax-ns#">
+            <rdf:Description rdf:about="#R_AGMT">
+              <bqbiol:is xmlns:bqbiol="http://biomodels.net/biology-qualifiers/">
+                <rdf:Bag>
+                  <rdf:li rdf:resource="http://identifiers.org/bigg.reaction/AGMT"/>
+                  <rdf:li rdf:resource="http://identifiers.org/biocyc/META:AGMATIN-RXN"/>
+                  <rdf:li rdf:resource="http://identifiers.org/ec-code/3.5.3.11"/>
+                  <rdf:li rdf:resource="http://identifiers.org/kegg.reaction/R01157"/>
+                  <rdf:li rdf:resource="http://identifiers.org/metanetx.reaction/MNXR95554"/>
+                  <rdf:li rdf:resource="http://identifiers.org/reactome.reaction/R-DRE-350604"/>
+                  <rdf:li rdf:resource="http://identifiers.org/reactome.reaction/R-OSA-350604"/>
+                  <rdf:li rdf:resource="http://identifiers.org/reactome.reaction/R-SPO-350604"/>
+                  <rdf:li rdf:resource="http://identifiers.org/reactome.reaction/R-ATH-350604"/>
+                  <rdf:li rdf:resource="http://identifiers.org/reactome.reaction/R-XTR-350604"/>
+                  <rdf:li rdf:resource="http://identifiers.org/reactome.reaction/R-MMU-350604"/>
+                  <rdf:li rdf:resource="http://identifiers.org/reactome.reaction/R-SSC-350604"/>
+                  <rdf:li rdf:resource="http://identifiers.org/reactome.reaction/R-CFA-350604"/>
+                  <rdf:li rdf:resource="http://identifiers.org/reactome.reaction/R-SCE-350604"/>
+                  <rdf:li rdf:resource="http://identifiers.org/reactome.reaction/R-CEL-350604"/>
+                  <rdf:li rdf:resource="http://identifiers.org/reactome.reaction/R-RNO-350604"/>
+                  <rdf:li rdf:resource="http://identifiers.org/reactome.reaction/R-HSA-350604"/>
+                  <rdf:li rdf:resource="http://identifiers.org/reactome.reaction/R-TGU-350604"/>
+                  <rdf:li rdf:resource="http://identifiers.org/reactome.reaction/R-GGA-350604"/>
+                  <rdf:li rdf:resource="http://identifiers.org/reactome.reaction/R-BTA-350604"/>
+                  <rdf:li rdf:resource="http://identifiers.org/rhea/13929"/>
+                  <rdf:li rdf:resource="http://identifiers.org/rhea/13931"/>
+                  <rdf:li rdf:resource="http://identifiers.org/rhea/13930"/>
+                  <rdf:li rdf:resource="http://identifiers.org/rhea/13932"/>
+                  <rdf:li rdf:resource="http://identifiers.org/sabiork/595"/>
+                  <rdf:li rdf:resource="http://identifiers.org/seed.reaction/rxn00858"/>
+                </rdf:Bag>
+              </bqbiol:is>
+            </rdf:Description>
+          </rdf:RDF>
+        </sbml:annotation>
+        <listOfReactants>
+          <speciesReference species="M_agm_c" stoichiometry="1" constant="true"/>
+          <speciesReference species="M_h2o_c" stoichiometry="1" constant="true"/>
+        </listOfReactants>
+        <listOfProducts>
+          <speciesReference species="M_ptrc_c" stoichiometry="1" constant="true"/>
+          <speciesReference species="M_urea_c" stoichiometry="1" constant="true"/>
+        </listOfProducts>
+        <fbc:geneProductAssociation>
+          <fbc:geneProductRef fbc:geneProduct="G_b2937"/>
+        </fbc:geneProductAssociation>
+      </reaction>
+      <reaction id="R_NTD6" fast="false" reversible="false" name="5'-nucleotidase (dAMP)" metaid="R_NTD6" sboTerm="SBO:0000176" fbc:upperFluxBound="cobra_default_ub" fbc:lowerFluxBound="cobra_0_bound">
+        <sbml:annotation xmlns:sbml="http://www.sbml.org/sbml/level3/version1/core">
+          <rdf:RDF xmlns:rdf="http://www.w3.org/1999/02/22-rdf-syntax-ns#">
+            <rdf:Description rdf:about="#R_NTD6">
+              <bqbiol:is xmlns:bqbiol="http://biomodels.net/biology-qualifiers/">
+                <rdf:Bag>
+                  <rdf:li rdf:resource="http://identifiers.org/bigg.reaction/NTD6"/>
+                  <rdf:li rdf:resource="http://identifiers.org/biocyc/META:RXN-14161"/>
+                  <rdf:li rdf:resource="http://identifiers.org/ec-code/3.1.3.5"/>
+                  <rdf:li rdf:resource="http://identifiers.org/ec-code/3.1.3.89"/>
+                  <rdf:li rdf:resource="http://identifiers.org/kegg.reaction/R02088"/>
+                  <rdf:li rdf:resource="http://identifiers.org/metanetx.reaction/MNXR102036"/>
+                  <rdf:li rdf:resource="http://identifiers.org/rhea/29371"/>
+                  <rdf:li rdf:resource="http://identifiers.org/rhea/29374"/>
+                  <rdf:li rdf:resource="http://identifiers.org/rhea/29372"/>
+                  <rdf:li rdf:resource="http://identifiers.org/rhea/29373"/>
+                  <rdf:li rdf:resource="http://identifiers.org/sabiork/282"/>
+                  <rdf:li rdf:resource="http://identifiers.org/seed.reaction/rxn13134"/>
+                  <rdf:li rdf:resource="http://identifiers.org/seed.reaction/rxn01507"/>
+                </rdf:Bag>
+              </bqbiol:is>
+            </rdf:Description>
+          </rdf:RDF>
+        </sbml:annotation>
+        <listOfReactants>
+          <speciesReference species="M_damp_c" stoichiometry="1" constant="true"/>
+          <speciesReference species="M_h2o_c" stoichiometry="1" constant="true"/>
+        </listOfReactants>
+        <listOfProducts>
+          <speciesReference species="M_dad_2_c" stoichiometry="1" constant="true"/>
+          <speciesReference species="M_pi_c" stoichiometry="1" constant="true"/>
+        </listOfProducts>
+        <fbc:geneProductAssociation>
+          <fbc:or>
+            <fbc:geneProductRef fbc:geneProduct="G_b2744"/>
+            <fbc:geneProductRef fbc:geneProduct="G_b2291"/>
+            <fbc:geneProductRef fbc:geneProduct="G_b2361"/>
+          </fbc:or>
+        </fbc:geneProductAssociation>
+      </reaction>
+      <reaction id="R_LGTHL" fast="false" reversible="false" name="Lactoylglutathione lyase" metaid="R_LGTHL" sboTerm="SBO:0000176" fbc:upperFluxBound="cobra_default_ub" fbc:lowerFluxBound="cobra_0_bound">
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+          <speciesReference species="M_hx2coa_c" stoichiometry="1" constant="true"/>
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+            <fbc:geneProductRef fbc:geneProduct="G_b3846"/>
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+        </fbc:geneProductAssociation>
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+          <speciesReference species="M_atp_c" stoichiometry="1" constant="true"/>
+          <speciesReference species="M_citr__L_c" stoichiometry="1" constant="true"/>
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+          <speciesReference species="M_argsuc_c" stoichiometry="1" constant="true"/>
+          <speciesReference species="M_h_c" stoichiometry="1" constant="true"/>
+          <speciesReference species="M_ppi_c" stoichiometry="1" constant="true"/>
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+          <fbc:geneProductRef fbc:geneProduct="G_b3172"/>
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+                  <rdf:li rdf:resource="http://identifiers.org/metanetx.reaction/MNXR95530"/>
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+                  <rdf:li rdf:resource="http://identifiers.org/rhea/21591"/>
+                  <rdf:li rdf:resource="http://identifiers.org/rhea/21588"/>
+                  <rdf:li rdf:resource="http://identifiers.org/rhea/21589"/>
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+          <speciesReference species="M_nadp_c" stoichiometry="1" constant="true"/>
+          <speciesReference species="M_pi_c" stoichiometry="1" constant="true"/>
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+        <listOfProducts>
+          <speciesReference species="M_acg5p_c" stoichiometry="1" constant="true"/>
+          <speciesReference species="M_h_c" stoichiometry="1" constant="true"/>
+          <speciesReference species="M_nadph_c" stoichiometry="1" constant="true"/>
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+          <fbc:geneProductRef fbc:geneProduct="G_b3958"/>
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+          <speciesReference species="M_ptrc_c" stoichiometry="1" constant="true"/>
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+          <speciesReference species="M_5mta_c" stoichiometry="1" constant="true"/>
+          <speciesReference species="M_h_c" stoichiometry="1" constant="true"/>
+          <speciesReference species="M_spmd_c" stoichiometry="1" constant="true"/>
+        </listOfProducts>
+        <fbc:geneProductAssociation>
+          <fbc:geneProductRef fbc:geneProduct="G_b0121"/>
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+        <sbml:annotation xmlns:sbml="http://www.sbml.org/sbml/level3/version1/core">
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+        <sbml:annotation xmlns:sbml="http://www.sbml.org/sbml/level3/version1/core">
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+                  <rdf:li rdf:resource="http://identifiers.org/rhea/23450"/>
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+        <listOfProducts>
+          <speciesReference species="M_ckdo_c" stoichiometry="1" constant="true"/>
+          <speciesReference species="M_ppi_c" stoichiometry="1" constant="true"/>
+        </listOfProducts>
+        <fbc:geneProductAssociation>
+          <fbc:geneProductRef fbc:geneProduct="G_b0918"/>
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+        <sbml:annotation xmlns:sbml="http://www.sbml.org/sbml/level3/version1/core">
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+          <speciesReference species="M_oc2coa_c" stoichiometry="1" constant="true"/>
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+          <speciesReference species="M_udpgal_c" stoichiometry="1" constant="true"/>
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+        <sbml:annotation xmlns:sbml="http://www.sbml.org/sbml/level3/version1/core">
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+          <speciesReference species="M_kdo2lipid4_c" stoichiometry="1" constant="true"/>
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+          <speciesReference species="M_kdo2lipid4L_c" stoichiometry="1" constant="true"/>
+        </listOfProducts>
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+          <fbc:geneProductRef fbc:geneProduct="G_b1054"/>
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+                  <rdf:li rdf:resource="http://identifiers.org/rhea/12606"/>
+                  <rdf:li rdf:resource="http://identifiers.org/seed.reaction/rxn03909"/>
+                </rdf:Bag>
+              </bqbiol:is>
+            </rdf:Description>
+          </rdf:RDF>
+        </sbml:annotation>
+        <listOfReactants>
+          <speciesReference species="M_g3p_c" stoichiometry="1" constant="true"/>
+          <speciesReference species="M_h_c" stoichiometry="1" constant="true"/>
+          <speciesReference species="M_pyr_c" stoichiometry="1" constant="true"/>
+        </listOfReactants>
+        <listOfProducts>
+          <speciesReference species="M_co2_c" stoichiometry="1" constant="true"/>
+          <speciesReference species="M_dxyl5p_c" stoichiometry="1" constant="true"/>
+        </listOfProducts>
+        <fbc:geneProductAssociation>
+          <fbc:geneProductRef fbc:geneProduct="G_b0420"/>
+        </fbc:geneProductAssociation>
+      </reaction>
+      <reaction id="R_OAADC" fast="false" reversible="false" name="Oxaloacetate decarboxylase" metaid="R_OAADC" sboTerm="SBO:0000176" fbc:upperFluxBound="cobra_default_ub" fbc:lowerFluxBound="cobra_0_bound">
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+                  <rdf:li rdf:resource="http://identifiers.org/biocyc/META:OXALODECARB-RXN"/>
+                  <rdf:li rdf:resource="http://identifiers.org/ec-code/4.1.1.3"/>
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+                  <rdf:li rdf:resource="http://identifiers.org/ec-code/1.1.1.40"/>
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+                  <rdf:li rdf:resource="http://identifiers.org/rhea/15641"/>
+                  <rdf:li rdf:resource="http://identifiers.org/rhea/15642"/>
+                  <rdf:li rdf:resource="http://identifiers.org/rhea/15643"/>
+                  <rdf:li rdf:resource="http://identifiers.org/rhea/15644"/>
+                  <rdf:li rdf:resource="http://identifiers.org/sabiork/149"/>
+                  <rdf:li rdf:resource="http://identifiers.org/seed.reaction/rxn00162"/>
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+          <speciesReference species="M_h_c" stoichiometry="1" constant="true"/>
+          <speciesReference species="M_oaa_c" stoichiometry="1" constant="true"/>
+        </listOfReactants>
+        <listOfProducts>
+          <speciesReference species="M_co2_c" stoichiometry="1" constant="true"/>
+          <speciesReference species="M_pyr_c" stoichiometry="1" constant="true"/>
+        </listOfProducts>
+        <fbc:geneProductAssociation>
+          <fbc:geneProductRef fbc:geneProduct="G_b1850"/>
+        </fbc:geneProductAssociation>
+      </reaction>
+      <reaction id="R_MNNH" fast="false" reversible="false" name="D-mannonate hydrolyase" metaid="R_MNNH" sboTerm="SBO:0000176" fbc:upperFluxBound="cobra_default_ub" fbc:lowerFluxBound="cobra_0_bound">
+        <sbml:annotation xmlns:sbml="http://www.sbml.org/sbml/level3/version1/core">
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+              <bqbiol:is xmlns:bqbiol="http://biomodels.net/biology-qualifiers/">
+                <rdf:Bag>
+                  <rdf:li rdf:resource="http://identifiers.org/bigg.reaction/MNNH"/>
+                  <rdf:li rdf:resource="http://identifiers.org/biocyc/META:MANNONDEHYDRAT-RXN"/>
+                  <rdf:li rdf:resource="http://identifiers.org/ec-code/4.2.1.8"/>
+                  <rdf:li rdf:resource="http://identifiers.org/kegg.reaction/R05606"/>
+                  <rdf:li rdf:resource="http://identifiers.org/metanetx.reaction/MNXR138624"/>
+                  <rdf:li rdf:resource="http://identifiers.org/rhea/20098"/>
+                  <rdf:li rdf:resource="http://identifiers.org/rhea/20097"/>
+                  <rdf:li rdf:resource="http://identifiers.org/rhea/20100"/>
+                  <rdf:li rdf:resource="http://identifiers.org/rhea/20099"/>
+                  <rdf:li rdf:resource="http://identifiers.org/seed.reaction/rxn03885"/>
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+        </sbml:annotation>
+        <listOfReactants>
+          <speciesReference species="M_mana_c" stoichiometry="1" constant="true"/>
+        </listOfReactants>
+        <listOfProducts>
+          <speciesReference species="M_2ddglcn_c" stoichiometry="1" constant="true"/>
+          <speciesReference species="M_h2o_c" stoichiometry="1" constant="true"/>
+        </listOfProducts>
+        <fbc:geneProductAssociation>
+          <fbc:geneProductRef fbc:geneProduct="G_b4322"/>
+        </fbc:geneProductAssociation>
+      </reaction>
+      <reaction id="R_CDPMEK" fast="false" reversible="false" name="4-(cytidine 5'-diphospho)-2-C-methyl-D-erythritol kinase" metaid="R_CDPMEK" sboTerm="SBO:0000176" fbc:upperFluxBound="cobra_default_ub" fbc:lowerFluxBound="cobra_0_bound">
+        <sbml:annotation xmlns:sbml="http://www.sbml.org/sbml/level3/version1/core">
+          <rdf:RDF xmlns:rdf="http://www.w3.org/1999/02/22-rdf-syntax-ns#">
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+              <bqbiol:is xmlns:bqbiol="http://biomodels.net/biology-qualifiers/">
+                <rdf:Bag>
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+                  <rdf:li rdf:resource="http://identifiers.org/biocyc/META:2.7.1.148-RXN"/>
+                  <rdf:li rdf:resource="http://identifiers.org/ec-code/2.7.1.148"/>
+                  <rdf:li rdf:resource="http://identifiers.org/kegg.reaction/R05634"/>
+                  <rdf:li rdf:resource="http://identifiers.org/metanetx.reaction/MNXR96558"/>
+                  <rdf:li rdf:resource="http://identifiers.org/rhea/18437"/>
+                  <rdf:li rdf:resource="http://identifiers.org/rhea/18440"/>
+                  <rdf:li rdf:resource="http://identifiers.org/rhea/18438"/>
+                  <rdf:li rdf:resource="http://identifiers.org/rhea/18439"/>
+                  <rdf:li rdf:resource="http://identifiers.org/seed.reaction/rxn03908"/>
+                </rdf:Bag>
+              </bqbiol:is>
+            </rdf:Description>
+          </rdf:RDF>
+        </sbml:annotation>
+        <listOfReactants>
+          <speciesReference species="M_4c2me_c" stoichiometry="1" constant="true"/>
+          <speciesReference species="M_atp_c" stoichiometry="1" constant="true"/>
+        </listOfReactants>
+        <listOfProducts>
+          <speciesReference species="M_2p4c2me_c" stoichiometry="1" constant="true"/>
+          <speciesReference species="M_adp_c" stoichiometry="1" constant="true"/>
+          <speciesReference species="M_h_c" stoichiometry="1" constant="true"/>
+        </listOfProducts>
+        <fbc:geneProductAssociation>
+          <fbc:geneProductRef fbc:geneProduct="G_b1208"/>
+        </fbc:geneProductAssociation>
+      </reaction>
+      <reaction id="R_EDTXS2" fast="false" reversible="false" name="Endotoxin Synthesis (myristoyl transferase)" metaid="R_EDTXS2" sboTerm="SBO:0000176" fbc:upperFluxBound="cobra_default_ub" fbc:lowerFluxBound="cobra_0_bound">
+        <sbml:annotation xmlns:sbml="http://www.sbml.org/sbml/level3/version1/core">
+          <rdf:RDF xmlns:rdf="http://www.w3.org/1999/02/22-rdf-syntax-ns#">
+            <rdf:Description rdf:about="#R_EDTXS2">
+              <bqbiol:is xmlns:bqbiol="http://biomodels.net/biology-qualifiers/">
+                <rdf:Bag>
+                  <rdf:li rdf:resource="http://identifiers.org/bigg.reaction/EDTXS2"/>
+                  <rdf:li rdf:resource="http://identifiers.org/ec-code/2.3.1.243"/>
+                  <rdf:li rdf:resource="http://identifiers.org/metanetx.reaction/MNXR97901"/>
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+            </rdf:Description>
+          </rdf:RDF>
+        </sbml:annotation>
+        <listOfReactants>
+          <speciesReference species="M_kdo2lipid4L_c" stoichiometry="1" constant="true"/>
+          <speciesReference species="M_myrsACP_c" stoichiometry="1" constant="true"/>
+        </listOfReactants>
+        <listOfProducts>
+          <speciesReference species="M_ACP_c" stoichiometry="1" constant="true"/>
+          <speciesReference species="M_lipa_c" stoichiometry="1" constant="true"/>
+        </listOfProducts>
+        <fbc:geneProductAssociation>
+          <fbc:geneProductRef fbc:geneProduct="G_b1855"/>
+        </fbc:geneProductAssociation>
+      </reaction>
+      <reaction id="R_ALTRH" fast="false" reversible="false" name="Altronate hydrolase" metaid="R_ALTRH" sboTerm="SBO:0000176" fbc:upperFluxBound="cobra_default_ub" fbc:lowerFluxBound="cobra_0_bound">
+        <sbml:annotation xmlns:sbml="http://www.sbml.org/sbml/level3/version1/core">
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+              <bqbiol:is xmlns:bqbiol="http://biomodels.net/biology-qualifiers/">
+                <rdf:Bag>
+                  <rdf:li rdf:resource="http://identifiers.org/bigg.reaction/ALTRH"/>
+                  <rdf:li rdf:resource="http://identifiers.org/biocyc/META:ALTRODEHYDRAT-RXN"/>
+                  <rdf:li rdf:resource="http://identifiers.org/ec-code/4.2.1.7"/>
+                  <rdf:li rdf:resource="http://identifiers.org/kegg.reaction/R01540"/>
+                  <rdf:li rdf:resource="http://identifiers.org/metanetx.reaction/MNXR138045"/>
+                  <rdf:li rdf:resource="http://identifiers.org/rhea/15959"/>
+                  <rdf:li rdf:resource="http://identifiers.org/rhea/15960"/>
+                  <rdf:li rdf:resource="http://identifiers.org/rhea/15957"/>
+                  <rdf:li rdf:resource="http://identifiers.org/rhea/15958"/>
+                  <rdf:li rdf:resource="http://identifiers.org/sabiork/1704"/>
+                  <rdf:li rdf:resource="http://identifiers.org/seed.reaction/rxn01122"/>
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+        </sbml:annotation>
+        <listOfReactants>
+          <speciesReference species="M_altrn_c" stoichiometry="1" constant="true"/>
+        </listOfReactants>
+        <listOfProducts>
+          <speciesReference species="M_2ddglcn_c" stoichiometry="1" constant="true"/>
+          <speciesReference species="M_h2o_c" stoichiometry="1" constant="true"/>
+        </listOfProducts>
+        <fbc:geneProductAssociation>
+          <fbc:geneProductRef fbc:geneProduct="G_b3091"/>
+        </fbc:geneProductAssociation>
+      </reaction>
+      <reaction id="R_MECDPS" fast="false" reversible="false" name="2-C-methyl-D-erythritol 2,4-cyclodiphosphate synthase" metaid="R_MECDPS" sboTerm="SBO:0000176" fbc:upperFluxBound="cobra_default_ub" fbc:lowerFluxBound="cobra_0_bound">
+        <sbml:annotation xmlns:sbml="http://www.sbml.org/sbml/level3/version1/core">
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+            <rdf:Description rdf:about="#R_MECDPS">
+              <bqbiol:is xmlns:bqbiol="http://biomodels.net/biology-qualifiers/">
+                <rdf:Bag>
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+                  <rdf:li rdf:resource="http://identifiers.org/biocyc/META:RXN0-302"/>
+                  <rdf:li rdf:resource="http://identifiers.org/ec-code/4.6.1.12"/>
+                  <rdf:li rdf:resource="http://identifiers.org/kegg.reaction/R05637"/>
+                  <rdf:li rdf:resource="http://identifiers.org/metanetx.reaction/MNXR101424"/>
+                  <rdf:li rdf:resource="http://identifiers.org/rhea/23864"/>
+                  <rdf:li rdf:resource="http://identifiers.org/rhea/23867"/>
+                  <rdf:li rdf:resource="http://identifiers.org/rhea/23866"/>
+                  <rdf:li rdf:resource="http://identifiers.org/rhea/23865"/>
+                  <rdf:li rdf:resource="http://identifiers.org/seed.reaction/rxn03910"/>
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+              </bqbiol:is>
+            </rdf:Description>
+          </rdf:RDF>
+        </sbml:annotation>
+        <listOfReactants>
+          <speciesReference species="M_2p4c2me_c" stoichiometry="1" constant="true"/>
+        </listOfReactants>
+        <listOfProducts>
+          <speciesReference species="M_2mecdp_c" stoichiometry="1" constant="true"/>
+          <speciesReference species="M_cmp_c" stoichiometry="1" constant="true"/>
+        </listOfProducts>
+        <fbc:geneProductAssociation>
+          <fbc:geneProductRef fbc:geneProduct="G_b2746"/>
+        </fbc:geneProductAssociation>
+      </reaction>
+      <reaction id="R_GUI1" fast="false" reversible="true" name="Glucuronate isomerase (D-glucuronate)" metaid="R_GUI1" sboTerm="SBO:0000176" fbc:upperFluxBound="cobra_default_ub" fbc:lowerFluxBound="cobra_default_lb">
+        <sbml:annotation xmlns:sbml="http://www.sbml.org/sbml/level3/version1/core">
+          <rdf:RDF xmlns:rdf="http://www.w3.org/1999/02/22-rdf-syntax-ns#">
+            <rdf:Description rdf:about="#R_GUI1">
+              <bqbiol:is xmlns:bqbiol="http://biomodels.net/biology-qualifiers/">
+                <rdf:Bag>
+                  <rdf:li rdf:resource="http://identifiers.org/bigg.reaction/GUI1"/>
+                  <rdf:li rdf:resource="http://identifiers.org/ec-code/5.3.1.12"/>
+                  <rdf:li rdf:resource="http://identifiers.org/kegg.reaction/R01482"/>
+                  <rdf:li rdf:resource="http://identifiers.org/metanetx.reaction/MNXR100468"/>
+                  <rdf:li rdf:resource="http://identifiers.org/rhea/13051"/>
+                  <rdf:li rdf:resource="http://identifiers.org/rhea/13050"/>
+                  <rdf:li rdf:resource="http://identifiers.org/rhea/13049"/>
+                  <rdf:li rdf:resource="http://identifiers.org/rhea/13052"/>
+                  <rdf:li rdf:resource="http://identifiers.org/seed.reaction/rxn01080"/>
+                </rdf:Bag>
+              </bqbiol:is>
+            </rdf:Description>
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+        </sbml:annotation>
+        <listOfReactants>
+          <speciesReference species="M_glcur_c" stoichiometry="1" constant="true"/>
+        </listOfReactants>
+        <listOfProducts>
+          <speciesReference species="M_fruur_c" stoichiometry="1" constant="true"/>
+        </listOfProducts>
+        <fbc:geneProductAssociation>
+          <fbc:geneProductRef fbc:geneProduct="G_b3092"/>
+        </fbc:geneProductAssociation>
+      </reaction>
+      <reaction id="R_EDTXS3" fast="false" reversible="false" name="Endotoxin Synthesis (palmitoleoyl ACP)" metaid="R_EDTXS3" sboTerm="SBO:0000176" fbc:upperFluxBound="cobra_default_ub" fbc:lowerFluxBound="cobra_0_bound">
+        <sbml:annotation xmlns:sbml="http://www.sbml.org/sbml/level3/version1/core">
+          <rdf:RDF xmlns:rdf="http://www.w3.org/1999/02/22-rdf-syntax-ns#">
+            <rdf:Description rdf:about="#R_EDTXS3">
+              <bqbiol:is xmlns:bqbiol="http://biomodels.net/biology-qualifiers/">
+                <rdf:Bag>
+                  <rdf:li rdf:resource="http://identifiers.org/bigg.reaction/EDTXS3"/>
+                  <rdf:li rdf:resource="http://identifiers.org/metanetx.reaction/MNXR97903"/>
+                </rdf:Bag>
+              </bqbiol:is>
+            </rdf:Description>
+          </rdf:RDF>
+        </sbml:annotation>
+        <listOfReactants>
+          <speciesReference species="M_hdeACP_c" stoichiometry="1" constant="true"/>
+          <speciesReference species="M_kdo2lipid4_c" stoichiometry="1" constant="true"/>
+        </listOfReactants>
+        <listOfProducts>
+          <speciesReference species="M_ACP_c" stoichiometry="1" constant="true"/>
+          <speciesReference species="M_kdo2lipid4p_c" stoichiometry="1" constant="true"/>
+        </listOfProducts>
+        <fbc:geneProductAssociation>
+          <fbc:geneProductRef fbc:geneProduct="G_b2378"/>
+        </fbc:geneProductAssociation>
+      </reaction>
+      <reaction id="R_PGAMT" fast="false" reversible="true" name="Phosphoglucosamine mutase" metaid="R_PGAMT" sboTerm="SBO:0000176" fbc:upperFluxBound="cobra_default_ub" fbc:lowerFluxBound="cobra_default_lb">
+        <sbml:annotation xmlns:sbml="http://www.sbml.org/sbml/level3/version1/core">
+          <rdf:RDF xmlns:rdf="http://www.w3.org/1999/02/22-rdf-syntax-ns#">
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+              <bqbiol:is xmlns:bqbiol="http://biomodels.net/biology-qualifiers/">
+                <rdf:Bag>
+                  <rdf:li rdf:resource="http://identifiers.org/bigg.reaction/PGAMT"/>
+                  <rdf:li rdf:resource="http://identifiers.org/biocyc/META:5.4.2.10-RXN"/>
+                  <rdf:li rdf:resource="http://identifiers.org/ec-code/5.4.2.10"/>
+                  <rdf:li rdf:resource="http://identifiers.org/kegg.reaction/R02060"/>
+                  <rdf:li rdf:resource="http://identifiers.org/metanetx.reaction/MNXR102526"/>
+                  <rdf:li rdf:resource="http://identifiers.org/rhea/23427"/>
+                  <rdf:li rdf:resource="http://identifiers.org/rhea/23425"/>
+                  <rdf:li rdf:resource="http://identifiers.org/rhea/23426"/>
+                  <rdf:li rdf:resource="http://identifiers.org/rhea/23424"/>
+                  <rdf:li rdf:resource="http://identifiers.org/sabiork/2077"/>
+                  <rdf:li rdf:resource="http://identifiers.org/seed.reaction/rxn01485"/>
+                </rdf:Bag>
+              </bqbiol:is>
+            </rdf:Description>
+          </rdf:RDF>
+        </sbml:annotation>
+        <listOfReactants>
+          <speciesReference species="M_gam1p_c" stoichiometry="1" constant="true"/>
+        </listOfReactants>
+        <listOfProducts>
+          <speciesReference species="M_gam6p_c" stoichiometry="1" constant="true"/>
+        </listOfProducts>
+        <fbc:geneProductAssociation>
+          <fbc:geneProductRef fbc:geneProduct="G_b3176"/>
+        </fbc:geneProductAssociation>
+      </reaction>
+      <reaction id="R_DDGLK" fast="false" reversible="false" name="2-dehydro-3-deoxygluconokinase" metaid="R_DDGLK" sboTerm="SBO:0000176" fbc:upperFluxBound="cobra_default_ub" fbc:lowerFluxBound="cobra_0_bound">
+        <sbml:annotation xmlns:sbml="http://www.sbml.org/sbml/level3/version1/core">
+          <rdf:RDF xmlns:rdf="http://www.w3.org/1999/02/22-rdf-syntax-ns#">
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+              <bqbiol:is xmlns:bqbiol="http://biomodels.net/biology-qualifiers/">
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+                  <rdf:li rdf:resource="http://identifiers.org/bigg.reaction/DDGLK"/>
+                  <rdf:li rdf:resource="http://identifiers.org/biocyc/META:DEOXYGLUCONOKIN-RXN"/>
+                  <rdf:li rdf:resource="http://identifiers.org/ec-code/2.7.1.45"/>
+                  <rdf:li rdf:resource="http://identifiers.org/ec-code/2.7.1.178"/>
+                  <rdf:li rdf:resource="http://identifiers.org/kegg.reaction/R01541"/>
+                  <rdf:li rdf:resource="http://identifiers.org/metanetx.reaction/MNXR138209"/>
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+                  <rdf:li rdf:resource="http://identifiers.org/rhea/14797"/>
+                  <rdf:li rdf:resource="http://identifiers.org/rhea/14798"/>
+                  <rdf:li rdf:resource="http://identifiers.org/rhea/14800"/>
+                  <rdf:li rdf:resource="http://identifiers.org/seed.reaction/rxn01123"/>
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+            </rdf:Description>
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+        </sbml:annotation>
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+          <speciesReference species="M_2ddglcn_c" stoichiometry="1" constant="true"/>
+          <speciesReference species="M_atp_c" stoichiometry="1" constant="true"/>
+        </listOfReactants>
+        <listOfProducts>
+          <speciesReference species="M_2ddg6p_c" stoichiometry="1" constant="true"/>
+          <speciesReference species="M_adp_c" stoichiometry="1" constant="true"/>
+          <speciesReference species="M_h_c" stoichiometry="1" constant="true"/>
+        </listOfProducts>
+        <fbc:geneProductAssociation>
+          <fbc:geneProductRef fbc:geneProduct="G_b3526"/>
+        </fbc:geneProductAssociation>
+      </reaction>
+      <reaction id="R_EDTXS4" fast="false" reversible="false" name="Endotoxin Synthesis (myristoyl transferase)" metaid="R_EDTXS4" sboTerm="SBO:0000176" fbc:upperFluxBound="cobra_default_ub" fbc:lowerFluxBound="cobra_0_bound">
+        <sbml:annotation xmlns:sbml="http://www.sbml.org/sbml/level3/version1/core">
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+              <bqbiol:is xmlns:bqbiol="http://biomodels.net/biology-qualifiers/">
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+                  <rdf:li rdf:resource="http://identifiers.org/metanetx.reaction/MNXR97904"/>
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+              </bqbiol:is>
+            </rdf:Description>
+          </rdf:RDF>
+        </sbml:annotation>
+        <listOfReactants>
+          <speciesReference species="M_kdo2lipid4p_c" stoichiometry="1" constant="true"/>
+          <speciesReference species="M_myrsACP_c" stoichiometry="1" constant="true"/>
+        </listOfReactants>
+        <listOfProducts>
+          <speciesReference species="M_ACP_c" stoichiometry="1" constant="true"/>
+          <speciesReference species="M_lipa_cold_c" stoichiometry="1" constant="true"/>
+        </listOfProducts>
+        <fbc:geneProductAssociation>
+          <fbc:geneProductRef fbc:geneProduct="G_b1855"/>
+        </fbc:geneProductAssociation>
+      </reaction>
+      <reaction id="R_XYLI2" fast="false" reversible="true" name="Xylose isomerase" metaid="R_XYLI2" sboTerm="SBO:0000176" fbc:upperFluxBound="cobra_default_ub" fbc:lowerFluxBound="cobra_default_lb">
+        <sbml:annotation xmlns:sbml="http://www.sbml.org/sbml/level3/version1/core">
+          <rdf:RDF xmlns:rdf="http://www.w3.org/1999/02/22-rdf-syntax-ns#">
+            <rdf:Description rdf:about="#R_XYLI2">
+              <bqbiol:is xmlns:bqbiol="http://biomodels.net/biology-qualifiers/">
+                <rdf:Bag>
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+                  <rdf:li rdf:resource="http://identifiers.org/biocyc/META:GLUCISOM-RXN"/>
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+                  <rdf:li rdf:resource="http://identifiers.org/metanetx.reaction/MNXR105254"/>
+                  <rdf:li rdf:resource="http://identifiers.org/rhea/28546"/>
+                  <rdf:li rdf:resource="http://identifiers.org/rhea/28547"/>
+                  <rdf:li rdf:resource="http://identifiers.org/rhea/28549"/>
+                  <rdf:li rdf:resource="http://identifiers.org/rhea/28548"/>
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+                  <rdf:li rdf:resource="http://identifiers.org/seed.reaction/rxn00223"/>
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+        <listOfReactants>
+          <speciesReference species="M_glc__D_c" stoichiometry="1" constant="true"/>
+        </listOfReactants>
+        <listOfProducts>
+          <speciesReference species="M_fru_c" stoichiometry="1" constant="true"/>
+        </listOfProducts>
+        <fbc:geneProductAssociation>
+          <fbc:geneProductRef fbc:geneProduct="G_b3565"/>
+        </fbc:geneProductAssociation>
+      </reaction>
+      <reaction id="R_PMANM" fast="false" reversible="true" name="Phosphomannomutase" metaid="R_PMANM" sboTerm="SBO:0000176" fbc:upperFluxBound="cobra_default_ub" fbc:lowerFluxBound="cobra_default_lb">
+        <sbml:annotation xmlns:sbml="http://www.sbml.org/sbml/level3/version1/core">
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+              <bqbiol:is xmlns:bqbiol="http://biomodels.net/biology-qualifiers/">
+                <rdf:Bag>
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+                  <rdf:li rdf:resource="http://identifiers.org/biocyc/META:PHOSMANMUT-RXN"/>
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+                  <rdf:li rdf:resource="http://identifiers.org/kegg.reaction/R01818"/>
+                  <rdf:li rdf:resource="http://identifiers.org/metanetx.reaction/MNXR101729"/>
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+                  <rdf:li rdf:resource="http://identifiers.org/reactome.reaction/R-SPO-446201"/>
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+                  <rdf:li rdf:resource="http://identifiers.org/reactome.reaction/R-RNO-446201"/>
+                  <rdf:li rdf:resource="http://identifiers.org/reactome.reaction/R-DDI-446201"/>
+                  <rdf:li rdf:resource="http://identifiers.org/reactome.reaction/R-SCE-446201"/>
+                  <rdf:li rdf:resource="http://identifiers.org/reactome.reaction/R-GGA-446201"/>
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+                  <rdf:li rdf:resource="http://identifiers.org/reactome.reaction/R-ATH-446201"/>
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+                  <rdf:li rdf:resource="http://identifiers.org/reactome.reaction/R-PFA-446201"/>
+                  <rdf:li rdf:resource="http://identifiers.org/reactome.reaction/R-TGU-446201"/>
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+                  <rdf:li rdf:resource="http://identifiers.org/reactome.reaction/R-BTA-446201"/>
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+                  <rdf:li rdf:resource="http://identifiers.org/reactome.reaction/R-DRE-446201"/>
+                  <rdf:li rdf:resource="http://identifiers.org/rhea/11141"/>
+                  <rdf:li rdf:resource="http://identifiers.org/rhea/11143"/>
+                  <rdf:li rdf:resource="http://identifiers.org/rhea/11142"/>
+                  <rdf:li rdf:resource="http://identifiers.org/rhea/11140"/>
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+                  <rdf:li rdf:resource="http://identifiers.org/seed.reaction/rxn01329"/>
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+        <listOfReactants>
+          <speciesReference species="M_man1p_c" stoichiometry="1" constant="true"/>
+        </listOfReactants>
+        <listOfProducts>
+          <speciesReference species="M_man6p_c" stoichiometry="1" constant="true"/>
+        </listOfProducts>
+        <fbc:geneProductAssociation>
+          <fbc:geneProductRef fbc:geneProduct="G_b2048"/>
+        </fbc:geneProductAssociation>
+      </reaction>
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+        <sbml:annotation xmlns:sbml="http://www.sbml.org/sbml/level3/version1/core">
+          <rdf:RDF xmlns:rdf="http://www.w3.org/1999/02/22-rdf-syntax-ns#">
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+              <bqbiol:is xmlns:bqbiol="http://biomodels.net/biology-qualifiers/">
+                <rdf:Bag>
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+                  <rdf:li rdf:resource="http://identifiers.org/ec-code/4.1.3.1"/>
+                  <rdf:li rdf:resource="http://identifiers.org/kegg.reaction/R00479"/>
+                  <rdf:li rdf:resource="http://identifiers.org/metanetx.reaction/MNXR100789"/>
+                  <rdf:li rdf:resource="http://identifiers.org/rhea/13248"/>
+                  <rdf:li rdf:resource="http://identifiers.org/rhea/13245"/>
+                  <rdf:li rdf:resource="http://identifiers.org/rhea/13246"/>
+                  <rdf:li rdf:resource="http://identifiers.org/rhea/13247"/>
+                  <rdf:li rdf:resource="http://identifiers.org/sabiork/911"/>
+                  <rdf:li rdf:resource="http://identifiers.org/seed.reaction/rxn00336"/>
+                </rdf:Bag>
+              </bqbiol:is>
+            </rdf:Description>
+          </rdf:RDF>
+        </sbml:annotation>
+        <listOfReactants>
+          <speciesReference species="M_icit_c" stoichiometry="1" constant="true"/>
+        </listOfReactants>
+        <listOfProducts>
+          <speciesReference species="M_glx_c" stoichiometry="1" constant="true"/>
+          <speciesReference species="M_succ_c" stoichiometry="1" constant="true"/>
+        </listOfProducts>
+        <fbc:geneProductAssociation>
+          <fbc:geneProductRef fbc:geneProduct="G_b4015"/>
+        </fbc:geneProductAssociation>
+      </reaction>
+      <reaction id="R_UAGDP" fast="false" reversible="false" name="UDP-N-acetylglucosamine diphosphorylase" metaid="R_UAGDP" sboTerm="SBO:0000176" fbc:upperFluxBound="cobra_default_ub" fbc:lowerFluxBound="cobra_0_bound">
+        <sbml:annotation xmlns:sbml="http://www.sbml.org/sbml/level3/version1/core">
+          <rdf:RDF xmlns:rdf="http://www.w3.org/1999/02/22-rdf-syntax-ns#">
+            <rdf:Description rdf:about="#R_UAGDP">
+              <bqbiol:is xmlns:bqbiol="http://biomodels.net/biology-qualifiers/">
+                <rdf:Bag>
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+                  <rdf:li rdf:resource="http://identifiers.org/metanetx.reaction/MNXR105033"/>
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+                  <rdf:li rdf:resource="http://identifiers.org/reactome.reaction/R-DME-446204"/>
+                  <rdf:li rdf:resource="http://identifiers.org/reactome.reaction/R-HSA-446204"/>
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+                  <rdf:li rdf:resource="http://identifiers.org/reactome.reaction/R-GGA-446204"/>
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+                  <rdf:li rdf:resource="http://identifiers.org/reactome.reaction/R-CEL-446204"/>
+                  <rdf:li rdf:resource="http://identifiers.org/reactome.reaction/R-SPO-446204"/>
+                  <rdf:li rdf:resource="http://identifiers.org/reactome.reaction/R-BTA-446204"/>
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+                  <rdf:li rdf:resource="http://identifiers.org/seed.reaction/rxn00293"/>
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+              </bqbiol:is>
+            </rdf:Description>
+          </rdf:RDF>
+        </sbml:annotation>
+        <listOfReactants>
+          <speciesReference species="M_acgam1p_c" stoichiometry="1" constant="true"/>
+          <speciesReference species="M_h_c" stoichiometry="1" constant="true"/>
+          <speciesReference species="M_utp_c" stoichiometry="1" constant="true"/>
+        </listOfReactants>
+        <listOfProducts>
+          <speciesReference species="M_ppi_c" stoichiometry="1" constant="true"/>
+          <speciesReference species="M_uacgam_c" stoichiometry="1" constant="true"/>
+        </listOfProducts>
+        <fbc:geneProductAssociation>
+          <fbc:geneProductRef fbc:geneProduct="G_b3730"/>
+        </fbc:geneProductAssociation>
+      </reaction>
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+        <sbml:annotation xmlns:sbml="http://www.sbml.org/sbml/level3/version1/core">
+          <rdf:RDF xmlns:rdf="http://www.w3.org/1999/02/22-rdf-syntax-ns#">
+            <rdf:Description rdf:about="#R_UAGCVT">
+              <bqbiol:is xmlns:bqbiol="http://biomodels.net/biology-qualifiers/">
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+                  <rdf:li rdf:resource="http://identifiers.org/biocyc/META:UDPNACETYLGLUCOSAMENOLPYRTRANS-RXN"/>
+                  <rdf:li rdf:resource="http://identifiers.org/ec-code/2.5.1.7"/>
+                  <rdf:li rdf:resource="http://identifiers.org/kegg.reaction/R00660"/>
+                  <rdf:li rdf:resource="http://identifiers.org/metanetx.reaction/MNXR105032"/>
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+                  <rdf:li rdf:resource="http://identifiers.org/rhea/18682"/>
+                  <rdf:li rdf:resource="http://identifiers.org/rhea/18683"/>
+                  <rdf:li rdf:resource="http://identifiers.org/rhea/18684"/>
+                  <rdf:li rdf:resource="http://identifiers.org/seed.reaction/rxn00461"/>
+                </rdf:Bag>
+              </bqbiol:is>
+            </rdf:Description>
+          </rdf:RDF>
+        </sbml:annotation>
+        <listOfReactants>
+          <speciesReference species="M_pep_c" stoichiometry="1" constant="true"/>
+          <speciesReference species="M_uacgam_c" stoichiometry="1" constant="true"/>
+        </listOfReactants>
+        <listOfProducts>
+          <speciesReference species="M_pi_c" stoichiometry="1" constant="true"/>
+          <speciesReference species="M_uaccg_c" stoichiometry="1" constant="true"/>
+        </listOfProducts>
+        <fbc:geneProductAssociation>
+          <fbc:geneProductRef fbc:geneProduct="G_b3189"/>
+        </fbc:geneProductAssociation>
+      </reaction>
+      <reaction id="R_GLUR" fast="false" reversible="true" name="Glutamate racemase" metaid="R_GLUR" sboTerm="SBO:0000176" fbc:upperFluxBound="cobra_default_ub" fbc:lowerFluxBound="cobra_default_lb">
+        <sbml:annotation xmlns:sbml="http://www.sbml.org/sbml/level3/version1/core">
+          <rdf:RDF xmlns:rdf="http://www.w3.org/1999/02/22-rdf-syntax-ns#">
+            <rdf:Description rdf:about="#R_GLUR">
+              <bqbiol:is xmlns:bqbiol="http://biomodels.net/biology-qualifiers/">
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+                  <rdf:li rdf:resource="http://identifiers.org/rhea/12814"/>
+                  <rdf:li rdf:resource="http://identifiers.org/rhea/12815"/>
+                  <rdf:li rdf:resource="http://identifiers.org/rhea/12816"/>
+                  <rdf:li rdf:resource="http://identifiers.org/sabiork/765"/>
+                  <rdf:li rdf:resource="http://identifiers.org/seed.reaction/rxn00193"/>
+                </rdf:Bag>
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+          </rdf:RDF>
+        </sbml:annotation>
+        <listOfReactants>
+          <speciesReference species="M_glu__D_c" stoichiometry="1" constant="true"/>
+        </listOfReactants>
+        <listOfProducts>
+          <speciesReference species="M_glu__L_c" stoichiometry="1" constant="true"/>
+        </listOfProducts>
+        <fbc:geneProductAssociation>
+          <fbc:geneProductRef fbc:geneProduct="G_b3967"/>
+        </fbc:geneProductAssociation>
+      </reaction>
+      <reaction id="R_EX_tmao_e" fast="false" reversible="false" name="Trimethylamine N-oxide exchange" metaid="R_EX_tmao_e" sboTerm="SBO:0000627" fbc:upperFluxBound="cobra_default_ub" fbc:lowerFluxBound="cobra_0_bound">
+        <sbml:annotation xmlns:sbml="http://www.sbml.org/sbml/level3/version1/core">
+          <rdf:RDF xmlns:rdf="http://www.w3.org/1999/02/22-rdf-syntax-ns#">
+            <rdf:Description rdf:about="#R_EX_tmao_e">
+              <bqbiol:is xmlns:bqbiol="http://biomodels.net/biology-qualifiers/">
+                <rdf:Bag>
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+                  <rdf:li rdf:resource="http://identifiers.org/metanetx.reaction/MNXR104882"/>
+                  <rdf:li rdf:resource="http://identifiers.org/seed.reaction/rxn09317"/>
+                </rdf:Bag>
+              </bqbiol:is>
+            </rdf:Description>
+          </rdf:RDF>
+        </sbml:annotation>
+        <listOfReactants>
+          <speciesReference species="M_tmao_e" stoichiometry="1" constant="true"/>
+        </listOfReactants>
+      </reaction>
+      <reaction id="R_UAG2E" fast="false" reversible="true" name="UDP-N-acetylglucosamine 2-epimerase" metaid="R_UAG2E" sboTerm="SBO:0000176" fbc:upperFluxBound="cobra_default_ub" fbc:lowerFluxBound="cobra_default_lb">
+        <sbml:annotation xmlns:sbml="http://www.sbml.org/sbml/level3/version1/core">
+          <rdf:RDF xmlns:rdf="http://www.w3.org/1999/02/22-rdf-syntax-ns#">
+            <rdf:Description rdf:about="#R_UAG2E">
+              <bqbiol:is xmlns:bqbiol="http://biomodels.net/biology-qualifiers/">
+                <rdf:Bag>
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+                  <rdf:li rdf:resource="http://identifiers.org/ec-code/5.1.3.14"/>
+                  <rdf:li rdf:resource="http://identifiers.org/kegg.reaction/R00420"/>
+                  <rdf:li rdf:resource="http://identifiers.org/metanetx.reaction/MNXR141025"/>
+                  <rdf:li rdf:resource="http://identifiers.org/rhea/17214"/>
+                  <rdf:li rdf:resource="http://identifiers.org/rhea/17215"/>
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+                  <rdf:li rdf:resource="http://identifiers.org/rhea/17216"/>
+                  <rdf:li rdf:resource="http://identifiers.org/sabiork/875"/>
+                  <rdf:li rdf:resource="http://identifiers.org/seed.reaction/rxn00297"/>
+                </rdf:Bag>
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+        </sbml:annotation>
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+          <speciesReference species="M_uacgam_c" stoichiometry="1" constant="true"/>
+        </listOfReactants>
+        <listOfProducts>
+          <speciesReference species="M_uacmam_c" stoichiometry="1" constant="true"/>
+        </listOfProducts>
+        <fbc:geneProductAssociation>
+          <fbc:geneProductRef fbc:geneProduct="G_b3786"/>
+        </fbc:geneProductAssociation>
+      </reaction>
+      <reaction id="R_EX_acald_e" fast="false" reversible="false" name="Acetaldehyde exchange" metaid="R_EX_acald_e" sboTerm="SBO:0000627" fbc:upperFluxBound="cobra_default_ub" fbc:lowerFluxBound="cobra_0_bound">
+        <sbml:annotation xmlns:sbml="http://www.sbml.org/sbml/level3/version1/core">
+          <rdf:RDF xmlns:rdf="http://www.w3.org/1999/02/22-rdf-syntax-ns#">
+            <rdf:Description rdf:about="#R_EX_acald_e">
+              <bqbiol:is xmlns:bqbiol="http://biomodels.net/biology-qualifiers/">
+                <rdf:Bag>
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+                  <rdf:li rdf:resource="http://identifiers.org/seed.reaction/rxn09700"/>
+                  <rdf:li rdf:resource="http://identifiers.org/seed.reaction/rxn08033"/>
+                  <rdf:li rdf:resource="http://identifiers.org/seed.reaction/rxn13212"/>
+                  <rdf:li rdf:resource="http://identifiers.org/seed.reaction/rxn08032"/>
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+        </sbml:annotation>
+        <listOfReactants>
+          <speciesReference species="M_acald_e" stoichiometry="1" constant="true"/>
+        </listOfReactants>
+      </reaction>
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+        <sbml:annotation xmlns:sbml="http://www.sbml.org/sbml/level3/version1/core">
+          <rdf:RDF xmlns:rdf="http://www.w3.org/1999/02/22-rdf-syntax-ns#">
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+                  <rdf:li rdf:resource="http://identifiers.org/kegg.reaction/R01221"/>
+                  <rdf:li rdf:resource="http://identifiers.org/metanetx.reaction/MNXR100330"/>
+                  <rdf:li rdf:resource="http://identifiers.org/rhea/27760"/>
+                  <rdf:li rdf:resource="http://identifiers.org/rhea/27759"/>
+                  <rdf:li rdf:resource="http://identifiers.org/rhea/27761"/>
+                  <rdf:li rdf:resource="http://identifiers.org/rhea/27758"/>
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+        </sbml:annotation>
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+          <speciesReference species="M_gly_c" stoichiometry="1" constant="true"/>
+          <speciesReference species="M_nad_c" stoichiometry="1" constant="true"/>
+          <speciesReference species="M_thf_c" stoichiometry="1" constant="true"/>
+        </listOfReactants>
+        <listOfProducts>
+          <speciesReference species="M_co2_c" stoichiometry="1" constant="true"/>
+          <speciesReference species="M_mlthf_c" stoichiometry="1" constant="true"/>
+          <speciesReference species="M_nadh_c" stoichiometry="1" constant="true"/>
+          <speciesReference species="M_nh4_c" stoichiometry="1" constant="true"/>
+        </listOfProducts>
+        <fbc:geneProductAssociation>
+          <fbc:and>
+            <fbc:geneProductRef fbc:geneProduct="G_b2904"/>
+            <fbc:geneProductRef fbc:geneProduct="G_b2903"/>
+            <fbc:geneProductRef fbc:geneProduct="G_b0116"/>
+            <fbc:geneProductRef fbc:geneProduct="G_b2905"/>
+          </fbc:and>
+        </fbc:geneProductAssociation>
+      </reaction>
+      <reaction id="R_CMPN" fast="false" reversible="false" name="CMP nucleosidase" metaid="R_CMPN" sboTerm="SBO:0000176" fbc:upperFluxBound="cobra_default_ub" fbc:lowerFluxBound="cobra_0_bound">
+        <sbml:annotation xmlns:sbml="http://www.sbml.org/sbml/level3/version1/core">
+          <rdf:RDF xmlns:rdf="http://www.w3.org/1999/02/22-rdf-syntax-ns#">
+            <rdf:Description rdf:about="#R_CMPN">
+              <bqbiol:is xmlns:bqbiol="http://biomodels.net/biology-qualifiers/">
+                <rdf:Bag>
+                  <rdf:li rdf:resource="http://identifiers.org/bigg.reaction/CMPN"/>
+                  <rdf:li rdf:resource="http://identifiers.org/ec-code/3.2.2.10"/>
+                  <rdf:li rdf:resource="http://identifiers.org/metanetx.reaction/MNXR96804"/>
+                </rdf:Bag>
+              </bqbiol:is>
+            </rdf:Description>
+          </rdf:RDF>
+        </sbml:annotation>
+        <listOfReactants>
+          <speciesReference species="M_cmp_c" stoichiometry="1" constant="true"/>
+          <speciesReference species="M_h2o_c" stoichiometry="1" constant="true"/>
+        </listOfReactants>
+        <listOfProducts>
+          <speciesReference species="M_csn_c" stoichiometry="1" constant="true"/>
+          <speciesReference species="M_r5p_c" stoichiometry="1" constant="true"/>
+        </listOfProducts>
+      </reaction>
+      <reaction id="R_NNDPR" fast="false" reversible="false" name="Nicotinate-nucleotide diphosphorylase (carboxylating)" metaid="R_NNDPR" sboTerm="SBO:0000176" fbc:upperFluxBound="cobra_default_ub" fbc:lowerFluxBound="cobra_0_bound">
+        <sbml:annotation xmlns:sbml="http://www.sbml.org/sbml/level3/version1/core">
+          <rdf:RDF xmlns:rdf="http://www.w3.org/1999/02/22-rdf-syntax-ns#">
+            <rdf:Description rdf:about="#R_NNDPR">
+              <bqbiol:is xmlns:bqbiol="http://biomodels.net/biology-qualifiers/">
+                <rdf:Bag>
+                  <rdf:li rdf:resource="http://identifiers.org/bigg.reaction/NNDPR"/>
+                  <rdf:li rdf:resource="http://identifiers.org/biocyc/META:QUINOPRIBOTRANS-RXN"/>
+                  <rdf:li rdf:resource="http://identifiers.org/ec-code/2.4.2.19"/>
+                  <rdf:li rdf:resource="http://identifiers.org/kegg.reaction/R03348"/>
+                  <rdf:li rdf:resource="http://identifiers.org/metanetx.reaction/MNXR101980"/>
+                  <rdf:li rdf:resource="http://identifiers.org/reactome.reaction/R-CFA-197268"/>
+                  <rdf:li rdf:resource="http://identifiers.org/reactome.reaction/R-HSA-197268"/>
+                  <rdf:li rdf:resource="http://identifiers.org/reactome.reaction/R-SSC-197268"/>
+                  <rdf:li rdf:resource="http://identifiers.org/reactome.reaction/R-RNO-197268"/>
+                  <rdf:li rdf:resource="http://identifiers.org/reactome.reaction/R-XTR-197268"/>
+                  <rdf:li rdf:resource="http://identifiers.org/reactome.reaction/R-MMU-197268"/>
+                  <rdf:li rdf:resource="http://identifiers.org/reactome.reaction/R-ATH-197268"/>
+                  <rdf:li rdf:resource="http://identifiers.org/reactome.reaction/R-OSA-197268"/>
+                  <rdf:li rdf:resource="http://identifiers.org/reactome.reaction/R-SCE-197268"/>
+                  <rdf:li rdf:resource="http://identifiers.org/reactome.reaction/R-BTA-197268"/>
+                  <rdf:li rdf:resource="http://identifiers.org/reactome.reaction/R-DDI-197268"/>
+                  <rdf:li rdf:resource="http://identifiers.org/reactome.reaction/R-TGU-197268"/>
+                  <rdf:li rdf:resource="http://identifiers.org/rhea/12735"/>
+                  <rdf:li rdf:resource="http://identifiers.org/rhea/12733"/>
+                  <rdf:li rdf:resource="http://identifiers.org/rhea/12734"/>
+                  <rdf:li rdf:resource="http://identifiers.org/rhea/12736"/>
+                  <rdf:li rdf:resource="http://identifiers.org/sabiork/3155"/>
+                  <rdf:li rdf:resource="http://identifiers.org/seed.reaction/rxn02402"/>
+                </rdf:Bag>
+              </bqbiol:is>
+            </rdf:Description>
+          </rdf:RDF>
+        </sbml:annotation>
+        <listOfReactants>
+          <speciesReference species="M_h_c" stoichiometry="2" constant="true"/>
+          <speciesReference species="M_prpp_c" stoichiometry="1" constant="true"/>
+          <speciesReference species="M_quln_c" stoichiometry="1" constant="true"/>
+        </listOfReactants>
+        <listOfProducts>
+          <speciesReference species="M_co2_c" stoichiometry="1" constant="true"/>
+          <speciesReference species="M_nicrnt_c" stoichiometry="1" constant="true"/>
+          <speciesReference species="M_ppi_c" stoichiometry="1" constant="true"/>
+        </listOfProducts>
+        <fbc:geneProductAssociation>
+          <fbc:geneProductRef fbc:geneProduct="G_b0109"/>
+        </fbc:geneProductAssociation>
+      </reaction>
+      <reaction id="R_HCYSMT" fast="false" reversible="false" name="Homocysteine S-methyltransferase" metaid="R_HCYSMT" sboTerm="SBO:0000176" fbc:upperFluxBound="cobra_default_ub" fbc:lowerFluxBound="cobra_0_bound">
+        <sbml:annotation xmlns:sbml="http://www.sbml.org/sbml/level3/version1/core">
+          <rdf:RDF xmlns:rdf="http://www.w3.org/1999/02/22-rdf-syntax-ns#">
+            <rdf:Description rdf:about="#R_HCYSMT">
+              <bqbiol:is xmlns:bqbiol="http://biomodels.net/biology-qualifiers/">
+                <rdf:Bag>
+                  <rdf:li rdf:resource="http://identifiers.org/bigg.reaction/HCYSMT"/>
+                  <rdf:li rdf:resource="http://identifiers.org/biocyc/META:HOMOCYSTEINE-S-METHYLTRANSFERASE-RXN"/>
+                  <rdf:li rdf:resource="http://identifiers.org/ec-code/2.1.1.10"/>
+                  <rdf:li rdf:resource="http://identifiers.org/ec-code/2.1.1"/>
+                  <rdf:li rdf:resource="http://identifiers.org/kegg.reaction/R00650"/>
+                  <rdf:li rdf:resource="http://identifiers.org/metanetx.reaction/MNXR100577"/>
+                  <rdf:li rdf:resource="http://identifiers.org/rhea/21820"/>
+                  <rdf:li rdf:resource="http://identifiers.org/rhea/21823"/>
+                  <rdf:li rdf:resource="http://identifiers.org/rhea/21821"/>
+                  <rdf:li rdf:resource="http://identifiers.org/rhea/21822"/>
+                  <rdf:li rdf:resource="http://identifiers.org/sabiork/1035"/>
+                  <rdf:li rdf:resource="http://identifiers.org/seed.reaction/rxn00452"/>
+                </rdf:Bag>
+              </bqbiol:is>
+            </rdf:Description>
+          </rdf:RDF>
+        </sbml:annotation>
+        <listOfReactants>
+          <speciesReference species="M_amet_c" stoichiometry="1" constant="true"/>
+          <speciesReference species="M_hcys__L_c" stoichiometry="1" constant="true"/>
+        </listOfReactants>
+        <listOfProducts>
+          <speciesReference species="M_ahcys_c" stoichiometry="1" constant="true"/>
+          <speciesReference species="M_h_c" stoichiometry="1" constant="true"/>
+          <speciesReference species="M_met__L_c" stoichiometry="1" constant="true"/>
+        </listOfProducts>
+        <fbc:geneProductAssociation>
+          <fbc:geneProductRef fbc:geneProduct="G_b0261"/>
+        </fbc:geneProductAssociation>
+      </reaction>
+      <reaction id="R_EX_melib_e" fast="false" reversible="false" name="Melibiose exchange" metaid="R_EX_melib_e" sboTerm="SBO:0000627" fbc:upperFluxBound="cobra_default_ub" fbc:lowerFluxBound="cobra_0_bound">
+        <sbml:annotation xmlns:sbml="http://www.sbml.org/sbml/level3/version1/core">
+          <rdf:RDF xmlns:rdf="http://www.w3.org/1999/02/22-rdf-syntax-ns#">
+            <rdf:Description rdf:about="#R_EX_melib_e">
+              <bqbiol:is xmlns:bqbiol="http://biomodels.net/biology-qualifiers/">
+                <rdf:Bag>
+                  <rdf:li rdf:resource="http://identifiers.org/bigg.reaction/EX_melib_e"/>
+                  <rdf:li rdf:resource="http://identifiers.org/metanetx.reaction/MNXR138589"/>
+                </rdf:Bag>
+              </bqbiol:is>
+            </rdf:Description>
+          </rdf:RDF>
+        </sbml:annotation>
+        <listOfReactants>
+          <speciesReference species="M_melib_e" stoichiometry="1" constant="true"/>
+        </listOfReactants>
+      </reaction>
+      <reaction id="R_MACPD" fast="false" reversible="false" name="Malonyl-ACP decarboxylase" metaid="R_MACPD" sboTerm="SBO:0000176" fbc:upperFluxBound="cobra_default_ub" fbc:lowerFluxBound="cobra_0_bound">
+        <sbml:annotation xmlns:sbml="http://www.sbml.org/sbml/level3/version1/core">
+          <rdf:RDF xmlns:rdf="http://www.w3.org/1999/02/22-rdf-syntax-ns#">
+            <rdf:Description rdf:about="#R_MACPD">
+              <bqbiol:is xmlns:bqbiol="http://biomodels.net/biology-qualifiers/">
+                <rdf:Bag>
+                  <rdf:li rdf:resource="http://identifiers.org/bigg.reaction/MACPD"/>
+                  <rdf:li rdf:resource="http://identifiers.org/biocyc/META:MALONYL-ACPDECARBOX-RXN"/>
+                  <rdf:li rdf:resource="http://identifiers.org/ec-code/2.3.1"/>
+                  <rdf:li rdf:resource="http://identifiers.org/ec-code/4.1.1.87"/>
+                  <rdf:li rdf:resource="http://identifiers.org/kegg.reaction/R09482"/>
+                  <rdf:li rdf:resource="http://identifiers.org/metanetx.reaction/MNXR101327"/>
+                  <rdf:li rdf:resource="http://identifiers.org/seed.reaction/rxn08861"/>
+                </rdf:Bag>
+              </bqbiol:is>
+            </rdf:Description>
+          </rdf:RDF>
+        </sbml:annotation>
+        <listOfReactants>
+          <speciesReference species="M_h_c" stoichiometry="1" constant="true"/>
+          <speciesReference species="M_malACP_c" stoichiometry="1" constant="true"/>
+        </listOfReactants>
+        <listOfProducts>
+          <speciesReference species="M_acACP_c" stoichiometry="1" constant="true"/>
+          <speciesReference species="M_co2_c" stoichiometry="1" constant="true"/>
+        </listOfProducts>
+        <fbc:geneProductAssociation>
+          <fbc:geneProductRef fbc:geneProduct="G_b2323"/>
+        </fbc:geneProductAssociation>
+      </reaction>
+      <reaction id="R_DMQMT" fast="false" reversible="false" name="3-Dimethylubiquinonol 3-methyltransferase" metaid="R_DMQMT" sboTerm="SBO:0000176" fbc:upperFluxBound="cobra_default_ub" fbc:lowerFluxBound="cobra_0_bound">
+        <sbml:annotation xmlns:sbml="http://www.sbml.org/sbml/level3/version1/core">
+          <rdf:RDF xmlns:rdf="http://www.w3.org/1999/02/22-rdf-syntax-ns#">
+            <rdf:Description rdf:about="#R_DMQMT">
+              <bqbiol:is xmlns:bqbiol="http://biomodels.net/biology-qualifiers/">
+                <rdf:Bag>
+                  <rdf:li rdf:resource="http://identifiers.org/bigg.reaction/DMQMT"/>
+                  <rdf:li rdf:resource="http://identifiers.org/biocyc/META:DHHB-METHYLTRANSFER-RXN"/>
+                  <rdf:li rdf:resource="http://identifiers.org/ec-code/2.1.1.64"/>
+                  <rdf:li rdf:resource="http://identifiers.org/metanetx.reaction/MNXR97527"/>
+                  <rdf:li rdf:resource="http://identifiers.org/rhea/28682"/>
+                  <rdf:li rdf:resource="http://identifiers.org/rhea/28680"/>
+                  <rdf:li rdf:resource="http://identifiers.org/rhea/28679"/>
+                  <rdf:li rdf:resource="http://identifiers.org/rhea/28681"/>
+                  <rdf:li rdf:resource="http://identifiers.org/seed.reaction/rxn08353"/>
+                </rdf:Bag>
+              </bqbiol:is>
+            </rdf:Description>
+          </rdf:RDF>
+        </sbml:annotation>
+        <listOfReactants>
+          <speciesReference species="M_2omhmbl_c" stoichiometry="1" constant="true"/>
+          <speciesReference species="M_amet_c" stoichiometry="1" constant="true"/>
+        </listOfReactants>
+        <listOfProducts>
+          <speciesReference species="M_ahcys_c" stoichiometry="1" constant="true"/>
+          <speciesReference species="M_h_c" stoichiometry="1" constant="true"/>
+          <speciesReference species="M_q8h2_c" stoichiometry="1" constant="true"/>
+        </listOfProducts>
+        <fbc:geneProductAssociation>
+          <fbc:geneProductRef fbc:geneProduct="G_b2232"/>
+        </fbc:geneProductAssociation>
+      </reaction>
+      <reaction id="R_UDPG4E" fast="false" reversible="true" name="UDPglucose 4-epimerase" metaid="R_UDPG4E" sboTerm="SBO:0000176" fbc:upperFluxBound="cobra_default_ub" fbc:lowerFluxBound="cobra_default_lb">
+        <sbml:annotation xmlns:sbml="http://www.sbml.org/sbml/level3/version1/core">
+          <rdf:RDF xmlns:rdf="http://www.w3.org/1999/02/22-rdf-syntax-ns#">
+            <rdf:Description rdf:about="#R_UDPG4E">
+              <bqbiol:is xmlns:bqbiol="http://biomodels.net/biology-qualifiers/">
+                <rdf:Bag>
+                  <rdf:li rdf:resource="http://identifiers.org/bigg.reaction/UDPG4E"/>
+                  <rdf:li rdf:resource="http://identifiers.org/biocyc/META:UDPGLUCEPIM-RXN"/>
+                  <rdf:li rdf:resource="http://identifiers.org/ec-code/5.1.3.2"/>
+                  <rdf:li rdf:resource="http://identifiers.org/kegg.reaction/R00291"/>
+                  <rdf:li rdf:resource="http://identifiers.org/metanetx.reaction/MNXR143428"/>
+                  <rdf:li rdf:resource="http://identifiers.org/reactome.reaction/R-CEL-70369"/>
+                  <rdf:li rdf:resource="http://identifiers.org/reactome.reaction/R-SSC-70369"/>
+                  <rdf:li rdf:resource="http://identifiers.org/reactome.reaction/R-ATH-70369"/>
+                  <rdf:li rdf:resource="http://identifiers.org/reactome.reaction/R-TGU-70369"/>
+                  <rdf:li rdf:resource="http://identifiers.org/reactome.reaction/R-HSA-70369"/>
+                  <rdf:li rdf:resource="http://identifiers.org/reactome.reaction/R-DRE-70369"/>
+                  <rdf:li rdf:resource="http://identifiers.org/reactome.reaction/R-RNO-70369"/>
+                  <rdf:li rdf:resource="http://identifiers.org/reactome.reaction/R-DDI-70369"/>
+                  <rdf:li rdf:resource="http://identifiers.org/reactome.reaction/R-BTA-70369"/>
+                  <rdf:li rdf:resource="http://identifiers.org/reactome.reaction/R-SCE-70369"/>
+                  <rdf:li rdf:resource="http://identifiers.org/reactome.reaction/R-DME-70369"/>
+                  <rdf:li rdf:resource="http://identifiers.org/reactome.reaction/R-SPO-70369"/>
+                  <rdf:li rdf:resource="http://identifiers.org/reactome.reaction/R-CFA-70369"/>
+                  <rdf:li rdf:resource="http://identifiers.org/reactome.reaction/R-MMU-70369"/>
+                  <rdf:li rdf:resource="http://identifiers.org/reactome.reaction/R-GGA-70369"/>
+                  <rdf:li rdf:resource="http://identifiers.org/reactome.reaction/R-XTR-70369"/>
+                  <rdf:li rdf:resource="http://identifiers.org/reactome.reaction/R-OSA-70369"/>
+                  <rdf:li rdf:resource="http://identifiers.org/rhea/22170"/>
+                  <rdf:li rdf:resource="http://identifiers.org/rhea/22168"/>
+                  <rdf:li rdf:resource="http://identifiers.org/rhea/22169"/>
+                  <rdf:li rdf:resource="http://identifiers.org/rhea/22171"/>
+                  <rdf:li rdf:resource="http://identifiers.org/sabiork/70"/>
+                  <rdf:li rdf:resource="http://identifiers.org/sabiork/8974"/>
+                  <rdf:li rdf:resource="http://identifiers.org/seed.reaction/rxn00214"/>
+                </rdf:Bag>
+              </bqbiol:is>
+            </rdf:Description>
+          </rdf:RDF>
+        </sbml:annotation>
+        <listOfReactants>
+          <speciesReference species="M_udpg_c" stoichiometry="1" constant="true"/>
+        </listOfReactants>
+        <listOfProducts>
+          <speciesReference species="M_udpgal_c" stoichiometry="1" constant="true"/>
+        </listOfProducts>
+        <fbc:geneProductAssociation>
+          <fbc:geneProductRef fbc:geneProduct="G_b0759"/>
+        </fbc:geneProductAssociation>
+      </reaction>
+      <reaction id="R_LACZ" fast="false" reversible="false" name="B-galactosidase" metaid="R_LACZ" sboTerm="SBO:0000176" fbc:upperFluxBound="cobra_default_ub" fbc:lowerFluxBound="cobra_0_bound">
+        <sbml:annotation xmlns:sbml="http://www.sbml.org/sbml/level3/version1/core">
+          <rdf:RDF xmlns:rdf="http://www.w3.org/1999/02/22-rdf-syntax-ns#">
+            <rdf:Description rdf:about="#R_LACZ">
+              <bqbiol:is xmlns:bqbiol="http://biomodels.net/biology-qualifiers/">
+                <rdf:Bag>
+                  <rdf:li rdf:resource="http://identifiers.org/bigg.reaction/LACZ"/>
+                  <rdf:li rdf:resource="http://identifiers.org/ec-code/3.2.1.23"/>
+                  <rdf:li rdf:resource="http://identifiers.org/ec-code/3.2.1.108"/>
+                  <rdf:li rdf:resource="http://identifiers.org/kegg.reaction/R06114"/>
+                  <rdf:li rdf:resource="http://identifiers.org/kegg.reaction/R01100"/>
+                  <rdf:li rdf:resource="http://identifiers.org/metanetx.reaction/MNXR101000"/>
+                  <rdf:li rdf:resource="http://identifiers.org/rhea/10077"/>
+                  <rdf:li rdf:resource="http://identifiers.org/rhea/10078"/>
+                  <rdf:li rdf:resource="http://identifiers.org/rhea/10076"/>
+                  <rdf:li rdf:resource="http://identifiers.org/rhea/10079"/>
+                  <rdf:li rdf:resource="http://identifiers.org/sabiork/9724"/>
+                  <rdf:li rdf:resource="http://identifiers.org/seed.reaction/rxn00816"/>
+                  <rdf:li rdf:resource="http://identifiers.org/seed.reaction/rxn11244"/>
+                </rdf:Bag>
+              </bqbiol:is>
+            </rdf:Description>
+          </rdf:RDF>
+        </sbml:annotation>
+        <listOfReactants>
+          <speciesReference species="M_h2o_c" stoichiometry="1" constant="true"/>
+          <speciesReference species="M_lcts_c" stoichiometry="1" constant="true"/>
+        </listOfReactants>
+        <listOfProducts>
+          <speciesReference species="M_gal_c" stoichiometry="1" constant="true"/>
+          <speciesReference species="M_glc__D_c" stoichiometry="1" constant="true"/>
+        </listOfProducts>
+        <fbc:geneProductAssociation>
+          <fbc:geneProductRef fbc:geneProduct="G_b0344"/>
+        </fbc:geneProductAssociation>
+      </reaction>
+      <reaction id="R_TRE6PH" fast="false" reversible="false" name="Trehalose-6-phosphate hydrolase" metaid="R_TRE6PH" sboTerm="SBO:0000176" fbc:upperFluxBound="cobra_default_ub" fbc:lowerFluxBound="cobra_0_bound">
+        <sbml:annotation xmlns:sbml="http://www.sbml.org/sbml/level3/version1/core">
+          <rdf:RDF xmlns:rdf="http://www.w3.org/1999/02/22-rdf-syntax-ns#">
+            <rdf:Description rdf:about="#R_TRE6PH">
+              <bqbiol:is xmlns:bqbiol="http://biomodels.net/biology-qualifiers/">
+                <rdf:Bag>
+                  <rdf:li rdf:resource="http://identifiers.org/bigg.reaction/TRE6PH"/>
+                  <rdf:li rdf:resource="http://identifiers.org/biocyc/META:TRE6PHYDRO-RXN"/>
+                  <rdf:li rdf:resource="http://identifiers.org/ec-code/3.2.1.93"/>
+                  <rdf:li rdf:resource="http://identifiers.org/ec-code/3.2.1.122"/>
+                  <rdf:li rdf:resource="http://identifiers.org/kegg.reaction/R06113"/>
+                  <rdf:li rdf:resource="http://identifiers.org/kegg.reaction/R00837"/>
+                  <rdf:li rdf:resource="http://identifiers.org/metanetx.reaction/MNXR104925"/>
+                  <rdf:li rdf:resource="http://identifiers.org/rhea/23009"/>
+                  <rdf:li rdf:resource="http://identifiers.org/rhea/23010"/>
+                  <rdf:li rdf:resource="http://identifiers.org/rhea/23008"/>
+                  <rdf:li rdf:resource="http://identifiers.org/rhea/23011"/>
+                  <rdf:li rdf:resource="http://identifiers.org/sabiork/1178"/>
+                  <rdf:li rdf:resource="http://identifiers.org/seed.reaction/rxn00606"/>
+                </rdf:Bag>
+              </bqbiol:is>
+            </rdf:Description>
+          </rdf:RDF>
+        </sbml:annotation>
+        <listOfReactants>
+          <speciesReference species="M_h2o_c" stoichiometry="1" constant="true"/>
+          <speciesReference species="M_tre6p_c" stoichiometry="1" constant="true"/>
+        </listOfReactants>
+        <listOfProducts>
+          <speciesReference species="M_g6p_c" stoichiometry="1" constant="true"/>
+          <speciesReference species="M_glc__D_c" stoichiometry="1" constant="true"/>
+        </listOfProducts>
+        <fbc:geneProductAssociation>
+          <fbc:geneProductRef fbc:geneProduct="G_b4239"/>
+        </fbc:geneProductAssociation>
+      </reaction>
+      <reaction id="R_XYLI1" fast="false" reversible="true" name="Xylose isomerase" metaid="R_XYLI1" sboTerm="SBO:0000176" fbc:upperFluxBound="cobra_default_ub" fbc:lowerFluxBound="cobra_default_lb">
+        <sbml:annotation xmlns:sbml="http://www.sbml.org/sbml/level3/version1/core">
+          <rdf:RDF xmlns:rdf="http://www.w3.org/1999/02/22-rdf-syntax-ns#">
+            <rdf:Description rdf:about="#R_XYLI1">
+              <bqbiol:is xmlns:bqbiol="http://biomodels.net/biology-qualifiers/">
+                <rdf:Bag>
+                  <rdf:li rdf:resource="http://identifiers.org/bigg.reaction/XYLI1"/>
+                  <rdf:li rdf:resource="http://identifiers.org/biocyc/META:XYLISOM-RXN"/>
+                  <rdf:li rdf:resource="http://identifiers.org/ec-code/5.3.1.5"/>
+                  <rdf:li rdf:resource="http://identifiers.org/kegg.reaction/R01432"/>
+                  <rdf:li rdf:resource="http://identifiers.org/metanetx.reaction/MNXR105253"/>
+                  <rdf:li rdf:resource="http://identifiers.org/rhea/22818"/>
+                  <rdf:li rdf:resource="http://identifiers.org/rhea/22816"/>
+                  <rdf:li rdf:resource="http://identifiers.org/rhea/22819"/>
+                  <rdf:li rdf:resource="http://identifiers.org/rhea/22817"/>
+                  <rdf:li rdf:resource="http://identifiers.org/seed.reaction/rxn01044"/>
+                </rdf:Bag>
+              </bqbiol:is>
+            </rdf:Description>
+          </rdf:RDF>
+        </sbml:annotation>
+        <listOfReactants>
+          <speciesReference species="M_xyl__D_c" stoichiometry="1" constant="true"/>
+        </listOfReactants>
+        <listOfProducts>
+          <speciesReference species="M_xylu__D_c" stoichiometry="1" constant="true"/>
+        </listOfProducts>
+        <fbc:geneProductAssociation>
+          <fbc:geneProductRef fbc:geneProduct="G_b3565"/>
+        </fbc:geneProductAssociation>
+      </reaction>
+      <reaction id="R_PPC" fast="false" reversible="false" name="Phosphoenolpyruvate carboxylase" metaid="R_PPC" sboTerm="SBO:0000176" fbc:upperFluxBound="cobra_default_ub" fbc:lowerFluxBound="cobra_0_bound">
+        <sbml:annotation xmlns:sbml="http://www.sbml.org/sbml/level3/version1/core">
+          <rdf:RDF xmlns:rdf="http://www.w3.org/1999/02/22-rdf-syntax-ns#">
+            <rdf:Description rdf:about="#R_PPC">
+              <bqbiol:is xmlns:bqbiol="http://biomodels.net/biology-qualifiers/">
+                <rdf:Bag>
+                  <rdf:li rdf:resource="http://identifiers.org/bigg.reaction/PPC"/>
+                  <rdf:li rdf:resource="http://identifiers.org/ec-code/4.1.1.31"/>
+                  <rdf:li rdf:resource="http://identifiers.org/kegg.reaction/R00345"/>
+                  <rdf:li rdf:resource="http://identifiers.org/metanetx.reaction/MNXR103096"/>
+                  <rdf:li rdf:resource="http://identifiers.org/rhea/23073"/>
+                  <rdf:li rdf:resource="http://identifiers.org/rhea/23072"/>
+                  <rdf:li rdf:resource="http://identifiers.org/rhea/23075"/>
+                  <rdf:li rdf:resource="http://identifiers.org/rhea/23074"/>
+                  <rdf:li rdf:resource="http://identifiers.org/sabiork/150"/>
+                  <rdf:li rdf:resource="http://identifiers.org/seed.reaction/rxn00251"/>
+                </rdf:Bag>
+              </bqbiol:is>
+            </rdf:Description>
+          </rdf:RDF>
+        </sbml:annotation>
+        <listOfReactants>
+          <speciesReference species="M_co2_c" stoichiometry="1" constant="true"/>
+          <speciesReference species="M_h2o_c" stoichiometry="1" constant="true"/>
+          <speciesReference species="M_pep_c" stoichiometry="1" constant="true"/>
+        </listOfReactants>
+        <listOfProducts>
+          <speciesReference species="M_h_c" stoichiometry="1" constant="true"/>
+          <speciesReference species="M_oaa_c" stoichiometry="1" constant="true"/>
+          <speciesReference species="M_pi_c" stoichiometry="1" constant="true"/>
+        </listOfProducts>
+        <fbc:geneProductAssociation>
+          <fbc:geneProductRef fbc:geneProduct="G_b3956"/>
+        </fbc:geneProductAssociation>
+      </reaction>
+      <reaction id="R_ICHORS_copy1" fast="false" reversible="false" name="Isochorismate synthase" metaid="R_ICHORS_copy1" sboTerm="SBO:0000176" fbc:upperFluxBound="cobra_default_ub" fbc:lowerFluxBound="cobra_0_bound">
+        <sbml:annotation xmlns:sbml="http://www.sbml.org/sbml/level3/version1/core">
+          <rdf:RDF xmlns:rdf="http://www.w3.org/1999/02/22-rdf-syntax-ns#">
+            <rdf:Description rdf:about="#R_ICHORS_copy1">
+              <bqbiol:is xmlns:bqbiol="http://biomodels.net/biology-qualifiers/">
+                <rdf:Bag>
+                  <rdf:li rdf:resource="http://identifiers.org/bigg.reaction/ICHORS"/>
+                  <rdf:li rdf:resource="http://identifiers.org/biocyc/META:ISOCHORSYN-RXN"/>
+                  <rdf:li rdf:resource="http://identifiers.org/ec-code/5.4.4.2"/>
+                  <rdf:li rdf:resource="http://identifiers.org/kegg.reaction/R01717"/>
+                  <rdf:li rdf:resource="http://identifiers.org/metanetx.reaction/MNXR100784"/>
+                  <rdf:li rdf:resource="http://identifiers.org/rhea/18986"/>
+                  <rdf:li rdf:resource="http://identifiers.org/rhea/18985"/>
+                  <rdf:li rdf:resource="http://identifiers.org/rhea/18988"/>
+                  <rdf:li rdf:resource="http://identifiers.org/rhea/18987"/>
+                  <rdf:li rdf:resource="http://identifiers.org/sabiork/1829"/>
+                  <rdf:li rdf:resource="http://identifiers.org/seed.reaction/rxn01258"/>
+                </rdf:Bag>
+              </bqbiol:is>
+            </rdf:Description>
+          </rdf:RDF>
+        </sbml:annotation>
+        <listOfReactants>
+          <speciesReference species="M_chor_c" stoichiometry="1" constant="true"/>
+        </listOfReactants>
+        <listOfProducts>
+          <speciesReference species="M_ichor_c" stoichiometry="1" constant="true"/>
+        </listOfProducts>
+        <fbc:geneProductAssociation>
+          <fbc:geneProductRef fbc:geneProduct="G_b0593"/>
+        </fbc:geneProductAssociation>
+      </reaction>
+      <reaction id="R_EX_sucr_e" fast="false" reversible="false" name="Sucrose exchange" metaid="R_EX_sucr_e" sboTerm="SBO:0000627" fbc:upperFluxBound="cobra_default_ub" fbc:lowerFluxBound="cobra_0_bound">
+        <sbml:annotation xmlns:sbml="http://www.sbml.org/sbml/level3/version1/core">
+          <rdf:RDF xmlns:rdf="http://www.w3.org/1999/02/22-rdf-syntax-ns#">
+            <rdf:Description rdf:about="#R_EX_sucr_e">
+              <bqbiol:is xmlns:bqbiol="http://biomodels.net/biology-qualifiers/">
+                <rdf:Bag>
+                  <rdf:li rdf:resource="http://identifiers.org/bigg.reaction/EX_sucr_e"/>
+                  <rdf:li rdf:resource="http://identifiers.org/metanetx.reaction/MNXR104641"/>
+                  <rdf:li rdf:resource="http://identifiers.org/sabiork/13123"/>
+                  <rdf:li rdf:resource="http://identifiers.org/seed.reaction/rxn09275"/>
+                </rdf:Bag>
+              </bqbiol:is>
+            </rdf:Description>
+          </rdf:RDF>
+        </sbml:annotation>
+        <listOfReactants>
+          <speciesReference species="M_sucr_e" stoichiometry="1" constant="true"/>
+        </listOfReactants>
+      </reaction>
+      <reaction id="R_ALDD4" fast="false" reversible="false" name="Aldehyde dehydrogenase (butanal, NAD)" metaid="R_ALDD4" sboTerm="SBO:0000176" fbc:upperFluxBound="cobra_default_ub" fbc:lowerFluxBound="cobra_0_bound">
+        <sbml:annotation xmlns:sbml="http://www.sbml.org/sbml/level3/version1/core">
+          <rdf:RDF xmlns:rdf="http://www.w3.org/1999/02/22-rdf-syntax-ns#">
+            <rdf:Description rdf:about="#R_ALDD4">
+              <bqbiol:is xmlns:bqbiol="http://biomodels.net/biology-qualifiers/">
+                <rdf:Bag>
+                  <rdf:li rdf:resource="http://identifiers.org/bigg.reaction/ALDD4"/>
+                  <rdf:li rdf:resource="http://identifiers.org/metanetx.reaction/MNXR95755"/>
+                </rdf:Bag>
+              </bqbiol:is>
+            </rdf:Description>
+          </rdf:RDF>
+        </sbml:annotation>
+        <listOfReactants>
+          <speciesReference species="M_btal_c" stoichiometry="1" constant="true"/>
+          <speciesReference species="M_h2o_c" stoichiometry="1" constant="true"/>
+          <speciesReference species="M_nad_c" stoichiometry="1" constant="true"/>
+        </listOfReactants>
+        <listOfProducts>
+          <speciesReference species="M_but_c" stoichiometry="1" constant="true"/>
+          <speciesReference species="M_h_c" stoichiometry="2" constant="true"/>
+          <speciesReference species="M_nadh_c" stoichiometry="1" constant="true"/>
+        </listOfProducts>
+      </reaction>
+      <reaction id="R_HACD4" fast="false" reversible="true" name="3-hydroxyacyl-CoA dehydrogenase (3-oxodecanoyl-CoA)" metaid="R_HACD4" sboTerm="SBO:0000176" fbc:upperFluxBound="cobra_default_ub" fbc:lowerFluxBound="cobra_default_lb">
+        <sbml:annotation xmlns:sbml="http://www.sbml.org/sbml/level3/version1/core">
+          <rdf:RDF xmlns:rdf="http://www.w3.org/1999/02/22-rdf-syntax-ns#">
+            <rdf:Description rdf:about="#R_HACD4">
+              <bqbiol:is xmlns:bqbiol="http://biomodels.net/biology-qualifiers/">
+                <rdf:Bag>
+                  <rdf:li rdf:resource="http://identifiers.org/bigg.reaction/HACD4"/>
+                  <rdf:li rdf:resource="http://identifiers.org/biocyc/META:RXN-12490"/>
+                  <rdf:li rdf:resource="http://identifiers.org/ec-code/1.1.1.35"/>
+                  <rdf:li rdf:resource="http://identifiers.org/ec-code/1.1.1.211"/>
+                  <rdf:li rdf:resource="http://identifiers.org/kegg.reaction/R04743"/>
+                  <rdf:li rdf:resource="http://identifiers.org/metanetx.reaction/MNXR100545"/>
+                  <rdf:li rdf:resource="http://identifiers.org/reactome.reaction/R-BTA-77342"/>
+                  <rdf:li rdf:resource="http://identifiers.org/reactome.reaction/R-OSA-77342"/>
+                  <rdf:li rdf:resource="http://identifiers.org/reactome.reaction/R-ATH-77342"/>
+                  <rdf:li rdf:resource="http://identifiers.org/reactome.reaction/R-MMU-77342"/>
+                  <rdf:li rdf:resource="http://identifiers.org/reactome.reaction/R-CEL-77342"/>
+                  <rdf:li rdf:resource="http://identifiers.org/reactome.reaction/R-XTR-77342"/>
+                  <rdf:li rdf:resource="http://identifiers.org/reactome.reaction/R-SSC-77342"/>
+                  <rdf:li rdf:resource="http://identifiers.org/reactome.reaction/R-TGU-77342"/>
+                  <rdf:li rdf:resource="http://identifiers.org/reactome.reaction/R-CFA-77342"/>
+                  <rdf:li rdf:resource="http://identifiers.org/reactome.reaction/R-DRE-77342"/>
+                  <rdf:li rdf:resource="http://identifiers.org/reactome.reaction/R-GGA-77342"/>
+                  <rdf:li rdf:resource="http://identifiers.org/reactome.reaction/R-RNO-77342"/>
+                  <rdf:li rdf:resource="http://identifiers.org/reactome.reaction/R-HSA-77342"/>
+                  <rdf:li rdf:resource="http://identifiers.org/reactome.reaction/R-DDI-77342"/>
+                  <rdf:li rdf:resource="http://identifiers.org/rhea/31190"/>
+                  <rdf:li rdf:resource="http://identifiers.org/rhea/31187"/>
+                  <rdf:li rdf:resource="http://identifiers.org/rhea/31189"/>
+                  <rdf:li rdf:resource="http://identifiers.org/rhea/31188"/>
+                  <rdf:li rdf:resource="http://identifiers.org/sabiork/4399"/>
+                  <rdf:li rdf:resource="http://identifiers.org/seed.reaction/rxn03244"/>
+                </rdf:Bag>
+              </bqbiol:is>
+            </rdf:Description>
+          </rdf:RDF>
+        </sbml:annotation>
+        <listOfReactants>
+          <speciesReference species="M_3odcoa_c" stoichiometry="1" constant="true"/>
+          <speciesReference species="M_h_c" stoichiometry="1" constant="true"/>
+          <speciesReference species="M_nadh_c" stoichiometry="1" constant="true"/>
+        </listOfReactants>
+        <listOfProducts>
+          <speciesReference species="M_3hdcoa_c" stoichiometry="1" constant="true"/>
+          <speciesReference species="M_nad_c" stoichiometry="1" constant="true"/>
+        </listOfProducts>
+        <fbc:geneProductAssociation>
+          <fbc:or>
+            <fbc:geneProductRef fbc:geneProduct="G_b3846"/>
+            <fbc:geneProductRef fbc:geneProduct="G_b2341"/>
+          </fbc:or>
+        </fbc:geneProductAssociation>
+      </reaction>
+      <reaction id="R_G3PT" fast="false" reversible="false" name="Glycerol-3-phosphatase" metaid="R_G3PT" sboTerm="SBO:0000176" fbc:upperFluxBound="cobra_default_ub" fbc:lowerFluxBound="cobra_0_bound">
+        <sbml:annotation xmlns:sbml="http://www.sbml.org/sbml/level3/version1/core">
+          <rdf:RDF xmlns:rdf="http://www.w3.org/1999/02/22-rdf-syntax-ns#">
+            <rdf:Description rdf:about="#R_G3PT">
+              <bqbiol:is xmlns:bqbiol="http://biomodels.net/biology-qualifiers/">
+                <rdf:Bag>
+                  <rdf:li rdf:resource="http://identifiers.org/bigg.reaction/G3PT"/>
+                  <rdf:li rdf:resource="http://identifiers.org/biocyc/META:RXN-14965"/>
+                  <rdf:li rdf:resource="http://identifiers.org/ec-code/3.1.3.2"/>
+                  <rdf:li rdf:resource="http://identifiers.org/ec-code/3.1.3.21"/>
+                  <rdf:li rdf:resource="http://identifiers.org/kegg.reaction/R00841"/>
+                  <rdf:li rdf:resource="http://identifiers.org/metanetx.reaction/MNXR99894"/>
+                  <rdf:li rdf:resource="http://identifiers.org/sabiork/1182"/>
+                  <rdf:li rdf:resource="http://identifiers.org/seed.reaction/rxn00610"/>
+                </rdf:Bag>
+              </bqbiol:is>
+            </rdf:Description>
+          </rdf:RDF>
+        </sbml:annotation>
+        <listOfReactants>
+          <speciesReference species="M_glyc3p_c" stoichiometry="1" constant="true"/>
+          <speciesReference species="M_h2o_c" stoichiometry="1" constant="true"/>
+        </listOfReactants>
+        <listOfProducts>
+          <speciesReference species="M_glyc_c" stoichiometry="1" constant="true"/>
+          <speciesReference species="M_pi_c" stoichiometry="1" constant="true"/>
+        </listOfProducts>
+        <fbc:geneProductAssociation>
+          <fbc:or>
+            <fbc:geneProductRef fbc:geneProduct="G_b0822"/>
+            <fbc:geneProductRef fbc:geneProduct="G_b0675"/>
+          </fbc:or>
+        </fbc:geneProductAssociation>
+      </reaction>
+      <reaction id="R_CINNDO" fast="false" reversible="false" name="Cinnamate dioxygenase" metaid="R_CINNDO" sboTerm="SBO:0000176" fbc:upperFluxBound="cobra_default_ub" fbc:lowerFluxBound="cobra_0_bound">
+        <sbml:annotation xmlns:sbml="http://www.sbml.org/sbml/level3/version1/core">
+          <rdf:RDF xmlns:rdf="http://www.w3.org/1999/02/22-rdf-syntax-ns#">
+            <rdf:Description rdf:about="#R_CINNDO">
+              <bqbiol:is xmlns:bqbiol="http://biomodels.net/biology-qualifiers/">
+                <rdf:Bag>
+                  <rdf:li rdf:resource="http://identifiers.org/bigg.reaction/CINNDO"/>
+                  <rdf:li rdf:resource="http://identifiers.org/ec-code/1.14.12.19"/>
+                  <rdf:li rdf:resource="http://identifiers.org/kegg.reaction/R06783"/>
+                  <rdf:li rdf:resource="http://identifiers.org/metanetx.reaction/MNXR96722"/>
+                  <rdf:li rdf:resource="http://identifiers.org/rhea/25060"/>
+                  <rdf:li rdf:resource="http://identifiers.org/rhea/25058"/>
+                  <rdf:li rdf:resource="http://identifiers.org/rhea/25059"/>
+                  <rdf:li rdf:resource="http://identifiers.org/rhea/25061"/>
+                  <rdf:li rdf:resource="http://identifiers.org/seed.reaction/rxn04598"/>
+                </rdf:Bag>
+              </bqbiol:is>
+            </rdf:Description>
+          </rdf:RDF>
+        </sbml:annotation>
+        <listOfReactants>
+          <speciesReference species="M_cinnm_c" stoichiometry="1" constant="true"/>
+          <speciesReference species="M_h_c" stoichiometry="1" constant="true"/>
+          <speciesReference species="M_nadh_c" stoichiometry="1" constant="true"/>
+          <speciesReference species="M_o2_c" stoichiometry="1" constant="true"/>
+        </listOfReactants>
+        <listOfProducts>
+          <speciesReference species="M_cenchddd_c" stoichiometry="1" constant="true"/>
+          <speciesReference species="M_nad_c" stoichiometry="1" constant="true"/>
+        </listOfProducts>
+        <fbc:geneProductAssociation>
+          <fbc:and>
+            <fbc:geneProductRef fbc:geneProduct="G_b2542"/>
+            <fbc:geneProductRef fbc:geneProduct="G_b2538"/>
+            <fbc:geneProductRef fbc:geneProduct="G_b2540"/>
+            <fbc:geneProductRef fbc:geneProduct="G_b2539"/>
+          </fbc:and>
+        </fbc:geneProductAssociation>
+      </reaction>
+      <reaction id="R_DHPPD" fast="false" reversible="false" name="2,3-dihydroxyphenylpropionate dehydrogenase" metaid="R_DHPPD" sboTerm="SBO:0000176" fbc:upperFluxBound="cobra_default_ub" fbc:lowerFluxBound="cobra_0_bound">
+        <sbml:annotation xmlns:sbml="http://www.sbml.org/sbml/level3/version1/core">
+          <rdf:RDF xmlns:rdf="http://www.w3.org/1999/02/22-rdf-syntax-ns#">
+            <rdf:Description rdf:about="#R_DHPPD">
+              <bqbiol:is xmlns:bqbiol="http://biomodels.net/biology-qualifiers/">
+                <rdf:Bag>
+                  <rdf:li rdf:resource="http://identifiers.org/bigg.reaction/DHPPD"/>
+                  <rdf:li rdf:resource="http://identifiers.org/biocyc/META:PHENPRODIOLDEHYDROG-RXN"/>
+                  <rdf:li rdf:resource="http://identifiers.org/ec-code/1.3.1.87"/>
+                  <rdf:li rdf:resource="http://identifiers.org/metanetx.reaction/MNXR97434"/>
+                  <rdf:li rdf:resource="http://identifiers.org/rhea/25065"/>
+                  <rdf:li rdf:resource="http://identifiers.org/rhea/25062"/>
+                  <rdf:li rdf:resource="http://identifiers.org/rhea/25063"/>
+                  <rdf:li rdf:resource="http://identifiers.org/rhea/25064"/>
+                </rdf:Bag>
+              </bqbiol:is>
+            </rdf:Description>
+          </rdf:RDF>
+        </sbml:annotation>
+        <listOfReactants>
+          <speciesReference species="M_cechddd_c" stoichiometry="1" constant="true"/>
+          <speciesReference species="M_nad_c" stoichiometry="1" constant="true"/>
+        </listOfReactants>
+        <listOfProducts>
+          <speciesReference species="M_dhpppn_c" stoichiometry="1" constant="true"/>
+          <speciesReference species="M_h_c" stoichiometry="1" constant="true"/>
+          <speciesReference species="M_nadh_c" stoichiometry="1" constant="true"/>
+        </listOfProducts>
+        <fbc:geneProductAssociation>
+          <fbc:geneProductRef fbc:geneProduct="G_b2541"/>
+        </fbc:geneProductAssociation>
+      </reaction>
+      <reaction id="R_EX_tre_e" fast="false" reversible="false" name="Trehalose exchange" metaid="R_EX_tre_e" sboTerm="SBO:0000627" fbc:upperFluxBound="cobra_default_ub" fbc:lowerFluxBound="cobra_0_bound">
+        <sbml:annotation xmlns:sbml="http://www.sbml.org/sbml/level3/version1/core">
+          <rdf:RDF xmlns:rdf="http://www.w3.org/1999/02/22-rdf-syntax-ns#">
+            <rdf:Description rdf:about="#R_EX_tre_e">
+              <bqbiol:is xmlns:bqbiol="http://biomodels.net/biology-qualifiers/">
+                <rdf:Bag>
+                  <rdf:li rdf:resource="http://identifiers.org/bigg.reaction/EX_tre_e"/>
+                  <rdf:li rdf:resource="http://identifiers.org/metanetx.reaction/MNXR104933"/>
+                  <rdf:li rdf:resource="http://identifiers.org/rhea/17631"/>
+                  <rdf:li rdf:resource="http://identifiers.org/rhea/17632"/>
+                  <rdf:li rdf:resource="http://identifiers.org/rhea/17630"/>
+                  <rdf:li rdf:resource="http://identifiers.org/rhea/17629"/>
+                  <rdf:li rdf:resource="http://identifiers.org/seed.reaction/rxn09323"/>
+                </rdf:Bag>
+              </bqbiol:is>
+            </rdf:Description>
+          </rdf:RDF>
+        </sbml:annotation>
+        <listOfReactants>
+          <speciesReference species="M_tre_e" stoichiometry="1" constant="true"/>
+        </listOfReactants>
+      </reaction>
+      <reaction id="R_EX_zn2_e" fast="false" reversible="true" name="Zinc exchange" metaid="R_EX_zn2_e" sboTerm="SBO:0000627" fbc:upperFluxBound="cobra_default_ub" fbc:lowerFluxBound="cobra_default_lb">
+        <sbml:annotation xmlns:sbml="http://www.sbml.org/sbml/level3/version1/core">
+          <rdf:RDF xmlns:rdf="http://www.w3.org/1999/02/22-rdf-syntax-ns#">
+            <rdf:Description rdf:about="#R_EX_zn2_e">
+              <bqbiol:is xmlns:bqbiol="http://biomodels.net/biology-qualifiers/">
+                <rdf:Bag>
+                  <rdf:li rdf:resource="http://identifiers.org/bigg.reaction/EX_zn2_e"/>
+                  <rdf:li rdf:resource="http://identifiers.org/biocyc/META:RXN0-12"/>
+                  <rdf:li rdf:resource="http://identifiers.org/metanetx.reaction/MNXR105280"/>
+                  <rdf:li rdf:resource="http://identifiers.org/reactome.reaction/R-RNO-442359"/>
+                  <rdf:li rdf:resource="http://identifiers.org/reactome.reaction/R-TGU-437085"/>
+                  <rdf:li rdf:resource="http://identifiers.org/reactome.reaction/R-TGU-437139"/>
+                  <rdf:li rdf:resource="http://identifiers.org/reactome.reaction/R-DRE-442393"/>
+                  <rdf:li rdf:resource="http://identifiers.org/reactome.reaction/R-HSA-437084"/>
+                  <rdf:li rdf:resource="http://identifiers.org/reactome.reaction/R-PFA-437136"/>
+                  <rdf:li rdf:resource="http://identifiers.org/reactome.reaction/R-CFA-442422"/>
+                  <rdf:li rdf:resource="http://identifiers.org/reactome.reaction/R-BTA-437139"/>
+                  <rdf:li rdf:resource="http://identifiers.org/reactome.reaction/R-SSC-442393"/>
+                  <rdf:li rdf:resource="http://identifiers.org/reactome.reaction/R-HSA-437129"/>
+                  <rdf:li rdf:resource="http://identifiers.org/reactome.reaction/R-XTR-435366"/>
+                  <rdf:li rdf:resource="http://identifiers.org/reactome.reaction/R-RNO-442422"/>
+                  <rdf:li rdf:resource="http://identifiers.org/reactome.reaction/R-RNO-437136"/>
+                  <rdf:li rdf:resource="http://identifiers.org/reactome.reaction/R-SCE-437085"/>
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+            <fbc:and>
+              <fbc:geneProductRef fbc:geneProduct="G_b0617"/>
+              <fbc:geneProductRef fbc:geneProduct="G_b0616"/>
+              <fbc:geneProductRef fbc:geneProduct="G_b0615"/>
+            </fbc:and>
+          </fbc:and>
+        </fbc:geneProductAssociation>
+      </reaction>
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+          <speciesReference species="M_nadp_c" stoichiometry="1" constant="true"/>
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+        <fbc:geneProductAssociation>
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+          <speciesReference species="M_pydx_c" stoichiometry="1" constant="true"/>
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+          <speciesReference species="M_adp_c" stoichiometry="1" constant="true"/>
+          <speciesReference species="M_h_c" stoichiometry="1" constant="true"/>
+          <speciesReference species="M_pydx5p_c" stoichiometry="1" constant="true"/>
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+        <fbc:geneProductAssociation>
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+            <fbc:geneProductRef fbc:geneProduct="G_b2418"/>
+            <fbc:geneProductRef fbc:geneProduct="G_b1636"/>
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+        </fbc:geneProductAssociation>
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+          <speciesReference species="M_h2o_c" stoichiometry="1" constant="true"/>
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+        <listOfProducts>
+          <speciesReference species="M_dhnpt_c" stoichiometry="1" constant="true"/>
+          <speciesReference species="M_pi_c" stoichiometry="1" constant="true"/>
+        </listOfProducts>
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+          <speciesReference species="M_atp_c" stoichiometry="1" constant="true"/>
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+        <listOfProducts>
+          <speciesReference species="M_6hmhptpp_c" stoichiometry="1" constant="true"/>
+          <speciesReference species="M_amp_c" stoichiometry="1" constant="true"/>
+          <speciesReference species="M_h_c" stoichiometry="1" constant="true"/>
+        </listOfProducts>
+        <fbc:geneProductAssociation>
+          <fbc:geneProductRef fbc:geneProduct="G_b0142"/>
+        </fbc:geneProductAssociation>
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+        <sbml:annotation xmlns:sbml="http://www.sbml.org/sbml/level3/version1/core">
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+          <speciesReference species="M_pan4p_c" stoichiometry="1" constant="true"/>
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+        <listOfProducts>
+          <speciesReference species="M_dpcoa_c" stoichiometry="1" constant="true"/>
+          <speciesReference species="M_ppi_c" stoichiometry="1" constant="true"/>
+        </listOfProducts>
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+          <fbc:geneProductRef fbc:geneProduct="G_b3634"/>
+        </fbc:geneProductAssociation>
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+        <sbml:annotation xmlns:sbml="http://www.sbml.org/sbml/level3/version1/core">
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+        </listOfReactants>
+        <listOfProducts>
+          <speciesReference species="M_adp_c" stoichiometry="1" constant="true"/>
+          <speciesReference species="M_f6p_c" stoichiometry="1" constant="true"/>
+          <speciesReference species="M_h_c" stoichiometry="1" constant="true"/>
+        </listOfProducts>
+        <fbc:geneProductAssociation>
+          <fbc:geneProductRef fbc:geneProduct="G_b0394"/>
+        </fbc:geneProductAssociation>
+      </reaction>
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+        <sbml:annotation xmlns:sbml="http://www.sbml.org/sbml/level3/version1/core">
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+          <speciesReference species="M_nadph_c" stoichiometry="1" constant="true"/>
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+        <listOfProducts>
+          <speciesReference species="M_2me4p_c" stoichiometry="1" constant="true"/>
+          <speciesReference species="M_nadp_c" stoichiometry="1" constant="true"/>
+        </listOfProducts>
+        <fbc:geneProductAssociation>
+          <fbc:geneProductRef fbc:geneProduct="G_b0173"/>
+        </fbc:geneProductAssociation>
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+        <listOfProducts>
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+          <speciesReference species="M_for_c" stoichiometry="1" constant="true"/>
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+          <speciesReference species="M_ppi_c" stoichiometry="1" constant="true"/>
+        </listOfProducts>
+        <fbc:geneProductAssociation>
+          <fbc:geneProductRef fbc:geneProduct="G_b1277"/>
+        </fbc:geneProductAssociation>
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+          <speciesReference species="M_urate_c" stoichiometry="1" constant="true"/>
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+        <listOfProducts>
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+          <speciesReference species="M_nadh_c" stoichiometry="1" constant="true"/>
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+          <speciesReference species="M_nadph_c" stoichiometry="1" constant="true"/>
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+          <speciesReference species="M_g1p_c" stoichiometry="1" constant="true"/>
+          <speciesReference species="M_h_c" stoichiometry="1" constant="true"/>
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+          <speciesReference species="M_dtdpglu_c" stoichiometry="1" constant="true"/>
+          <speciesReference species="M_ppi_c" stoichiometry="1" constant="true"/>
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+            <fbc:geneProductRef fbc:geneProduct="G_b3789"/>
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+          <speciesReference species="M_h2o_c" stoichiometry="1" constant="true"/>
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+        <fbc:geneProductAssociation>
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+            <fbc:geneProductRef fbc:geneProduct="G_b2041"/>
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+          <speciesReference species="M_gln__L_c" stoichiometry="1" constant="true"/>
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+        <listOfProducts>
+          <speciesReference species="M_4adcho_c" stoichiometry="1" constant="true"/>
+          <speciesReference species="M_glu__L_c" stoichiometry="1" constant="true"/>
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+        <fbc:geneProductAssociation>
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+            <fbc:geneProductRef fbc:geneProduct="G_b3360"/>
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+        </fbc:geneProductAssociation>
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+          <speciesReference species="M_4abz_c" stoichiometry="1" constant="true"/>
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+          <speciesReference species="M_pyr_c" stoichiometry="1" constant="true"/>
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+            <fbc:geneProductRef fbc:geneProduct="G_b4039"/>
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+        </fbc:geneProductAssociation>
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+          <speciesReference species="M_nadph_c" stoichiometry="1" constant="true"/>
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+          <speciesReference species="M_idon__L_c" stoichiometry="1" constant="true"/>
+          <speciesReference species="M_nadp_c" stoichiometry="1" constant="true"/>
+        </listOfProducts>
+        <fbc:geneProductAssociation>
+          <fbc:geneProductRef fbc:geneProduct="G_b3553"/>
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+        <sbml:annotation xmlns:sbml="http://www.sbml.org/sbml/level3/version1/core">
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+          <speciesReference species="M_pep_c" stoichiometry="1" constant="true"/>
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+        <listOfProducts>
+          <speciesReference species="M_dhap_c" stoichiometry="1" constant="true"/>
+          <speciesReference species="M_pyr_c" stoichiometry="1" constant="true"/>
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+            <fbc:geneProductRef fbc:geneProduct="G_b1198"/>
+            <fbc:geneProductRef fbc:geneProduct="G_b2416"/>
+            <fbc:geneProductRef fbc:geneProduct="G_b2415"/>
+            <fbc:geneProductRef fbc:geneProduct="G_b1199"/>
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+        </fbc:geneProductAssociation>
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+          <speciesReference species="M_udpgalfur_c" stoichiometry="1" constant="true"/>
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+        </fbc:geneProductAssociation>
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+                  <rdf:li rdf:resource="http://identifiers.org/rhea/21797"/>
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+          <speciesReference species="M_nadph_c" stoichiometry="1" constant="true"/>
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+        <listOfProducts>
+          <speciesReference species="M_dtdprmn_c" stoichiometry="1" constant="true"/>
+          <speciesReference species="M_nadp_c" stoichiometry="1" constant="true"/>
+        </listOfProducts>
+        <fbc:geneProductAssociation>
+          <fbc:geneProductRef fbc:geneProduct="G_b2040"/>
+        </fbc:geneProductAssociation>
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+        <listOfProducts>
+          <speciesReference species="M_adp_c" stoichiometry="1" constant="true"/>
+          <speciesReference species="M_udp_c" stoichiometry="1" constant="true"/>
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+        <fbc:geneProductAssociation>
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+            <fbc:geneProductRef fbc:geneProduct="G_b0910"/>
+            <fbc:geneProductRef fbc:geneProduct="G_b0171"/>
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+        </fbc:geneProductAssociation>
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+      <reaction id="R_RZ5PP" fast="false" reversible="false" name="Alpha-ribazole 5-phosphate phosphatase" metaid="R_RZ5PP" sboTerm="SBO:0000176" fbc:upperFluxBound="cobra_default_ub" fbc:lowerFluxBound="cobra_0_bound">
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+                  <rdf:li rdf:resource="http://identifiers.org/biocyc/META:RIBAZOLEPHOSPHAT-RXN"/>
+                  <rdf:li rdf:resource="http://identifiers.org/ec-code/3.1.3.73"/>
+                  <rdf:li rdf:resource="http://identifiers.org/kegg.reaction/R04594"/>
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+          <speciesReference species="M_h2o_c" stoichiometry="1" constant="true"/>
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+        <listOfProducts>
+          <speciesReference species="M_pi_c" stoichiometry="1" constant="true"/>
+          <speciesReference species="M_rdmbzi_c" stoichiometry="1" constant="true"/>
+        </listOfProducts>
+        <fbc:geneProductAssociation>
+          <fbc:geneProductRef fbc:geneProduct="G_b0638"/>
+        </fbc:geneProductAssociation>
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+      <reaction id="R_DDPGALA" fast="false" reversible="true" name="2-dehydro-3-deoxy-6-phosphogalactonate aldolase" metaid="R_DDPGALA" sboTerm="SBO:0000176" fbc:upperFluxBound="cobra_default_ub" fbc:lowerFluxBound="cobra_default_lb">
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+                  <rdf:li rdf:resource="http://identifiers.org/biocyc/META:DEHYDDEOXPHOSGALACT-ALDOL-RXN"/>
+                  <rdf:li rdf:resource="http://identifiers.org/ec-code/4.1.2.21"/>
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+                  <rdf:li rdf:resource="http://identifiers.org/kegg.reaction/R01064"/>
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+                  <rdf:li rdf:resource="http://identifiers.org/rhea/24467"/>
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+          <speciesReference species="M_2dh3dgal6p_c" stoichiometry="1" constant="true"/>
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+          <speciesReference species="M_g3p_c" stoichiometry="1" constant="true"/>
+          <speciesReference species="M_pyr_c" stoichiometry="1" constant="true"/>
+        </listOfProducts>
+        <fbc:geneProductAssociation>
+          <fbc:geneProductRef fbc:geneProduct="G_b4477"/>
+        </fbc:geneProductAssociation>
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+                  <rdf:li rdf:resource="http://identifiers.org/seed.reaction/rxn01518"/>
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+          <speciesReference species="M_duri_c" stoichiometry="1" constant="true"/>
+        </listOfReactants>
+        <listOfProducts>
+          <speciesReference species="M_adp_c" stoichiometry="1" constant="true"/>
+          <speciesReference species="M_dump_c" stoichiometry="1" constant="true"/>
+          <speciesReference species="M_h_c" stoichiometry="1" constant="true"/>
+        </listOfProducts>
+        <fbc:geneProductAssociation>
+          <fbc:geneProductRef fbc:geneProduct="G_b1238"/>
+        </fbc:geneProductAssociation>
+      </reaction>
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+        <sbml:annotation xmlns:sbml="http://www.sbml.org/sbml/level3/version1/core">
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+                  <rdf:li rdf:resource="http://identifiers.org/rhea/29226"/>
+                  <rdf:li rdf:resource="http://identifiers.org/rhea/29225"/>
+                  <rdf:li rdf:resource="http://identifiers.org/rhea/29224"/>
+                  <rdf:li rdf:resource="http://identifiers.org/seed.reaction/rxn08557"/>
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+          <speciesReference species="M_mqn8_c" stoichiometry="1" constant="true"/>
+        </listOfReactants>
+        <listOfProducts>
+          <speciesReference species="M_dhap_c" stoichiometry="1" constant="true"/>
+          <speciesReference species="M_mql8_c" stoichiometry="1" constant="true"/>
+        </listOfProducts>
+        <fbc:geneProductAssociation>
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+            <fbc:geneProductRef fbc:geneProduct="G_b2243"/>
+            <fbc:geneProductRef fbc:geneProduct="G_b2242"/>
+            <fbc:geneProductRef fbc:geneProduct="G_b2241"/>
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+        </fbc:geneProductAssociation>
+      </reaction>
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+        <sbml:annotation xmlns:sbml="http://www.sbml.org/sbml/level3/version1/core">
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+                  <rdf:li rdf:resource="http://identifiers.org/rhea/30821"/>
+                  <rdf:li rdf:resource="http://identifiers.org/rhea/30819"/>
+                  <rdf:li rdf:resource="http://identifiers.org/rhea/30820"/>
+                  <rdf:li rdf:resource="http://identifiers.org/sabiork/218"/>
+                  <rdf:li rdf:resource="http://identifiers.org/seed.reaction/rxn01748"/>
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+          <speciesReference species="M_h2o_c" stoichiometry="1" constant="true"/>
+        </listOfReactants>
+        <listOfProducts>
+          <speciesReference species="M_alltt_c" stoichiometry="1" constant="true"/>
+          <speciesReference species="M_h_c" stoichiometry="1" constant="true"/>
+        </listOfProducts>
+        <fbc:geneProductAssociation>
+          <fbc:geneProductRef fbc:geneProduct="G_b0512"/>
+        </fbc:geneProductAssociation>
+      </reaction>
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+        <sbml:annotation xmlns:sbml="http://www.sbml.org/sbml/level3/version1/core">
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+                  <rdf:li rdf:resource="http://identifiers.org/metanetx.reaction/MNXR141027"/>
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+                  <rdf:li rdf:resource="http://identifiers.org/seed.reaction/rxn02285"/>
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+          <speciesReference species="M_nadph_c" stoichiometry="1" constant="true"/>
+          <speciesReference species="M_uaccg_c" stoichiometry="1" constant="true"/>
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+        <listOfProducts>
+          <speciesReference species="M_nadp_c" stoichiometry="1" constant="true"/>
+          <speciesReference species="M_uamr_c" stoichiometry="1" constant="true"/>
+        </listOfProducts>
+        <fbc:geneProductAssociation>
+          <fbc:geneProductRef fbc:geneProduct="G_b3972"/>
+        </fbc:geneProductAssociation>
+      </reaction>
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+          <speciesReference species="M_ura_c" stoichiometry="1" constant="true"/>
+        </listOfReactants>
+        <listOfProducts>
+          <speciesReference species="M_ppi_c" stoichiometry="1" constant="true"/>
+          <speciesReference species="M_ump_c" stoichiometry="1" constant="true"/>
+        </listOfProducts>
+        <fbc:geneProductAssociation>
+          <fbc:geneProductRef fbc:geneProduct="G_b2498"/>
+        </fbc:geneProductAssociation>
+      </reaction>
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+        </listOfReactants>
+        <listOfProducts>
+          <speciesReference species="M_gsn_c" stoichiometry="1" constant="true"/>
+          <speciesReference species="M_pi_c" stoichiometry="1" constant="true"/>
+        </listOfProducts>
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+            <fbc:geneProductRef fbc:geneProduct="G_b3399"/>
+            <fbc:geneProductRef fbc:geneProduct="G_b2361"/>
+            <fbc:geneProductRef fbc:geneProduct="G_b0675"/>
+          </fbc:or>
+        </fbc:geneProductAssociation>
+      </reaction>
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+                  <rdf:li rdf:resource="http://identifiers.org/seed.reaction/rxn00412"/>
+                  <rdf:li rdf:resource="http://identifiers.org/seed.reaction/rxn11276"/>
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+        </sbml:annotation>
+        <listOfReactants>
+          <speciesReference species="M_atp_c" stoichiometry="1" constant="true"/>
+          <speciesReference species="M_gln__L_c" stoichiometry="1" constant="true"/>
+          <speciesReference species="M_h2o_c" stoichiometry="1" constant="true"/>
+          <speciesReference species="M_utp_c" stoichiometry="1" constant="true"/>
+        </listOfReactants>
+        <listOfProducts>
+          <speciesReference species="M_adp_c" stoichiometry="1" constant="true"/>
+          <speciesReference species="M_ctp_c" stoichiometry="1" constant="true"/>
+          <speciesReference species="M_glu__L_c" stoichiometry="1" constant="true"/>
+          <speciesReference species="M_h_c" stoichiometry="2" constant="true"/>
+          <speciesReference species="M_pi_c" stoichiometry="1" constant="true"/>
+        </listOfProducts>
+        <fbc:geneProductAssociation>
+          <fbc:geneProductRef fbc:geneProduct="G_b2780"/>
+        </fbc:geneProductAssociation>
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+                  <rdf:li rdf:resource="http://identifiers.org/rhea/29355"/>
+                  <rdf:li rdf:resource="http://identifiers.org/rhea/29357"/>
+                  <rdf:li rdf:resource="http://identifiers.org/rhea/29356"/>
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+          <speciesReference species="M_h2o_c" stoichiometry="1" constant="true"/>
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+        <listOfProducts>
+          <speciesReference species="M_duri_c" stoichiometry="1" constant="true"/>
+          <speciesReference species="M_pi_c" stoichiometry="1" constant="true"/>
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+            <fbc:geneProductRef fbc:geneProduct="G_b4374"/>
+            <fbc:geneProductRef fbc:geneProduct="G_b2291"/>
+            <fbc:geneProductRef fbc:geneProduct="G_b2361"/>
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+        </fbc:geneProductAssociation>
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+                  <rdf:li rdf:resource="http://identifiers.org/seed.reaction/rxn00132"/>
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+        <listOfProducts>
+          <speciesReference species="M_adn_c" stoichiometry="1" constant="true"/>
+          <speciesReference species="M_pi_c" stoichiometry="1" constant="true"/>
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+        <fbc:geneProductAssociation>
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+            <fbc:geneProductRef fbc:geneProduct="G_b2361"/>
+            <fbc:geneProductRef fbc:geneProduct="G_b3399"/>
+            <fbc:geneProductRef fbc:geneProduct="G_b0675"/>
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+        </fbc:geneProductAssociation>
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+                <rdf:Bag>
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+                  <rdf:li rdf:resource="http://identifiers.org/seed.reaction/rxn03904"/>
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+          <speciesReference species="M_ugmda_c" stoichiometry="1" constant="true"/>
+        </listOfReactants>
+        <listOfProducts>
+          <speciesReference species="M_uagmda_c" stoichiometry="1" constant="true"/>
+          <speciesReference species="M_ump_c" stoichiometry="1" constant="true"/>
+        </listOfProducts>
+        <fbc:geneProductAssociation>
+          <fbc:geneProductRef fbc:geneProduct="G_b0087"/>
+        </fbc:geneProductAssociation>
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+        <sbml:annotation xmlns:sbml="http://www.sbml.org/sbml/level3/version1/core">
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+                  <rdf:li rdf:resource="http://identifiers.org/kegg.reaction/R06174"/>
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+                  <rdf:li rdf:resource="http://identifiers.org/seed.reaction/rxn03408"/>
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+        </sbml:annotation>
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+          <speciesReference species="M_uagmda_c" stoichiometry="1" constant="true"/>
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+        <listOfProducts>
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+          <speciesReference species="M_uaagmda_c" stoichiometry="1" constant="true"/>
+          <speciesReference species="M_udp_c" stoichiometry="1" constant="true"/>
+        </listOfProducts>
+        <fbc:geneProductAssociation>
+          <fbc:geneProductRef fbc:geneProduct="G_b0090"/>
+        </fbc:geneProductAssociation>
+      </reaction>
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+        <sbml:annotation xmlns:sbml="http://www.sbml.org/sbml/level3/version1/core">
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+                  <rdf:li rdf:resource="http://identifiers.org/rhea/27680"/>
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+                  <rdf:li rdf:resource="http://identifiers.org/seed.reaction/rxn01673"/>
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+          <speciesReference species="M_dcdp_c" stoichiometry="1" constant="true"/>
+        </listOfReactants>
+        <listOfProducts>
+          <speciesReference species="M_adp_c" stoichiometry="1" constant="true"/>
+          <speciesReference species="M_dctp_c" stoichiometry="1" constant="true"/>
+        </listOfProducts>
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+            <fbc:geneProductRef fbc:geneProduct="G_b2518"/>
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+        </fbc:geneProductAssociation>
+      </reaction>
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+        <sbml:annotation xmlns:sbml="http://www.sbml.org/sbml/level3/version1/core">
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+                  <rdf:li rdf:resource="http://identifiers.org/metanetx.reaction/MNXR95851"/>
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+        </sbml:annotation>
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+          <speciesReference species="M_2aobut_c" stoichiometry="1" constant="true"/>
+          <speciesReference species="M_h_c" stoichiometry="1" constant="true"/>
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+        <listOfProducts>
+          <speciesReference species="M_aact_c" stoichiometry="1" constant="true"/>
+          <speciesReference species="M_co2_c" stoichiometry="1" constant="true"/>
+        </listOfProducts>
+        <fbc:geneProductAssociation>
+          <fbc:geneProductRef fbc:geneProduct="G_s0001"/>
+        </fbc:geneProductAssociation>
+      </reaction>
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+                  <rdf:li rdf:resource="http://identifiers.org/rhea/20737"/>
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+                  <rdf:li rdf:resource="http://identifiers.org/seed.reaction/rxn00274"/>
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+          <speciesReference species="M_accoa_c" stoichiometry="1" constant="true"/>
+          <speciesReference species="M_gly_c" stoichiometry="1" constant="true"/>
+        </listOfReactants>
+        <listOfProducts>
+          <speciesReference species="M_2aobut_c" stoichiometry="1" constant="true"/>
+          <speciesReference species="M_coa_c" stoichiometry="1" constant="true"/>
+        </listOfProducts>
+        <fbc:geneProductAssociation>
+          <fbc:geneProductRef fbc:geneProduct="G_b3617"/>
+        </fbc:geneProductAssociation>
+      </reaction>
+      <reaction id="R_ADNUC" fast="false" reversible="false" name="Adenosine hydrolase" metaid="R_ADNUC" sboTerm="SBO:0000176" fbc:upperFluxBound="cobra_default_ub" fbc:lowerFluxBound="cobra_0_bound">
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+              <bqbiol:is xmlns:bqbiol="http://biomodels.net/biology-qualifiers/">
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+                  <rdf:li rdf:resource="http://identifiers.org/rhea/18671"/>
+                  <rdf:li rdf:resource="http://identifiers.org/rhea/18669"/>
+                  <rdf:li rdf:resource="http://identifiers.org/rhea/18670"/>
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+          <speciesReference species="M_h2o_c" stoichiometry="1" constant="true"/>
+        </listOfReactants>
+        <listOfProducts>
+          <speciesReference species="M_ade_c" stoichiometry="1" constant="true"/>
+          <speciesReference species="M_rib__D_c" stoichiometry="1" constant="true"/>
+        </listOfProducts>
+        <fbc:geneProductAssociation>
+          <fbc:geneProductRef fbc:geneProduct="G_b0030"/>
+        </fbc:geneProductAssociation>
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+      <reaction id="R_GMHEPPA" fast="false" reversible="false" name="D-glycero-D-manno-heptose 1,7-bisphosphate phosphatase" metaid="R_GMHEPPA" sboTerm="SBO:0000176" fbc:upperFluxBound="cobra_default_ub" fbc:lowerFluxBound="cobra_0_bound">
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+                  <rdf:li rdf:resource="http://identifiers.org/metanetx.reaction/MNXR100380"/>
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+          <speciesReference species="M_h2o_c" stoichiometry="1" constant="true"/>
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+        <listOfProducts>
+          <speciesReference species="M_gmhep1p_c" stoichiometry="1" constant="true"/>
+          <speciesReference species="M_pi_c" stoichiometry="1" constant="true"/>
+        </listOfProducts>
+        <fbc:geneProductAssociation>
+          <fbc:geneProductRef fbc:geneProduct="G_b0200"/>
+        </fbc:geneProductAssociation>
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+      <reaction id="R_S7PI" fast="false" reversible="false" name="Sedoheptulose 7-phosphate isomerase" metaid="R_S7PI" sboTerm="SBO:0000176" fbc:upperFluxBound="cobra_default_ub" fbc:lowerFluxBound="cobra_0_bound">
+        <sbml:annotation xmlns:sbml="http://www.sbml.org/sbml/level3/version1/core">
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+                  <rdf:li rdf:resource="http://identifiers.org/kegg.reaction/R05645"/>
+                  <rdf:li rdf:resource="http://identifiers.org/kegg.reaction/R09768"/>
+                  <rdf:li rdf:resource="http://identifiers.org/metanetx.reaction/MNXR139387"/>
+                  <rdf:li rdf:resource="http://identifiers.org/seed.reaction/rxn13947"/>
+                  <rdf:li rdf:resource="http://identifiers.org/seed.reaction/rxn03917"/>
+                  <rdf:li rdf:resource="http://identifiers.org/seed.reaction/rxn13937"/>
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+        <listOfProducts>
+          <speciesReference species="M_gmhep7p_c" stoichiometry="1" constant="true"/>
+        </listOfProducts>
+        <fbc:geneProductAssociation>
+          <fbc:geneProductRef fbc:geneProduct="G_b0222"/>
+        </fbc:geneProductAssociation>
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+      <reaction id="R_TRPS3" fast="false" reversible="false" name="Tryptophan synthase (indoleglycerol phosphate)" metaid="R_TRPS3" sboTerm="SBO:0000176" fbc:upperFluxBound="cobra_default_ub" fbc:lowerFluxBound="cobra_0_bound">
+        <sbml:annotation xmlns:sbml="http://www.sbml.org/sbml/level3/version1/core">
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+              <bqbiol:is xmlns:bqbiol="http://biomodels.net/biology-qualifiers/">
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+                  <rdf:li rdf:resource="http://identifiers.org/biocyc/META:RXN0-2381"/>
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+                  <rdf:li rdf:resource="http://identifiers.org/kegg.reaction/R02340"/>
+                  <rdf:li rdf:resource="http://identifiers.org/metanetx.reaction/MNXR99889"/>
+                  <rdf:li rdf:resource="http://identifiers.org/rhea/14082"/>
+                  <rdf:li rdf:resource="http://identifiers.org/rhea/14081"/>
+                  <rdf:li rdf:resource="http://identifiers.org/rhea/14083"/>
+                  <rdf:li rdf:resource="http://identifiers.org/rhea/14084"/>
+                  <rdf:li rdf:resource="http://identifiers.org/seed.reaction/rxn01682"/>
+                </rdf:Bag>
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+          </rdf:RDF>
+        </sbml:annotation>
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+          <speciesReference species="M_3ig3p_c" stoichiometry="1" constant="true"/>
+        </listOfReactants>
+        <listOfProducts>
+          <speciesReference species="M_g3p_c" stoichiometry="1" constant="true"/>
+          <speciesReference species="M_indole_c" stoichiometry="1" constant="true"/>
+        </listOfProducts>
+        <fbc:geneProductAssociation>
+          <fbc:and>
+            <fbc:geneProductRef fbc:geneProduct="G_b1260"/>
+            <fbc:geneProductRef fbc:geneProduct="G_b1261"/>
+          </fbc:and>
+        </fbc:geneProductAssociation>
+      </reaction>
+      <reaction id="R_EX_ttdcea_e" fast="false" reversible="false" name="Tetradecenoate (n-C14:1) exchange" metaid="R_EX_ttdcea_e" sboTerm="SBO:0000627" fbc:upperFluxBound="cobra_default_ub" fbc:lowerFluxBound="cobra_0_bound">
+        <sbml:annotation xmlns:sbml="http://www.sbml.org/sbml/level3/version1/core">
+          <rdf:RDF xmlns:rdf="http://www.w3.org/1999/02/22-rdf-syntax-ns#">
+            <rdf:Description rdf:about="#R_EX_ttdcea_e">
+              <bqbiol:is xmlns:bqbiol="http://biomodels.net/biology-qualifiers/">
+                <rdf:Bag>
+                  <rdf:li rdf:resource="http://identifiers.org/bigg.reaction/EX_ttdcea_e"/>
+                  <rdf:li rdf:resource="http://identifiers.org/metanetx.reaction/MNXR99096"/>
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+          <speciesReference species="M_ttdcea_e" stoichiometry="1" constant="true"/>
+        </listOfReactants>
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+      <reaction id="R_F6PA" fast="false" reversible="true" name="Fructose 6-phosphate aldolase" metaid="R_F6PA" sboTerm="SBO:0000176" fbc:upperFluxBound="cobra_default_ub" fbc:lowerFluxBound="cobra_default_lb">
+        <sbml:annotation xmlns:sbml="http://www.sbml.org/sbml/level3/version1/core">
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+              <bqbiol:is xmlns:bqbiol="http://biomodels.net/biology-qualifiers/">
+                <rdf:Bag>
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+                  <rdf:li rdf:resource="http://identifiers.org/metanetx.reaction/MNXR99075"/>
+                  <rdf:li rdf:resource="http://identifiers.org/rhea/28002"/>
+                  <rdf:li rdf:resource="http://identifiers.org/rhea/28003"/>
+                  <rdf:li rdf:resource="http://identifiers.org/rhea/28004"/>
+                  <rdf:li rdf:resource="http://identifiers.org/rhea/28005"/>
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+        </sbml:annotation>
+        <listOfReactants>
+          <speciesReference species="M_f6p_c" stoichiometry="1" constant="true"/>
+        </listOfReactants>
+        <listOfProducts>
+          <speciesReference species="M_dha_c" stoichiometry="1" constant="true"/>
+          <speciesReference species="M_g3p_c" stoichiometry="1" constant="true"/>
+        </listOfProducts>
+        <fbc:geneProductAssociation>
+          <fbc:or>
+            <fbc:geneProductRef fbc:geneProduct="G_b0825"/>
+            <fbc:geneProductRef fbc:geneProduct="G_b3946"/>
+          </fbc:or>
+        </fbc:geneProductAssociation>
+      </reaction>
+      <reaction id="R_AGMHE" fast="false" reversible="false" name="ADP-D-glycero-D-manno-heptose epimerase" metaid="R_AGMHE" sboTerm="SBO:0000176" fbc:upperFluxBound="cobra_default_ub" fbc:lowerFluxBound="cobra_0_bound">
+        <sbml:annotation xmlns:sbml="http://www.sbml.org/sbml/level3/version1/core">
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+            <rdf:Description rdf:about="#R_AGMHE">
+              <bqbiol:is xmlns:bqbiol="http://biomodels.net/biology-qualifiers/">
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+                  <rdf:li rdf:resource="http://identifiers.org/kegg.reaction/R05176"/>
+                  <rdf:li rdf:resource="http://identifiers.org/metanetx.reaction/MNXR95551"/>
+                  <rdf:li rdf:resource="http://identifiers.org/rhea/17579"/>
+                  <rdf:li rdf:resource="http://identifiers.org/rhea/17578"/>
+                  <rdf:li rdf:resource="http://identifiers.org/rhea/17577"/>
+                  <rdf:li rdf:resource="http://identifiers.org/rhea/17580"/>
+                  <rdf:li rdf:resource="http://identifiers.org/sabiork/4793"/>
+                  <rdf:li rdf:resource="http://identifiers.org/seed.reaction/rxn03511"/>
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+          <speciesReference species="M_adphep_DD_c" stoichiometry="1" constant="true"/>
+        </listOfReactants>
+        <listOfProducts>
+          <speciesReference species="M_adphep_LD_c" stoichiometry="1" constant="true"/>
+        </listOfProducts>
+        <fbc:geneProductAssociation>
+          <fbc:geneProductRef fbc:geneProduct="G_b3619"/>
+        </fbc:geneProductAssociation>
+      </reaction>
+      <reaction id="R_CRNBTCT" fast="false" reversible="true" name="Gamma-butyrobetainyl-CoA: carnitine CoA transferase" metaid="R_CRNBTCT" sboTerm="SBO:0000176" fbc:upperFluxBound="cobra_default_ub" fbc:lowerFluxBound="cobra_default_lb">
+        <sbml:annotation xmlns:sbml="http://www.sbml.org/sbml/level3/version1/core">
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+              <bqbiol:is xmlns:bqbiol="http://biomodels.net/biology-qualifiers/">
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+                  <rdf:li rdf:resource="http://identifiers.org/kegg.reaction/R10644"/>
+                  <rdf:li rdf:resource="http://identifiers.org/metanetx.reaction/MNXR96894"/>
+                  <rdf:li rdf:resource="http://identifiers.org/rhea/28420"/>
+                  <rdf:li rdf:resource="http://identifiers.org/rhea/28418"/>
+                  <rdf:li rdf:resource="http://identifiers.org/rhea/28421"/>
+                  <rdf:li rdf:resource="http://identifiers.org/rhea/28419"/>
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+          </rdf:RDF>
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+          <speciesReference species="M_bbtcoa_c" stoichiometry="1" constant="true"/>
+          <speciesReference species="M_crn_c" stoichiometry="1" constant="true"/>
+        </listOfReactants>
+        <listOfProducts>
+          <speciesReference species="M_crncoa_c" stoichiometry="1" constant="true"/>
+          <speciesReference species="M_gbbtn_c" stoichiometry="1" constant="true"/>
+        </listOfProducts>
+        <fbc:geneProductAssociation>
+          <fbc:geneProductRef fbc:geneProduct="G_b0038"/>
+        </fbc:geneProductAssociation>
+      </reaction>
+      <reaction id="R_CRNCBCT" fast="false" reversible="true" name="Crotonobetainyl-CoA: carnitine CoA transferase" metaid="R_CRNCBCT" sboTerm="SBO:0000176" fbc:upperFluxBound="cobra_default_ub" fbc:lowerFluxBound="cobra_default_lb">
+        <sbml:annotation xmlns:sbml="http://www.sbml.org/sbml/level3/version1/core">
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+              <bqbiol:is xmlns:bqbiol="http://biomodels.net/biology-qualifiers/">
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+                  <rdf:li rdf:resource="http://identifiers.org/metanetx.reaction/MNXR96899"/>
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+                  <rdf:li rdf:resource="http://identifiers.org/rhea/28529"/>
+                  <rdf:li rdf:resource="http://identifiers.org/rhea/28528"/>
+                  <rdf:li rdf:resource="http://identifiers.org/rhea/28526"/>
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+            </rdf:Description>
+          </rdf:RDF>
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+        <listOfReactants>
+          <speciesReference species="M_crn_c" stoichiometry="1" constant="true"/>
+          <speciesReference species="M_ctbtcoa_c" stoichiometry="1" constant="true"/>
+        </listOfReactants>
+        <listOfProducts>
+          <speciesReference species="M_crncoa_c" stoichiometry="1" constant="true"/>
+          <speciesReference species="M_ctbt_c" stoichiometry="1" constant="true"/>
+        </listOfProducts>
+        <fbc:geneProductAssociation>
+          <fbc:geneProductRef fbc:geneProduct="G_b0038"/>
+        </fbc:geneProductAssociation>
+      </reaction>
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+        <sbml:annotation xmlns:sbml="http://www.sbml.org/sbml/level3/version1/core">
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+              <bqbiol:is xmlns:bqbiol="http://biomodels.net/biology-qualifiers/">
+                <rdf:Bag>
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+                  <rdf:li rdf:resource="http://identifiers.org/rhea/28531"/>
+                  <rdf:li rdf:resource="http://identifiers.org/rhea/28533"/>
+                  <rdf:li rdf:resource="http://identifiers.org/sabiork/129"/>
+                  <rdf:li rdf:resource="http://identifiers.org/seed.reaction/rxn01961"/>
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+        </sbml:annotation>
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+          <speciesReference species="M_h2o_c" stoichiometry="1" constant="true"/>
+          <speciesReference species="M_xmp_c" stoichiometry="1" constant="true"/>
+        </listOfReactants>
+        <listOfProducts>
+          <speciesReference species="M_pi_c" stoichiometry="1" constant="true"/>
+          <speciesReference species="M_xtsn_c" stoichiometry="1" constant="true"/>
+        </listOfProducts>
+        <fbc:geneProductAssociation>
+          <fbc:geneProductRef fbc:geneProduct="G_b2744"/>
+        </fbc:geneProductAssociation>
+      </reaction>
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+                  <rdf:li rdf:resource="http://identifiers.org/biocyc/META:CARNDETRU-RXN"/>
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+          <speciesReference species="M_crncoa_c" stoichiometry="1" constant="true"/>
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+        <listOfProducts>
+          <speciesReference species="M_ctbtcoa_c" stoichiometry="1" constant="true"/>
+          <speciesReference species="M_h2o_c" stoichiometry="1" constant="true"/>
+        </listOfProducts>
+        <fbc:geneProductAssociation>
+          <fbc:geneProductRef fbc:geneProduct="G_b0036"/>
+        </fbc:geneProductAssociation>
+      </reaction>
+      <reaction id="R_GMHEPAT" fast="false" reversible="false" name="D-glycero-D-manno-hepose 1-phosphate adenyltransferase" metaid="R_GMHEPAT" sboTerm="SBO:0000176" fbc:upperFluxBound="cobra_default_ub" fbc:lowerFluxBound="cobra_0_bound">
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+                  <rdf:li rdf:resource="http://identifiers.org/rhea/27466"/>
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+                  <rdf:li rdf:resource="http://identifiers.org/rhea/27465"/>
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+          <speciesReference species="M_gmhep1p_c" stoichiometry="1" constant="true"/>
+          <speciesReference species="M_h_c" stoichiometry="1" constant="true"/>
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+        <listOfProducts>
+          <speciesReference species="M_adphep_DD_c" stoichiometry="1" constant="true"/>
+          <speciesReference species="M_ppi_c" stoichiometry="1" constant="true"/>
+        </listOfProducts>
+        <fbc:geneProductAssociation>
+          <fbc:geneProductRef fbc:geneProduct="G_b3052"/>
+        </fbc:geneProductAssociation>
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+                  <rdf:li rdf:resource="http://identifiers.org/seed.reaction/rxn08689"/>
+                  <rdf:li rdf:resource="http://identifiers.org/seed.reaction/rxn10541"/>
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+                  <rdf:li rdf:resource="http://identifiers.org/reactome.reaction/R-DME-74213"/>
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+                  <rdf:li rdf:resource="http://identifiers.org/rhea/16612"/>
+                  <rdf:li rdf:resource="http://identifiers.org/rhea/16611"/>
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+          <speciesReference species="M_prpp_c" stoichiometry="1" constant="true"/>
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+        <listOfProducts>
+          <speciesReference species="M_amp_c" stoichiometry="1" constant="true"/>
+          <speciesReference species="M_ppi_c" stoichiometry="1" constant="true"/>
+        </listOfProducts>
+        <fbc:geneProductAssociation>
+          <fbc:geneProductRef fbc:geneProduct="G_b0469"/>
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+        <sbml:annotation xmlns:sbml="http://www.sbml.org/sbml/level3/version1/core">
+          <rdf:RDF xmlns:rdf="http://www.w3.org/1999/02/22-rdf-syntax-ns#">
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+              <bqbiol:is xmlns:bqbiol="http://biomodels.net/biology-qualifiers/">
+                <rdf:Bag>
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+                  <rdf:li rdf:resource="http://identifiers.org/seed.reaction/rxn08677"/>
+                  <rdf:li rdf:resource="http://identifiers.org/seed.reaction/rxn10829"/>
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+        <sbml:annotation xmlns:sbml="http://www.sbml.org/sbml/level3/version1/core">
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+          <speciesReference species="M_nadh_c" stoichiometry="1" constant="true"/>
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+          <speciesReference species="M_idon__L_c" stoichiometry="1" constant="true"/>
+          <speciesReference species="M_nad_c" stoichiometry="1" constant="true"/>
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+          <fbc:geneProductRef fbc:geneProduct="G_b4267"/>
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+          <speciesReference species="M_idon__L_c" stoichiometry="1" constant="true"/>
+          <speciesReference species="M_nadp_c" stoichiometry="1" constant="true"/>
+        </listOfProducts>
+        <fbc:geneProductAssociation>
+          <fbc:geneProductRef fbc:geneProduct="G_b4267"/>
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+        <sbml:annotation xmlns:sbml="http://www.sbml.org/sbml/level3/version1/core">
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+          <speciesReference species="M_nad_c" stoichiometry="1" constant="true"/>
+        </listOfProducts>
+        <fbc:geneProductAssociation>
+          <fbc:geneProductRef fbc:geneProduct="G_b3844"/>
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+          <speciesReference species="M_gtp_c" stoichiometry="1" constant="true"/>
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+          <speciesReference species="M_gdptp_c" stoichiometry="1" constant="true"/>
+          <speciesReference species="M_h_c" stoichiometry="1" constant="true"/>
+        </listOfProducts>
+        <fbc:geneProductAssociation>
+          <fbc:geneProductRef fbc:geneProduct="G_b2784"/>
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+          <speciesReference species="M_nad_c" stoichiometry="1" constant="true"/>
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+          <speciesReference species="M_h_c" stoichiometry="1" constant="true"/>
+          <speciesReference species="M_ncam_c" stoichiometry="1" constant="true"/>
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+        <listOfProducts>
+          <speciesReference species="M_ins_c" stoichiometry="1" constant="true"/>
+          <speciesReference species="M_nh4_c" stoichiometry="1" constant="true"/>
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+          <speciesReference species="M_h_c" stoichiometry="1" constant="true"/>
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+          <speciesReference species="M_nh4_c" stoichiometry="1" constant="true"/>
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+          <speciesReference species="M_pheme_c" stoichiometry="1" constant="true"/>
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+            <fbc:geneProductRef fbc:geneProduct="G_b2431"/>
+            <fbc:geneProductRef fbc:geneProduct="G_b1019"/>
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+          <fbc:geneProductRef fbc:geneProduct="G_b4177"/>
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+            <fbc:geneProductRef fbc:geneProduct="G_b0674"/>
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+              <fbc:geneProductRef fbc:geneProduct="G_b4245"/>
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+          <speciesReference species="M_pep_c" stoichiometry="1" constant="true"/>
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+          <speciesReference species="M_pi_c" stoichiometry="1" constant="true"/>
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+            <fbc:geneProductRef fbc:geneProduct="G_b1092"/>
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+          <speciesReference species="M_h_c" stoichiometry="1" constant="true"/>
+          <speciesReference species="M_nadh_c" stoichiometry="1" constant="true"/>
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+        <listOfProducts>
+          <speciesReference species="M_h2o_c" stoichiometry="1" constant="true"/>
+          <speciesReference species="M_ipdp_c" stoichiometry="1" constant="true"/>
+          <speciesReference species="M_nad_c" stoichiometry="1" constant="true"/>
+        </listOfProducts>
+        <fbc:geneProductAssociation>
+          <fbc:geneProductRef fbc:geneProduct="G_b0029"/>
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+          <speciesReference species="M_succoa_c" stoichiometry="1" constant="true"/>
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+        <listOfProducts>
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+          <speciesReference species="M_h_c" stoichiometry="1" constant="true"/>
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+        <fbc:geneProductAssociation>
+          <fbc:geneProductRef fbc:geneProduct="G_b1747"/>
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+          <fbc:geneProductRef fbc:geneProduct="G_b1744"/>
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+          <speciesReference species="M_hco3_c" stoichiometry="1" constant="true"/>
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+          <speciesReference species="M_nh4_c" stoichiometry="1" constant="true"/>
+        </listOfProducts>
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+          <fbc:geneProductRef fbc:geneProduct="G_b0340"/>
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+          <speciesReference species="M_26dap__M_c" stoichiometry="1" constant="true"/>
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+        <fbc:geneProductAssociation>
+          <fbc:geneProductRef fbc:geneProduct="G_b3809"/>
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+          <fbc:geneProductRef fbc:geneProduct="G_b0031"/>
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+            <fbc:geneProductRef fbc:geneProduct="G_b0907"/>
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+        </fbc:geneProductAssociation>
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+                  <rdf:li rdf:resource="http://identifiers.org/rhea/17173"/>
+                  <rdf:li rdf:resource="http://identifiers.org/rhea/17174"/>
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+          <speciesReference species="M_h2o_c" stoichiometry="1" constant="true"/>
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+        <listOfProducts>
+          <speciesReference species="M_gthrd_c" stoichiometry="1" constant="true"/>
+          <speciesReference species="M_spmd_c" stoichiometry="1" constant="true"/>
+        </listOfProducts>
+        <fbc:geneProductAssociation>
+          <fbc:geneProductRef fbc:geneProduct="G_b2988"/>
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+      <reaction id="R_GSPMDS" fast="false" reversible="false" name="Glutathionylspermidine synthetase" metaid="R_GSPMDS" sboTerm="SBO:0000176" fbc:upperFluxBound="cobra_default_ub" fbc:lowerFluxBound="cobra_0_bound">
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+                  <rdf:li rdf:resource="http://identifiers.org/rhea/21273"/>
+                  <rdf:li rdf:resource="http://identifiers.org/rhea/21274"/>
+                  <rdf:li rdf:resource="http://identifiers.org/rhea/21275"/>
+                  <rdf:li rdf:resource="http://identifiers.org/sabiork/1971"/>
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+          <speciesReference species="M_atp_c" stoichiometry="1" constant="true"/>
+          <speciesReference species="M_gthrd_c" stoichiometry="1" constant="true"/>
+          <speciesReference species="M_spmd_c" stoichiometry="1" constant="true"/>
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+        <listOfProducts>
+          <speciesReference species="M_adp_c" stoichiometry="1" constant="true"/>
+          <speciesReference species="M_gtspmd_c" stoichiometry="1" constant="true"/>
+          <speciesReference species="M_h_c" stoichiometry="1" constant="true"/>
+          <speciesReference species="M_pi_c" stoichiometry="1" constant="true"/>
+        </listOfProducts>
+        <fbc:geneProductAssociation>
+          <fbc:geneProductRef fbc:geneProduct="G_b2988"/>
+        </fbc:geneProductAssociation>
+      </reaction>
+      <reaction id="R_GUAD" fast="false" reversible="false" name="Guanine deaminase" metaid="R_GUAD" sboTerm="SBO:0000176" fbc:upperFluxBound="cobra_default_ub" fbc:lowerFluxBound="cobra_0_bound">
+        <sbml:annotation xmlns:sbml="http://www.sbml.org/sbml/level3/version1/core">
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+                  <rdf:li rdf:resource="http://identifiers.org/biocyc/META:GUANINE-DEAMINASE-RXN"/>
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+                  <rdf:li rdf:resource="http://identifiers.org/kegg.reaction/R01676"/>
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+                  <rdf:li rdf:resource="http://identifiers.org/rhea/14668"/>
+                  <rdf:li rdf:resource="http://identifiers.org/rhea/14666"/>
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+        </sbml:annotation>
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+          <speciesReference species="M_h2o_c" stoichiometry="1" constant="true"/>
+          <speciesReference species="M_h_c" stoichiometry="1" constant="true"/>
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+        <listOfProducts>
+          <speciesReference species="M_nh4_c" stoichiometry="1" constant="true"/>
+          <speciesReference species="M_xan_c" stoichiometry="1" constant="true"/>
+        </listOfProducts>
+        <fbc:geneProductAssociation>
+          <fbc:geneProductRef fbc:geneProduct="G_b2883"/>
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+        <sbml:annotation xmlns:sbml="http://www.sbml.org/sbml/level3/version1/core">
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+              <bqbiol:is xmlns:bqbiol="http://biomodels.net/biology-qualifiers/">
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+                  <rdf:li rdf:resource="http://identifiers.org/biocyc/META:THRESYN-RXN"/>
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+                  <rdf:li rdf:resource="http://identifiers.org/kegg.reaction/R01466"/>
+                  <rdf:li rdf:resource="http://identifiers.org/metanetx.reaction/MNXR104846"/>
+                  <rdf:li rdf:resource="http://identifiers.org/rhea/10842"/>
+                  <rdf:li rdf:resource="http://identifiers.org/rhea/10841"/>
+                  <rdf:li rdf:resource="http://identifiers.org/rhea/10840"/>
+                  <rdf:li rdf:resource="http://identifiers.org/rhea/10843"/>
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+        </sbml:annotation>
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+          <speciesReference species="M_h2o_c" stoichiometry="1" constant="true"/>
+          <speciesReference species="M_phom_c" stoichiometry="1" constant="true"/>
+        </listOfReactants>
+        <listOfProducts>
+          <speciesReference species="M_pi_c" stoichiometry="1" constant="true"/>
+          <speciesReference species="M_thr__L_c" stoichiometry="1" constant="true"/>
+        </listOfProducts>
+        <fbc:geneProductAssociation>
+          <fbc:geneProductRef fbc:geneProduct="G_b0004"/>
+        </fbc:geneProductAssociation>
+      </reaction>
+      <reaction id="R_EX_amp_e" fast="false" reversible="false" name="AMP exchange" metaid="R_EX_amp_e" sboTerm="SBO:0000627" fbc:upperFluxBound="cobra_default_ub" fbc:lowerFluxBound="cobra_0_bound">
+        <sbml:annotation xmlns:sbml="http://www.sbml.org/sbml/level3/version1/core">
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+              <bqbiol:is xmlns:bqbiol="http://biomodels.net/biology-qualifiers/">
+                <rdf:Bag>
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+                  <rdf:li rdf:resource="http://identifiers.org/seed.reaction/rxn13227"/>
+                </rdf:Bag>
+              </bqbiol:is>
+            </rdf:Description>
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+        </sbml:annotation>
+        <listOfReactants>
+          <speciesReference species="M_amp_e" stoichiometry="1" constant="true"/>
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+        <sbml:annotation xmlns:sbml="http://www.sbml.org/sbml/level3/version1/core">
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+              <bqbiol:is xmlns:bqbiol="http://biomodels.net/biology-qualifiers/">
+                <rdf:Bag>
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+                  <rdf:li rdf:resource="http://identifiers.org/biocyc/META:HOMSUCTRAN-RXN"/>
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+                  <rdf:li rdf:resource="http://identifiers.org/metanetx.reaction/MNXR100741"/>
+                  <rdf:li rdf:resource="http://identifiers.org/rhea/22010"/>
+                  <rdf:li rdf:resource="http://identifiers.org/rhea/22011"/>
+                  <rdf:li rdf:resource="http://identifiers.org/rhea/22009"/>
+                  <rdf:li rdf:resource="http://identifiers.org/rhea/22008"/>
+                  <rdf:li rdf:resource="http://identifiers.org/seed.reaction/rxn01304"/>
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+            </rdf:Description>
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+        </sbml:annotation>
+        <listOfReactants>
+          <speciesReference species="M_hom__L_c" stoichiometry="1" constant="true"/>
+          <speciesReference species="M_succoa_c" stoichiometry="1" constant="true"/>
+        </listOfReactants>
+        <listOfProducts>
+          <speciesReference species="M_coa_c" stoichiometry="1" constant="true"/>
+          <speciesReference species="M_suchms_c" stoichiometry="1" constant="true"/>
+        </listOfProducts>
+        <fbc:geneProductAssociation>
+          <fbc:geneProductRef fbc:geneProduct="G_b4013"/>
+        </fbc:geneProductAssociation>
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+        <sbml:annotation xmlns:sbml="http://www.sbml.org/sbml/level3/version1/core">
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+              <bqbiol:is xmlns:bqbiol="http://biomodels.net/biology-qualifiers/">
+                <rdf:Bag>
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+                  <rdf:li rdf:resource="http://identifiers.org/seed.reaction/rxn01000"/>
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+          <speciesReference species="M_h_c" stoichiometry="1" constant="true"/>
+          <speciesReference species="M_pphn_c" stoichiometry="1" constant="true"/>
+        </listOfReactants>
+        <listOfProducts>
+          <speciesReference species="M_co2_c" stoichiometry="1" constant="true"/>
+          <speciesReference species="M_h2o_c" stoichiometry="1" constant="true"/>
+          <speciesReference species="M_phpyr_c" stoichiometry="1" constant="true"/>
+        </listOfProducts>
+        <fbc:geneProductAssociation>
+          <fbc:geneProductRef fbc:geneProduct="G_b2599"/>
+        </fbc:geneProductAssociation>
+      </reaction>
+      <reaction id="R_TMAOR1" fast="false" reversible="false" name="Trimethylamine N-oxide reductase (menaquinol 8)" metaid="R_TMAOR1" sboTerm="SBO:0000176" fbc:upperFluxBound="cobra_default_ub" fbc:lowerFluxBound="cobra_0_bound">
+        <sbml:annotation xmlns:sbml="http://www.sbml.org/sbml/level3/version1/core">
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+                  <rdf:li rdf:resource="http://identifiers.org/rhea/29282"/>
+                  <rdf:li rdf:resource="http://identifiers.org/rhea/29280"/>
+                  <rdf:li rdf:resource="http://identifiers.org/rhea/29279"/>
+                  <rdf:li rdf:resource="http://identifiers.org/seed.reaction/rxn09313"/>
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+          <speciesReference species="M_h_c" stoichiometry="1" constant="true"/>
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+          <speciesReference species="M_tmao_c" stoichiometry="1" constant="true"/>
+        </listOfReactants>
+        <listOfProducts>
+          <speciesReference species="M_h2o_c" stoichiometry="1" constant="true"/>
+          <speciesReference species="M_mqn8_c" stoichiometry="1" constant="true"/>
+          <speciesReference species="M_tma_c" stoichiometry="1" constant="true"/>
+        </listOfProducts>
+        <fbc:geneProductAssociation>
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+            <fbc:and>
+              <fbc:geneProductRef fbc:geneProduct="G_b0895"/>
+              <fbc:geneProductRef fbc:geneProduct="G_b0896"/>
+              <fbc:geneProductRef fbc:geneProduct="G_b0894"/>
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+            <fbc:and>
+              <fbc:geneProductRef fbc:geneProduct="G_b1589"/>
+              <fbc:geneProductRef fbc:geneProduct="G_b1590"/>
+              <fbc:geneProductRef fbc:geneProduct="G_b1588"/>
+              <fbc:geneProductRef fbc:geneProduct="G_b1587"/>
+            </fbc:and>
+          </fbc:or>
+        </fbc:geneProductAssociation>
+      </reaction>
+      <reaction id="R_TMAOR2" fast="false" reversible="false" name="Trimethylamine N-oxide reductase (demethylmenaquinol 8)" metaid="R_TMAOR2" sboTerm="SBO:0000176" fbc:upperFluxBound="cobra_default_ub" fbc:lowerFluxBound="cobra_0_bound">
+        <sbml:annotation xmlns:sbml="http://www.sbml.org/sbml/level3/version1/core">
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+                  <rdf:li rdf:resource="http://identifiers.org/rhea/30584"/>
+                  <rdf:li rdf:resource="http://identifiers.org/rhea/30585"/>
+                  <rdf:li rdf:resource="http://identifiers.org/seed.reaction/rxn09315"/>
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+          <speciesReference species="M_tmao_c" stoichiometry="1" constant="true"/>
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+        <listOfProducts>
+          <speciesReference species="M_2dmmq8_c" stoichiometry="1" constant="true"/>
+          <speciesReference species="M_h2o_c" stoichiometry="1" constant="true"/>
+          <speciesReference species="M_tma_c" stoichiometry="1" constant="true"/>
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+            <fbc:geneProductRef fbc:geneProduct="G_b0896"/>
+            <fbc:geneProductRef fbc:geneProduct="G_b0894"/>
+          </fbc:and>
+        </fbc:geneProductAssociation>
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+            <fbc:geneProductRef fbc:geneProduct="G_b0688"/>
+            <fbc:geneProductRef fbc:geneProduct="G_b1317"/>
+          </fbc:or>
+        </fbc:geneProductAssociation>
+      </reaction>
+      <reaction id="R_FRUK" fast="false" reversible="false" name="Fructose-1-phosphate kinase" metaid="R_FRUK" sboTerm="SBO:0000176" fbc:upperFluxBound="cobra_default_ub" fbc:lowerFluxBound="cobra_0_bound">
+        <sbml:annotation xmlns:sbml="http://www.sbml.org/sbml/level3/version1/core">
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+                  <rdf:li rdf:resource="http://identifiers.org/rhea/14216"/>
+                  <rdf:li rdf:resource="http://identifiers.org/rhea/14213"/>
+                  <rdf:li rdf:resource="http://identifiers.org/rhea/14214"/>
+                  <rdf:li rdf:resource="http://identifiers.org/rhea/14215"/>
+                  <rdf:li rdf:resource="http://identifiers.org/sabiork/7171"/>
+                  <rdf:li rdf:resource="http://identifiers.org/seed.reaction/rxn01492"/>
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+        </sbml:annotation>
+        <listOfReactants>
+          <speciesReference species="M_atp_c" stoichiometry="1" constant="true"/>
+          <speciesReference species="M_f1p_c" stoichiometry="1" constant="true"/>
+        </listOfReactants>
+        <listOfProducts>
+          <speciesReference species="M_adp_c" stoichiometry="1" constant="true"/>
+          <speciesReference species="M_fdp_c" stoichiometry="1" constant="true"/>
+          <speciesReference species="M_h_c" stoichiometry="1" constant="true"/>
+        </listOfProducts>
+        <fbc:geneProductAssociation>
+          <fbc:geneProductRef fbc:geneProduct="G_b2168"/>
+        </fbc:geneProductAssociation>
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+                  <rdf:li rdf:resource="http://identifiers.org/reactome.reaction/R-GGA-351208"/>
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+                  <rdf:li rdf:resource="http://identifiers.org/reactome.reaction/R-CFA-351208"/>
+                  <rdf:li rdf:resource="http://identifiers.org/reactome.reaction/R-RNO-351208"/>
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+                  <rdf:li rdf:resource="http://identifiers.org/reactome.reaction/R-SPO-351208"/>
+                  <rdf:li rdf:resource="http://identifiers.org/rhea/28153"/>
+                  <rdf:li rdf:resource="http://identifiers.org/rhea/28151"/>
+                  <rdf:li rdf:resource="http://identifiers.org/rhea/28152"/>
+                  <rdf:li rdf:resource="http://identifiers.org/rhea/28150"/>
+                  <rdf:li rdf:resource="http://identifiers.org/sabiork/7731"/>
+                  <rdf:li rdf:resource="http://identifiers.org/seed.reaction/rxn09264"/>
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+          <speciesReference species="M_accoa_c" stoichiometry="1" constant="true"/>
+          <speciesReference species="M_spmd_c" stoichiometry="1" constant="true"/>
+        </listOfReactants>
+        <listOfProducts>
+          <speciesReference species="M_N1aspmd_c" stoichiometry="1" constant="true"/>
+          <speciesReference species="M_coa_c" stoichiometry="1" constant="true"/>
+          <speciesReference species="M_h_c" stoichiometry="1" constant="true"/>
+        </listOfProducts>
+        <fbc:geneProductAssociation>
+          <fbc:geneProductRef fbc:geneProduct="G_b1584"/>
+        </fbc:geneProductAssociation>
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+      <reaction id="R_RHCCE" fast="false" reversible="false" name="S-ribosylhomocysteine cleavage enzyme" metaid="R_RHCCE" sboTerm="SBO:0000176" fbc:upperFluxBound="cobra_default_ub" fbc:lowerFluxBound="cobra_0_bound">
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+              <bqbiol:is xmlns:bqbiol="http://biomodels.net/biology-qualifiers/">
+                <rdf:Bag>
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+                  <rdf:li rdf:resource="http://identifiers.org/biocyc/META:RIBOSYLHOMOCYSTEINASE-RXN"/>
+                  <rdf:li rdf:resource="http://identifiers.org/ec-code/4.4.1.21"/>
+                  <rdf:li rdf:resource="http://identifiers.org/kegg.reaction/R01291"/>
+                  <rdf:li rdf:resource="http://identifiers.org/metanetx.reaction/MNXR104026"/>
+                  <rdf:li rdf:resource="http://identifiers.org/rhea/17754"/>
+                  <rdf:li rdf:resource="http://identifiers.org/rhea/17753"/>
+                  <rdf:li rdf:resource="http://identifiers.org/rhea/17756"/>
+                  <rdf:li rdf:resource="http://identifiers.org/rhea/17755"/>
+                  <rdf:li rdf:resource="http://identifiers.org/sabiork/6873"/>
+                  <rdf:li rdf:resource="http://identifiers.org/seed.reaction/rxn14169"/>
+                  <rdf:li rdf:resource="http://identifiers.org/seed.reaction/rxn05958"/>
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+        <listOfReactants>
+          <speciesReference species="M_rhcys_c" stoichiometry="1" constant="true"/>
+        </listOfReactants>
+        <listOfProducts>
+          <speciesReference species="M_dhptd_c" stoichiometry="1" constant="true"/>
+          <speciesReference species="M_hcys__L_c" stoichiometry="1" constant="true"/>
+        </listOfProducts>
+        <fbc:geneProductAssociation>
+          <fbc:geneProductRef fbc:geneProduct="G_b2687"/>
+        </fbc:geneProductAssociation>
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+      <reaction id="R_EX_dha_e" fast="false" reversible="false" name="Dihydroxyacetone exchange" metaid="R_EX_dha_e" sboTerm="SBO:0000627" fbc:upperFluxBound="cobra_default_ub" fbc:lowerFluxBound="cobra_0_bound">
+        <sbml:annotation xmlns:sbml="http://www.sbml.org/sbml/level3/version1/core">
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+              <bqbiol:is xmlns:bqbiol="http://biomodels.net/biology-qualifiers/">
+                <rdf:Bag>
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+                  <rdf:li rdf:resource="http://identifiers.org/biocyc/META:TRANS-RXN0-559"/>
+                  <rdf:li rdf:resource="http://identifiers.org/metanetx.reaction/MNXR97367"/>
+                  <rdf:li rdf:resource="http://identifiers.org/seed.reaction/rxn08325"/>
+                  <rdf:li rdf:resource="http://identifiers.org/seed.reaction/rxn08326"/>
+                  <rdf:li rdf:resource="http://identifiers.org/seed.reaction/rxn05532"/>
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+        </sbml:annotation>
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+          <speciesReference species="M_dha_e" stoichiometry="1" constant="true"/>
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+        <sbml:annotation xmlns:sbml="http://www.sbml.org/sbml/level3/version1/core">
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+              <bqbiol:is xmlns:bqbiol="http://biomodels.net/biology-qualifiers/">
+                <rdf:Bag>
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+                  <rdf:li rdf:resource="http://identifiers.org/biocyc/META:RXN0-705"/>
+                  <rdf:li rdf:resource="http://identifiers.org/ec-code/4.1.1.85"/>
+                  <rdf:li rdf:resource="http://identifiers.org/kegg.reaction/R07125"/>
+                  <rdf:li rdf:resource="http://identifiers.org/metanetx.reaction/MNXR100935"/>
+                  <rdf:li rdf:resource="http://identifiers.org/rhea/14353"/>
+                  <rdf:li rdf:resource="http://identifiers.org/rhea/14356"/>
+                  <rdf:li rdf:resource="http://identifiers.org/rhea/14354"/>
+                  <rdf:li rdf:resource="http://identifiers.org/rhea/14355"/>
+                  <rdf:li rdf:resource="http://identifiers.org/sabiork/7628"/>
+                  <rdf:li rdf:resource="http://identifiers.org/seed.reaction/rxn04928"/>
+                </rdf:Bag>
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+          </rdf:RDF>
+        </sbml:annotation>
+        <listOfReactants>
+          <speciesReference species="M_3dhgulnp_c" stoichiometry="1" constant="true"/>
+          <speciesReference species="M_h_c" stoichiometry="1" constant="true"/>
+        </listOfReactants>
+        <listOfProducts>
+          <speciesReference species="M_co2_c" stoichiometry="1" constant="true"/>
+          <speciesReference species="M_xu5p__L_c" stoichiometry="1" constant="true"/>
+        </listOfProducts>
+        <fbc:geneProductAssociation>
+          <fbc:or>
+            <fbc:geneProductRef fbc:geneProduct="G_b4196"/>
+            <fbc:geneProductRef fbc:geneProduct="G_b3581"/>
+          </fbc:or>
+        </fbc:geneProductAssociation>
+      </reaction>
+      <reaction id="R_SPMDAT2" fast="false" reversible="false" name="Spermidine acetyltransferase (N8)" metaid="R_SPMDAT2" sboTerm="SBO:0000176" fbc:upperFluxBound="cobra_default_ub" fbc:lowerFluxBound="cobra_0_bound">
+        <sbml:annotation xmlns:sbml="http://www.sbml.org/sbml/level3/version1/core">
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+              <bqbiol:is xmlns:bqbiol="http://biomodels.net/biology-qualifiers/">
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+                  <rdf:li rdf:resource="http://identifiers.org/metanetx.reaction/MNXR104492"/>
+                  <rdf:li rdf:resource="http://identifiers.org/rhea/28272"/>
+                  <rdf:li rdf:resource="http://identifiers.org/rhea/28273"/>
+                  <rdf:li rdf:resource="http://identifiers.org/rhea/28270"/>
+                  <rdf:li rdf:resource="http://identifiers.org/rhea/28271"/>
+                  <rdf:li rdf:resource="http://identifiers.org/seed.reaction/rxn09265"/>
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+            </rdf:Description>
+          </rdf:RDF>
+        </sbml:annotation>
+        <listOfReactants>
+          <speciesReference species="M_accoa_c" stoichiometry="1" constant="true"/>
+          <speciesReference species="M_spmd_c" stoichiometry="1" constant="true"/>
+        </listOfReactants>
+        <listOfProducts>
+          <speciesReference species="M_coa_c" stoichiometry="1" constant="true"/>
+          <speciesReference species="M_h_c" stoichiometry="1" constant="true"/>
+          <speciesReference species="M_n8aspmd_c" stoichiometry="1" constant="true"/>
+        </listOfProducts>
+        <fbc:geneProductAssociation>
+          <fbc:geneProductRef fbc:geneProduct="G_b1584"/>
+        </fbc:geneProductAssociation>
+      </reaction>
+      <reaction id="R_TDPADGAT" fast="false" reversible="false" name="DTDP-4-amino-4,6-dideoxy-D-glucose acetyltransferase" metaid="R_TDPADGAT" sboTerm="SBO:0000176" fbc:upperFluxBound="cobra_default_ub" fbc:lowerFluxBound="cobra_0_bound">
+        <sbml:annotation xmlns:sbml="http://www.sbml.org/sbml/level3/version1/core">
+          <rdf:RDF xmlns:rdf="http://www.w3.org/1999/02/22-rdf-syntax-ns#">
+            <rdf:Description rdf:about="#R_TDPADGAT">
+              <bqbiol:is xmlns:bqbiol="http://biomodels.net/biology-qualifiers/">
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+                  <rdf:li rdf:resource="http://identifiers.org/bigg.reaction/TDPADGAT"/>
+                  <rdf:li rdf:resource="http://identifiers.org/biocyc/META:TDPFUCACTRANS-RXN"/>
+                  <rdf:li rdf:resource="http://identifiers.org/ec-code/2.3.1.210"/>
+                  <rdf:li rdf:resource="http://identifiers.org/kegg.reaction/R10142"/>
+                  <rdf:li rdf:resource="http://identifiers.org/metanetx.reaction/MNXR104757"/>
+                  <rdf:li rdf:resource="http://identifiers.org/rhea/34445"/>
+                  <rdf:li rdf:resource="http://identifiers.org/rhea/34443"/>
+                  <rdf:li rdf:resource="http://identifiers.org/rhea/34446"/>
+                  <rdf:li rdf:resource="http://identifiers.org/rhea/28763"/>
+                  <rdf:li rdf:resource="http://identifiers.org/rhea/34444"/>
+                  <rdf:li rdf:resource="http://identifiers.org/rhea/28766"/>
+                  <rdf:li rdf:resource="http://identifiers.org/rhea/28764"/>
+                  <rdf:li rdf:resource="http://identifiers.org/rhea/28765"/>
+                  <rdf:li rdf:resource="http://identifiers.org/seed.reaction/rxn11409"/>
+                </rdf:Bag>
+              </bqbiol:is>
+            </rdf:Description>
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+        </sbml:annotation>
+        <listOfReactants>
+          <speciesReference species="M_accoa_c" stoichiometry="1" constant="true"/>
+          <speciesReference species="M_dtdp4addg_c" stoichiometry="1" constant="true"/>
+        </listOfReactants>
+        <listOfProducts>
+          <speciesReference species="M_coa_c" stoichiometry="1" constant="true"/>
+          <speciesReference species="M_dtdp4aaddg_c" stoichiometry="1" constant="true"/>
+          <speciesReference species="M_h_c" stoichiometry="1" constant="true"/>
+        </listOfProducts>
+        <fbc:geneProductAssociation>
+          <fbc:geneProductRef fbc:geneProduct="G_b3790"/>
+        </fbc:geneProductAssociation>
+      </reaction>
+      <reaction id="R_MALS" fast="false" reversible="false" name="Malate synthase" metaid="R_MALS" sboTerm="SBO:0000176" fbc:upperFluxBound="cobra_default_ub" fbc:lowerFluxBound="cobra_0_bound">
+        <sbml:annotation xmlns:sbml="http://www.sbml.org/sbml/level3/version1/core">
+          <rdf:RDF xmlns:rdf="http://www.w3.org/1999/02/22-rdf-syntax-ns#">
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+              <bqbiol:is xmlns:bqbiol="http://biomodels.net/biology-qualifiers/">
+                <rdf:Bag>
+                  <rdf:li rdf:resource="http://identifiers.org/bigg.reaction/MALS"/>
+                  <rdf:li rdf:resource="http://identifiers.org/biocyc/META:MALSYN-RXN"/>
+                  <rdf:li rdf:resource="http://identifiers.org/ec-code/2.3.3.9"/>
+                  <rdf:li rdf:resource="http://identifiers.org/kegg.reaction/R00472"/>
+                  <rdf:li rdf:resource="http://identifiers.org/metanetx.reaction/MNXR101347"/>
+                  <rdf:li rdf:resource="http://identifiers.org/rhea/18181"/>
+                  <rdf:li rdf:resource="http://identifiers.org/rhea/18182"/>
+                  <rdf:li rdf:resource="http://identifiers.org/rhea/18184"/>
+                  <rdf:li rdf:resource="http://identifiers.org/rhea/18183"/>
+                  <rdf:li rdf:resource="http://identifiers.org/seed.reaction/rxn00330"/>
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+        </sbml:annotation>
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+          <speciesReference species="M_accoa_c" stoichiometry="1" constant="true"/>
+          <speciesReference species="M_glx_c" stoichiometry="1" constant="true"/>
+          <speciesReference species="M_h2o_c" stoichiometry="1" constant="true"/>
+        </listOfReactants>
+        <listOfProducts>
+          <speciesReference species="M_coa_c" stoichiometry="1" constant="true"/>
+          <speciesReference species="M_h_c" stoichiometry="1" constant="true"/>
+          <speciesReference species="M_mal__L_c" stoichiometry="1" constant="true"/>
+        </listOfProducts>
+        <fbc:geneProductAssociation>
+          <fbc:or>
+            <fbc:geneProductRef fbc:geneProduct="G_b4014"/>
+            <fbc:geneProductRef fbc:geneProduct="G_b2976"/>
+          </fbc:or>
+        </fbc:geneProductAssociation>
+      </reaction>
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+        <sbml:annotation xmlns:sbml="http://www.sbml.org/sbml/level3/version1/core">
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+              <bqbiol:is xmlns:bqbiol="http://biomodels.net/biology-qualifiers/">
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+                  <rdf:li rdf:resource="http://identifiers.org/kegg.reaction/R03244"/>
+                  <rdf:li rdf:resource="http://identifiers.org/metanetx.reaction/MNXR105224"/>
+                  <rdf:li rdf:resource="http://identifiers.org/rhea/18498"/>
+                  <rdf:li rdf:resource="http://identifiers.org/rhea/18500"/>
+                  <rdf:li rdf:resource="http://identifiers.org/rhea/18499"/>
+                  <rdf:li rdf:resource="http://identifiers.org/rhea/18497"/>
+                  <rdf:li rdf:resource="http://identifiers.org/seed.reaction/rxn02321"/>
+                </rdf:Bag>
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+        </sbml:annotation>
+        <listOfReactants>
+          <speciesReference species="M_xu5p__L_c" stoichiometry="1" constant="true"/>
+        </listOfReactants>
+        <listOfProducts>
+          <speciesReference species="M_ru5p__L_c" stoichiometry="1" constant="true"/>
+        </listOfProducts>
+        <fbc:geneProductAssociation>
+          <fbc:or>
+            <fbc:geneProductRef fbc:geneProduct="G_b4197"/>
+            <fbc:geneProductRef fbc:geneProduct="G_b3582"/>
+          </fbc:or>
+        </fbc:geneProductAssociation>
+      </reaction>
+      <reaction id="R_DOGULNR" fast="false" reversible="false" name="2,3 dioxo-L-gulonate reductase" metaid="R_DOGULNR" sboTerm="SBO:0000176" fbc:upperFluxBound="cobra_default_ub" fbc:lowerFluxBound="cobra_0_bound">
+        <sbml:annotation xmlns:sbml="http://www.sbml.org/sbml/level3/version1/core">
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+                  <rdf:li rdf:resource="http://identifiers.org/kegg.reaction/R02637"/>
+                  <rdf:li rdf:resource="http://identifiers.org/metanetx.reaction/MNXR97688"/>
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+          </rdf:RDF>
+        </sbml:annotation>
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+          <speciesReference species="M_23doguln_c" stoichiometry="1" constant="true"/>
+          <speciesReference species="M_h_c" stoichiometry="1" constant="true"/>
+          <speciesReference species="M_nadh_c" stoichiometry="1" constant="true"/>
+        </listOfReactants>
+        <listOfProducts>
+          <speciesReference species="M_3dhguln_c" stoichiometry="1" constant="true"/>
+          <speciesReference species="M_nad_c" stoichiometry="1" constant="true"/>
+        </listOfProducts>
+        <fbc:geneProductAssociation>
+          <fbc:geneProductRef fbc:geneProduct="G_b3575"/>
+        </fbc:geneProductAssociation>
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+      <reaction id="R_TRE6PP" fast="false" reversible="false" name="Trehalose-phosphatase" metaid="R_TRE6PP" sboTerm="SBO:0000176" fbc:upperFluxBound="cobra_default_ub" fbc:lowerFluxBound="cobra_0_bound">
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+                  <rdf:li rdf:resource="http://identifiers.org/rhea/23422"/>
+                  <rdf:li rdf:resource="http://identifiers.org/rhea/23421"/>
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+          <speciesReference species="M_tre6p_c" stoichiometry="1" constant="true"/>
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+        <listOfProducts>
+          <speciesReference species="M_pi_c" stoichiometry="1" constant="true"/>
+          <speciesReference species="M_tre_c" stoichiometry="1" constant="true"/>
+        </listOfProducts>
+        <fbc:geneProductAssociation>
+          <fbc:geneProductRef fbc:geneProduct="G_b1897"/>
+        </fbc:geneProductAssociation>
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+      <reaction id="R_EX_fuc__L_e" fast="false" reversible="false" name="L-Fucose exchange" metaid="R_EX_fuc__L_e" sboTerm="SBO:0000627" fbc:upperFluxBound="cobra_default_ub" fbc:lowerFluxBound="cobra_0_bound">
+        <sbml:annotation xmlns:sbml="http://www.sbml.org/sbml/level3/version1/core">
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+        <sbml:annotation xmlns:sbml="http://www.sbml.org/sbml/level3/version1/core">
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+              <bqbiol:is xmlns:bqbiol="http://biomodels.net/biology-qualifiers/">
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+                  <rdf:li rdf:resource="http://identifiers.org/rhea/34912"/>
+                  <rdf:li rdf:resource="http://identifiers.org/rhea/34914"/>
+                  <rdf:li rdf:resource="http://identifiers.org/rhea/34911"/>
+                  <rdf:li rdf:resource="http://identifiers.org/seed.reaction/rxn08911"/>
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+      <reaction id="R_EX_tartr__L_e" fast="false" reversible="false" name="L-tartrate exchange" metaid="R_EX_tartr__L_e" sboTerm="SBO:0000627" fbc:upperFluxBound="cobra_default_ub" fbc:lowerFluxBound="cobra_0_bound">
+        <sbml:annotation xmlns:sbml="http://www.sbml.org/sbml/level3/version1/core">
+          <rdf:RDF xmlns:rdf="http://www.w3.org/1999/02/22-rdf-syntax-ns#">
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+              <bqbiol:is xmlns:bqbiol="http://biomodels.net/biology-qualifiers/">
+                <rdf:Bag>
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+                  <rdf:li rdf:resource="http://identifiers.org/seed.reaction/rxn09284"/>
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+        </sbml:annotation>
+        <listOfReactants>
+          <speciesReference species="M_tartr__L_e" stoichiometry="1" constant="true"/>
+        </listOfReactants>
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+          <speciesReference species="M_nad_c" stoichiometry="1" constant="true"/>
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+          <speciesReference species="M_h_c" stoichiometry="2" constant="true"/>
+          <speciesReference species="M_nadh_c" stoichiometry="1" constant="true"/>
+        </listOfProducts>
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+          <fbc:geneProductRef fbc:geneProduct="G_b0312"/>
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+          <speciesReference species="M_h2o_c" stoichiometry="1" constant="true"/>
+          <speciesReference species="M_nadp_c" stoichiometry="1" constant="true"/>
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+        <listOfProducts>
+          <speciesReference species="M_glyb_c" stoichiometry="1" constant="true"/>
+          <speciesReference species="M_h_c" stoichiometry="2" constant="true"/>
+          <speciesReference species="M_nadph_c" stoichiometry="1" constant="true"/>
+        </listOfProducts>
+        <fbc:geneProductAssociation>
+          <fbc:geneProductRef fbc:geneProduct="G_b0312"/>
+        </fbc:geneProductAssociation>
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+        <sbml:annotation xmlns:sbml="http://www.sbml.org/sbml/level3/version1/core">
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+                  <rdf:li rdf:resource="http://identifiers.org/metanetx.reaction/MNXR101621"/>
+                  <rdf:li rdf:resource="http://identifiers.org/seed.reaction/rxn08934"/>
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+          <speciesReference species="M_maltpt_c" stoichiometry="1" constant="true"/>
+        </listOfReactants>
+        <listOfProducts>
+          <speciesReference species="M_glc__D_c" stoichiometry="1" constant="true"/>
+          <speciesReference species="M_maltttr_c" stoichiometry="1" constant="true"/>
+        </listOfProducts>
+        <fbc:geneProductAssociation>
+          <fbc:geneProductRef fbc:geneProduct="G_b0403"/>
+        </fbc:geneProductAssociation>
+      </reaction>
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+        <sbml:annotation xmlns:sbml="http://www.sbml.org/sbml/level3/version1/core">
+          <rdf:RDF xmlns:rdf="http://www.w3.org/1999/02/22-rdf-syntax-ns#">
+            <rdf:Description rdf:about="#R_EX_taur_e">
+              <bqbiol:is xmlns:bqbiol="http://biomodels.net/biology-qualifiers/">
+                <rdf:Bag>
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+                  <rdf:li rdf:resource="http://identifiers.org/seed.reaction/rxn13402"/>
+                </rdf:Bag>
+              </bqbiol:is>
+            </rdf:Description>
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+        </sbml:annotation>
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+          <speciesReference species="M_taur_e" stoichiometry="1" constant="true"/>
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+      <reaction id="R_EX_maltpt_e" fast="false" reversible="false" name="Maltopentaose exchange" metaid="R_EX_maltpt_e" sboTerm="SBO:0000627" fbc:upperFluxBound="cobra_default_ub" fbc:lowerFluxBound="cobra_0_bound">
+        <sbml:annotation xmlns:sbml="http://www.sbml.org/sbml/level3/version1/core">
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+              <bqbiol:is xmlns:bqbiol="http://biomodels.net/biology-qualifiers/">
+                <rdf:Bag>
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+                  <rdf:li rdf:resource="http://identifiers.org/seed.reaction/rxn08873"/>
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+        </sbml:annotation>
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+          <speciesReference species="M_maltpt_e" stoichiometry="1" constant="true"/>
+        </listOfReactants>
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+      <reaction id="R_EX_glyald_e" fast="false" reversible="false" name="D-Glyceraldehyde exchange" metaid="R_EX_glyald_e" sboTerm="SBO:0000627" fbc:upperFluxBound="cobra_default_ub" fbc:lowerFluxBound="cobra_0_bound">
+        <sbml:annotation xmlns:sbml="http://www.sbml.org/sbml/level3/version1/core">
+          <rdf:RDF xmlns:rdf="http://www.w3.org/1999/02/22-rdf-syntax-ns#">
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+              <bqbiol:is xmlns:bqbiol="http://biomodels.net/biology-qualifiers/">
+                <rdf:Bag>
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+                  <rdf:li rdf:resource="http://identifiers.org/seed.reaction/rxn08635"/>
+                  <rdf:li rdf:resource="http://identifiers.org/seed.reaction/rxn10164"/>
+                </rdf:Bag>
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+            </rdf:Description>
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+        </sbml:annotation>
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+          <speciesReference species="M_glyald_e" stoichiometry="1" constant="true"/>
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+      </reaction>
+      <reaction id="R_EX_glcur_e" fast="false" reversible="false" name="D-Glucuronate exchange" metaid="R_EX_glcur_e" sboTerm="SBO:0000627" fbc:upperFluxBound="cobra_default_ub" fbc:lowerFluxBound="cobra_0_bound">
+        <sbml:annotation xmlns:sbml="http://www.sbml.org/sbml/level3/version1/core">
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+                  <rdf:li rdf:resource="http://identifiers.org/seed.reaction/rxn08623"/>
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+          <speciesReference species="M_glcur_e" stoichiometry="1" constant="true"/>
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+        <sbml:annotation xmlns:sbml="http://www.sbml.org/sbml/level3/version1/core">
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+                  <rdf:li rdf:resource="http://identifiers.org/ec-code/3.6.1.13"/>
+                  <rdf:li rdf:resource="http://identifiers.org/metanetx.reaction/MNXR95480"/>
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+        </sbml:annotation>
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+          <speciesReference species="M_adprib_c" stoichiometry="1" constant="true"/>
+          <speciesReference species="M_h2o_c" stoichiometry="1" constant="true"/>
+        </listOfReactants>
+        <listOfProducts>
+          <speciesReference species="M_amp_c" stoichiometry="1" constant="true"/>
+          <speciesReference species="M_h_c" stoichiometry="2" constant="true"/>
+          <speciesReference species="M_r5p_c" stoichiometry="1" constant="true"/>
+        </listOfProducts>
+        <fbc:geneProductAssociation>
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+            <fbc:geneProductRef fbc:geneProduct="G_b3397"/>
+            <fbc:geneProductRef fbc:geneProduct="G_b3034"/>
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+        </fbc:geneProductAssociation>
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+      <reaction id="R_DKGLCNR1" fast="false" reversible="false" name="2,5-diketo-D-gluconate reductase" metaid="R_DKGLCNR1" sboTerm="SBO:0000176" fbc:upperFluxBound="cobra_default_ub" fbc:lowerFluxBound="cobra_0_bound">
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+                <rdf:Bag>
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+                  <rdf:li rdf:resource="http://identifiers.org/seed.reaction/rxn08345"/>
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+          <speciesReference species="M_h_c" stoichiometry="1" constant="true"/>
+          <speciesReference species="M_nadph_c" stoichiometry="1" constant="true"/>
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+        <listOfProducts>
+          <speciesReference species="M_2dhguln_c" stoichiometry="1" constant="true"/>
+          <speciesReference species="M_nadp_c" stoichiometry="1" constant="true"/>
+        </listOfProducts>
+        <fbc:geneProductAssociation>
+          <fbc:or>
+            <fbc:geneProductRef fbc:geneProduct="G_b3012"/>
+            <fbc:geneProductRef fbc:geneProduct="G_b0207"/>
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+        </fbc:geneProductAssociation>
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+                  <rdf:li rdf:resource="http://identifiers.org/rhea/11695"/>
+                  <rdf:li rdf:resource="http://identifiers.org/rhea/11694"/>
+                  <rdf:li rdf:resource="http://identifiers.org/rhea/11693"/>
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+          <speciesReference species="M_nadph_c" stoichiometry="1" constant="true"/>
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+        <listOfProducts>
+          <speciesReference species="M_nadh_c" stoichiometry="1" constant="true"/>
+          <speciesReference species="M_nadp_c" stoichiometry="1" constant="true"/>
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+          <fbc:geneProductRef fbc:geneProduct="G_b3962"/>
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+                  <rdf:li rdf:resource="http://identifiers.org/ec-code/6.2.1.20"/>
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+          <speciesReference species="M_atp_c" stoichiometry="1" constant="true"/>
+          <speciesReference species="M_ttdcea_c" stoichiometry="1" constant="true"/>
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+        <listOfProducts>
+          <speciesReference species="M_amp_c" stoichiometry="1" constant="true"/>
+          <speciesReference species="M_ppi_c" stoichiometry="1" constant="true"/>
+          <speciesReference species="M_tdeACP_c" stoichiometry="1" constant="true"/>
+        </listOfProducts>
+        <fbc:geneProductAssociation>
+          <fbc:and>
+            <fbc:geneProductRef fbc:geneProduct="G_b1094"/>
+            <fbc:geneProductRef fbc:geneProduct="G_b2836"/>
+          </fbc:and>
+        </fbc:geneProductAssociation>
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+                  <rdf:li rdf:resource="http://identifiers.org/rhea/50758"/>
+                  <rdf:li rdf:resource="http://identifiers.org/rhea/21627"/>
+                  <rdf:li rdf:resource="http://identifiers.org/rhea/21626"/>
+                  <rdf:li rdf:resource="http://identifiers.org/rhea/21624"/>
+                  <rdf:li rdf:resource="http://identifiers.org/rhea/50757"/>
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+                  <rdf:li rdf:resource="http://identifiers.org/seed.reaction/rxn03975"/>
+                  <rdf:li rdf:resource="http://identifiers.org/seed.reaction/rxn13930"/>
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+          <speciesReference species="M_h_c" stoichiometry="1" constant="true"/>
+          <speciesReference species="M_nadph_c" stoichiometry="1" constant="true"/>
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+        <listOfProducts>
+          <speciesReference species="M_fmnh2_c" stoichiometry="1" constant="true"/>
+          <speciesReference species="M_nadp_c" stoichiometry="1" constant="true"/>
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+        <fbc:geneProductAssociation>
+          <fbc:or>
+            <fbc:geneProductRef fbc:geneProduct="G_b3844"/>
+            <fbc:geneProductRef fbc:geneProduct="G_b0937"/>
+            <fbc:and>
+              <fbc:geneProductRef fbc:geneProduct="G_b2764"/>
+              <fbc:geneProductRef fbc:geneProduct="G_b2763"/>
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+                  <rdf:li rdf:resource="http://identifiers.org/ec-code/2.7.8.7"/>
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+                  <rdf:li rdf:resource="http://identifiers.org/seed.reaction/rxn06023"/>
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+          <speciesReference species="M_coa_c" stoichiometry="1" constant="true"/>
+        </listOfReactants>
+        <listOfProducts>
+          <speciesReference species="M_ACP_c" stoichiometry="1" constant="true"/>
+          <speciesReference species="M_h_c" stoichiometry="1" constant="true"/>
+          <speciesReference species="M_pap_c" stoichiometry="1" constant="true"/>
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+        <fbc:geneProductAssociation>
+          <fbc:or>
+            <fbc:geneProductRef fbc:geneProduct="G_b2563"/>
+            <fbc:geneProductRef fbc:geneProduct="G_b3475"/>
+          </fbc:or>
+        </fbc:geneProductAssociation>
+      </reaction>
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+        <sbml:annotation xmlns:sbml="http://www.sbml.org/sbml/level3/version1/core">
+          <rdf:RDF xmlns:rdf="http://www.w3.org/1999/02/22-rdf-syntax-ns#">
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+              <bqbiol:is xmlns:bqbiol="http://biomodels.net/biology-qualifiers/">
+                <rdf:Bag>
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+                  <rdf:li rdf:resource="http://identifiers.org/rhea/28483"/>
+                  <rdf:li rdf:resource="http://identifiers.org/rhea/28482"/>
+                  <rdf:li rdf:resource="http://identifiers.org/rhea/28484"/>
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+                  <rdf:li rdf:resource="http://identifiers.org/seed.reaction/rxn08995"/>
+                  <rdf:li rdf:resource="http://identifiers.org/seed.reaction/rxn10181"/>
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+            </rdf:Description>
+          </rdf:RDF>
+        </sbml:annotation>
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+          <speciesReference species="M_nmn_e" stoichiometry="1" constant="true"/>
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+        <sbml:annotation xmlns:sbml="http://www.sbml.org/sbml/level3/version1/core">
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+              <bqbiol:is xmlns:bqbiol="http://biomodels.net/biology-qualifiers/">
+                <rdf:Bag>
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+                  <rdf:li rdf:resource="http://identifiers.org/biocyc/META:TRANS-RXN0-460"/>
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+                  <rdf:li rdf:resource="http://identifiers.org/reactome.reaction/R-XTR-444126"/>
+                  <rdf:li rdf:resource="http://identifiers.org/reactome.reaction/R-SSC-507873"/>
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+                  <rdf:li rdf:resource="http://identifiers.org/reactome.reaction/R-GGA-507873"/>
+                  <rdf:li rdf:resource="http://identifiers.org/reactome.reaction/R-SPO-507873"/>
+                  <rdf:li rdf:resource="http://identifiers.org/reactome.reaction/R-CEL-507873"/>
+                  <rdf:li rdf:resource="http://identifiers.org/reactome.reaction/R-HSA-507875"/>
+                  <rdf:li rdf:resource="http://identifiers.org/reactome.reaction/R-RNO-507875"/>
+                  <rdf:li rdf:resource="http://identifiers.org/reactome.reaction/R-SCE-507875"/>
+                  <rdf:li rdf:resource="http://identifiers.org/reactome.reaction/R-TGU-507875"/>
+                  <rdf:li rdf:resource="http://identifiers.org/reactome.reaction/R-CEL-507875"/>
+                  <rdf:li rdf:resource="http://identifiers.org/reactome.reaction/R-PFA-507873"/>
+                  <rdf:li rdf:resource="http://identifiers.org/reactome.reaction/R-SSC-507875"/>
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+                  <rdf:li rdf:resource="http://identifiers.org/reactome.reaction/R-HSA-507873"/>
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+                  <rdf:li rdf:resource="http://identifiers.org/reactome.reaction/R-MMU-507875"/>
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+                  <rdf:li rdf:resource="http://identifiers.org/reactome.reaction/R-CFA-507875"/>
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+                  <rdf:li rdf:resource="http://identifiers.org/reactome.reaction/R-CFA-507873"/>
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+                  <rdf:li rdf:resource="http://identifiers.org/reactome.reaction/R-BTA-507873"/>
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+                  <rdf:li rdf:resource="http://identifiers.org/rhea/32800"/>
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+                  <rdf:li rdf:resource="http://identifiers.org/seed.reaction/rxn05667"/>
+                  <rdf:li rdf:resource="http://identifiers.org/seed.reaction/rxn09368"/>
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+        </sbml:annotation>
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+          <speciesReference species="M_urea_e" stoichiometry="1" constant="true"/>
+        </listOfReactants>
+      </reaction>
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+        <sbml:annotation xmlns:sbml="http://www.sbml.org/sbml/level3/version1/core">
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+              <bqbiol:is xmlns:bqbiol="http://biomodels.net/biology-qualifiers/">
+                <rdf:Bag>
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+                  <rdf:li rdf:resource="http://identifiers.org/ec-code/5.3.1.4"/>
+                  <rdf:li rdf:resource="http://identifiers.org/ec-code/5.3.1.5"/>
+                  <rdf:li rdf:resource="http://identifiers.org/metanetx.reaction/MNXR95922"/>
+                  <rdf:li rdf:resource="http://identifiers.org/sabiork/1860"/>
+                </rdf:Bag>
+              </bqbiol:is>
+            </rdf:Description>
+          </rdf:RDF>
+        </sbml:annotation>
+        <listOfReactants>
+          <speciesReference species="M_arab__L_c" stoichiometry="1" constant="true"/>
+        </listOfReactants>
+        <listOfProducts>
+          <speciesReference species="M_rbl__L_c" stoichiometry="1" constant="true"/>
+        </listOfProducts>
+        <fbc:geneProductAssociation>
+          <fbc:geneProductRef fbc:geneProduct="G_b0062"/>
+        </fbc:geneProductAssociation>
+      </reaction>
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+        <sbml:annotation xmlns:sbml="http://www.sbml.org/sbml/level3/version1/core">
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+              <bqbiol:is xmlns:bqbiol="http://biomodels.net/biology-qualifiers/">
+                <rdf:Bag>
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+                  <rdf:li rdf:resource="http://identifiers.org/biocyc/META:MANNPDEHYDROG-RXN"/>
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+                  <rdf:li rdf:resource="http://identifiers.org/kegg.reaction/R02703"/>
+                  <rdf:li rdf:resource="http://identifiers.org/metanetx.reaction/MNXR101311"/>
+                  <rdf:li rdf:resource="http://identifiers.org/rhea/19664"/>
+                  <rdf:li rdf:resource="http://identifiers.org/rhea/19663"/>
+                  <rdf:li rdf:resource="http://identifiers.org/rhea/19661"/>
+                  <rdf:li rdf:resource="http://identifiers.org/rhea/19662"/>
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+        </sbml:annotation>
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+          <speciesReference species="M_mnl1p_c" stoichiometry="1" constant="true"/>
+          <speciesReference species="M_nad_c" stoichiometry="1" constant="true"/>
+        </listOfReactants>
+        <listOfProducts>
+          <speciesReference species="M_f6p_c" stoichiometry="1" constant="true"/>
+          <speciesReference species="M_h_c" stoichiometry="1" constant="true"/>
+          <speciesReference species="M_nadh_c" stoichiometry="1" constant="true"/>
+        </listOfProducts>
+        <fbc:geneProductAssociation>
+          <fbc:geneProductRef fbc:geneProduct="G_b3600"/>
+        </fbc:geneProductAssociation>
+      </reaction>
+      <reaction id="R_G3PD2" fast="false" reversible="true" name="Glycerol-3-phosphate dehydrogenase (NADP)" metaid="R_G3PD2" sboTerm="SBO:0000176" fbc:upperFluxBound="cobra_default_ub" fbc:lowerFluxBound="cobra_default_lb">
+        <sbml:annotation xmlns:sbml="http://www.sbml.org/sbml/level3/version1/core">
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+                  <rdf:li rdf:resource="http://identifiers.org/sabiork/1184"/>
+                  <rdf:li rdf:resource="http://identifiers.org/seed.reaction/rxn00612"/>
+                </rdf:Bag>
+              </bqbiol:is>
+            </rdf:Description>
+          </rdf:RDF>
+        </sbml:annotation>
+        <listOfReactants>
+          <speciesReference species="M_glyc3p_c" stoichiometry="1" constant="true"/>
+          <speciesReference species="M_nadp_c" stoichiometry="1" constant="true"/>
+        </listOfReactants>
+        <listOfProducts>
+          <speciesReference species="M_dhap_c" stoichiometry="1" constant="true"/>
+          <speciesReference species="M_h_c" stoichiometry="1" constant="true"/>
+          <speciesReference species="M_nadph_c" stoichiometry="1" constant="true"/>
+        </listOfProducts>
+        <fbc:geneProductAssociation>
+          <fbc:geneProductRef fbc:geneProduct="G_b3608"/>
+        </fbc:geneProductAssociation>
+      </reaction>
+      <reaction id="R_GALS3" fast="false" reversible="false" name="A-galactosidase (melibiose)" metaid="R_GALS3" sboTerm="SBO:0000176" fbc:upperFluxBound="cobra_default_ub" fbc:lowerFluxBound="cobra_0_bound">
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+            <rdf:Description rdf:about="#R_GALS3">
+              <bqbiol:is xmlns:bqbiol="http://biomodels.net/biology-qualifiers/">
+                <rdf:Bag>
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+                  <rdf:li rdf:resource="http://identifiers.org/biocyc/META:ALPHAGALACTOSID-RXN"/>
+                  <rdf:li rdf:resource="http://identifiers.org/ec-code/3.2.1.22"/>
+                  <rdf:li rdf:resource="http://identifiers.org/metanetx.reaction/MNXR138470"/>
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+        </sbml:annotation>
+        <listOfReactants>
+          <speciesReference species="M_h2o_c" stoichiometry="1" constant="true"/>
+          <speciesReference species="M_melib_c" stoichiometry="1" constant="true"/>
+        </listOfReactants>
+        <listOfProducts>
+          <speciesReference species="M_gal_c" stoichiometry="1" constant="true"/>
+          <speciesReference species="M_glc__D_c" stoichiometry="1" constant="true"/>
+        </listOfProducts>
+        <fbc:geneProductAssociation>
+          <fbc:geneProductRef fbc:geneProduct="G_b4119"/>
+        </fbc:geneProductAssociation>
+      </reaction>
+      <reaction id="R_FCI" fast="false" reversible="true" name="L-fucose isomerase" metaid="R_FCI" sboTerm="SBO:0000176" fbc:upperFluxBound="cobra_default_ub" fbc:lowerFluxBound="cobra_default_lb">
+        <sbml:annotation xmlns:sbml="http://www.sbml.org/sbml/level3/version1/core">
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+              <bqbiol:is xmlns:bqbiol="http://biomodels.net/biology-qualifiers/">
+                <rdf:Bag>
+                  <rdf:li rdf:resource="http://identifiers.org/bigg.reaction/FCI"/>
+                  <rdf:li rdf:resource="http://identifiers.org/ec-code/5.3.1.3"/>
+                  <rdf:li rdf:resource="http://identifiers.org/metanetx.reaction/MNXR99468"/>
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+          </rdf:RDF>
+        </sbml:annotation>
+        <listOfReactants>
+          <speciesReference species="M_fuc__L_c" stoichiometry="1" constant="true"/>
+        </listOfReactants>
+        <listOfProducts>
+          <speciesReference species="M_fcl__L_c" stoichiometry="1" constant="true"/>
+        </listOfProducts>
+        <fbc:geneProductAssociation>
+          <fbc:geneProductRef fbc:geneProduct="G_b2802"/>
+        </fbc:geneProductAssociation>
+      </reaction>
+      <reaction id="R_FCLK" fast="false" reversible="false" name="L-fuculokinase" metaid="R_FCLK" sboTerm="SBO:0000176" fbc:upperFluxBound="cobra_default_ub" fbc:lowerFluxBound="cobra_0_bound">
+        <sbml:annotation xmlns:sbml="http://www.sbml.org/sbml/level3/version1/core">
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+              <bqbiol:is xmlns:bqbiol="http://biomodels.net/biology-qualifiers/">
+                <rdf:Bag>
+                  <rdf:li rdf:resource="http://identifiers.org/bigg.reaction/FCLK"/>
+                  <rdf:li rdf:resource="http://identifiers.org/biocyc/META:FUCULOKIN-RXN"/>
+                  <rdf:li rdf:resource="http://identifiers.org/ec-code/2.7.1.51"/>
+                  <rdf:li rdf:resource="http://identifiers.org/kegg.reaction/R03241"/>
+                  <rdf:li rdf:resource="http://identifiers.org/metanetx.reaction/MNXR99469"/>
+                  <rdf:li rdf:resource="http://identifiers.org/rhea/12376"/>
+                  <rdf:li rdf:resource="http://identifiers.org/rhea/12378"/>
+                  <rdf:li rdf:resource="http://identifiers.org/rhea/12379"/>
+                  <rdf:li rdf:resource="http://identifiers.org/rhea/12377"/>
+                  <rdf:li rdf:resource="http://identifiers.org/seed.reaction/rxn02319"/>
+                </rdf:Bag>
+              </bqbiol:is>
+            </rdf:Description>
+          </rdf:RDF>
+        </sbml:annotation>
+        <listOfReactants>
+          <speciesReference species="M_atp_c" stoichiometry="1" constant="true"/>
+          <speciesReference species="M_fcl__L_c" stoichiometry="1" constant="true"/>
+        </listOfReactants>
+        <listOfProducts>
+          <speciesReference species="M_adp_c" stoichiometry="1" constant="true"/>
+          <speciesReference species="M_fc1p_c" stoichiometry="1" constant="true"/>
+          <speciesReference species="M_h_c" stoichiometry="1" constant="true"/>
+        </listOfProducts>
+        <fbc:geneProductAssociation>
+          <fbc:geneProductRef fbc:geneProduct="G_b2803"/>
+        </fbc:geneProductAssociation>
+      </reaction>
+      <reaction id="R_FCLPA" fast="false" reversible="true" name="L-fuculose 1-phosphate aldolase" metaid="R_FCLPA" sboTerm="SBO:0000176" fbc:upperFluxBound="cobra_default_ub" fbc:lowerFluxBound="cobra_default_lb">
+        <sbml:annotation xmlns:sbml="http://www.sbml.org/sbml/level3/version1/core">
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+                <rdf:Bag>
+                  <rdf:li rdf:resource="http://identifiers.org/bigg.reaction/FCLPA"/>
+                  <rdf:li rdf:resource="http://identifiers.org/biocyc/META:FUCPALDOL-RXN"/>
+                  <rdf:li rdf:resource="http://identifiers.org/ec-code/4.1.2.17"/>
+                  <rdf:li rdf:resource="http://identifiers.org/kegg.reaction/R02262"/>
+                  <rdf:li rdf:resource="http://identifiers.org/metanetx.reaction/MNXR99470"/>
+                  <rdf:li rdf:resource="http://identifiers.org/rhea/12934"/>
+                  <rdf:li rdf:resource="http://identifiers.org/rhea/12936"/>
+                  <rdf:li rdf:resource="http://identifiers.org/rhea/12935"/>
+                  <rdf:li rdf:resource="http://identifiers.org/rhea/12933"/>
+                  <rdf:li rdf:resource="http://identifiers.org/sabiork/2229"/>
+                  <rdf:li rdf:resource="http://identifiers.org/seed.reaction/rxn01620"/>
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+        </sbml:annotation>
+        <listOfReactants>
+          <speciesReference species="M_fc1p_c" stoichiometry="1" constant="true"/>
+        </listOfReactants>
+        <listOfProducts>
+          <speciesReference species="M_dhap_c" stoichiometry="1" constant="true"/>
+          <speciesReference species="M_lald__L_c" stoichiometry="1" constant="true"/>
+        </listOfProducts>
+        <fbc:geneProductAssociation>
+          <fbc:or>
+            <fbc:geneProductRef fbc:geneProduct="G_b2738"/>
+            <fbc:geneProductRef fbc:geneProduct="G_b2800"/>
+          </fbc:or>
+        </fbc:geneProductAssociation>
+      </reaction>
+      <reaction id="R_GMPS2" fast="false" reversible="false" name="GMP synthase" metaid="R_GMPS2" sboTerm="SBO:0000176" fbc:upperFluxBound="cobra_default_ub" fbc:lowerFluxBound="cobra_0_bound">
+        <sbml:annotation xmlns:sbml="http://www.sbml.org/sbml/level3/version1/core">
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+                  <rdf:li rdf:resource="http://identifiers.org/biocyc/META:GMP-SYN-GLUT-RXN"/>
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+                  <rdf:li rdf:resource="http://identifiers.org/metanetx.reaction/MNXR100384"/>
+                  <rdf:li rdf:resource="http://identifiers.org/rhea/11680"/>
+                  <rdf:li rdf:resource="http://identifiers.org/rhea/11682"/>
+                  <rdf:li rdf:resource="http://identifiers.org/rhea/11681"/>
+                  <rdf:li rdf:resource="http://identifiers.org/rhea/11683"/>
+                  <rdf:li rdf:resource="http://identifiers.org/sabiork/215"/>
+                  <rdf:li rdf:resource="http://identifiers.org/seed.reaction/rxn00917"/>
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+        </sbml:annotation>
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+          <speciesReference species="M_atp_c" stoichiometry="1" constant="true"/>
+          <speciesReference species="M_gln__L_c" stoichiometry="1" constant="true"/>
+          <speciesReference species="M_h2o_c" stoichiometry="1" constant="true"/>
+          <speciesReference species="M_xmp_c" stoichiometry="1" constant="true"/>
+        </listOfReactants>
+        <listOfProducts>
+          <speciesReference species="M_amp_c" stoichiometry="1" constant="true"/>
+          <speciesReference species="M_glu__L_c" stoichiometry="1" constant="true"/>
+          <speciesReference species="M_gmp_c" stoichiometry="1" constant="true"/>
+          <speciesReference species="M_h_c" stoichiometry="2" constant="true"/>
+          <speciesReference species="M_ppi_c" stoichiometry="1" constant="true"/>
+        </listOfProducts>
+        <fbc:geneProductAssociation>
+          <fbc:geneProductRef fbc:geneProduct="G_b2507"/>
+        </fbc:geneProductAssociation>
+      </reaction>
+      <reaction id="R_AMPN" fast="false" reversible="false" name="AMP nucleosidase" metaid="R_AMPN" sboTerm="SBO:0000176" fbc:upperFluxBound="cobra_default_ub" fbc:lowerFluxBound="cobra_0_bound">
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+                <rdf:Bag>
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+                  <rdf:li rdf:resource="http://identifiers.org/ec-code/3.2.2.4"/>
+                  <rdf:li rdf:resource="http://identifiers.org/metanetx.reaction/MNXR95827"/>
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+            </rdf:Description>
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+          <speciesReference species="M_amp_c" stoichiometry="1" constant="true"/>
+          <speciesReference species="M_h2o_c" stoichiometry="1" constant="true"/>
+        </listOfReactants>
+        <listOfProducts>
+          <speciesReference species="M_ade_c" stoichiometry="1" constant="true"/>
+          <speciesReference species="M_r5p_c" stoichiometry="1" constant="true"/>
+        </listOfProducts>
+        <fbc:geneProductAssociation>
+          <fbc:geneProductRef fbc:geneProduct="G_b1982"/>
+        </fbc:geneProductAssociation>
+      </reaction>
+      <reaction id="R_GSNK" fast="false" reversible="false" name="Guanosine kinase" metaid="R_GSNK" sboTerm="SBO:0000176" fbc:upperFluxBound="cobra_default_ub" fbc:lowerFluxBound="cobra_0_bound">
+        <sbml:annotation xmlns:sbml="http://www.sbml.org/sbml/level3/version1/core">
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+              <bqbiol:is xmlns:bqbiol="http://biomodels.net/biology-qualifiers/">
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+                  <rdf:li rdf:resource="http://identifiers.org/biocyc/META:GUANOSINEKIN-RXN"/>
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+                  <rdf:li rdf:resource="http://identifiers.org/metanetx.reaction/MNXR100432"/>
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+                  <rdf:li rdf:resource="http://identifiers.org/rhea/27710"/>
+                  <rdf:li rdf:resource="http://identifiers.org/rhea/27712"/>
+                  <rdf:li rdf:resource="http://identifiers.org/rhea/27713"/>
+                  <rdf:li rdf:resource="http://identifiers.org/seed.reaction/rxn00914"/>
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+        </sbml:annotation>
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+          <speciesReference species="M_atp_c" stoichiometry="1" constant="true"/>
+          <speciesReference species="M_gsn_c" stoichiometry="1" constant="true"/>
+        </listOfReactants>
+        <listOfProducts>
+          <speciesReference species="M_adp_c" stoichiometry="1" constant="true"/>
+          <speciesReference species="M_gmp_c" stoichiometry="1" constant="true"/>
+          <speciesReference species="M_h_c" stoichiometry="1" constant="true"/>
+        </listOfProducts>
+        <fbc:geneProductAssociation>
+          <fbc:geneProductRef fbc:geneProduct="G_b0477"/>
+        </fbc:geneProductAssociation>
+      </reaction>
+      <reaction id="R_ACCOAL" fast="false" reversible="false" name="Acetate-CoA ligase (ADP-forming)" metaid="R_ACCOAL" sboTerm="SBO:0000176" fbc:upperFluxBound="cobra_default_ub" fbc:lowerFluxBound="cobra_0_bound">
+        <sbml:annotation xmlns:sbml="http://www.sbml.org/sbml/level3/version1/core">
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+            <rdf:Description rdf:about="#R_ACCOAL">
+              <bqbiol:is xmlns:bqbiol="http://biomodels.net/biology-qualifiers/">
+                <rdf:Bag>
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+                  <rdf:li rdf:resource="http://identifiers.org/ec-code/6.2.1.13"/>
+                  <rdf:li rdf:resource="http://identifiers.org/metanetx.reaction/MNXR95221"/>
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+            </rdf:Description>
+          </rdf:RDF>
+        </sbml:annotation>
+        <listOfReactants>
+          <speciesReference species="M_atp_c" stoichiometry="1" constant="true"/>
+          <speciesReference species="M_coa_c" stoichiometry="1" constant="true"/>
+          <speciesReference species="M_ppa_c" stoichiometry="1" constant="true"/>
+        </listOfReactants>
+        <listOfProducts>
+          <speciesReference species="M_adp_c" stoichiometry="1" constant="true"/>
+          <speciesReference species="M_pi_c" stoichiometry="1" constant="true"/>
+          <speciesReference species="M_ppcoa_c" stoichiometry="1" constant="true"/>
+        </listOfProducts>
+        <fbc:geneProductAssociation>
+          <fbc:or>
+            <fbc:geneProductRef fbc:geneProduct="G_b4069"/>
+            <fbc:geneProductRef fbc:geneProduct="G_b0335"/>
+          </fbc:or>
+        </fbc:geneProductAssociation>
+      </reaction>
+      <reaction id="R_GALUi" fast="false" reversible="false" name="UTP-glucose-1-phosphate uridylyltransferase (irreversible)" metaid="R_GALUi" sboTerm="SBO:0000176" fbc:upperFluxBound="cobra_default_ub" fbc:lowerFluxBound="cobra_0_bound">
+        <sbml:annotation xmlns:sbml="http://www.sbml.org/sbml/level3/version1/core">
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+            <rdf:Description rdf:about="#R_GALUi">
+              <bqbiol:is xmlns:bqbiol="http://biomodels.net/biology-qualifiers/">
+                <rdf:Bag>
+                  <rdf:li rdf:resource="http://identifiers.org/bigg.reaction/GALUi"/>
+                  <rdf:li rdf:resource="http://identifiers.org/biocyc/META:GLUC1PURIDYLTRANS-RXN"/>
+                  <rdf:li rdf:resource="http://identifiers.org/ec-code/2.7.7.9"/>
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+                  <rdf:li rdf:resource="http://identifiers.org/kegg.reaction/R00289"/>
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+                  <rdf:li rdf:resource="http://identifiers.org/sabiork/68"/>
+                  <rdf:li rdf:resource="http://identifiers.org/seed.reaction/rxn00213"/>
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+        </sbml:annotation>
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+          <speciesReference species="M_h_c" stoichiometry="1" constant="true"/>
+          <speciesReference species="M_utp_c" stoichiometry="1" constant="true"/>
+        </listOfReactants>
+        <listOfProducts>
+          <speciesReference species="M_ppi_c" stoichiometry="1" constant="true"/>
+          <speciesReference species="M_udpg_c" stoichiometry="1" constant="true"/>
+        </listOfProducts>
+        <fbc:geneProductAssociation>
+          <fbc:geneProductRef fbc:geneProduct="G_b1236"/>
+        </fbc:geneProductAssociation>
+      </reaction>
+      <reaction id="R_AACPS3" fast="false" reversible="false" name="Acyl-[acyl-carrier-protein] synthetase  (n-C16:0)" metaid="R_AACPS3" sboTerm="SBO:0000176" fbc:upperFluxBound="cobra_default_ub" fbc:lowerFluxBound="cobra_0_bound">
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+                <rdf:Bag>
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+                  <rdf:li rdf:resource="http://identifiers.org/ec-code/6.2.1.20"/>
+                  <rdf:li rdf:resource="http://identifiers.org/metanetx.reaction/MNXR95142"/>
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+              </bqbiol:is>
+            </rdf:Description>
+          </rdf:RDF>
+        </sbml:annotation>
+        <listOfReactants>
+          <speciesReference species="M_ACP_c" stoichiometry="1" constant="true"/>
+          <speciesReference species="M_atp_c" stoichiometry="1" constant="true"/>
+          <speciesReference species="M_hdca_c" stoichiometry="1" constant="true"/>
+        </listOfReactants>
+        <listOfProducts>
+          <speciesReference species="M_amp_c" stoichiometry="1" constant="true"/>
+          <speciesReference species="M_palmACP_c" stoichiometry="1" constant="true"/>
+          <speciesReference species="M_ppi_c" stoichiometry="1" constant="true"/>
+        </listOfProducts>
+        <fbc:geneProductAssociation>
+          <fbc:and>
+            <fbc:geneProductRef fbc:geneProduct="G_b1094"/>
+            <fbc:geneProductRef fbc:geneProduct="G_b2836"/>
+          </fbc:and>
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+          <fbc:geneProductRef fbc:geneProduct="G_b0505"/>
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+                  <rdf:li rdf:resource="http://identifiers.org/rhea/22581"/>
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+          <speciesReference species="M_op4en_c" stoichiometry="1" constant="true"/>
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+        <listOfProducts>
+          <speciesReference species="M_4h2opntn_c" stoichiometry="1" constant="true"/>
+        </listOfProducts>
+        <fbc:geneProductAssociation>
+          <fbc:geneProductRef fbc:geneProduct="G_b0350"/>
+        </fbc:geneProductAssociation>
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+                  <rdf:li rdf:resource="http://identifiers.org/rhea/34998"/>
+                  <rdf:li rdf:resource="http://identifiers.org/rhea/34997"/>
+                  <rdf:li rdf:resource="http://identifiers.org/rhea/34996"/>
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+          <speciesReference species="M_acald_c" stoichiometry="1" constant="true"/>
+          <speciesReference species="M_pyr_c" stoichiometry="1" constant="true"/>
+        </listOfProducts>
+        <fbc:geneProductAssociation>
+          <fbc:geneProductRef fbc:geneProduct="G_b0352"/>
+        </fbc:geneProductAssociation>
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+                  <rdf:li rdf:resource="http://identifiers.org/rhea/29396"/>
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+          <speciesReference species="M_utp_c" stoichiometry="1" constant="true"/>
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+        <listOfProducts>
+          <speciesReference species="M_h_c" stoichiometry="1" constant="true"/>
+          <speciesReference species="M_ppi_c" stoichiometry="1" constant="true"/>
+          <speciesReference species="M_ump_c" stoichiometry="1" constant="true"/>
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+        <fbc:geneProductAssociation>
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+            <fbc:geneProductRef fbc:geneProduct="G_b2781"/>
+            <fbc:geneProductRef fbc:geneProduct="G_b3248"/>
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+        </fbc:geneProductAssociation>
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+          <speciesReference species="M_h_c" stoichiometry="2" constant="true"/>
+          <speciesReference species="M_nadph_c" stoichiometry="1" constant="true"/>
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+        <listOfProducts>
+          <speciesReference species="M_nadp_c" stoichiometry="1" constant="true"/>
+          <speciesReference species="M_pro__L_c" stoichiometry="1" constant="true"/>
+        </listOfProducts>
+        <fbc:geneProductAssociation>
+          <fbc:geneProductRef fbc:geneProduct="G_b0386"/>
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+                  <rdf:li rdf:resource="http://identifiers.org/biocyc/META:THIOSULFATE-SULFURTRANSFERASE-RXN"/>
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+                  <rdf:li rdf:resource="http://identifiers.org/metanetx.reaction/MNXR138187"/>
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+                  <rdf:li rdf:resource="http://identifiers.org/rhea/16881"/>
+                  <rdf:li rdf:resource="http://identifiers.org/sabiork/7692"/>
+                  <rdf:li rdf:resource="http://identifiers.org/seed.reaction/rxn01416"/>
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+          <speciesReference species="M_tsul_c" stoichiometry="1" constant="true"/>
+        </listOfReactants>
+        <listOfProducts>
+          <speciesReference species="M_h_c" stoichiometry="1" constant="true"/>
+          <speciesReference species="M_so3_c" stoichiometry="1" constant="true"/>
+          <speciesReference species="M_tcynt_c" stoichiometry="1" constant="true"/>
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+            <fbc:geneProductRef fbc:geneProduct="G_b2668"/>
+            <fbc:geneProductRef fbc:geneProduct="G_b2521"/>
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+        </fbc:geneProductAssociation>
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+        <sbml:annotation xmlns:sbml="http://www.sbml.org/sbml/level3/version1/core">
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+        <sbml:annotation xmlns:sbml="http://www.sbml.org/sbml/level3/version1/core">
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+                  <rdf:li rdf:resource="http://identifiers.org/metanetx.reaction/MNXR97435"/>
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+                  <rdf:li rdf:resource="http://identifiers.org/rhea/21868"/>
+                  <rdf:li rdf:resource="http://identifiers.org/rhea/21870"/>
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+          <speciesReference species="M_h2o_c" stoichiometry="1" constant="true"/>
+          <speciesReference species="M_h_c" stoichiometry="1" constant="true"/>
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+        <listOfProducts>
+          <speciesReference species="M_5apru_c" stoichiometry="1" constant="true"/>
+          <speciesReference species="M_nh4_c" stoichiometry="1" constant="true"/>
+        </listOfProducts>
+        <fbc:geneProductAssociation>
+          <fbc:geneProductRef fbc:geneProduct="G_b0414"/>
+        </fbc:geneProductAssociation>
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+          <speciesReference species="M_h_c" stoichiometry="1" constant="true"/>
+          <speciesReference species="M_nadh_c" stoichiometry="1" constant="true"/>
+          <speciesReference species="M_o2_c" stoichiometry="1" constant="true"/>
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+          <speciesReference species="M_h2o_c" stoichiometry="1" constant="true"/>
+          <speciesReference species="M_nad_c" stoichiometry="1" constant="true"/>
+        </listOfProducts>
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+          <fbc:geneProductRef fbc:geneProduct="G_b0347"/>
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+          <speciesReference species="M_1pyr5c_c" stoichiometry="1" constant="true"/>
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+          <fbc:geneProductRef fbc:geneProduct="G_s0001"/>
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+                  <rdf:li rdf:resource="http://identifiers.org/rhea/23822"/>
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+          <speciesReference species="M_h2o_c" stoichiometry="1" constant="true"/>
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+          <fbc:geneProductRef fbc:geneProduct="G_b2053"/>
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+          <fbc:geneProductRef fbc:geneProduct="G_b2920"/>
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+                  <rdf:li rdf:resource="http://identifiers.org/rhea/16072"/>
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+          <speciesReference species="M_h_c" stoichiometry="1" constant="true"/>
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+          <speciesReference species="M_uri_c" stoichiometry="1" constant="true"/>
+        </listOfProducts>
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+          <fbc:geneProductRef fbc:geneProduct="G_b2143"/>
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+        <sbml:annotation xmlns:sbml="http://www.sbml.org/sbml/level3/version1/core">
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+          <speciesReference species="M_nad_c" stoichiometry="1" constant="true"/>
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+          <speciesReference species="M_nadh_c" stoichiometry="1" constant="true"/>
+          <speciesReference species="M_succoa_c" stoichiometry="1" constant="true"/>
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+            <fbc:geneProductRef fbc:geneProduct="G_b0116"/>
+            <fbc:geneProductRef fbc:geneProduct="G_b0726"/>
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+          <speciesReference species="M_nadh_c" stoichiometry="1" constant="true"/>
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+          <speciesReference species="M_nad_c" stoichiometry="1" constant="true"/>
+        </listOfProducts>
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+            <fbc:geneProductRef fbc:geneProduct="G_b3553"/>
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+        </fbc:geneProductAssociation>
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+        <listOfProducts>
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+          <speciesReference species="M_nadh_c" stoichiometry="1" constant="true"/>
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+        <sbml:annotation xmlns:sbml="http://www.sbml.org/sbml/level3/version1/core">
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+          <speciesReference species="M_ala_B_c" stoichiometry="1" constant="true"/>
+          <speciesReference species="M_co2_c" stoichiometry="1" constant="true"/>
+        </listOfProducts>
+        <fbc:geneProductAssociation>
+          <fbc:geneProductRef fbc:geneProduct="G_b0131"/>
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+        <sbml:annotation xmlns:sbml="http://www.sbml.org/sbml/level3/version1/core">
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+          <speciesReference species="M_ugmd_c" stoichiometry="1" constant="true"/>
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+        <listOfProducts>
+          <speciesReference species="M_adp_c" stoichiometry="1" constant="true"/>
+          <speciesReference species="M_h_c" stoichiometry="1" constant="true"/>
+          <speciesReference species="M_pi_c" stoichiometry="1" constant="true"/>
+          <speciesReference species="M_ugmda_c" stoichiometry="1" constant="true"/>
+        </listOfProducts>
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+          <fbc:geneProductRef fbc:geneProduct="G_b0086"/>
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+          <fbc:geneProductRef fbc:geneProduct="G_b2143"/>
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+          <speciesReference species="M_co2_c" stoichiometry="1" constant="true"/>
+          <speciesReference species="M_dann_c" stoichiometry="1" constant="true"/>
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+        <listOfProducts>
+          <speciesReference species="M_adp_c" stoichiometry="1" constant="true"/>
+          <speciesReference species="M_dtbt_c" stoichiometry="1" constant="true"/>
+          <speciesReference species="M_h_c" stoichiometry="3" constant="true"/>
+          <speciesReference species="M_pi_c" stoichiometry="1" constant="true"/>
+        </listOfProducts>
+        <fbc:geneProductAssociation>
+          <fbc:geneProductRef fbc:geneProduct="G_b0778"/>
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+                  <rdf:li rdf:resource="http://identifiers.org/rhea/22681"/>
+                  <rdf:li rdf:resource="http://identifiers.org/rhea/22682"/>
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+          <speciesReference species="M_h_c" stoichiometry="1" constant="true"/>
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+          <speciesReference species="M_dutp_c" stoichiometry="1" constant="true"/>
+          <speciesReference species="M_nh4_c" stoichiometry="1" constant="true"/>
+        </listOfProducts>
+        <fbc:geneProductAssociation>
+          <fbc:geneProductRef fbc:geneProduct="G_b2065"/>
+        </fbc:geneProductAssociation>
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+                  <rdf:li rdf:resource="http://identifiers.org/ec-code/3.5.1.108"/>
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+                  <rdf:li rdf:resource="http://identifiers.org/rhea/25209"/>
+                  <rdf:li rdf:resource="http://identifiers.org/rhea/25211"/>
+                  <rdf:li rdf:resource="http://identifiers.org/rhea/25210"/>
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+          <speciesReference species="M_u3aga_c" stoichiometry="1" constant="true"/>
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+        <listOfProducts>
+          <speciesReference species="M_ac_c" stoichiometry="1" constant="true"/>
+          <speciesReference species="M_u3hga_c" stoichiometry="1" constant="true"/>
+        </listOfProducts>
+        <fbc:geneProductAssociation>
+          <fbc:geneProductRef fbc:geneProduct="G_b0096"/>
+        </fbc:geneProductAssociation>
+      </reaction>
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+        </sbml:annotation>
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+          <speciesReference species="M_atp_c" stoichiometry="1" constant="true"/>
+        </listOfReactants>
+        <listOfProducts>
+          <speciesReference species="M_acmanap_c" stoichiometry="1" constant="true"/>
+          <speciesReference species="M_adp_c" stoichiometry="1" constant="true"/>
+          <speciesReference species="M_h_c" stoichiometry="1" constant="true"/>
+        </listOfProducts>
+        <fbc:geneProductAssociation>
+          <fbc:geneProductRef fbc:geneProduct="G_b3222"/>
+        </fbc:geneProductAssociation>
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+                  <rdf:li rdf:resource="http://identifiers.org/kegg.reaction/R04567"/>
+                  <rdf:li rdf:resource="http://identifiers.org/metanetx.reaction/MNXR105028"/>
+                  <rdf:li rdf:resource="http://identifiers.org/seed.reaction/rxn06729"/>
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+          <speciesReference species="M_uacgam_c" stoichiometry="1" constant="true"/>
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+        <listOfProducts>
+          <speciesReference species="M_ACP_c" stoichiometry="1" constant="true"/>
+          <speciesReference species="M_u3aga_c" stoichiometry="1" constant="true"/>
+        </listOfProducts>
+        <fbc:geneProductAssociation>
+          <fbc:and>
+            <fbc:geneProductRef fbc:geneProduct="G_b1094"/>
+            <fbc:geneProductRef fbc:geneProduct="G_b0181"/>
+          </fbc:and>
+        </fbc:geneProductAssociation>
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+                  <rdf:li rdf:resource="http://identifiers.org/biocyc/META:ATPPHOSPHORIBOSYLTRANS-RXN"/>
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+                  <rdf:li rdf:resource="http://identifiers.org/metanetx.reaction/MNXR96132"/>
+                  <rdf:li rdf:resource="http://identifiers.org/rhea/18476"/>
+                  <rdf:li rdf:resource="http://identifiers.org/rhea/18475"/>
+                  <rdf:li rdf:resource="http://identifiers.org/rhea/18473"/>
+                  <rdf:li rdf:resource="http://identifiers.org/rhea/18474"/>
+                  <rdf:li rdf:resource="http://identifiers.org/seed.reaction/rxn00789"/>
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+          <speciesReference species="M_prpp_c" stoichiometry="1" constant="true"/>
+        </listOfReactants>
+        <listOfProducts>
+          <speciesReference species="M_ppi_c" stoichiometry="1" constant="true"/>
+          <speciesReference species="M_prbatp_c" stoichiometry="1" constant="true"/>
+        </listOfProducts>
+        <fbc:geneProductAssociation>
+          <fbc:geneProductRef fbc:geneProduct="G_b2019"/>
+        </fbc:geneProductAssociation>
+      </reaction>
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+        <sbml:annotation xmlns:sbml="http://www.sbml.org/sbml/level3/version1/core">
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+              <bqbiol:is xmlns:bqbiol="http://biomodels.net/biology-qualifiers/">
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+                  <rdf:li rdf:resource="http://identifiers.org/metanetx.reaction/MNXR100587"/>
+                  <rdf:li rdf:resource="http://identifiers.org/rhea/20641"/>
+                  <rdf:li rdf:resource="http://identifiers.org/rhea/20642"/>
+                  <rdf:li rdf:resource="http://identifiers.org/rhea/20643"/>
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+                  <rdf:li rdf:resource="http://identifiers.org/seed.reaction/rxn00859"/>
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+          <speciesReference species="M_histd_c" stoichiometry="1" constant="true"/>
+          <speciesReference species="M_nad_c" stoichiometry="2" constant="true"/>
+        </listOfReactants>
+        <listOfProducts>
+          <speciesReference species="M_h_c" stoichiometry="3" constant="true"/>
+          <speciesReference species="M_his__L_c" stoichiometry="1" constant="true"/>
+          <speciesReference species="M_nadh_c" stoichiometry="2" constant="true"/>
+        </listOfProducts>
+        <fbc:geneProductAssociation>
+          <fbc:geneProductRef fbc:geneProduct="G_b2020"/>
+        </fbc:geneProductAssociation>
+      </reaction>
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+                  <rdf:li rdf:resource="http://identifiers.org/metanetx.reaction/MNXR125801"/>
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+                  <rdf:li rdf:resource="http://identifiers.org/rhea/14848"/>
+                  <rdf:li rdf:resource="http://identifiers.org/rhea/14847"/>
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+                  <rdf:li rdf:resource="http://identifiers.org/sabiork/2256"/>
+                  <rdf:li rdf:resource="http://identifiers.org/seed.reaction/rxn01644"/>
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+        </sbml:annotation>
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+          <speciesReference species="M_pyr_c" stoichiometry="1" constant="true"/>
+        </listOfReactants>
+        <listOfProducts>
+          <speciesReference species="M_23dhdp_c" stoichiometry="1" constant="true"/>
+          <speciesReference species="M_h2o_c" stoichiometry="2" constant="true"/>
+          <speciesReference species="M_h_c" stoichiometry="1" constant="true"/>
+        </listOfProducts>
+        <fbc:geneProductAssociation>
+          <fbc:geneProductRef fbc:geneProduct="G_b2478"/>
+        </fbc:geneProductAssociation>
+      </reaction>
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+          <speciesReference species="M_gam1p_c" stoichiometry="1" constant="true"/>
+        </listOfReactants>
+        <listOfProducts>
+          <speciesReference species="M_acgam1p_c" stoichiometry="1" constant="true"/>
+          <speciesReference species="M_coa_c" stoichiometry="1" constant="true"/>
+          <speciesReference species="M_h_c" stoichiometry="1" constant="true"/>
+        </listOfProducts>
+        <fbc:geneProductAssociation>
+          <fbc:geneProductRef fbc:geneProduct="G_b3730"/>
+        </fbc:geneProductAssociation>
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+                  <rdf:li rdf:resource="http://identifiers.org/rhea/24831"/>
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+                  <rdf:li rdf:resource="http://identifiers.org/seed.reaction/rxn04783"/>
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+          <speciesReference species="M_atp_c" stoichiometry="1" constant="true"/>
+          <speciesReference species="M_for_c" stoichiometry="1" constant="true"/>
+          <speciesReference species="M_gar_c" stoichiometry="1" constant="true"/>
+        </listOfReactants>
+        <listOfProducts>
+          <speciesReference species="M_adp_c" stoichiometry="1" constant="true"/>
+          <speciesReference species="M_fgam_c" stoichiometry="1" constant="true"/>
+          <speciesReference species="M_h_c" stoichiometry="1" constant="true"/>
+          <speciesReference species="M_pi_c" stoichiometry="1" constant="true"/>
+        </listOfProducts>
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+          <fbc:geneProductRef fbc:geneProduct="G_b1849"/>
+        </fbc:geneProductAssociation>
+      </reaction>
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+                  <rdf:li rdf:resource="http://identifiers.org/rhea/20606"/>
+                  <rdf:li rdf:resource="http://identifiers.org/rhea/20607"/>
+                  <rdf:li rdf:resource="http://identifiers.org/rhea/20608"/>
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+          <speciesReference species="M_h2o_c" stoichiometry="1" constant="true"/>
+          <speciesReference species="M_h_c" stoichiometry="1" constant="true"/>
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+        <listOfProducts>
+          <speciesReference species="M_nh4_c" stoichiometry="1" constant="true"/>
+          <speciesReference species="M_ura_c" stoichiometry="1" constant="true"/>
+        </listOfProducts>
+        <fbc:geneProductAssociation>
+          <fbc:geneProductRef fbc:geneProduct="G_b0337"/>
+        </fbc:geneProductAssociation>
+      </reaction>
+      <reaction id="R_GF6PTA" fast="false" reversible="false" name="Glutamine-fructose-6-phosphate transaminase" metaid="R_GF6PTA" sboTerm="SBO:0000176" fbc:upperFluxBound="cobra_default_ub" fbc:lowerFluxBound="cobra_0_bound">
+        <sbml:annotation xmlns:sbml="http://www.sbml.org/sbml/level3/version1/core">
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+                  <rdf:li rdf:resource="http://identifiers.org/ec-code/2.6.1.16"/>
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+          <speciesReference species="M_gln__L_c" stoichiometry="1" constant="true"/>
+        </listOfReactants>
+        <listOfProducts>
+          <speciesReference species="M_gam6p_c" stoichiometry="1" constant="true"/>
+          <speciesReference species="M_glu__L_c" stoichiometry="1" constant="true"/>
+        </listOfProducts>
+        <fbc:geneProductAssociation>
+          <fbc:geneProductRef fbc:geneProduct="G_b3729"/>
+        </fbc:geneProductAssociation>
+      </reaction>
+      <reaction id="R_IGPDH" fast="false" reversible="false" name="Imidazoleglycerol-phosphate dehydratase" metaid="R_IGPDH" sboTerm="SBO:0000176" fbc:upperFluxBound="cobra_default_ub" fbc:lowerFluxBound="cobra_0_bound">
+        <sbml:annotation xmlns:sbml="http://www.sbml.org/sbml/level3/version1/core">
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+                  <rdf:li rdf:resource="http://identifiers.org/biocyc/META:IMIDPHOSDEHYD-RXN"/>
+                  <rdf:li rdf:resource="http://identifiers.org/ec-code/4.2.1.19"/>
+                  <rdf:li rdf:resource="http://identifiers.org/kegg.reaction/R03457"/>
+                  <rdf:li rdf:resource="http://identifiers.org/metanetx.reaction/MNXR100813"/>
+                  <rdf:li rdf:resource="http://identifiers.org/rhea/11041"/>
+                  <rdf:li rdf:resource="http://identifiers.org/rhea/11043"/>
+                  <rdf:li rdf:resource="http://identifiers.org/rhea/11040"/>
+                  <rdf:li rdf:resource="http://identifiers.org/rhea/11042"/>
+                  <rdf:li rdf:resource="http://identifiers.org/seed.reaction/rxn02473"/>
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+          <speciesReference species="M_eig3p_c" stoichiometry="1" constant="true"/>
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+        <listOfProducts>
+          <speciesReference species="M_h2o_c" stoichiometry="1" constant="true"/>
+          <speciesReference species="M_imacp_c" stoichiometry="1" constant="true"/>
+        </listOfProducts>
+        <fbc:geneProductAssociation>
+          <fbc:geneProductRef fbc:geneProduct="G_b2022"/>
+        </fbc:geneProductAssociation>
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+      <reaction id="R_EX_glyclt_e" fast="false" reversible="false" name="Glycolate exchange" metaid="R_EX_glyclt_e" sboTerm="SBO:0000627" fbc:upperFluxBound="cobra_default_ub" fbc:lowerFluxBound="cobra_0_bound">
+        <sbml:annotation xmlns:sbml="http://www.sbml.org/sbml/level3/version1/core">
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+              <bqbiol:is xmlns:bqbiol="http://biomodels.net/biology-qualifiers/">
+                <rdf:Bag>
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+                  <rdf:li rdf:resource="http://identifiers.org/metanetx.reaction/MNXR100333"/>
+                  <rdf:li rdf:resource="http://identifiers.org/rhea/29448"/>
+                  <rdf:li rdf:resource="http://identifiers.org/rhea/29450"/>
+                  <rdf:li rdf:resource="http://identifiers.org/rhea/29449"/>
+                  <rdf:li rdf:resource="http://identifiers.org/rhea/29447"/>
+                  <rdf:li rdf:resource="http://identifiers.org/sabiork/12468"/>
+                  <rdf:li rdf:resource="http://identifiers.org/seed.reaction/rxn08653"/>
+                  <rdf:li rdf:resource="http://identifiers.org/seed.reaction/rxn12426"/>
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+          <speciesReference species="M_glyclt_e" stoichiometry="1" constant="true"/>
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+      <reaction id="R_PRPPS" fast="false" reversible="true" name="Phosphoribosylpyrophosphate synthetase" metaid="R_PRPPS" sboTerm="SBO:0000176" fbc:upperFluxBound="cobra_default_ub" fbc:lowerFluxBound="cobra_default_lb">
+        <sbml:annotation xmlns:sbml="http://www.sbml.org/sbml/level3/version1/core">
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+              <bqbiol:is xmlns:bqbiol="http://biomodels.net/biology-qualifiers/">
+                <rdf:Bag>
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+                  <rdf:li rdf:resource="http://identifiers.org/ec-code/2.7.6.1"/>
+                  <rdf:li rdf:resource="http://identifiers.org/metanetx.reaction/MNXR103215"/>
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+        </sbml:annotation>
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+          <speciesReference species="M_r5p_c" stoichiometry="1" constant="true"/>
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+        <listOfProducts>
+          <speciesReference species="M_amp_c" stoichiometry="1" constant="true"/>
+          <speciesReference species="M_h_c" stoichiometry="1" constant="true"/>
+          <speciesReference species="M_prpp_c" stoichiometry="1" constant="true"/>
+        </listOfProducts>
+        <fbc:geneProductAssociation>
+          <fbc:geneProductRef fbc:geneProduct="G_b1207"/>
+        </fbc:geneProductAssociation>
+      </reaction>
+      <reaction id="R_H2SO" fast="false" reversible="false" name="Hydrogen sulfide oxidation" metaid="R_H2SO" sboTerm="SBO:0000176" fbc:upperFluxBound="cobra_default_ub" fbc:lowerFluxBound="cobra_0_bound">
+        <sbml:annotation xmlns:sbml="http://www.sbml.org/sbml/level3/version1/core">
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+              <bqbiol:is xmlns:bqbiol="http://biomodels.net/biology-qualifiers/">
+                <rdf:Bag>
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+                  <rdf:li rdf:resource="http://identifiers.org/metanetx.reaction/MNXR100493"/>
+                  <rdf:li rdf:resource="http://identifiers.org/seed.reaction/rxn08688"/>
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+        </sbml:annotation>
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+          <speciesReference species="M_h2s_c" stoichiometry="1" constant="true"/>
+          <speciesReference species="M_o2_c" stoichiometry="2" constant="true"/>
+        </listOfReactants>
+        <listOfProducts>
+          <speciesReference species="M_h_c" stoichiometry="2" constant="true"/>
+          <speciesReference species="M_so4_c" stoichiometry="1" constant="true"/>
+        </listOfProducts>
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+        <sbml:annotation xmlns:sbml="http://www.sbml.org/sbml/level3/version1/core">
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+                <rdf:Bag>
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+                  <rdf:li rdf:resource="http://identifiers.org/biocyc/META:GLUTCYSLIG-RXN"/>
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+                  <rdf:li rdf:resource="http://identifiers.org/kegg.reaction/R00894"/>
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+                  <rdf:li rdf:resource="http://identifiers.org/reactome.reaction/R-CFA-174367"/>
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+                  <rdf:li rdf:resource="http://identifiers.org/reactome.reaction/R-DRE-174367"/>
+                  <rdf:li rdf:resource="http://identifiers.org/reactome.reaction/R-BTA-174367"/>
+                  <rdf:li rdf:resource="http://identifiers.org/rhea/13285"/>
+                  <rdf:li rdf:resource="http://identifiers.org/rhea/13287"/>
+                  <rdf:li rdf:resource="http://identifiers.org/rhea/13286"/>
+                  <rdf:li rdf:resource="http://identifiers.org/rhea/13288"/>
+                  <rdf:li rdf:resource="http://identifiers.org/sabiork/1217"/>
+                  <rdf:li rdf:resource="http://identifiers.org/seed.reaction/rxn00646"/>
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+        </sbml:annotation>
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+          <speciesReference species="M_atp_c" stoichiometry="1" constant="true"/>
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+          <speciesReference species="M_glu__L_c" stoichiometry="1" constant="true"/>
+        </listOfReactants>
+        <listOfProducts>
+          <speciesReference species="M_adp_c" stoichiometry="1" constant="true"/>
+          <speciesReference species="M_glucys_c" stoichiometry="1" constant="true"/>
+          <speciesReference species="M_h_c" stoichiometry="1" constant="true"/>
+          <speciesReference species="M_pi_c" stoichiometry="1" constant="true"/>
+        </listOfProducts>
+        <fbc:geneProductAssociation>
+          <fbc:geneProductRef fbc:geneProduct="G_b2688"/>
+        </fbc:geneProductAssociation>
+      </reaction>
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+        <sbml:annotation xmlns:sbml="http://www.sbml.org/sbml/level3/version1/core">
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+            <rdf:Description rdf:about="#R_PRATPP">
+              <bqbiol:is xmlns:bqbiol="http://biomodels.net/biology-qualifiers/">
+                <rdf:Bag>
+                  <rdf:li rdf:resource="http://identifiers.org/bigg.reaction/PRATPP"/>
+                  <rdf:li rdf:resource="http://identifiers.org/biocyc/META:HISTPRATPHYD-RXN"/>
+                  <rdf:li rdf:resource="http://identifiers.org/ec-code/3.6.1.31"/>
+                  <rdf:li rdf:resource="http://identifiers.org/kegg.reaction/R04035"/>
+                  <rdf:li rdf:resource="http://identifiers.org/metanetx.reaction/MNXR103155"/>
+                  <rdf:li rdf:resource="http://identifiers.org/rhea/22829"/>
+                  <rdf:li rdf:resource="http://identifiers.org/rhea/22828"/>
+                  <rdf:li rdf:resource="http://identifiers.org/rhea/22830"/>
+                  <rdf:li rdf:resource="http://identifiers.org/rhea/22831"/>
+                  <rdf:li rdf:resource="http://identifiers.org/seed.reaction/rxn02834"/>
+                </rdf:Bag>
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+            </rdf:Description>
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+        </sbml:annotation>
+        <listOfReactants>
+          <speciesReference species="M_h2o_c" stoichiometry="1" constant="true"/>
+          <speciesReference species="M_prbatp_c" stoichiometry="1" constant="true"/>
+        </listOfReactants>
+        <listOfProducts>
+          <speciesReference species="M_h_c" stoichiometry="1" constant="true"/>
+          <speciesReference species="M_ppi_c" stoichiometry="1" constant="true"/>
+          <speciesReference species="M_prbamp_c" stoichiometry="1" constant="true"/>
+        </listOfProducts>
+        <fbc:geneProductAssociation>
+          <fbc:geneProductRef fbc:geneProduct="G_b2026"/>
+        </fbc:geneProductAssociation>
+      </reaction>
+      <reaction id="R_GLUN" fast="false" reversible="false" name="Glutaminase" metaid="R_GLUN" sboTerm="SBO:0000176" fbc:upperFluxBound="cobra_default_ub" fbc:lowerFluxBound="cobra_0_bound">
+        <sbml:annotation xmlns:sbml="http://www.sbml.org/sbml/level3/version1/core">
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+              <bqbiol:is xmlns:bqbiol="http://biomodels.net/biology-qualifiers/">
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+                  <rdf:li rdf:resource="http://identifiers.org/biocyc/META:GLUTAMIN-RXN"/>
+                  <rdf:li rdf:resource="http://identifiers.org/ec-code/6.3.5.2"/>
+                  <rdf:li rdf:resource="http://identifiers.org/ec-code/4.3.3.6"/>
+                  <rdf:li rdf:resource="http://identifiers.org/ec-code/6.3.5.5"/>
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+                  <rdf:li rdf:resource="http://identifiers.org/ec-code/3.5.1.38"/>
+                  <rdf:li rdf:resource="http://identifiers.org/kegg.reaction/R00256"/>
+                  <rdf:li rdf:resource="http://identifiers.org/metanetx.reaction/MNXR100030"/>
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+                  <rdf:li rdf:resource="http://identifiers.org/reactome.reaction/R-SSC-70609"/>
+                  <rdf:li rdf:resource="http://identifiers.org/reactome.reaction/R-GGA-70609"/>
+                  <rdf:li rdf:resource="http://identifiers.org/reactome.reaction/R-DDI-70609"/>
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+                  <rdf:li rdf:resource="http://identifiers.org/reactome.reaction/R-BTA-70609"/>
+                  <rdf:li rdf:resource="http://identifiers.org/reactome.reaction/R-DRE-70609"/>
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+                  <rdf:li rdf:resource="http://identifiers.org/reactome.reaction/R-CFA-70609"/>
+                  <rdf:li rdf:resource="http://identifiers.org/rhea/15892"/>
+                  <rdf:li rdf:resource="http://identifiers.org/rhea/15889"/>
+                  <rdf:li rdf:resource="http://identifiers.org/rhea/15891"/>
+                  <rdf:li rdf:resource="http://identifiers.org/rhea/15890"/>
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+                  <rdf:li rdf:resource="http://identifiers.org/seed.reaction/rxn00189"/>
+                </rdf:Bag>
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+          </rdf:RDF>
+        </sbml:annotation>
+        <listOfReactants>
+          <speciesReference species="M_gln__L_c" stoichiometry="1" constant="true"/>
+          <speciesReference species="M_h2o_c" stoichiometry="1" constant="true"/>
+        </listOfReactants>
+        <listOfProducts>
+          <speciesReference species="M_glu__L_c" stoichiometry="1" constant="true"/>
+          <speciesReference species="M_nh4_c" stoichiometry="1" constant="true"/>
+        </listOfProducts>
+        <fbc:geneProductAssociation>
+          <fbc:or>
+            <fbc:geneProductRef fbc:geneProduct="G_b0485"/>
+            <fbc:geneProductRef fbc:geneProduct="G_b1524"/>
+          </fbc:or>
+        </fbc:geneProductAssociation>
+      </reaction>
+      <reaction id="R_PRMICI" fast="false" reversible="true" name="1-(5-phosphoribosyl)-5-[(5-phosphoribosylamino)methylideneamino)imidazole-4-carboxamide isomerase" metaid="R_PRMICI" sboTerm="SBO:0000176" fbc:upperFluxBound="cobra_default_ub" fbc:lowerFluxBound="cobra_default_lb">
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+              <bqbiol:is xmlns:bqbiol="http://biomodels.net/biology-qualifiers/">
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+                  <rdf:li rdf:resource="http://identifiers.org/biocyc/META:PRIBFAICARPISOM-RXN"/>
+                  <rdf:li rdf:resource="http://identifiers.org/ec-code/5.3.1.16"/>
+                  <rdf:li rdf:resource="http://identifiers.org/kegg.reaction/R04640"/>
+                  <rdf:li rdf:resource="http://identifiers.org/metanetx.reaction/MNXR103169"/>
+                  <rdf:li rdf:resource="http://identifiers.org/rhea/15471"/>
+                  <rdf:li rdf:resource="http://identifiers.org/rhea/15472"/>
+                  <rdf:li rdf:resource="http://identifiers.org/rhea/15469"/>
+                  <rdf:li rdf:resource="http://identifiers.org/rhea/15470"/>
+                  <rdf:li rdf:resource="http://identifiers.org/seed.reaction/rxn03175"/>
+                </rdf:Bag>
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+            </rdf:Description>
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+        <fbc:geneProductAssociation>
+          <fbc:geneProductRef fbc:geneProduct="G_b2024"/>
+        </fbc:geneProductAssociation>
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+          <speciesReference species="M_prpp_c" stoichiometry="1" constant="true"/>
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+        <listOfProducts>
+          <speciesReference species="M_glu__L_c" stoichiometry="1" constant="true"/>
+          <speciesReference species="M_ppi_c" stoichiometry="1" constant="true"/>
+          <speciesReference species="M_pram_c" stoichiometry="1" constant="true"/>
+        </listOfProducts>
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+          <fbc:geneProductRef fbc:geneProduct="G_b2312"/>
+        </fbc:geneProductAssociation>
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+        <sbml:annotation xmlns:sbml="http://www.sbml.org/sbml/level3/version1/core">
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+                  <rdf:li rdf:resource="http://identifiers.org/seed.reaction/rxn09644"/>
+                  <rdf:li rdf:resource="http://identifiers.org/seed.reaction/rxn13641"/>
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+                  <rdf:li rdf:resource="http://identifiers.org/rhea/17187"/>
+                  <rdf:li rdf:resource="http://identifiers.org/rhea/17185"/>
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+          <speciesReference species="M_nadph_c" stoichiometry="1" constant="true"/>
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+          <speciesReference species="M_imp_c" stoichiometry="1" constant="true"/>
+          <speciesReference species="M_nadp_c" stoichiometry="1" constant="true"/>
+          <speciesReference species="M_nh4_c" stoichiometry="1" constant="true"/>
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+          <fbc:geneProductRef fbc:geneProduct="G_b0104"/>
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+        <listOfProducts>
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+          <speciesReference species="M_coa_c" stoichiometry="1" constant="true"/>
+        </listOfProducts>
+        <fbc:geneProductAssociation>
+          <fbc:geneProductRef fbc:geneProduct="G_b3607"/>
+        </fbc:geneProductAssociation>
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+        <sbml:annotation xmlns:sbml="http://www.sbml.org/sbml/level3/version1/core">
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+          <speciesReference species="M_cys__L_c" stoichiometry="1" constant="true"/>
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+            <fbc:geneProductRef fbc:geneProduct="G_b2414"/>
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+        </fbc:geneProductAssociation>
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+          <speciesReference species="M_nh4_c" stoichiometry="1" constant="true"/>
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+        <listOfProducts>
+          <speciesReference species="M_amp_c" stoichiometry="1" constant="true"/>
+          <speciesReference species="M_h_c" stoichiometry="1" constant="true"/>
+          <speciesReference species="M_nad_c" stoichiometry="1" constant="true"/>
+          <speciesReference species="M_ppi_c" stoichiometry="1" constant="true"/>
+        </listOfProducts>
+        <fbc:geneProductAssociation>
+          <fbc:geneProductRef fbc:geneProduct="G_b1740"/>
+        </fbc:geneProductAssociation>
+      </reaction>
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+          <speciesReference species="M_pap_c" stoichiometry="1" constant="true"/>
+          <speciesReference species="M_so3_c" stoichiometry="1" constant="true"/>
+          <speciesReference species="M_trdox_c" stoichiometry="1" constant="true"/>
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+              <fbc:geneProductRef fbc:geneProduct="G_b2582"/>
+              <fbc:geneProductRef fbc:geneProduct="G_b2762"/>
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+              <fbc:geneProductRef fbc:geneProduct="G_b3781"/>
+              <fbc:geneProductRef fbc:geneProduct="G_b2762"/>
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+        </fbc:geneProductAssociation>
+      </reaction>
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+                  <rdf:li rdf:resource="http://identifiers.org/biocyc/META:ASPARTATEKIN-RXN"/>
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+                  <rdf:li rdf:resource="http://identifiers.org/rhea/23779"/>
+                  <rdf:li rdf:resource="http://identifiers.org/rhea/23777"/>
+                  <rdf:li rdf:resource="http://identifiers.org/rhea/23776"/>
+                  <rdf:li rdf:resource="http://identifiers.org/rhea/23778"/>
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+                  <rdf:li rdf:resource="http://identifiers.org/seed.reaction/rxn00337"/>
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+        </sbml:annotation>
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+          <speciesReference species="M_asp__L_c" stoichiometry="1" constant="true"/>
+          <speciesReference species="M_atp_c" stoichiometry="1" constant="true"/>
+        </listOfReactants>
+        <listOfProducts>
+          <speciesReference species="M_4pasp_c" stoichiometry="1" constant="true"/>
+          <speciesReference species="M_adp_c" stoichiometry="1" constant="true"/>
+        </listOfProducts>
+        <fbc:geneProductAssociation>
+          <fbc:or>
+            <fbc:geneProductRef fbc:geneProduct="G_b0002"/>
+            <fbc:geneProductRef fbc:geneProduct="G_b3940"/>
+            <fbc:geneProductRef fbc:geneProduct="G_b4024"/>
+          </fbc:or>
+        </fbc:geneProductAssociation>
+      </reaction>
+      <reaction id="R_ASAD" fast="false" reversible="true" name="Aspartate-semialdehyde dehydrogenase" metaid="R_ASAD" sboTerm="SBO:0000176" fbc:upperFluxBound="cobra_default_ub" fbc:lowerFluxBound="cobra_default_lb">
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+                  <rdf:li rdf:resource="http://identifiers.org/biocyc/META:ASPARTATE-SEMIALDEHYDE-DEHYDROGENASE-RXN"/>
+                  <rdf:li rdf:resource="http://identifiers.org/ec-code/1.2.1.11"/>
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+                  <rdf:li rdf:resource="http://identifiers.org/metanetx.reaction/MNXR96039"/>
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+                  <rdf:li rdf:resource="http://identifiers.org/rhea/24284"/>
+                  <rdf:li rdf:resource="http://identifiers.org/rhea/24286"/>
+                  <rdf:li rdf:resource="http://identifiers.org/rhea/24287"/>
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+          <speciesReference species="M_nadp_c" stoichiometry="1" constant="true"/>
+          <speciesReference species="M_pi_c" stoichiometry="1" constant="true"/>
+        </listOfReactants>
+        <listOfProducts>
+          <speciesReference species="M_4pasp_c" stoichiometry="1" constant="true"/>
+          <speciesReference species="M_h_c" stoichiometry="1" constant="true"/>
+          <speciesReference species="M_nadph_c" stoichiometry="1" constant="true"/>
+        </listOfProducts>
+        <fbc:geneProductAssociation>
+          <fbc:geneProductRef fbc:geneProduct="G_b3433"/>
+        </fbc:geneProductAssociation>
+      </reaction>
+      <reaction id="R_DAPDC" fast="false" reversible="false" name="Diaminopimelate decarboxylase" metaid="R_DAPDC" sboTerm="SBO:0000176" fbc:upperFluxBound="cobra_default_ub" fbc:lowerFluxBound="cobra_0_bound">
+        <sbml:annotation xmlns:sbml="http://www.sbml.org/sbml/level3/version1/core">
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+              <bqbiol:is xmlns:bqbiol="http://biomodels.net/biology-qualifiers/">
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+                  <rdf:li rdf:resource="http://identifiers.org/biocyc/META:DIAMINOPIMDECARB-RXN"/>
+                  <rdf:li rdf:resource="http://identifiers.org/ec-code/4.1.1.20"/>
+                  <rdf:li rdf:resource="http://identifiers.org/kegg.reaction/R00451"/>
+                  <rdf:li rdf:resource="http://identifiers.org/metanetx.reaction/MNXR97141"/>
+                  <rdf:li rdf:resource="http://identifiers.org/rhea/15101"/>
+                  <rdf:li rdf:resource="http://identifiers.org/rhea/15104"/>
+                  <rdf:li rdf:resource="http://identifiers.org/rhea/15102"/>
+                  <rdf:li rdf:resource="http://identifiers.org/rhea/15103"/>
+                  <rdf:li rdf:resource="http://identifiers.org/seed.reaction/rxn00313"/>
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+            </rdf:Description>
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+        </sbml:annotation>
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+          <speciesReference species="M_26dap__M_c" stoichiometry="1" constant="true"/>
+          <speciesReference species="M_h_c" stoichiometry="1" constant="true"/>
+        </listOfReactants>
+        <listOfProducts>
+          <speciesReference species="M_co2_c" stoichiometry="1" constant="true"/>
+          <speciesReference species="M_lys__L_c" stoichiometry="1" constant="true"/>
+        </listOfProducts>
+        <fbc:geneProductAssociation>
+          <fbc:geneProductRef fbc:geneProduct="G_b2838"/>
+        </fbc:geneProductAssociation>
+      </reaction>
+      <reaction id="R_EX_mmet_e" fast="false" reversible="false" name="S-Methyl-L-methionine exchange" metaid="R_EX_mmet_e" sboTerm="SBO:0000627" fbc:upperFluxBound="cobra_default_ub" fbc:lowerFluxBound="cobra_0_bound">
+        <sbml:annotation xmlns:sbml="http://www.sbml.org/sbml/level3/version1/core">
+          <rdf:RDF xmlns:rdf="http://www.w3.org/1999/02/22-rdf-syntax-ns#">
+            <rdf:Description rdf:about="#R_EX_mmet_e">
+              <bqbiol:is xmlns:bqbiol="http://biomodels.net/biology-qualifiers/">
+                <rdf:Bag>
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+                  <rdf:li rdf:resource="http://identifiers.org/biocyc/META:TRANS-RXN0-486"/>
+                  <rdf:li rdf:resource="http://identifiers.org/metanetx.reaction/MNXR101659"/>
+                  <rdf:li rdf:resource="http://identifiers.org/seed.reaction/rxn08945"/>
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+        </sbml:annotation>
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+          <speciesReference species="M_mmet_e" stoichiometry="1" constant="true"/>
+        </listOfReactants>
+      </reaction>
+      <reaction id="R_NTRIR2x" fast="false" reversible="false" name="Nitrite Reductase (NADH)" metaid="R_NTRIR2x" sboTerm="SBO:0000176" fbc:upperFluxBound="cobra_default_ub" fbc:lowerFluxBound="cobra_0_bound">
+        <sbml:annotation xmlns:sbml="http://www.sbml.org/sbml/level3/version1/core">
+          <rdf:RDF xmlns:rdf="http://www.w3.org/1999/02/22-rdf-syntax-ns#">
+            <rdf:Description rdf:about="#R_NTRIR2x">
+              <bqbiol:is xmlns:bqbiol="http://biomodels.net/biology-qualifiers/">
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+                  <rdf:li rdf:resource="http://identifiers.org/kegg.reaction/R00787"/>
+                  <rdf:li rdf:resource="http://identifiers.org/metanetx.reaction/MNXR102062"/>
+                  <rdf:li rdf:resource="http://identifiers.org/rhea/24629"/>
+                  <rdf:li rdf:resource="http://identifiers.org/rhea/24628"/>
+                  <rdf:li rdf:resource="http://identifiers.org/rhea/24630"/>
+                  <rdf:li rdf:resource="http://identifiers.org/rhea/24631"/>
+                  <rdf:li rdf:resource="http://identifiers.org/seed.reaction/rxn00568"/>
+                  <rdf:li rdf:resource="http://identifiers.org/seed.reaction/rxn11161"/>
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+        </sbml:annotation>
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+          <speciesReference species="M_h_c" stoichiometry="5" constant="true"/>
+          <speciesReference species="M_nadh_c" stoichiometry="3" constant="true"/>
+          <speciesReference species="M_no2_c" stoichiometry="1" constant="true"/>
+        </listOfReactants>
+        <listOfProducts>
+          <speciesReference species="M_h2o_c" stoichiometry="2" constant="true"/>
+          <speciesReference species="M_nad_c" stoichiometry="3" constant="true"/>
+          <speciesReference species="M_nh4_c" stoichiometry="1" constant="true"/>
+        </listOfProducts>
+        <fbc:geneProductAssociation>
+          <fbc:and>
+            <fbc:geneProductRef fbc:geneProduct="G_b3366"/>
+            <fbc:geneProductRef fbc:geneProduct="G_b3365"/>
+          </fbc:and>
+        </fbc:geneProductAssociation>
+      </reaction>
+      <reaction id="R_OCBT" fast="false" reversible="true" name="Ornithine carbamoyltransferase" metaid="R_OCBT" sboTerm="SBO:0000176" fbc:upperFluxBound="cobra_default_ub" fbc:lowerFluxBound="cobra_default_lb">
+        <sbml:annotation xmlns:sbml="http://www.sbml.org/sbml/level3/version1/core">
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+            <rdf:Description rdf:about="#R_OCBT">
+              <bqbiol:is xmlns:bqbiol="http://biomodels.net/biology-qualifiers/">
+                <rdf:Bag>
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+                  <rdf:li rdf:resource="http://identifiers.org/biocyc/META:RXN-13482"/>
+                  <rdf:li rdf:resource="http://identifiers.org/biocyc/META:ORNCARBAMTRANSFER-RXN"/>
+                  <rdf:li rdf:resource="http://identifiers.org/ec-code/2.1.3.3"/>
+                  <rdf:li rdf:resource="http://identifiers.org/kegg.reaction/R01398"/>
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+                  <rdf:li rdf:resource="http://identifiers.org/reactome.reaction/R-HSA-70560"/>
+                  <rdf:li rdf:resource="http://identifiers.org/reactome.reaction/R-BTA-70560"/>
+                  <rdf:li rdf:resource="http://identifiers.org/reactome.reaction/R-DRE-70560"/>
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+                  <rdf:li rdf:resource="http://identifiers.org/reactome.reaction/R-GGA-70560"/>
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+                  <rdf:li rdf:resource="http://identifiers.org/reactome.reaction/R-XTR-70560"/>
+                  <rdf:li rdf:resource="http://identifiers.org/reactome.reaction/R-SSC-70560"/>
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+                  <rdf:li rdf:resource="http://identifiers.org/reactome.reaction/R-SCE-70560"/>
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+                  <rdf:li rdf:resource="http://identifiers.org/rhea/19516"/>
+                  <rdf:li rdf:resource="http://identifiers.org/rhea/19513"/>
+                  <rdf:li rdf:resource="http://identifiers.org/rhea/19515"/>
+                  <rdf:li rdf:resource="http://identifiers.org/sabiork/98"/>
+                  <rdf:li rdf:resource="http://identifiers.org/seed.reaction/rxn01019"/>
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+          </rdf:RDF>
+        </sbml:annotation>
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+          <speciesReference species="M_orn_c" stoichiometry="1" constant="true"/>
+        </listOfReactants>
+        <listOfProducts>
+          <speciesReference species="M_citr__L_c" stoichiometry="1" constant="true"/>
+          <speciesReference species="M_h_c" stoichiometry="1" constant="true"/>
+          <speciesReference species="M_pi_c" stoichiometry="1" constant="true"/>
+        </listOfProducts>
+        <fbc:geneProductAssociation>
+          <fbc:or>
+            <fbc:geneProductRef fbc:geneProduct="G_b4254"/>
+            <fbc:geneProductRef fbc:geneProduct="G_b0273"/>
+          </fbc:or>
+        </fbc:geneProductAssociation>
+      </reaction>
+      <reaction id="R_GARFT" fast="false" reversible="true" name="Phosphoribosylglycinamide formyltransferase" metaid="R_GARFT" sboTerm="SBO:0000176" fbc:upperFluxBound="cobra_default_ub" fbc:lowerFluxBound="cobra_default_lb">
+        <sbml:annotation xmlns:sbml="http://www.sbml.org/sbml/level3/version1/core">
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+            <rdf:Description rdf:about="#R_GARFT">
+              <bqbiol:is xmlns:bqbiol="http://biomodels.net/biology-qualifiers/">
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+                  <rdf:li rdf:resource="http://identifiers.org/kegg.reaction/R04325"/>
+                  <rdf:li rdf:resource="http://identifiers.org/metanetx.reaction/MNXR99623"/>
+                  <rdf:li rdf:resource="http://identifiers.org/rhea/15053"/>
+                  <rdf:li rdf:resource="http://identifiers.org/rhea/15054"/>
+                  <rdf:li rdf:resource="http://identifiers.org/rhea/15055"/>
+                  <rdf:li rdf:resource="http://identifiers.org/rhea/15056"/>
+                </rdf:Bag>
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+            </rdf:Description>
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+          <speciesReference species="M_10fthf_c" stoichiometry="1" constant="true"/>
+          <speciesReference species="M_gar_c" stoichiometry="1" constant="true"/>
+        </listOfReactants>
+        <listOfProducts>
+          <speciesReference species="M_fgam_c" stoichiometry="1" constant="true"/>
+          <speciesReference species="M_h_c" stoichiometry="1" constant="true"/>
+          <speciesReference species="M_thf_c" stoichiometry="1" constant="true"/>
+        </listOfProducts>
+        <fbc:geneProductAssociation>
+          <fbc:geneProductRef fbc:geneProduct="G_b2500"/>
+        </fbc:geneProductAssociation>
+      </reaction>
+      <reaction id="R_GPDDA1" fast="false" reversible="false" name="Glycerophosphodiester phosphodiesterase (Glycerophosphocholine)" metaid="R_GPDDA1" sboTerm="SBO:0000176" fbc:upperFluxBound="cobra_default_ub" fbc:lowerFluxBound="cobra_0_bound">
+        <sbml:annotation xmlns:sbml="http://www.sbml.org/sbml/level3/version1/core">
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+            <rdf:Description rdf:about="#R_GPDDA1">
+              <bqbiol:is xmlns:bqbiol="http://biomodels.net/biology-qualifiers/">
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+                  <rdf:li rdf:resource="http://identifiers.org/reactome.reaction/R-MMU-1483112"/>
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+                  <rdf:li rdf:resource="http://identifiers.org/rhea/16063"/>
+                  <rdf:li rdf:resource="http://identifiers.org/rhea/16062"/>
+                  <rdf:li rdf:resource="http://identifiers.org/rhea/16064"/>
+                  <rdf:li rdf:resource="http://identifiers.org/sabiork/1318"/>
+                  <rdf:li rdf:resource="http://identifiers.org/seed.reaction/rxn00758"/>
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+        </sbml:annotation>
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+          <speciesReference species="M_g3pc_c" stoichiometry="1" constant="true"/>
+          <speciesReference species="M_h2o_c" stoichiometry="1" constant="true"/>
+        </listOfReactants>
+        <listOfProducts>
+          <speciesReference species="M_chol_c" stoichiometry="1" constant="true"/>
+          <speciesReference species="M_glyc3p_c" stoichiometry="1" constant="true"/>
+          <speciesReference species="M_h_c" stoichiometry="1" constant="true"/>
+        </listOfProducts>
+        <fbc:geneProductAssociation>
+          <fbc:geneProductRef fbc:geneProduct="G_b3449"/>
+        </fbc:geneProductAssociation>
+      </reaction>
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+        <sbml:annotation xmlns:sbml="http://www.sbml.org/sbml/level3/version1/core">
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+                  <rdf:li rdf:resource="http://identifiers.org/seed.reaction/rxn01073"/>
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+          <speciesReference species="M_h2o_c" stoichiometry="1" constant="true"/>
+        </listOfReactants>
+        <listOfProducts>
+          <speciesReference species="M_etha_c" stoichiometry="1" constant="true"/>
+          <speciesReference species="M_glyc3p_c" stoichiometry="1" constant="true"/>
+          <speciesReference species="M_h_c" stoichiometry="1" constant="true"/>
+        </listOfProducts>
+        <fbc:geneProductAssociation>
+          <fbc:geneProductRef fbc:geneProduct="G_b3449"/>
+        </fbc:geneProductAssociation>
+      </reaction>
+      <reaction id="R_PHETA1" fast="false" reversible="true" name="Phenylalanine transaminase" metaid="R_PHETA1" sboTerm="SBO:0000176" fbc:upperFluxBound="cobra_default_ub" fbc:lowerFluxBound="cobra_default_lb">
+        <sbml:annotation xmlns:sbml="http://www.sbml.org/sbml/level3/version1/core">
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+                  <rdf:li rdf:resource="http://identifiers.org/rhea/25155"/>
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+          <speciesReference species="M_phe__L_c" stoichiometry="1" constant="true"/>
+        </listOfReactants>
+        <listOfProducts>
+          <speciesReference species="M_glu__L_c" stoichiometry="1" constant="true"/>
+          <speciesReference species="M_phpyr_c" stoichiometry="1" constant="true"/>
+        </listOfProducts>
+        <fbc:geneProductAssociation>
+          <fbc:or>
+            <fbc:geneProductRef fbc:geneProduct="G_b4054"/>
+            <fbc:geneProductRef fbc:geneProduct="G_b0928"/>
+            <fbc:geneProductRef fbc:geneProduct="G_b3770"/>
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+        </fbc:geneProductAssociation>
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+                  <rdf:li rdf:resource="http://identifiers.org/rhea/13870"/>
+                  <rdf:li rdf:resource="http://identifiers.org/rhea/13869"/>
+                  <rdf:li rdf:resource="http://identifiers.org/rhea/13871"/>
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+          <speciesReference species="M_pphn_c" stoichiometry="1" constant="true"/>
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+        <listOfProducts>
+          <speciesReference species="M_34hpp_c" stoichiometry="1" constant="true"/>
+          <speciesReference species="M_co2_c" stoichiometry="1" constant="true"/>
+          <speciesReference species="M_nadh_c" stoichiometry="1" constant="true"/>
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+        <fbc:geneProductAssociation>
+          <fbc:geneProductRef fbc:geneProduct="G_b2600"/>
+        </fbc:geneProductAssociation>
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+          <speciesReference species="M_met__L_c" stoichiometry="1" constant="true"/>
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+        <listOfProducts>
+          <speciesReference species="M_amet_c" stoichiometry="1" constant="true"/>
+          <speciesReference species="M_pi_c" stoichiometry="1" constant="true"/>
+          <speciesReference species="M_ppi_c" stoichiometry="1" constant="true"/>
+        </listOfProducts>
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+          <fbc:geneProductRef fbc:geneProduct="G_b2942"/>
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+          <speciesReference species="M_h2o_c" stoichiometry="1" constant="true"/>
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+        <listOfProducts>
+          <speciesReference species="M_3dhgulnp_c" stoichiometry="1" constant="true"/>
+          <speciesReference species="M_h_c" stoichiometry="1" constant="true"/>
+        </listOfProducts>
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+          <fbc:geneProductRef fbc:geneProduct="G_b4192"/>
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+                  <rdf:li rdf:resource="http://identifiers.org/metanetx.reaction/MNXR95216"/>
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+                  <rdf:li rdf:resource="http://identifiers.org/rhea/22714"/>
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+          <speciesReference species="M_gtp_c" stoichiometry="1" constant="true"/>
+          <speciesReference species="M_h_c" stoichiometry="1" constant="true"/>
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+        <listOfProducts>
+          <speciesReference species="M_agdpcbi_c" stoichiometry="1" constant="true"/>
+          <speciesReference species="M_ppi_c" stoichiometry="1" constant="true"/>
+        </listOfProducts>
+        <fbc:geneProductAssociation>
+          <fbc:geneProductRef fbc:geneProduct="G_b1993"/>
+        </fbc:geneProductAssociation>
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+        <sbml:annotation xmlns:sbml="http://www.sbml.org/sbml/level3/version1/core">
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+                  <rdf:li rdf:resource="http://identifiers.org/rhea/10534"/>
+                  <rdf:li rdf:resource="http://identifiers.org/rhea/10532"/>
+                  <rdf:li rdf:resource="http://identifiers.org/seed.reaction/rxn01964"/>
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+          <speciesReference species="M_ser__L_c" stoichiometry="1" constant="true"/>
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+        <listOfProducts>
+          <speciesReference species="M_g3p_c" stoichiometry="1" constant="true"/>
+          <speciesReference species="M_h2o_c" stoichiometry="1" constant="true"/>
+          <speciesReference species="M_trp__L_c" stoichiometry="1" constant="true"/>
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+        <fbc:geneProductAssociation>
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+            <fbc:geneProductRef fbc:geneProduct="G_b1261"/>
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+        </fbc:geneProductAssociation>
+      </reaction>
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+        <sbml:annotation xmlns:sbml="http://www.sbml.org/sbml/level3/version1/core">
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+              <bqbiol:is xmlns:bqbiol="http://biomodels.net/biology-qualifiers/">
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+                  <rdf:li rdf:resource="http://identifiers.org/kegg.reaction/R04037"/>
+                  <rdf:li rdf:resource="http://identifiers.org/metanetx.reaction/MNXR103154"/>
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+          <speciesReference species="M_prfp_c" stoichiometry="1" constant="true"/>
+        </listOfProducts>
+        <fbc:geneProductAssociation>
+          <fbc:geneProductRef fbc:geneProduct="G_b2026"/>
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+                  <rdf:li rdf:resource="http://identifiers.org/metanetx.reaction/MNXR95469"/>
+                  <rdf:li rdf:resource="http://identifiers.org/seed.reaction/rxn03538"/>
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+          <speciesReference species="M_rdmbzi_c" stoichiometry="1" constant="true"/>
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+          <speciesReference species="M_adocbl_c" stoichiometry="1" constant="true"/>
+          <speciesReference species="M_gmp_c" stoichiometry="1" constant="true"/>
+          <speciesReference species="M_h_c" stoichiometry="1" constant="true"/>
+        </listOfProducts>
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+          <fbc:geneProductRef fbc:geneProduct="G_b1992"/>
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+          <fbc:geneProductRef fbc:geneProduct="G_b0349"/>
+        </fbc:geneProductAssociation>
+      </reaction>
+      <reaction id="R_GLYCK2" fast="false" reversible="false" name="Glycerate kinase" metaid="R_GLYCK2" sboTerm="SBO:0000176" fbc:upperFluxBound="cobra_default_ub" fbc:lowerFluxBound="cobra_0_bound">
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+              <bqbiol:is xmlns:bqbiol="http://biomodels.net/biology-qualifiers/">
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+                  <rdf:li rdf:resource="http://identifiers.org/rhea/27378"/>
+                  <rdf:li rdf:resource="http://identifiers.org/rhea/27379"/>
+                  <rdf:li rdf:resource="http://identifiers.org/rhea/27377"/>
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+        </sbml:annotation>
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+          <speciesReference species="M_glyc__R_c" stoichiometry="1" constant="true"/>
+        </listOfReactants>
+        <listOfProducts>
+          <speciesReference species="M_2pg_c" stoichiometry="1" constant="true"/>
+          <speciesReference species="M_adp_c" stoichiometry="1" constant="true"/>
+          <speciesReference species="M_h_c" stoichiometry="1" constant="true"/>
+        </listOfProducts>
+        <fbc:geneProductAssociation>
+          <fbc:geneProductRef fbc:geneProduct="G_b3124"/>
+        </fbc:geneProductAssociation>
+      </reaction>
+      <reaction id="R_PTA2" fast="false" reversible="false" name="Phosphate acetyltransferase" metaid="R_PTA2" sboTerm="SBO:0000176" fbc:upperFluxBound="cobra_default_ub" fbc:lowerFluxBound="cobra_0_bound">
+        <sbml:annotation xmlns:sbml="http://www.sbml.org/sbml/level3/version1/core">
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+                  <rdf:li rdf:resource="http://identifiers.org/biocyc/META:PTAALT-RXN"/>
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+                  <rdf:li rdf:resource="http://identifiers.org/rhea/28046"/>
+                  <rdf:li rdf:resource="http://identifiers.org/rhea/28049"/>
+                  <rdf:li rdf:resource="http://identifiers.org/rhea/28048"/>
+                  <rdf:li rdf:resource="http://identifiers.org/rhea/28047"/>
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+        </sbml:annotation>
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+          <speciesReference species="M_pi_c" stoichiometry="1" constant="true"/>
+          <speciesReference species="M_ppcoa_c" stoichiometry="1" constant="true"/>
+        </listOfReactants>
+        <listOfProducts>
+          <speciesReference species="M_coa_c" stoichiometry="1" constant="true"/>
+          <speciesReference species="M_ppap_c" stoichiometry="1" constant="true"/>
+        </listOfProducts>
+        <fbc:geneProductAssociation>
+          <fbc:geneProductRef fbc:geneProduct="G_b2297"/>
+        </fbc:geneProductAssociation>
+      </reaction>
+      <reaction id="R_MDH2" fast="false" reversible="false" name="Malate dehydrogenase (ubiquinone 8 as acceptor)" metaid="R_MDH2" sboTerm="SBO:0000176" fbc:upperFluxBound="cobra_default_ub" fbc:lowerFluxBound="cobra_0_bound">
+        <sbml:annotation xmlns:sbml="http://www.sbml.org/sbml/level3/version1/core">
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+                  <rdf:li rdf:resource="http://identifiers.org/metanetx.reaction/MNXR101440"/>
+                  <rdf:li rdf:resource="http://identifiers.org/rhea/29084"/>
+                  <rdf:li rdf:resource="http://identifiers.org/rhea/29086"/>
+                  <rdf:li rdf:resource="http://identifiers.org/rhea/29083"/>
+                  <rdf:li rdf:resource="http://identifiers.org/rhea/29085"/>
+                  <rdf:li rdf:resource="http://identifiers.org/seed.reaction/rxn08900"/>
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+          <speciesReference species="M_q8_c" stoichiometry="1" constant="true"/>
+        </listOfReactants>
+        <listOfProducts>
+          <speciesReference species="M_oaa_c" stoichiometry="1" constant="true"/>
+          <speciesReference species="M_q8h2_c" stoichiometry="1" constant="true"/>
+        </listOfProducts>
+        <fbc:geneProductAssociation>
+          <fbc:geneProductRef fbc:geneProduct="G_b2210"/>
+        </fbc:geneProductAssociation>
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+      <reaction id="R_EX_indole_e" fast="false" reversible="false" name="Indole exchange" metaid="R_EX_indole_e" sboTerm="SBO:0000627" fbc:upperFluxBound="cobra_default_ub" fbc:lowerFluxBound="cobra_0_bound">
+        <sbml:annotation xmlns:sbml="http://www.sbml.org/sbml/level3/version1/core">
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+            <rdf:Description rdf:about="#R_EX_indole_e">
+              <bqbiol:is xmlns:bqbiol="http://biomodels.net/biology-qualifiers/">
+                <rdf:Bag>
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+                  <rdf:li rdf:resource="http://identifiers.org/biocyc/META:TRANS-RXN0-563"/>
+                  <rdf:li rdf:resource="http://identifiers.org/metanetx.reaction/MNXR100836"/>
+                  <rdf:li rdf:resource="http://identifiers.org/seed.reaction/rxn08751"/>
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+          </rdf:RDF>
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+        <listOfReactants>
+          <speciesReference species="M_indole_e" stoichiometry="1" constant="true"/>
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+      <reaction id="R_ACOTA" fast="false" reversible="true" name="Acetylornithine transaminase" metaid="R_ACOTA" sboTerm="SBO:0000176" fbc:upperFluxBound="cobra_default_ub" fbc:lowerFluxBound="cobra_default_lb">
+        <sbml:annotation xmlns:sbml="http://www.sbml.org/sbml/level3/version1/core">
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+              <bqbiol:is xmlns:bqbiol="http://biomodels.net/biology-qualifiers/">
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+                  <rdf:li rdf:resource="http://identifiers.org/biocyc/META:ACETYLORNTRANSAM-RXN"/>
+                  <rdf:li rdf:resource="http://identifiers.org/ec-code/2.6.1.11"/>
+                  <rdf:li rdf:resource="http://identifiers.org/kegg.reaction/R02283"/>
+                  <rdf:li rdf:resource="http://identifiers.org/metanetx.reaction/MNXR95388"/>
+                  <rdf:li rdf:resource="http://identifiers.org/rhea/18051"/>
+                  <rdf:li rdf:resource="http://identifiers.org/rhea/18050"/>
+                  <rdf:li rdf:resource="http://identifiers.org/rhea/18052"/>
+                  <rdf:li rdf:resource="http://identifiers.org/rhea/18049"/>
+                  <rdf:li rdf:resource="http://identifiers.org/sabiork/2248"/>
+                  <rdf:li rdf:resource="http://identifiers.org/seed.reaction/rxn01637"/>
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+        </sbml:annotation>
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+          <speciesReference species="M_acorn_c" stoichiometry="1" constant="true"/>
+          <speciesReference species="M_akg_c" stoichiometry="1" constant="true"/>
+        </listOfReactants>
+        <listOfProducts>
+          <speciesReference species="M_acg5sa_c" stoichiometry="1" constant="true"/>
+          <speciesReference species="M_glu__L_c" stoichiometry="1" constant="true"/>
+        </listOfProducts>
+        <fbc:geneProductAssociation>
+          <fbc:or>
+            <fbc:geneProductRef fbc:geneProduct="G_b1748"/>
+            <fbc:geneProductRef fbc:geneProduct="G_b3359"/>
+            <fbc:geneProductRef fbc:geneProduct="G_b2662"/>
+            <fbc:geneProductRef fbc:geneProduct="G_b1302"/>
+          </fbc:or>
+        </fbc:geneProductAssociation>
+      </reaction>
+      <reaction id="R_GPDDA5" fast="false" reversible="false" name="Glycerophosphodiester phosphodiesterase (Glycerophosphoinositol)" metaid="R_GPDDA5" sboTerm="SBO:0000176" fbc:upperFluxBound="cobra_default_ub" fbc:lowerFluxBound="cobra_0_bound">
+        <sbml:annotation xmlns:sbml="http://www.sbml.org/sbml/level3/version1/core">
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+              <bqbiol:is xmlns:bqbiol="http://biomodels.net/biology-qualifiers/">
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+                  <rdf:li rdf:resource="http://identifiers.org/kegg.reaction/R01193"/>
+                  <rdf:li rdf:resource="http://identifiers.org/metanetx.reaction/MNXR100414"/>
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+                  <rdf:li rdf:resource="http://identifiers.org/reactome.reaction/R-DRE-6813740"/>
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+                  <rdf:li rdf:resource="http://identifiers.org/reactome.reaction/R-BTA-6813740"/>
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+                  <rdf:li rdf:resource="http://identifiers.org/rhea/16501"/>
+                  <rdf:li rdf:resource="http://identifiers.org/rhea/16503"/>
+                  <rdf:li rdf:resource="http://identifiers.org/rhea/16504"/>
+                  <rdf:li rdf:resource="http://identifiers.org/sabiork/1430"/>
+                  <rdf:li rdf:resource="http://identifiers.org/seed.reaction/rxn00889"/>
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+          <speciesReference species="M_h2o_c" stoichiometry="1" constant="true"/>
+        </listOfReactants>
+        <listOfProducts>
+          <speciesReference species="M_glyc3p_c" stoichiometry="1" constant="true"/>
+          <speciesReference species="M_h_c" stoichiometry="1" constant="true"/>
+          <speciesReference species="M_inost_c" stoichiometry="1" constant="true"/>
+        </listOfProducts>
+        <fbc:geneProductAssociation>
+          <fbc:geneProductRef fbc:geneProduct="G_b3449"/>
+        </fbc:geneProductAssociation>
+      </reaction>
+      <reaction id="R_PDX5PS" fast="false" reversible="false" name="Pyridoxine 5'-phosphate synthase" metaid="R_PDX5PS" sboTerm="SBO:0000176" fbc:upperFluxBound="cobra_default_ub" fbc:lowerFluxBound="cobra_0_bound">
+        <sbml:annotation xmlns:sbml="http://www.sbml.org/sbml/level3/version1/core">
+          <rdf:RDF xmlns:rdf="http://www.w3.org/1999/02/22-rdf-syntax-ns#">
+            <rdf:Description rdf:about="#R_PDX5PS">
+              <bqbiol:is xmlns:bqbiol="http://biomodels.net/biology-qualifiers/">
+                <rdf:Bag>
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+                  <rdf:li rdf:resource="http://identifiers.org/metanetx.reaction/MNXR102439"/>
+                  <rdf:li rdf:resource="http://identifiers.org/seed.reaction/rxn09072"/>
+                </rdf:Bag>
+              </bqbiol:is>
+            </rdf:Description>
+          </rdf:RDF>
+        </sbml:annotation>
+        <listOfReactants>
+          <speciesReference species="M_dxyl5p_c" stoichiometry="1" constant="true"/>
+          <speciesReference species="M_nad_c" stoichiometry="1" constant="true"/>
+          <speciesReference species="M_phthr_c" stoichiometry="1" constant="true"/>
+        </listOfReactants>
+        <listOfProducts>
+          <speciesReference species="M_co2_c" stoichiometry="1" constant="true"/>
+          <speciesReference species="M_h2o_c" stoichiometry="2" constant="true"/>
+          <speciesReference species="M_h_c" stoichiometry="1" constant="true"/>
+          <speciesReference species="M_nadh_c" stoichiometry="1" constant="true"/>
+          <speciesReference species="M_pdx5p_c" stoichiometry="1" constant="true"/>
+          <speciesReference species="M_pi_c" stoichiometry="1" constant="true"/>
+        </listOfProducts>
+        <fbc:geneProductAssociation>
+          <fbc:and>
+            <fbc:geneProductRef fbc:geneProduct="G_b2564"/>
+            <fbc:geneProductRef fbc:geneProduct="G_b0052"/>
+          </fbc:and>
+        </fbc:geneProductAssociation>
+      </reaction>
+      <reaction id="R_PPBNGS" fast="false" reversible="false" name="Porphobilinogen synthase" metaid="R_PPBNGS" sboTerm="SBO:0000176" fbc:upperFluxBound="cobra_default_ub" fbc:lowerFluxBound="cobra_0_bound">
+        <sbml:annotation xmlns:sbml="http://www.sbml.org/sbml/level3/version1/core">
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+              <bqbiol:is xmlns:bqbiol="http://biomodels.net/biology-qualifiers/">
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+                  <rdf:li rdf:resource="http://identifiers.org/biocyc/META:PORPHOBILSYNTH-RXN"/>
+                  <rdf:li rdf:resource="http://identifiers.org/ec-code/4.2.1.24"/>
+                  <rdf:li rdf:resource="http://identifiers.org/kegg.reaction/R00036"/>
+                  <rdf:li rdf:resource="http://identifiers.org/metanetx.reaction/MNXR103095"/>
+                  <rdf:li rdf:resource="http://identifiers.org/reactome.reaction/R-GGA-421472"/>
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+                  <rdf:li rdf:resource="http://identifiers.org/reactome.reaction/R-SCE-189439"/>
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+                  <rdf:li rdf:resource="http://identifiers.org/reactome.reaction/R-HSA-189439"/>
+                  <rdf:li rdf:resource="http://identifiers.org/reactome.reaction/R-BTA-189439"/>
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+                  <rdf:li rdf:resource="http://identifiers.org/reactome.reaction/R-ATH-189439"/>
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+                  <rdf:li rdf:resource="http://identifiers.org/rhea/24065"/>
+                  <rdf:li rdf:resource="http://identifiers.org/seed.reaction/rxn00029"/>
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+        </sbml:annotation>
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+          <speciesReference species="M_5aop_c" stoichiometry="2" constant="true"/>
+        </listOfReactants>
+        <listOfProducts>
+          <speciesReference species="M_h2o_c" stoichiometry="2" constant="true"/>
+          <speciesReference species="M_h_c" stoichiometry="1" constant="true"/>
+          <speciesReference species="M_ppbng_c" stoichiometry="1" constant="true"/>
+        </listOfProducts>
+        <fbc:geneProductAssociation>
+          <fbc:geneProductRef fbc:geneProduct="G_b0369"/>
+        </fbc:geneProductAssociation>
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+                  <rdf:li rdf:resource="http://identifiers.org/rhea/28567"/>
+                  <rdf:li rdf:resource="http://identifiers.org/seed.reaction/rxn08420"/>
+                  <rdf:li rdf:resource="http://identifiers.org/seed.reaction/rxn13827"/>
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+        </sbml:annotation>
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+          <speciesReference species="M_23dhba_c" stoichiometry="3" constant="true"/>
+          <speciesReference species="M_seramp_c" stoichiometry="3" constant="true"/>
+        </listOfReactants>
+        <listOfProducts>
+          <speciesReference species="M_amp_c" stoichiometry="6" constant="true"/>
+          <speciesReference species="M_enter_c" stoichiometry="1" constant="true"/>
+          <speciesReference species="M_h_c" stoichiometry="9" constant="true"/>
+        </listOfProducts>
+        <fbc:geneProductAssociation>
+          <fbc:geneProductRef fbc:geneProduct="G_b0583"/>
+        </fbc:geneProductAssociation>
+      </reaction>
+      <reaction id="R_SULR" fast="false" reversible="false" name="Sulfite reductase (NADPH2)" metaid="R_SULR" sboTerm="SBO:0000176" fbc:upperFluxBound="cobra_default_ub" fbc:lowerFluxBound="cobra_0_bound">
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+                  <rdf:li rdf:resource="http://identifiers.org/seed.reaction/rxn00623"/>
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+            </rdf:Description>
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+        </sbml:annotation>
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+          <speciesReference species="M_h_c" stoichiometry="5" constant="true"/>
+          <speciesReference species="M_nadph_c" stoichiometry="3" constant="true"/>
+          <speciesReference species="M_so3_c" stoichiometry="1" constant="true"/>
+        </listOfReactants>
+        <listOfProducts>
+          <speciesReference species="M_h2o_c" stoichiometry="3" constant="true"/>
+          <speciesReference species="M_h2s_c" stoichiometry="1" constant="true"/>
+          <speciesReference species="M_nadp_c" stoichiometry="3" constant="true"/>
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+        <fbc:geneProductAssociation>
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+            <fbc:geneProductRef fbc:geneProduct="G_b2763"/>
+          </fbc:and>
+        </fbc:geneProductAssociation>
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+          <speciesReference species="M_man6pglyc_c" stoichiometry="1" constant="true"/>
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+        <listOfProducts>
+          <speciesReference species="M_glyc__R_c" stoichiometry="1" constant="true"/>
+          <speciesReference species="M_man6p_c" stoichiometry="1" constant="true"/>
+        </listOfProducts>
+        <fbc:geneProductAssociation>
+          <fbc:geneProductRef fbc:geneProduct="G_b0732"/>
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+          <speciesReference species="M_urdglyc_c" stoichiometry="1" constant="true"/>
+        </listOfReactants>
+        <listOfProducts>
+          <speciesReference species="M_h_c" stoichiometry="1" constant="true"/>
+          <speciesReference species="M_nadh_c" stoichiometry="1" constant="true"/>
+          <speciesReference species="M_oxur_c" stoichiometry="1" constant="true"/>
+        </listOfProducts>
+        <fbc:geneProductAssociation>
+          <fbc:geneProductRef fbc:geneProduct="G_b0517"/>
+        </fbc:geneProductAssociation>
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+                  <rdf:li rdf:resource="http://identifiers.org/rhea/10152"/>
+                  <rdf:li rdf:resource="http://identifiers.org/rhea/10155"/>
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+          <speciesReference species="M_co2_c" stoichiometry="1" constant="true"/>
+          <speciesReference species="M_nh4_c" stoichiometry="1" constant="true"/>
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+        <listOfProducts>
+          <speciesReference species="M_adp_c" stoichiometry="1" constant="true"/>
+          <speciesReference species="M_cbp_c" stoichiometry="1" constant="true"/>
+          <speciesReference species="M_h_c" stoichiometry="2" constant="true"/>
+        </listOfProducts>
+        <fbc:geneProductAssociation>
+          <fbc:geneProductRef fbc:geneProduct="G_b0521"/>
+        </fbc:geneProductAssociation>
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+          <speciesReference species="M_cys__L_c" stoichiometry="1" constant="true"/>
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+        <listOfProducts>
+          <speciesReference species="M_4ppcys_c" stoichiometry="1" constant="true"/>
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+          <speciesReference species="M_h_c" stoichiometry="1" constant="true"/>
+          <speciesReference species="M_ppi_c" stoichiometry="1" constant="true"/>
+        </listOfProducts>
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+          <fbc:geneProductRef fbc:geneProduct="G_b3639"/>
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+                  <rdf:li rdf:resource="http://identifiers.org/seed.reaction/rxn02895"/>
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+          <speciesReference species="M_pram_c" stoichiometry="1" constant="true"/>
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+          <speciesReference species="M_gar_c" stoichiometry="1" constant="true"/>
+          <speciesReference species="M_h_c" stoichiometry="1" constant="true"/>
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+        </listOfProducts>
+        <fbc:geneProductAssociation>
+          <fbc:geneProductRef fbc:geneProduct="G_b4005"/>
+        </fbc:geneProductAssociation>
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+                  <rdf:li rdf:resource="http://identifiers.org/rhea/17131"/>
+                  <rdf:li rdf:resource="http://identifiers.org/rhea/17130"/>
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+          <speciesReference species="M_gln__L_c" stoichiometry="1" constant="true"/>
+          <speciesReference species="M_h2o_c" stoichiometry="1" constant="true"/>
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+          <speciesReference species="M_fpram_c" stoichiometry="1" constant="true"/>
+          <speciesReference species="M_glu__L_c" stoichiometry="1" constant="true"/>
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+          <speciesReference species="M_pi_c" stoichiometry="1" constant="true"/>
+        </listOfProducts>
+        <fbc:geneProductAssociation>
+          <fbc:geneProductRef fbc:geneProduct="G_b2557"/>
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+        <listOfProducts>
+          <speciesReference species="M_acgam6p_c" stoichiometry="1" constant="true"/>
+        </listOfProducts>
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+          <fbc:geneProductRef fbc:geneProduct="G_b3223"/>
+        </fbc:geneProductAssociation>
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+          <speciesReference species="M_lac__D_c" stoichiometry="1" constant="true"/>
+        </listOfProducts>
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+        </listOfReactants>
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+                  <rdf:li rdf:resource="http://identifiers.org/metanetx.reaction/MNXR101417"/>
+                  <rdf:li rdf:resource="http://identifiers.org/rhea/23781"/>
+                  <rdf:li rdf:resource="http://identifiers.org/rhea/23780"/>
+                  <rdf:li rdf:resource="http://identifiers.org/rhea/23783"/>
+                  <rdf:li rdf:resource="http://identifiers.org/rhea/23782"/>
+                  <rdf:li rdf:resource="http://identifiers.org/seed.reaction/rxn00679"/>
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+          <speciesReference species="M_oaa_c" stoichiometry="1" constant="true"/>
+          <speciesReference species="M_ppcoa_c" stoichiometry="1" constant="true"/>
+        </listOfReactants>
+        <listOfProducts>
+          <speciesReference species="M_2mcit_c" stoichiometry="1" constant="true"/>
+          <speciesReference species="M_coa_c" stoichiometry="1" constant="true"/>
+          <speciesReference species="M_h_c" stoichiometry="1" constant="true"/>
+        </listOfProducts>
+        <fbc:geneProductAssociation>
+          <fbc:geneProductRef fbc:geneProduct="G_b0333"/>
+        </fbc:geneProductAssociation>
+      </reaction>
+      <reaction id="R_PPAKr" fast="false" reversible="true" name="Propionate kinase" metaid="R_PPAKr" sboTerm="SBO:0000176" fbc:upperFluxBound="cobra_default_ub" fbc:lowerFluxBound="cobra_default_lb">
+        <sbml:annotation xmlns:sbml="http://www.sbml.org/sbml/level3/version1/core">
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+          <speciesReference species="M_ppap_c" stoichiometry="1" constant="true"/>
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+        <listOfProducts>
+          <speciesReference species="M_atp_c" stoichiometry="1" constant="true"/>
+          <speciesReference species="M_ppa_c" stoichiometry="1" constant="true"/>
+        </listOfProducts>
+        <fbc:geneProductAssociation>
+          <fbc:geneProductRef fbc:geneProduct="G_b3115"/>
+        </fbc:geneProductAssociation>
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+      <reaction id="R_HEX1" fast="false" reversible="false" name="Hexokinase (D-glucose:ATP)" metaid="R_HEX1" sboTerm="SBO:0000176" fbc:upperFluxBound="cobra_default_ub" fbc:lowerFluxBound="cobra_0_bound">
+        <sbml:annotation xmlns:sbml="http://www.sbml.org/sbml/level3/version1/core">
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+                  <rdf:li rdf:resource="http://identifiers.org/biocyc/META:GLUCOKIN-RXN"/>
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+                  <rdf:li rdf:resource="http://identifiers.org/kegg.reaction/R00299"/>
+                  <rdf:li rdf:resource="http://identifiers.org/metanetx.reaction/MNXR100612"/>
+                  <rdf:li rdf:resource="http://identifiers.org/rhea/17827"/>
+                  <rdf:li rdf:resource="http://identifiers.org/rhea/17828"/>
+                  <rdf:li rdf:resource="http://identifiers.org/rhea/17826"/>
+                  <rdf:li rdf:resource="http://identifiers.org/rhea/17825"/>
+                  <rdf:li rdf:resource="http://identifiers.org/sabiork/9175"/>
+                  <rdf:li rdf:resource="http://identifiers.org/sabiork/793"/>
+                  <rdf:li rdf:resource="http://identifiers.org/sabiork/6915"/>
+                  <rdf:li rdf:resource="http://identifiers.org/seed.reaction/rxn00216"/>
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+        </sbml:annotation>
+        <listOfReactants>
+          <speciesReference species="M_atp_c" stoichiometry="1" constant="true"/>
+          <speciesReference species="M_glc__D_c" stoichiometry="1" constant="true"/>
+        </listOfReactants>
+        <listOfProducts>
+          <speciesReference species="M_adp_c" stoichiometry="1" constant="true"/>
+          <speciesReference species="M_g6p_c" stoichiometry="1" constant="true"/>
+          <speciesReference species="M_h_c" stoichiometry="1" constant="true"/>
+        </listOfProducts>
+        <fbc:geneProductAssociation>
+          <fbc:geneProductRef fbc:geneProduct="G_b2388"/>
+        </fbc:geneProductAssociation>
+      </reaction>
+      <reaction id="R_GND" fast="false" reversible="false" name="Phosphogluconate dehydrogenase" metaid="R_GND" sboTerm="SBO:0000176" fbc:upperFluxBound="cobra_default_ub" fbc:lowerFluxBound="cobra_0_bound">
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+                  <rdf:li rdf:resource="http://identifiers.org/reactome.reaction/R-GGA-71299"/>
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+                  <rdf:li rdf:resource="http://identifiers.org/reactome.reaction/R-SPO-71299"/>
+                  <rdf:li rdf:resource="http://identifiers.org/reactome.reaction/R-XTR-71299"/>
+                  <rdf:li rdf:resource="http://identifiers.org/reactome.reaction/R-ATH-71299"/>
+                  <rdf:li rdf:resource="http://identifiers.org/reactome.reaction/R-TGU-71299"/>
+                  <rdf:li rdf:resource="http://identifiers.org/reactome.reaction/R-OSA-71299"/>
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+                  <rdf:li rdf:resource="http://identifiers.org/rhea/10117"/>
+                  <rdf:li rdf:resource="http://identifiers.org/rhea/10118"/>
+                  <rdf:li rdf:resource="http://identifiers.org/rhea/10119"/>
+                  <rdf:li rdf:resource="http://identifiers.org/sabiork/108"/>
+                  <rdf:li rdf:resource="http://identifiers.org/seed.reaction/rxn01115"/>
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+          <speciesReference species="M_nadp_c" stoichiometry="1" constant="true"/>
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+        <listOfProducts>
+          <speciesReference species="M_co2_c" stoichiometry="1" constant="true"/>
+          <speciesReference species="M_nadph_c" stoichiometry="1" constant="true"/>
+          <speciesReference species="M_ru5p__D_c" stoichiometry="1" constant="true"/>
+        </listOfProducts>
+        <fbc:geneProductAssociation>
+          <fbc:geneProductRef fbc:geneProduct="G_b2029"/>
+        </fbc:geneProductAssociation>
+      </reaction>
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+        <sbml:annotation xmlns:sbml="http://www.sbml.org/sbml/level3/version1/core">
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+                  <rdf:li rdf:resource="http://identifiers.org/biocyc/META:RXN0-299"/>
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+                  <rdf:li rdf:resource="http://identifiers.org/kegg.reaction/R05320"/>
+                  <rdf:li rdf:resource="http://identifiers.org/metanetx.reaction/MNXR104730"/>
+                  <rdf:li rdf:resource="http://identifiers.org/rhea/15909"/>
+                  <rdf:li rdf:resource="http://identifiers.org/rhea/15910"/>
+                  <rdf:li rdf:resource="http://identifiers.org/rhea/15912"/>
+                  <rdf:li rdf:resource="http://identifiers.org/rhea/15911"/>
+                  <rdf:li rdf:resource="http://identifiers.org/sabiork/4928"/>
+                  <rdf:li rdf:resource="http://identifiers.org/seed.reaction/rxn03630"/>
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+        </sbml:annotation>
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+          <speciesReference species="M_o2_c" stoichiometry="1" constant="true"/>
+          <speciesReference species="M_taur_c" stoichiometry="1" constant="true"/>
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+        <listOfProducts>
+          <speciesReference species="M_aacald_c" stoichiometry="1" constant="true"/>
+          <speciesReference species="M_co2_c" stoichiometry="1" constant="true"/>
+          <speciesReference species="M_h_c" stoichiometry="1" constant="true"/>
+          <speciesReference species="M_so3_c" stoichiometry="1" constant="true"/>
+          <speciesReference species="M_succ_c" stoichiometry="1" constant="true"/>
+        </listOfProducts>
+        <fbc:geneProductAssociation>
+          <fbc:geneProductRef fbc:geneProduct="G_b0368"/>
+        </fbc:geneProductAssociation>
+      </reaction>
+      <reaction id="R_DM_amob_c" fast="false" reversible="false" name="Sink needed to allow S-Adenosyl-4-methylthio-2-oxobutanoate to leave system" metaid="R_DM_amob_c" sboTerm="SBO:0000628" fbc:upperFluxBound="cobra_default_ub" fbc:lowerFluxBound="cobra_0_bound">
+        <sbml:annotation xmlns:sbml="http://www.sbml.org/sbml/level3/version1/core">
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+              <bqbiol:is xmlns:bqbiol="http://biomodels.net/biology-qualifiers/">
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+          <speciesReference species="M_amob_c" stoichiometry="1" constant="true"/>
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+        <sbml:annotation xmlns:sbml="http://www.sbml.org/sbml/level3/version1/core">
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+                  <rdf:li rdf:resource="http://identifiers.org/rhea/19671"/>
+                  <rdf:li rdf:resource="http://identifiers.org/rhea/19672"/>
+                  <rdf:li rdf:resource="http://identifiers.org/rhea/19670"/>
+                  <rdf:li rdf:resource="http://identifiers.org/sabiork/816"/>
+                  <rdf:li rdf:resource="http://identifiers.org/seed.reaction/rxn00241"/>
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+        </sbml:annotation>
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+          <speciesReference species="M_h2o_c" stoichiometry="1" constant="true"/>
+        </listOfReactants>
+        <listOfProducts>
+          <speciesReference species="M_gdp_c" stoichiometry="1" constant="true"/>
+          <speciesReference species="M_h_c" stoichiometry="1" constant="true"/>
+          <speciesReference species="M_pi_c" stoichiometry="1" constant="true"/>
+        </listOfProducts>
+        <fbc:geneProductAssociation>
+          <fbc:or>
+            <fbc:geneProductRef fbc:geneProduct="G_b4161"/>
+            <fbc:geneProductRef fbc:geneProduct="G_b4352"/>
+            <fbc:geneProductRef fbc:geneProduct="G_b2727"/>
+            <fbc:geneProductRef fbc:geneProduct="G_b2918"/>
+            <fbc:geneProductRef fbc:geneProduct="G_b2173"/>
+            <fbc:geneProductRef fbc:geneProduct="G_b3590"/>
+            <fbc:geneProductRef fbc:geneProduct="G_b4173"/>
+          </fbc:or>
+        </fbc:geneProductAssociation>
+      </reaction>
+      <reaction id="R_PPM2" fast="false" reversible="true" name="Phosphopentomutase 2 (deoxyribose)" metaid="R_PPM2" sboTerm="SBO:0000176" fbc:upperFluxBound="cobra_default_ub" fbc:lowerFluxBound="cobra_default_lb">
+        <sbml:annotation xmlns:sbml="http://www.sbml.org/sbml/level3/version1/core">
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+                  <rdf:li rdf:resource="http://identifiers.org/biocyc/META:D-PPENTOMUT-RXN"/>
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+                  <rdf:li rdf:resource="http://identifiers.org/kegg.reaction/R02749"/>
+                  <rdf:li rdf:resource="http://identifiers.org/metanetx.reaction/MNXR103116"/>
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+                  <rdf:li rdf:resource="http://identifiers.org/rhea/27659"/>
+                  <rdf:li rdf:resource="http://identifiers.org/seed.reaction/rxn01986"/>
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+        <listOfProducts>
+          <speciesReference species="M_2dr5p_c" stoichiometry="1" constant="true"/>
+        </listOfProducts>
+        <fbc:geneProductAssociation>
+          <fbc:geneProductRef fbc:geneProduct="G_b4383"/>
+        </fbc:geneProductAssociation>
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+                  <rdf:li rdf:resource="http://identifiers.org/kegg.reaction/R05074"/>
+                  <rdf:li rdf:resource="http://identifiers.org/kegg.reaction/R06285"/>
+                  <rdf:li rdf:resource="http://identifiers.org/metanetx.reaction/MNXR101684"/>
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+                  <rdf:li rdf:resource="http://identifiers.org/rhea/28065"/>
+                  <rdf:li rdf:resource="http://identifiers.org/rhea/28064"/>
+                  <rdf:li rdf:resource="http://identifiers.org/seed.reaction/rxn03439"/>
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+          <speciesReference species="M_ckdo_c" stoichiometry="1" constant="true"/>
+          <speciesReference species="M_kdolipid4_c" stoichiometry="1" constant="true"/>
+        </listOfReactants>
+        <listOfProducts>
+          <speciesReference species="M_cmp_c" stoichiometry="1" constant="true"/>
+          <speciesReference species="M_h_c" stoichiometry="1" constant="true"/>
+          <speciesReference species="M_kdo2lipid4_c" stoichiometry="1" constant="true"/>
+        </listOfProducts>
+        <fbc:geneProductAssociation>
+          <fbc:geneProductRef fbc:geneProduct="G_b3633"/>
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+              <bqbiol:is xmlns:bqbiol="http://biomodels.net/biology-qualifiers/">
+                <rdf:Bag>
+                  <rdf:li rdf:resource="http://identifiers.org/bigg.reaction/EX_lcts_e"/>
+                  <rdf:li rdf:resource="http://identifiers.org/metanetx.reaction/MNXR101027"/>
+                  <rdf:li rdf:resource="http://identifiers.org/seed.reaction/rxn08780"/>
+                </rdf:Bag>
+              </bqbiol:is>
+            </rdf:Description>
+          </rdf:RDF>
+        </sbml:annotation>
+        <listOfReactants>
+          <speciesReference species="M_lcts_e" stoichiometry="1" constant="true"/>
+        </listOfReactants>
+      </reaction>
+      <reaction id="R_EX_ocdca_e" fast="false" reversible="false" name="Octadecanoate (n-C18:0) exchange" metaid="R_EX_ocdca_e" sboTerm="SBO:0000627" fbc:upperFluxBound="cobra_default_ub" fbc:lowerFluxBound="cobra_0_bound">
+        <sbml:annotation xmlns:sbml="http://www.sbml.org/sbml/level3/version1/core">
+          <rdf:RDF xmlns:rdf="http://www.w3.org/1999/02/22-rdf-syntax-ns#">
+            <rdf:Description rdf:about="#R_EX_ocdca_e">
+              <bqbiol:is xmlns:bqbiol="http://biomodels.net/biology-qualifiers/">
+                <rdf:Bag>
+                  <rdf:li rdf:resource="http://identifiers.org/bigg.reaction/EX_ocdca_e"/>
+                  <rdf:li rdf:resource="http://identifiers.org/metanetx.reaction/MNXR99109"/>
+                  <rdf:li rdf:resource="http://identifiers.org/rhea/39807"/>
+                  <rdf:li rdf:resource="http://identifiers.org/rhea/39808"/>
+                  <rdf:li rdf:resource="http://identifiers.org/rhea/39809"/>
+                  <rdf:li rdf:resource="http://identifiers.org/rhea/39810"/>
+                  <rdf:li rdf:resource="http://identifiers.org/seed.reaction/rxn09034"/>
+                  <rdf:li rdf:resource="http://identifiers.org/seed.reaction/rxn09669"/>
+                </rdf:Bag>
+              </bqbiol:is>
+            </rdf:Description>
+          </rdf:RDF>
+        </sbml:annotation>
+        <listOfReactants>
+          <speciesReference species="M_ocdca_e" stoichiometry="1" constant="true"/>
+        </listOfReactants>
+      </reaction>
+      <reaction id="R_EX_cbl1_e" fast="false" reversible="false" name="Cob(I)alamin exchange" metaid="R_EX_cbl1_e" sboTerm="SBO:0000627" fbc:upperFluxBound="cobra_default_ub" fbc:lowerFluxBound="cobra_0_bound">
+        <sbml:annotation xmlns:sbml="http://www.sbml.org/sbml/level3/version1/core">
+          <rdf:RDF xmlns:rdf="http://www.w3.org/1999/02/22-rdf-syntax-ns#">
+            <rdf:Description rdf:about="#R_EX_cbl1_e">
+              <bqbiol:is xmlns:bqbiol="http://biomodels.net/biology-qualifiers/">
+                <rdf:Bag>
+                  <rdf:li rdf:resource="http://identifiers.org/bigg.reaction/EX_cbl1_e"/>
+                  <rdf:li rdf:resource="http://identifiers.org/biocyc/META:RXN0-1565"/>
+                  <rdf:li rdf:resource="http://identifiers.org/metanetx.reaction/MNXR123114"/>
+                  <rdf:li rdf:resource="http://identifiers.org/rhea/29722"/>
+                  <rdf:li rdf:resource="http://identifiers.org/rhea/29720"/>
+                  <rdf:li rdf:resource="http://identifiers.org/rhea/29721"/>
+                  <rdf:li rdf:resource="http://identifiers.org/rhea/29719"/>
+                </rdf:Bag>
+              </bqbiol:is>
+            </rdf:Description>
+          </rdf:RDF>
+        </sbml:annotation>
+        <listOfReactants>
+          <speciesReference species="M_cbl1_e" stoichiometry="1" constant="true"/>
+        </listOfReactants>
+      </reaction>
+      <reaction id="R_SPODM" fast="false" reversible="false" name="Superoxide dismutase" metaid="R_SPODM" sboTerm="SBO:0000176" fbc:upperFluxBound="cobra_default_ub" fbc:lowerFluxBound="cobra_0_bound">
+        <sbml:annotation xmlns:sbml="http://www.sbml.org/sbml/level3/version1/core">
+          <rdf:RDF xmlns:rdf="http://www.w3.org/1999/02/22-rdf-syntax-ns#">
+            <rdf:Description rdf:about="#R_SPODM">
+              <bqbiol:is xmlns:bqbiol="http://biomodels.net/biology-qualifiers/">
+                <rdf:Bag>
+                  <rdf:li rdf:resource="http://identifiers.org/bigg.reaction/SPODM"/>
+                  <rdf:li rdf:resource="http://identifiers.org/biocyc/META:SUPEROX-DISMUT-RXN"/>
+                  <rdf:li rdf:resource="http://identifiers.org/ec-code/1.15.1.1"/>
+                  <rdf:li rdf:resource="http://identifiers.org/kegg.reaction/R00275"/>
+                  <rdf:li rdf:resource="http://identifiers.org/metanetx.reaction/MNXR104498"/>
+                  <rdf:li rdf:resource="http://identifiers.org/rhea/20696"/>
+                  <rdf:li rdf:resource="http://identifiers.org/rhea/20699"/>
+                  <rdf:li rdf:resource="http://identifiers.org/rhea/20698"/>
+                  <rdf:li rdf:resource="http://identifiers.org/rhea/20697"/>
+                </rdf:Bag>
+              </bqbiol:is>
+            </rdf:Description>
+          </rdf:RDF>
+        </sbml:annotation>
+        <listOfReactants>
+          <speciesReference species="M_h_c" stoichiometry="2" constant="true"/>
+          <speciesReference species="M_o2s_c" stoichiometry="2" constant="true"/>
+        </listOfReactants>
+        <listOfProducts>
+          <speciesReference species="M_h2o2_c" stoichiometry="1" constant="true"/>
+          <speciesReference species="M_o2_c" stoichiometry="1" constant="true"/>
+        </listOfProducts>
+        <fbc:geneProductAssociation>
+          <fbc:or>
+            <fbc:geneProductRef fbc:geneProduct="G_b3908"/>
+            <fbc:geneProductRef fbc:geneProduct="G_b1656"/>
+          </fbc:or>
+        </fbc:geneProductAssociation>
+      </reaction>
+      <reaction id="R_AHCYSNS" fast="false" reversible="false" name="S-adenosylhomocysteine nucleosidase" metaid="R_AHCYSNS" sboTerm="SBO:0000176" fbc:upperFluxBound="cobra_default_ub" fbc:lowerFluxBound="cobra_0_bound">
+        <sbml:annotation xmlns:sbml="http://www.sbml.org/sbml/level3/version1/core">
+          <rdf:RDF xmlns:rdf="http://www.w3.org/1999/02/22-rdf-syntax-ns#">
+            <rdf:Description rdf:about="#R_AHCYSNS">
+              <bqbiol:is xmlns:bqbiol="http://biomodels.net/biology-qualifiers/">
+                <rdf:Bag>
+                  <rdf:li rdf:resource="http://identifiers.org/bigg.reaction/AHCYSNS"/>
+                  <rdf:li rdf:resource="http://identifiers.org/biocyc/META:ADENOSYLHOMOCYSTEINE-NUCLEOSIDASE-RXN"/>
+                  <rdf:li rdf:resource="http://identifiers.org/ec-code/3.2.2.9"/>
+                  <rdf:li rdf:resource="http://identifiers.org/kegg.reaction/R00194"/>
+                  <rdf:li rdf:resource="http://identifiers.org/metanetx.reaction/MNXR95625"/>
+                  <rdf:li rdf:resource="http://identifiers.org/rhea/17806"/>
+                  <rdf:li rdf:resource="http://identifiers.org/rhea/17808"/>
+                  <rdf:li rdf:resource="http://identifiers.org/rhea/17805"/>
+                  <rdf:li rdf:resource="http://identifiers.org/rhea/17807"/>
+                  <rdf:li rdf:resource="http://identifiers.org/seed.reaction/rxn00143"/>
+                </rdf:Bag>
+              </bqbiol:is>
+            </rdf:Description>
+          </rdf:RDF>
+        </sbml:annotation>
+        <listOfReactants>
+          <speciesReference species="M_ahcys_c" stoichiometry="1" constant="true"/>
+          <speciesReference species="M_h2o_c" stoichiometry="1" constant="true"/>
+        </listOfReactants>
+        <listOfProducts>
+          <speciesReference species="M_ade_c" stoichiometry="1" constant="true"/>
+          <speciesReference species="M_rhcys_c" stoichiometry="1" constant="true"/>
+        </listOfProducts>
+        <fbc:geneProductAssociation>
+          <fbc:geneProductRef fbc:geneProduct="G_b0159"/>
+        </fbc:geneProductAssociation>
+      </reaction>
+      <reaction id="R_ACNML" fast="false" reversible="false" name="N-Acetylneuraminate lyase" metaid="R_ACNML" sboTerm="SBO:0000176" fbc:upperFluxBound="cobra_default_ub" fbc:lowerFluxBound="cobra_0_bound">
+        <sbml:annotation xmlns:sbml="http://www.sbml.org/sbml/level3/version1/core">
+          <rdf:RDF xmlns:rdf="http://www.w3.org/1999/02/22-rdf-syntax-ns#">
+            <rdf:Description rdf:about="#R_ACNML">
+              <bqbiol:is xmlns:bqbiol="http://biomodels.net/biology-qualifiers/">
+                <rdf:Bag>
+                  <rdf:li rdf:resource="http://identifiers.org/bigg.reaction/ACNML"/>
+                  <rdf:li rdf:resource="http://identifiers.org/biocyc/META:ACNEULY-RXN"/>
+                  <rdf:li rdf:resource="http://identifiers.org/ec-code/4.1.3.3"/>
+                  <rdf:li rdf:resource="http://identifiers.org/kegg.reaction/R01811"/>
+                  <rdf:li rdf:resource="http://identifiers.org/metanetx.reaction/MNXR95296"/>
+                  <rdf:li rdf:resource="http://identifiers.org/rhea/23297"/>
+                  <rdf:li rdf:resource="http://identifiers.org/rhea/23298"/>
+                  <rdf:li rdf:resource="http://identifiers.org/rhea/23296"/>
+                  <rdf:li rdf:resource="http://identifiers.org/rhea/23299"/>
+                  <rdf:li rdf:resource="http://identifiers.org/sabiork/7666"/>
+                  <rdf:li rdf:resource="http://identifiers.org/seed.reaction/rxn01322"/>
+                </rdf:Bag>
+              </bqbiol:is>
+            </rdf:Description>
+          </rdf:RDF>
+        </sbml:annotation>
+        <listOfReactants>
+          <speciesReference species="M_acnam_c" stoichiometry="1" constant="true"/>
+        </listOfReactants>
+        <listOfProducts>
+          <speciesReference species="M_acmana_c" stoichiometry="1" constant="true"/>
+          <speciesReference species="M_pyr_c" stoichiometry="1" constant="true"/>
+        </listOfProducts>
+        <fbc:geneProductAssociation>
+          <fbc:geneProductRef fbc:geneProduct="G_b3225"/>
+        </fbc:geneProductAssociation>
+      </reaction>
+      <reaction id="R_TMK" fast="false" reversible="false" name="Thiamine kinase" metaid="R_TMK" sboTerm="SBO:0000176" fbc:upperFluxBound="cobra_default_ub" fbc:lowerFluxBound="cobra_0_bound">
+        <sbml:annotation xmlns:sbml="http://www.sbml.org/sbml/level3/version1/core">
+          <rdf:RDF xmlns:rdf="http://www.w3.org/1999/02/22-rdf-syntax-ns#">
+            <rdf:Description rdf:about="#R_TMK">
+              <bqbiol:is xmlns:bqbiol="http://biomodels.net/biology-qualifiers/">
+                <rdf:Bag>
+                  <rdf:li rdf:resource="http://identifiers.org/bigg.reaction/TMK"/>
+                  <rdf:li rdf:resource="http://identifiers.org/ec-code/2.7.1.89"/>
+                  <rdf:li rdf:resource="http://identifiers.org/metanetx.reaction/MNXR138875"/>
+                  <rdf:li rdf:resource="http://identifiers.org/seed.reaction/rxn01538"/>
+                </rdf:Bag>
+              </bqbiol:is>
+            </rdf:Description>
+          </rdf:RDF>
+        </sbml:annotation>
+        <listOfReactants>
+          <speciesReference species="M_atp_c" stoichiometry="1" constant="true"/>
+          <speciesReference species="M_thm_c" stoichiometry="1" constant="true"/>
+        </listOfReactants>
+        <listOfProducts>
+          <speciesReference species="M_adp_c" stoichiometry="1" constant="true"/>
+          <speciesReference species="M_h_c" stoichiometry="1" constant="true"/>
+          <speciesReference species="M_thmmp_c" stoichiometry="1" constant="true"/>
+        </listOfProducts>
+        <fbc:geneProductAssociation>
+          <fbc:geneProductRef fbc:geneProduct="G_b1106"/>
+        </fbc:geneProductAssociation>
+      </reaction>
+      <reaction id="R_NTPP4" fast="false" reversible="false" name="Nucleoside triphosphate pyrophosphorylase (ctp)" metaid="R_NTPP4" sboTerm="SBO:0000176" fbc:upperFluxBound="cobra_default_ub" fbc:lowerFluxBound="cobra_0_bound">
+        <sbml:annotation xmlns:sbml="http://www.sbml.org/sbml/level3/version1/core">
+          <rdf:RDF xmlns:rdf="http://www.w3.org/1999/02/22-rdf-syntax-ns#">
+            <rdf:Description rdf:about="#R_NTPP4">
+              <bqbiol:is xmlns:bqbiol="http://biomodels.net/biology-qualifiers/">
+                <rdf:Bag>
+                  <rdf:li rdf:resource="http://identifiers.org/bigg.reaction/NTPP4"/>
+                  <rdf:li rdf:resource="http://identifiers.org/biocyc/META:RXN0-383"/>
+                  <rdf:li rdf:resource="http://identifiers.org/ec-code/3.6.1.8"/>
+                  <rdf:li rdf:resource="http://identifiers.org/ec-code/3.6.1.9"/>
+                  <rdf:li rdf:resource="http://identifiers.org/ec-code/3.6.1.65"/>
+                  <rdf:li rdf:resource="http://identifiers.org/kegg.reaction/R00515"/>
+                  <rdf:li rdf:resource="http://identifiers.org/metanetx.reaction/MNXR102053"/>
+                  <rdf:li rdf:resource="http://identifiers.org/rhea/27765"/>
+                  <rdf:li rdf:resource="http://identifiers.org/rhea/27763"/>
+                  <rdf:li rdf:resource="http://identifiers.org/rhea/27764"/>
+                  <rdf:li rdf:resource="http://identifiers.org/rhea/27762"/>
+                  <rdf:li rdf:resource="http://identifiers.org/sabiork/454"/>
+                  <rdf:li rdf:resource="http://identifiers.org/seed.reaction/rxn00367"/>
+                </rdf:Bag>
+              </bqbiol:is>
+            </rdf:Description>
+          </rdf:RDF>
+        </sbml:annotation>
+        <listOfReactants>
+          <speciesReference species="M_ctp_c" stoichiometry="1" constant="true"/>
+          <speciesReference species="M_h2o_c" stoichiometry="1" constant="true"/>
+        </listOfReactants>
+        <listOfProducts>
+          <speciesReference species="M_cmp_c" stoichiometry="1" constant="true"/>
+          <speciesReference species="M_h_c" stoichiometry="1" constant="true"/>
+          <speciesReference species="M_ppi_c" stoichiometry="1" constant="true"/>
+        </listOfProducts>
+        <fbc:geneProductAssociation>
+          <fbc:or>
+            <fbc:geneProductRef fbc:geneProduct="G_b1759"/>
+            <fbc:geneProductRef fbc:geneProduct="G_b2781"/>
+          </fbc:or>
+        </fbc:geneProductAssociation>
+      </reaction>
+      <reaction id="R_GMPS" fast="false" reversible="false" name="GMP synthase" metaid="R_GMPS" sboTerm="SBO:0000176" fbc:upperFluxBound="cobra_default_ub" fbc:lowerFluxBound="cobra_0_bound">
+        <sbml:annotation xmlns:sbml="http://www.sbml.org/sbml/level3/version1/core">
+          <rdf:RDF xmlns:rdf="http://www.w3.org/1999/02/22-rdf-syntax-ns#">
+            <rdf:Description rdf:about="#R_GMPS">
+              <bqbiol:is xmlns:bqbiol="http://biomodels.net/biology-qualifiers/">
+                <rdf:Bag>
+                  <rdf:li rdf:resource="http://identifiers.org/bigg.reaction/GMPS"/>
+                  <rdf:li rdf:resource="http://identifiers.org/biocyc/META:GMP-SYN-NH3-RXN"/>
+                  <rdf:li rdf:resource="http://identifiers.org/ec-code/6.3.5.2"/>
+                  <rdf:li rdf:resource="http://identifiers.org/kegg.reaction/R01230"/>
+                  <rdf:li rdf:resource="http://identifiers.org/metanetx.reaction/MNXR100383"/>
+                  <rdf:li rdf:resource="http://identifiers.org/rhea/18304"/>
+                  <rdf:li rdf:resource="http://identifiers.org/rhea/18303"/>
+                  <rdf:li rdf:resource="http://identifiers.org/rhea/18301"/>
+                  <rdf:li rdf:resource="http://identifiers.org/rhea/18302"/>
+                  <rdf:li rdf:resource="http://identifiers.org/sabiork/191"/>
+                  <rdf:li rdf:resource="http://identifiers.org/seed.reaction/rxn00916"/>
+                </rdf:Bag>
+              </bqbiol:is>
+            </rdf:Description>
+          </rdf:RDF>
+        </sbml:annotation>
+        <listOfReactants>
+          <speciesReference species="M_atp_c" stoichiometry="1" constant="true"/>
+          <speciesReference species="M_nh4_c" stoichiometry="1" constant="true"/>
+          <speciesReference species="M_xmp_c" stoichiometry="1" constant="true"/>
+        </listOfReactants>
+        <listOfProducts>
+          <speciesReference species="M_amp_c" stoichiometry="1" constant="true"/>
+          <speciesReference species="M_gmp_c" stoichiometry="1" constant="true"/>
+          <speciesReference species="M_h_c" stoichiometry="2" constant="true"/>
+          <speciesReference species="M_ppi_c" stoichiometry="1" constant="true"/>
+        </listOfProducts>
+        <fbc:geneProductAssociation>
+          <fbc:geneProductRef fbc:geneProduct="G_b2507"/>
+        </fbc:geneProductAssociation>
+      </reaction>
+      <reaction id="R_CAT" fast="false" reversible="false" name="Catalase" metaid="R_CAT" sboTerm="SBO:0000176" fbc:upperFluxBound="cobra_default_ub" fbc:lowerFluxBound="cobra_0_bound">
+        <sbml:annotation xmlns:sbml="http://www.sbml.org/sbml/level3/version1/core">
+          <rdf:RDF xmlns:rdf="http://www.w3.org/1999/02/22-rdf-syntax-ns#">
+            <rdf:Description rdf:about="#R_CAT">
+              <bqbiol:is xmlns:bqbiol="http://biomodels.net/biology-qualifiers/">
+                <rdf:Bag>
+                  <rdf:li rdf:resource="http://identifiers.org/bigg.reaction/CAT"/>
+                  <rdf:li rdf:resource="http://identifiers.org/biocyc/META:CATAL-RXN"/>
+                  <rdf:li rdf:resource="http://identifiers.org/ec-code/1.11.1.21"/>
+                  <rdf:li rdf:resource="http://identifiers.org/ec-code/1.11.1.6"/>
+                  <rdf:li rdf:resource="http://identifiers.org/kegg.reaction/R00009"/>
+                  <rdf:li rdf:resource="http://identifiers.org/metanetx.reaction/MNXR96455"/>
+                  <rdf:li rdf:resource="http://identifiers.org/reactome.reaction/R-XTR-76031"/>
+                  <rdf:li rdf:resource="http://identifiers.org/reactome.reaction/R-DME-76031"/>
+                  <rdf:li rdf:resource="http://identifiers.org/reactome.reaction/R-CEL-76031"/>
+                  <rdf:li rdf:resource="http://identifiers.org/reactome.reaction/R-GGA-76031"/>
+                  <rdf:li rdf:resource="http://identifiers.org/reactome.reaction/R-RNO-76031"/>
+                  <rdf:li rdf:resource="http://identifiers.org/reactome.reaction/R-SCE-76031"/>
+                  <rdf:li rdf:resource="http://identifiers.org/reactome.reaction/R-TGU-76031"/>
+                  <rdf:li rdf:resource="http://identifiers.org/reactome.reaction/R-ATH-76031"/>
+                  <rdf:li rdf:resource="http://identifiers.org/reactome.reaction/R-HSA-76031"/>
+                  <rdf:li rdf:resource="http://identifiers.org/reactome.reaction/R-MMU-76031"/>
+                  <rdf:li rdf:resource="http://identifiers.org/reactome.reaction/R-SPO-76031"/>
+                  <rdf:li rdf:resource="http://identifiers.org/reactome.reaction/R-BTA-76031"/>
+                  <rdf:li rdf:resource="http://identifiers.org/reactome.reaction/R-OSA-76031"/>
+                  <rdf:li rdf:resource="http://identifiers.org/reactome.reaction/R-SSC-76031"/>
+                  <rdf:li rdf:resource="http://identifiers.org/reactome.reaction/R-DRE-76031"/>
+                  <rdf:li rdf:resource="http://identifiers.org/reactome.reaction/R-CFA-76031"/>
+                  <rdf:li rdf:resource="http://identifiers.org/reactome.reaction/R-HSA-1222704"/>
+                  <rdf:li rdf:resource="http://identifiers.org/reactome.reaction/R-DDI-76031"/>
+                  <rdf:li rdf:resource="http://identifiers.org/rhea/20309"/>
+                  <rdf:li rdf:resource="http://identifiers.org/rhea/20310"/>
+                  <rdf:li rdf:resource="http://identifiers.org/rhea/20311"/>
+                  <rdf:li rdf:resource="http://identifiers.org/rhea/20312"/>
+                  <rdf:li rdf:resource="http://identifiers.org/sabiork/373"/>
+                  <rdf:li rdf:resource="http://identifiers.org/seed.reaction/rxn00006"/>
+                </rdf:Bag>
+              </bqbiol:is>
+            </rdf:Description>
+          </rdf:RDF>
+        </sbml:annotation>
+        <listOfReactants>
+          <speciesReference species="M_h2o2_c" stoichiometry="2" constant="true"/>
+        </listOfReactants>
+        <listOfProducts>
+          <speciesReference species="M_h2o_c" stoichiometry="2" constant="true"/>
+          <speciesReference species="M_o2_c" stoichiometry="1" constant="true"/>
+        </listOfProducts>
+        <fbc:geneProductAssociation>
+          <fbc:or>
+            <fbc:geneProductRef fbc:geneProduct="G_b1732"/>
+            <fbc:geneProductRef fbc:geneProduct="G_b3942"/>
+          </fbc:or>
+        </fbc:geneProductAssociation>
+      </reaction>
+      <reaction id="R_FTHFLi" fast="false" reversible="false" name="Formate-tetrahydrofolate ligase" metaid="R_FTHFLi" sboTerm="SBO:0000176" fbc:upperFluxBound="cobra_default_ub" fbc:lowerFluxBound="cobra_0_bound">
+        <sbml:annotation xmlns:sbml="http://www.sbml.org/sbml/level3/version1/core">
+          <rdf:RDF xmlns:rdf="http://www.w3.org/1999/02/22-rdf-syntax-ns#">
+            <rdf:Description rdf:about="#R_FTHFLi">
+              <bqbiol:is xmlns:bqbiol="http://biomodels.net/biology-qualifiers/">
+                <rdf:Bag>
+                  <rdf:li rdf:resource="http://identifiers.org/bigg.reaction/FTHFLi"/>
+                  <rdf:li rdf:resource="http://identifiers.org/ec-code/6.3.4.3"/>
+                  <rdf:li rdf:resource="http://identifiers.org/kegg.reaction/R00943"/>
+                  <rdf:li rdf:resource="http://identifiers.org/metanetx.reaction/MNXR99672"/>
+                  <rdf:li rdf:resource="http://identifiers.org/reactome.reaction/R-BTA-5696839"/>
+                  <rdf:li rdf:resource="http://identifiers.org/reactome.reaction/R-CEL-6801456"/>
+                  <rdf:li rdf:resource="http://identifiers.org/reactome.reaction/R-BTA-6801456"/>
+                  <rdf:li rdf:resource="http://identifiers.org/reactome.reaction/R-GGA-6801456"/>
+                  <rdf:li rdf:resource="http://identifiers.org/reactome.reaction/R-RNO-6801456"/>
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+            <fbc:geneProductRef fbc:geneProduct="G_b2540"/>
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+            <fbc:geneProductRef fbc:geneProduct="G_b2215"/>
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+            <fbc:geneProductRef fbc:geneProduct="G_b2215"/>
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+        </fbc:geneProductAssociation>
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+                  <rdf:li rdf:resource="http://identifiers.org/rhea/16507"/>
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+        <listOfProducts>
+          <speciesReference species="M_4hbz_c" stoichiometry="1" constant="true"/>
+          <speciesReference species="M_pyr_c" stoichiometry="1" constant="true"/>
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+            <fbc:geneProductRef fbc:geneProduct="G_b1096"/>
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+        </fbc:geneProductAssociation>
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+          <speciesReference species="M_glu__L_c" stoichiometry="1" constant="true"/>
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+        <listOfProducts>
+          <speciesReference species="M_akg_c" stoichiometry="1" constant="true"/>
+          <speciesReference species="M_dtdp4addg_c" stoichiometry="1" constant="true"/>
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+          <speciesReference species="M_nad_c" stoichiometry="2" constant="true"/>
+          <speciesReference species="M_uacmam_c" stoichiometry="1" constant="true"/>
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+          <speciesReference species="M_nadh_c" stoichiometry="2" constant="true"/>
+          <speciesReference species="M_uacmamu_c" stoichiometry="1" constant="true"/>
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+          <speciesReference species="M_dhap_c" stoichiometry="1" constant="true"/>
+          <speciesReference species="M_e4p_c" stoichiometry="1" constant="true"/>
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+          <fbc:geneProductRef fbc:geneProduct="G_b2925"/>
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+          <fbc:geneProductRef fbc:geneProduct="G_b2103"/>
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+          <speciesReference species="M_lald__L_c" stoichiometry="1" constant="true"/>
+          <speciesReference species="M_nad_c" stoichiometry="1" constant="true"/>
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+          <speciesReference species="M_h_c" stoichiometry="2" constant="true"/>
+          <speciesReference species="M_lac__L_c" stoichiometry="1" constant="true"/>
+          <speciesReference species="M_nadh_c" stoichiometry="1" constant="true"/>
+        </listOfProducts>
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+          <fbc:geneProductRef fbc:geneProduct="G_b1415"/>
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+            <fbc:geneProductRef fbc:geneProduct="G_b1377"/>
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+        </fbc:geneProductAssociation>
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+          <speciesReference species="M_coa_c" stoichiometry="1" constant="true"/>
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+          <speciesReference species="M_paps_c" stoichiometry="1" constant="true"/>
+        </listOfProducts>
+        <fbc:geneProductAssociation>
+          <fbc:geneProductRef fbc:geneProduct="G_b2750"/>
+        </fbc:geneProductAssociation>
+      </reaction>
+      <reaction id="R_ACACT3r" fast="false" reversible="true" name="Acetyl-CoA C-acyltransferase (hexanoyl-CoA) (r)" metaid="R_ACACT3r" sboTerm="SBO:0000176" fbc:upperFluxBound="cobra_default_ub" fbc:lowerFluxBound="cobra_default_lb">
+        <sbml:annotation xmlns:sbml="http://www.sbml.org/sbml/level3/version1/core">
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+              <bqbiol:is xmlns:bqbiol="http://biomodels.net/biology-qualifiers/">
+                <rdf:Bag>
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+                  <rdf:li rdf:resource="http://identifiers.org/ec-code/2.3.1.9"/>
+                  <rdf:li rdf:resource="http://identifiers.org/metanetx.reaction/MNXR95197"/>
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+              </bqbiol:is>
+            </rdf:Description>
+          </rdf:RDF>
+        </sbml:annotation>
+        <listOfReactants>
+          <speciesReference species="M_accoa_c" stoichiometry="1" constant="true"/>
+          <speciesReference species="M_hxcoa_c" stoichiometry="1" constant="true"/>
+        </listOfReactants>
+        <listOfProducts>
+          <speciesReference species="M_3oocoa_c" stoichiometry="1" constant="true"/>
+          <speciesReference species="M_coa_c" stoichiometry="1" constant="true"/>
+        </listOfProducts>
+        <fbc:geneProductAssociation>
+          <fbc:or>
+            <fbc:geneProductRef fbc:geneProduct="G_b2342"/>
+            <fbc:geneProductRef fbc:geneProduct="G_b3845"/>
+          </fbc:or>
+        </fbc:geneProductAssociation>
+      </reaction>
+      <reaction id="R_ACACT4r" fast="false" reversible="true" name="Acetyl-CoA C-acyltransferase (octanoyl-CoA) (r)" metaid="R_ACACT4r" sboTerm="SBO:0000176" fbc:upperFluxBound="cobra_default_ub" fbc:lowerFluxBound="cobra_default_lb">
+        <sbml:annotation xmlns:sbml="http://www.sbml.org/sbml/level3/version1/core">
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+                <rdf:Bag>
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+                  <rdf:li rdf:resource="http://identifiers.org/kegg.reaction/R03778"/>
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+                  <rdf:li rdf:resource="http://identifiers.org/reactome.reaction/R-GGA-77340"/>
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+                  <rdf:li rdf:resource="http://identifiers.org/reactome.reaction/R-SSC-77340"/>
+                  <rdf:li rdf:resource="http://identifiers.org/reactome.reaction/R-XTR-77340"/>
+                  <rdf:li rdf:resource="http://identifiers.org/reactome.reaction/R-RNO-77340"/>
+                  <rdf:li rdf:resource="http://identifiers.org/reactome.reaction/R-TGU-77340"/>
+                  <rdf:li rdf:resource="http://identifiers.org/reactome.reaction/R-DME-77340"/>
+                  <rdf:li rdf:resource="http://identifiers.org/rhea/31087"/>
+                  <rdf:li rdf:resource="http://identifiers.org/rhea/31089"/>
+                  <rdf:li rdf:resource="http://identifiers.org/rhea/31088"/>
+                  <rdf:li rdf:resource="http://identifiers.org/rhea/31090"/>
+                  <rdf:li rdf:resource="http://identifiers.org/sabiork/3537"/>
+                  <rdf:li rdf:resource="http://identifiers.org/seed.reaction/rxn02680"/>
+                </rdf:Bag>
+              </bqbiol:is>
+            </rdf:Description>
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+        </sbml:annotation>
+        <listOfReactants>
+          <speciesReference species="M_accoa_c" stoichiometry="1" constant="true"/>
+          <speciesReference species="M_occoa_c" stoichiometry="1" constant="true"/>
+        </listOfReactants>
+        <listOfProducts>
+          <speciesReference species="M_3odcoa_c" stoichiometry="1" constant="true"/>
+          <speciesReference species="M_coa_c" stoichiometry="1" constant="true"/>
+        </listOfProducts>
+        <fbc:geneProductAssociation>
+          <fbc:or>
+            <fbc:geneProductRef fbc:geneProduct="G_b2342"/>
+            <fbc:geneProductRef fbc:geneProduct="G_b3845"/>
+          </fbc:or>
+        </fbc:geneProductAssociation>
+      </reaction>
+      <reaction id="R_SUCCt2_2pp" fast="false" reversible="false" name="Succinate transport via proton symport (2 H) (periplasm)" metaid="R_SUCCt2_2pp" sboTerm="SBO:0000185" fbc:upperFluxBound="cobra_default_ub" fbc:lowerFluxBound="cobra_0_bound">
+        <sbml:annotation xmlns:sbml="http://www.sbml.org/sbml/level3/version1/core">
+          <rdf:RDF xmlns:rdf="http://www.w3.org/1999/02/22-rdf-syntax-ns#">
+            <rdf:Description rdf:about="#R_SUCCt2_2pp">
+              <bqbiol:is xmlns:bqbiol="http://biomodels.net/biology-qualifiers/">
+                <rdf:Bag>
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+                  <rdf:li rdf:resource="http://identifiers.org/biocyc/META:TRANS-RXN-121"/>
+                  <rdf:li rdf:resource="http://identifiers.org/metanetx.reaction/MNXR104620"/>
+                  <rdf:li rdf:resource="http://identifiers.org/rhea/29305"/>
+                  <rdf:li rdf:resource="http://identifiers.org/rhea/29306"/>
+                  <rdf:li rdf:resource="http://identifiers.org/rhea/29304"/>
+                  <rdf:li rdf:resource="http://identifiers.org/rhea/29303"/>
+                  <rdf:li rdf:resource="http://identifiers.org/seed.reaction/rxn10154"/>
+                  <rdf:li rdf:resource="http://identifiers.org/seed.reaction/rxn09269"/>
+                </rdf:Bag>
+              </bqbiol:is>
+            </rdf:Description>
+          </rdf:RDF>
+        </sbml:annotation>
+        <listOfReactants>
+          <speciesReference species="M_h_p" stoichiometry="2" constant="true"/>
+          <speciesReference species="M_succ_p" stoichiometry="1" constant="true"/>
+        </listOfReactants>
+        <listOfProducts>
+          <speciesReference species="M_h_c" stoichiometry="2" constant="true"/>
+          <speciesReference species="M_succ_c" stoichiometry="1" constant="true"/>
+        </listOfProducts>
+        <fbc:geneProductAssociation>
+          <fbc:or>
+            <fbc:geneProductRef fbc:geneProduct="G_b3528"/>
+            <fbc:geneProductRef fbc:geneProduct="G_b0010"/>
+          </fbc:or>
+        </fbc:geneProductAssociation>
+      </reaction>
+      <reaction id="R_SUCFUMtpp" fast="false" reversible="true" name="Succinate:fumarate antiporter (periplasm)" metaid="R_SUCFUMtpp" sboTerm="SBO:0000185" fbc:upperFluxBound="cobra_default_ub" fbc:lowerFluxBound="cobra_default_lb">
+        <sbml:annotation xmlns:sbml="http://www.sbml.org/sbml/level3/version1/core">
+          <rdf:RDF xmlns:rdf="http://www.w3.org/1999/02/22-rdf-syntax-ns#">
+            <rdf:Description rdf:about="#R_SUCFUMtpp">
+              <bqbiol:is xmlns:bqbiol="http://biomodels.net/biology-qualifiers/">
+                <rdf:Bag>
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+                  <rdf:li rdf:resource="http://identifiers.org/biocyc/META:TRANS-RXN-106"/>
+                  <rdf:li rdf:resource="http://identifiers.org/metanetx.reaction/MNXR104633"/>
+                  <rdf:li rdf:resource="http://identifiers.org/rhea/29326"/>
+                  <rdf:li rdf:resource="http://identifiers.org/rhea/29324"/>
+                  <rdf:li rdf:resource="http://identifiers.org/rhea/29323"/>
+                  <rdf:li rdf:resource="http://identifiers.org/rhea/29325"/>
+                  <rdf:li rdf:resource="http://identifiers.org/seed.reaction/rxn10159"/>
+                  <rdf:li rdf:resource="http://identifiers.org/seed.reaction/rxn09712"/>
+                  <rdf:li rdf:resource="http://identifiers.org/seed.reaction/rxn09273"/>
+                </rdf:Bag>
+              </bqbiol:is>
+            </rdf:Description>
+          </rdf:RDF>
+        </sbml:annotation>
+        <listOfReactants>
+          <speciesReference species="M_fum_p" stoichiometry="1" constant="true"/>
+          <speciesReference species="M_succ_c" stoichiometry="1" constant="true"/>
+        </listOfReactants>
+        <listOfProducts>
+          <speciesReference species="M_fum_c" stoichiometry="1" constant="true"/>
+          <speciesReference species="M_succ_p" stoichiometry="1" constant="true"/>
+        </listOfProducts>
+        <fbc:geneProductAssociation>
+          <fbc:or>
+            <fbc:geneProductRef fbc:geneProduct="G_b4123"/>
+            <fbc:geneProductRef fbc:geneProduct="G_b0621"/>
+            <fbc:geneProductRef fbc:geneProduct="G_b4138"/>
+          </fbc:or>
+        </fbc:geneProductAssociation>
+      </reaction>
+      <reaction id="R_HSDy" fast="false" reversible="true" name="Homoserine dehydrogenase (NADPH)" metaid="R_HSDy" sboTerm="SBO:0000176" fbc:upperFluxBound="cobra_default_ub" fbc:lowerFluxBound="cobra_default_lb">
+        <sbml:annotation xmlns:sbml="http://www.sbml.org/sbml/level3/version1/core">
+          <rdf:RDF xmlns:rdf="http://www.w3.org/1999/02/22-rdf-syntax-ns#">
+            <rdf:Description rdf:about="#R_HSDy">
+              <bqbiol:is xmlns:bqbiol="http://biomodels.net/biology-qualifiers/">
+                <rdf:Bag>
+                  <rdf:li rdf:resource="http://identifiers.org/bigg.reaction/HSDy"/>
+                  <rdf:li rdf:resource="http://identifiers.org/ec-code/1.1.1.3"/>
+                  <rdf:li rdf:resource="http://identifiers.org/kegg.reaction/R01775"/>
+                  <rdf:li rdf:resource="http://identifiers.org/metanetx.reaction/MNXR100734"/>
+                  <rdf:li rdf:resource="http://identifiers.org/rhea/15761"/>
+                  <rdf:li rdf:resource="http://identifiers.org/rhea/15764"/>
+                  <rdf:li rdf:resource="http://identifiers.org/rhea/15763"/>
+                  <rdf:li rdf:resource="http://identifiers.org/rhea/15762"/>
+                  <rdf:li rdf:resource="http://identifiers.org/sabiork/1868"/>
+                  <rdf:li rdf:resource="http://identifiers.org/seed.reaction/rxn01302"/>
+                </rdf:Bag>
+              </bqbiol:is>
+            </rdf:Description>
+          </rdf:RDF>
+        </sbml:annotation>
+        <listOfReactants>
+          <speciesReference species="M_hom__L_c" stoichiometry="1" constant="true"/>
+          <speciesReference species="M_nadp_c" stoichiometry="1" constant="true"/>
+        </listOfReactants>
+        <listOfProducts>
+          <speciesReference species="M_aspsa_c" stoichiometry="1" constant="true"/>
+          <speciesReference species="M_h_c" stoichiometry="1" constant="true"/>
+          <speciesReference species="M_nadph_c" stoichiometry="1" constant="true"/>
+        </listOfProducts>
+        <fbc:geneProductAssociation>
+          <fbc:or>
+            <fbc:geneProductRef fbc:geneProduct="G_b3940"/>
+            <fbc:geneProductRef fbc:geneProduct="G_b0002"/>
+          </fbc:or>
+        </fbc:geneProductAssociation>
+      </reaction>
+      <reaction id="R_CYSTL" fast="false" reversible="false" name="Cystathionine b-lyase" metaid="R_CYSTL" sboTerm="SBO:0000176" fbc:upperFluxBound="cobra_default_ub" fbc:lowerFluxBound="cobra_0_bound">
+        <sbml:annotation xmlns:sbml="http://www.sbml.org/sbml/level3/version1/core">
+          <rdf:RDF xmlns:rdf="http://www.w3.org/1999/02/22-rdf-syntax-ns#">
+            <rdf:Description rdf:about="#R_CYSTL">
+              <bqbiol:is xmlns:bqbiol="http://biomodels.net/biology-qualifiers/">
+                <rdf:Bag>
+                  <rdf:li rdf:resource="http://identifiers.org/bigg.reaction/CYSTL"/>
+                  <rdf:li rdf:resource="http://identifiers.org/ec-code/4.4.1.8"/>
+                  <rdf:li rdf:resource="http://identifiers.org/kegg.reaction/R01286"/>
+                  <rdf:li rdf:resource="http://identifiers.org/metanetx.reaction/MNXR96469"/>
+                  <rdf:li rdf:resource="http://identifiers.org/rhea/13967"/>
+                  <rdf:li rdf:resource="http://identifiers.org/rhea/13965"/>
+                  <rdf:li rdf:resource="http://identifiers.org/rhea/13968"/>
+                  <rdf:li rdf:resource="http://identifiers.org/rhea/13966"/>
+                  <rdf:li rdf:resource="http://identifiers.org/sabiork/1501"/>
+                </rdf:Bag>
+              </bqbiol:is>
+            </rdf:Description>
+          </rdf:RDF>
+        </sbml:annotation>
+        <listOfReactants>
+          <speciesReference species="M_cyst__L_c" stoichiometry="1" constant="true"/>
+          <speciesReference species="M_h2o_c" stoichiometry="1" constant="true"/>
+        </listOfReactants>
+        <listOfProducts>
+          <speciesReference species="M_hcys__L_c" stoichiometry="1" constant="true"/>
+          <speciesReference species="M_nh4_c" stoichiometry="1" constant="true"/>
+          <speciesReference species="M_pyr_c" stoichiometry="1" constant="true"/>
+        </listOfProducts>
+        <fbc:geneProductAssociation>
+          <fbc:or>
+            <fbc:geneProductRef fbc:geneProduct="G_b3008"/>
+            <fbc:geneProductRef fbc:geneProduct="G_b1622"/>
+          </fbc:or>
+        </fbc:geneProductAssociation>
+      </reaction>
+      <reaction id="R_ACMAMUT" fast="false" reversible="false" name="UDP-N-acetyl-D-mannosaminuronic acid transferase" metaid="R_ACMAMUT" sboTerm="SBO:0000176" fbc:upperFluxBound="cobra_default_ub" fbc:lowerFluxBound="cobra_0_bound">
+        <sbml:annotation xmlns:sbml="http://www.sbml.org/sbml/level3/version1/core">
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+            <rdf:Description rdf:about="#R_ACMAMUT">
+              <bqbiol:is xmlns:bqbiol="http://biomodels.net/biology-qualifiers/">
+                <rdf:Bag>
+                  <rdf:li rdf:resource="http://identifiers.org/bigg.reaction/ACMAMUT"/>
+                  <rdf:li rdf:resource="http://identifiers.org/biocyc/META:UDPMANACATRANS-RXN"/>
+                  <rdf:li rdf:resource="http://identifiers.org/ec-code/2.4.1.180"/>
+                  <rdf:li rdf:resource="http://identifiers.org/kegg.reaction/R04477"/>
+                  <rdf:li rdf:resource="http://identifiers.org/metanetx.reaction/MNXR95274"/>
+                  <rdf:li rdf:resource="http://identifiers.org/rhea/28367"/>
+                  <rdf:li rdf:resource="http://identifiers.org/rhea/28369"/>
+                  <rdf:li rdf:resource="http://identifiers.org/rhea/28368"/>
+                  <rdf:li rdf:resource="http://identifiers.org/rhea/28366"/>
+                  <rdf:li rdf:resource="http://identifiers.org/seed.reaction/rxn08045"/>
+                </rdf:Bag>
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+            </rdf:Description>
+          </rdf:RDF>
+        </sbml:annotation>
+        <listOfReactants>
+          <speciesReference species="M_uacmamu_c" stoichiometry="1" constant="true"/>
+          <speciesReference species="M_unaga_c" stoichiometry="1" constant="true"/>
+        </listOfReactants>
+        <listOfProducts>
+          <speciesReference species="M_h_c" stoichiometry="1" constant="true"/>
+          <speciesReference species="M_udp_c" stoichiometry="1" constant="true"/>
+          <speciesReference species="M_unagamu_c" stoichiometry="1" constant="true"/>
+        </listOfProducts>
+        <fbc:geneProductAssociation>
+          <fbc:geneProductRef fbc:geneProduct="G_b3794"/>
+        </fbc:geneProductAssociation>
+      </reaction>
+      <reaction id="R_SHSL1" fast="false" reversible="false" name="O-succinylhomoserine lyase (L-cysteine)" metaid="R_SHSL1" sboTerm="SBO:0000176" fbc:upperFluxBound="cobra_default_ub" fbc:lowerFluxBound="cobra_0_bound">
+        <sbml:annotation xmlns:sbml="http://www.sbml.org/sbml/level3/version1/core">
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+              <bqbiol:is xmlns:bqbiol="http://biomodels.net/biology-qualifiers/">
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+                  <rdf:li rdf:resource="http://identifiers.org/biocyc/META:O-SUCCHOMOSERLYASE-RXN"/>
+                  <rdf:li rdf:resource="http://identifiers.org/ec-code/2.5.1.48"/>
+                  <rdf:li rdf:resource="http://identifiers.org/kegg.reaction/R03260"/>
+                  <rdf:li rdf:resource="http://identifiers.org/metanetx.reaction/MNXR104380"/>
+                  <rdf:li rdf:resource="http://identifiers.org/rhea/20398"/>
+                  <rdf:li rdf:resource="http://identifiers.org/rhea/20399"/>
+                  <rdf:li rdf:resource="http://identifiers.org/rhea/20400"/>
+                  <rdf:li rdf:resource="http://identifiers.org/rhea/20397"/>
+                  <rdf:li rdf:resource="http://identifiers.org/sabiork/3081"/>
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+            </rdf:Description>
+          </rdf:RDF>
+        </sbml:annotation>
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+          <speciesReference species="M_cys__L_c" stoichiometry="1" constant="true"/>
+          <speciesReference species="M_suchms_c" stoichiometry="1" constant="true"/>
+        </listOfReactants>
+        <listOfProducts>
+          <speciesReference species="M_cyst__L_c" stoichiometry="1" constant="true"/>
+          <speciesReference species="M_h_c" stoichiometry="1" constant="true"/>
+          <speciesReference species="M_succ_c" stoichiometry="1" constant="true"/>
+        </listOfProducts>
+        <fbc:geneProductAssociation>
+          <fbc:geneProductRef fbc:geneProduct="G_b3939"/>
+        </fbc:geneProductAssociation>
+      </reaction>
+      <reaction id="R_SSALy" fast="false" reversible="false" name="Succinate-semialdehyde dehydrogenase (NADP)" metaid="R_SSALy" sboTerm="SBO:0000176" fbc:upperFluxBound="cobra_default_ub" fbc:lowerFluxBound="cobra_0_bound">
+        <sbml:annotation xmlns:sbml="http://www.sbml.org/sbml/level3/version1/core">
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+                  <rdf:li rdf:resource="http://identifiers.org/biocyc/META:SUCCSEMIALDDEHYDROG-RXN"/>
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+                  <rdf:li rdf:resource="http://identifiers.org/kegg.reaction/R00714"/>
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+                  <rdf:li rdf:resource="http://identifiers.org/rhea/13215"/>
+                  <rdf:li rdf:resource="http://identifiers.org/rhea/13214"/>
+                  <rdf:li rdf:resource="http://identifiers.org/rhea/13213"/>
+                  <rdf:li rdf:resource="http://identifiers.org/sabiork/1086"/>
+                  <rdf:li rdf:resource="http://identifiers.org/seed.reaction/rxn00509"/>
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+            </rdf:Description>
+          </rdf:RDF>
+        </sbml:annotation>
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+          <speciesReference species="M_h2o_c" stoichiometry="1" constant="true"/>
+          <speciesReference species="M_nadp_c" stoichiometry="1" constant="true"/>
+          <speciesReference species="M_sucsal_c" stoichiometry="1" constant="true"/>
+        </listOfReactants>
+        <listOfProducts>
+          <speciesReference species="M_h_c" stoichiometry="2" constant="true"/>
+          <speciesReference species="M_nadph_c" stoichiometry="1" constant="true"/>
+          <speciesReference species="M_succ_c" stoichiometry="1" constant="true"/>
+        </listOfProducts>
+        <fbc:geneProductAssociation>
+          <fbc:or>
+            <fbc:geneProductRef fbc:geneProduct="G_b1525"/>
+            <fbc:geneProductRef fbc:geneProduct="G_b2661"/>
+          </fbc:or>
+        </fbc:geneProductAssociation>
+      </reaction>
+      <reaction id="R_SUCptspp" fast="false" reversible="false" name="Sucrose transport via PEP:Pyr  (periplasm)" metaid="R_SUCptspp" sboTerm="SBO:0000185" fbc:upperFluxBound="cobra_default_ub" fbc:lowerFluxBound="cobra_0_bound">
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+              <bqbiol:is xmlns:bqbiol="http://biomodels.net/biology-qualifiers/">
+                <rdf:Bag>
+                  <rdf:li rdf:resource="http://identifiers.org/bigg.reaction/SUCptspp"/>
+                  <rdf:li rdf:resource="http://identifiers.org/metanetx.reaction/MNXR104643"/>
+                  <rdf:li rdf:resource="http://identifiers.org/seed.reaction/rxn05655"/>
+                  <rdf:li rdf:resource="http://identifiers.org/seed.reaction/rxn09274"/>
+                </rdf:Bag>
+              </bqbiol:is>
+            </rdf:Description>
+          </rdf:RDF>
+        </sbml:annotation>
+        <listOfReactants>
+          <speciesReference species="M_pep_c" stoichiometry="1" constant="true"/>
+          <speciesReference species="M_sucr_p" stoichiometry="1" constant="true"/>
+        </listOfReactants>
+        <listOfProducts>
+          <speciesReference species="M_pyr_c" stoichiometry="1" constant="true"/>
+          <speciesReference species="M_suc6p_c" stoichiometry="1" constant="true"/>
+        </listOfProducts>
+        <fbc:geneProductAssociation>
+          <fbc:and>
+            <fbc:geneProductRef fbc:geneProduct="G_b2417"/>
+            <fbc:geneProductRef fbc:geneProduct="G_b2415"/>
+            <fbc:geneProductRef fbc:geneProduct="G_b2416"/>
+            <fbc:geneProductRef fbc:geneProduct="G_b2429"/>
+          </fbc:and>
+        </fbc:geneProductAssociation>
+      </reaction>
+      <reaction id="R_SULabcpp" fast="false" reversible="false" name="Sulfate transport via ABC system (periplasm)" metaid="R_SULabcpp" sboTerm="SBO:0000185" fbc:upperFluxBound="cobra_default_ub" fbc:lowerFluxBound="cobra_0_bound">
+        <sbml:annotation xmlns:sbml="http://www.sbml.org/sbml/level3/version1/core">
+          <rdf:RDF xmlns:rdf="http://www.w3.org/1999/02/22-rdf-syntax-ns#">
+            <rdf:Description rdf:about="#R_SULabcpp">
+              <bqbiol:is xmlns:bqbiol="http://biomodels.net/biology-qualifiers/">
+                <rdf:Bag>
+                  <rdf:li rdf:resource="http://identifiers.org/bigg.reaction/SULabcpp"/>
+                  <rdf:li rdf:resource="http://identifiers.org/biocyc/META:3.6.3.25-RXN"/>
+                  <rdf:li rdf:resource="http://identifiers.org/biocyc/META:ABC-70-RXN"/>
+                  <rdf:li rdf:resource="http://identifiers.org/ec-code/3.6.3.25"/>
+                  <rdf:li rdf:resource="http://identifiers.org/metanetx.reaction/MNXR104655"/>
+                  <rdf:li rdf:resource="http://identifiers.org/rhea/10192#1"/>
+                  <rdf:li rdf:resource="http://identifiers.org/rhea/10193#1"/>
+                  <rdf:li rdf:resource="http://identifiers.org/rhea/10194#1"/>
+                  <rdf:li rdf:resource="http://identifiers.org/rhea/10195#1"/>
+                  <rdf:li rdf:resource="http://identifiers.org/seed.reaction/rxn09276"/>
+                  <rdf:li rdf:resource="http://identifiers.org/seed.reaction/rxn05153"/>
+                </rdf:Bag>
+              </bqbiol:is>
+            </rdf:Description>
+          </rdf:RDF>
+        </sbml:annotation>
+        <listOfReactants>
+          <speciesReference species="M_atp_c" stoichiometry="1" constant="true"/>
+          <speciesReference species="M_h2o_c" stoichiometry="1" constant="true"/>
+          <speciesReference species="M_so4_p" stoichiometry="1" constant="true"/>
+        </listOfReactants>
+        <listOfProducts>
+          <speciesReference species="M_adp_c" stoichiometry="1" constant="true"/>
+          <speciesReference species="M_h_c" stoichiometry="1" constant="true"/>
+          <speciesReference species="M_pi_c" stoichiometry="1" constant="true"/>
+          <speciesReference species="M_so4_c" stoichiometry="1" constant="true"/>
+        </listOfProducts>
+        <fbc:geneProductAssociation>
+          <fbc:or>
+            <fbc:and>
+              <fbc:geneProductRef fbc:geneProduct="G_b2423"/>
+              <fbc:geneProductRef fbc:geneProduct="G_b2424"/>
+              <fbc:geneProductRef fbc:geneProduct="G_b2422"/>
+              <fbc:geneProductRef fbc:geneProduct="G_b2425"/>
+            </fbc:and>
+            <fbc:and>
+              <fbc:geneProductRef fbc:geneProduct="G_b0764"/>
+              <fbc:geneProductRef fbc:geneProduct="G_b0765"/>
+              <fbc:geneProductRef fbc:geneProduct="G_b0763"/>
+            </fbc:and>
+            <fbc:and>
+              <fbc:geneProductRef fbc:geneProduct="G_b2422"/>
+              <fbc:geneProductRef fbc:geneProduct="G_b2423"/>
+              <fbc:geneProductRef fbc:geneProduct="G_b2424"/>
+              <fbc:geneProductRef fbc:geneProduct="G_b3917"/>
+            </fbc:and>
+          </fbc:or>
+        </fbc:geneProductAssociation>
+      </reaction>
+      <reaction id="R_TSULabcpp" fast="false" reversible="false" name="Thiosulfate transport via ABC system (periplasm)" metaid="R_TSULabcpp" sboTerm="SBO:0000185" fbc:upperFluxBound="cobra_default_ub" fbc:lowerFluxBound="cobra_0_bound">
+        <sbml:annotation xmlns:sbml="http://www.sbml.org/sbml/level3/version1/core">
+          <rdf:RDF xmlns:rdf="http://www.w3.org/1999/02/22-rdf-syntax-ns#">
+            <rdf:Description rdf:about="#R_TSULabcpp">
+              <bqbiol:is xmlns:bqbiol="http://biomodels.net/biology-qualifiers/">
+                <rdf:Bag>
+                  <rdf:li rdf:resource="http://identifiers.org/bigg.reaction/TSULabcpp"/>
+                  <rdf:li rdf:resource="http://identifiers.org/biocyc/META:ABC-7-RXN"/>
+                  <rdf:li rdf:resource="http://identifiers.org/ec-code/3.6.3.25"/>
+                  <rdf:li rdf:resource="http://identifiers.org/metanetx.reaction/MNXR104964"/>
+                  <rdf:li rdf:resource="http://identifiers.org/rhea/29872#1"/>
+                  <rdf:li rdf:resource="http://identifiers.org/rhea/29873#1"/>
+                  <rdf:li rdf:resource="http://identifiers.org/rhea/29874#1"/>
+                  <rdf:li rdf:resource="http://identifiers.org/rhea/29871#1"/>
+                  <rdf:li rdf:resource="http://identifiers.org/seed.reaction/rxn05176"/>
+                  <rdf:li rdf:resource="http://identifiers.org/seed.reaction/rxn09329"/>
+                </rdf:Bag>
+              </bqbiol:is>
+            </rdf:Description>
+          </rdf:RDF>
+        </sbml:annotation>
+        <listOfReactants>
+          <speciesReference species="M_atp_c" stoichiometry="1" constant="true"/>
+          <speciesReference species="M_h2o_c" stoichiometry="1" constant="true"/>
+          <speciesReference species="M_tsul_p" stoichiometry="1" constant="true"/>
+        </listOfReactants>
+        <listOfProducts>
+          <speciesReference species="M_adp_c" stoichiometry="1" constant="true"/>
+          <speciesReference species="M_h_c" stoichiometry="1" constant="true"/>
+          <speciesReference species="M_pi_c" stoichiometry="1" constant="true"/>
+          <speciesReference species="M_tsul_c" stoichiometry="1" constant="true"/>
+        </listOfProducts>
+        <fbc:geneProductAssociation>
+          <fbc:or>
+            <fbc:and>
+              <fbc:geneProductRef fbc:geneProduct="G_b2423"/>
+              <fbc:geneProductRef fbc:geneProduct="G_b2422"/>
+              <fbc:geneProductRef fbc:geneProduct="G_b2424"/>
+              <fbc:geneProductRef fbc:geneProduct="G_b3917"/>
+            </fbc:and>
+            <fbc:and>
+              <fbc:geneProductRef fbc:geneProduct="G_b2422"/>
+              <fbc:geneProductRef fbc:geneProduct="G_b2425"/>
+              <fbc:geneProductRef fbc:geneProduct="G_b2424"/>
+              <fbc:geneProductRef fbc:geneProduct="G_b2423"/>
+            </fbc:and>
+          </fbc:or>
+        </fbc:geneProductAssociation>
+      </reaction>
+      <reaction id="R_TARTRt7pp" fast="false" reversible="true" name="Tartrate/succinate antiporter (periplasm)" metaid="R_TARTRt7pp" sboTerm="SBO:0000185" fbc:upperFluxBound="cobra_default_ub" fbc:lowerFluxBound="cobra_default_lb">
+        <sbml:annotation xmlns:sbml="http://www.sbml.org/sbml/level3/version1/core">
+          <rdf:RDF xmlns:rdf="http://www.w3.org/1999/02/22-rdf-syntax-ns#">
+            <rdf:Description rdf:about="#R_TARTRt7pp">
+              <bqbiol:is xmlns:bqbiol="http://biomodels.net/biology-qualifiers/">
+                <rdf:Bag>
+                  <rdf:li rdf:resource="http://identifiers.org/bigg.reaction/TARTRt7pp"/>
+                  <rdf:li rdf:resource="http://identifiers.org/biocyc/META:TRANS-RXN-127"/>
+                  <rdf:li rdf:resource="http://identifiers.org/metanetx.reaction/MNXR104723"/>
+                  <rdf:li rdf:resource="http://identifiers.org/rhea/29259"/>
+                  <rdf:li rdf:resource="http://identifiers.org/rhea/29260"/>
+                  <rdf:li rdf:resource="http://identifiers.org/rhea/29262"/>
+                  <rdf:li rdf:resource="http://identifiers.org/rhea/29261"/>
+                  <rdf:li rdf:resource="http://identifiers.org/seed.reaction/rxn10137"/>
+                  <rdf:li rdf:resource="http://identifiers.org/seed.reaction/rxn09283"/>
+                </rdf:Bag>
+              </bqbiol:is>
+            </rdf:Description>
+          </rdf:RDF>
+        </sbml:annotation>
+        <listOfReactants>
+          <speciesReference species="M_succ_c" stoichiometry="1" constant="true"/>
+          <speciesReference species="M_tartr__L_p" stoichiometry="1" constant="true"/>
+        </listOfReactants>
+        <listOfProducts>
+          <speciesReference species="M_succ_p" stoichiometry="1" constant="true"/>
+          <speciesReference species="M_tartr__L_c" stoichiometry="1" constant="true"/>
+        </listOfProducts>
+        <fbc:geneProductAssociation>
+          <fbc:geneProductRef fbc:geneProduct="G_b3063"/>
+        </fbc:geneProductAssociation>
+      </reaction>
+      <reaction id="R_EX_dad_2_e" fast="false" reversible="false" name="Deoxyadenosine exchange" metaid="R_EX_dad_2_e" sboTerm="SBO:0000627" fbc:upperFluxBound="cobra_default_ub" fbc:lowerFluxBound="cobra_0_bound">
+        <sbml:annotation xmlns:sbml="http://www.sbml.org/sbml/level3/version1/core">
+          <rdf:RDF xmlns:rdf="http://www.w3.org/1999/02/22-rdf-syntax-ns#">
+            <rdf:Description rdf:about="#R_EX_dad_2_e">
+              <bqbiol:is xmlns:bqbiol="http://biomodels.net/biology-qualifiers/">
+                <rdf:Bag>
+                  <rdf:li rdf:resource="http://identifiers.org/bigg.reaction/EX_dad_2_e"/>
+                  <rdf:li rdf:resource="http://identifiers.org/metanetx.reaction/MNXR97081"/>
+                  <rdf:li rdf:resource="http://identifiers.org/seed.reaction/rxn08293"/>
+                  <rdf:li rdf:resource="http://identifiers.org/seed.reaction/rxn10939"/>
+                </rdf:Bag>
+              </bqbiol:is>
+            </rdf:Description>
+          </rdf:RDF>
+        </sbml:annotation>
+        <listOfReactants>
+          <speciesReference species="M_dad_2_e" stoichiometry="1" constant="true"/>
+        </listOfReactants>
+      </reaction>
+      <reaction id="R_EX_ser__D_e" fast="false" reversible="false" name="D-Serine exchange" metaid="R_EX_ser__D_e" sboTerm="SBO:0000627" fbc:upperFluxBound="cobra_default_ub" fbc:lowerFluxBound="cobra_0_bound">
+        <sbml:annotation xmlns:sbml="http://www.sbml.org/sbml/level3/version1/core">
+          <rdf:RDF xmlns:rdf="http://www.w3.org/1999/02/22-rdf-syntax-ns#">
+            <rdf:Description rdf:about="#R_EX_ser__D_e">
+              <bqbiol:is xmlns:bqbiol="http://biomodels.net/biology-qualifiers/">
+                <rdf:Bag>
+                  <rdf:li rdf:resource="http://identifiers.org/bigg.reaction/EX_ser__D_e"/>
+                  <rdf:li rdf:resource="http://identifiers.org/biocyc/META:TRANS-RXN0-495"/>
+                  <rdf:li rdf:resource="http://identifiers.org/metanetx.reaction/MNXR97799"/>
+                  <rdf:li rdf:resource="http://identifiers.org/rhea/29457"/>
+                  <rdf:li rdf:resource="http://identifiers.org/rhea/29456"/>
+                  <rdf:li rdf:resource="http://identifiers.org/rhea/29455"/>
+                  <rdf:li rdf:resource="http://identifiers.org/rhea/29458"/>
+                  <rdf:li rdf:resource="http://identifiers.org/seed.reaction/rxn08373"/>
+                  <rdf:li rdf:resource="http://identifiers.org/seed.reaction/rxn10965"/>
+                </rdf:Bag>
+              </bqbiol:is>
+            </rdf:Description>
+          </rdf:RDF>
+        </sbml:annotation>
+        <listOfReactants>
+          <speciesReference species="M_ser__D_e" stoichiometry="1" constant="true"/>
+        </listOfReactants>
+      </reaction>
+      <reaction id="R_DDGALK" fast="false" reversible="false" name="2-dehydro-3-deoxygalactonokinase" metaid="R_DDGALK" sboTerm="SBO:0000176" fbc:upperFluxBound="cobra_default_ub" fbc:lowerFluxBound="cobra_0_bound">
+        <sbml:annotation xmlns:sbml="http://www.sbml.org/sbml/level3/version1/core">
+          <rdf:RDF xmlns:rdf="http://www.w3.org/1999/02/22-rdf-syntax-ns#">
+            <rdf:Description rdf:about="#R_DDGALK">
+              <bqbiol:is xmlns:bqbiol="http://biomodels.net/biology-qualifiers/">
+                <rdf:Bag>
+                  <rdf:li rdf:resource="http://identifiers.org/bigg.reaction/DDGALK"/>
+                  <rdf:li rdf:resource="http://identifiers.org/biocyc/META:DEHYDDEOXGALACTKIN-RXN"/>
+                  <rdf:li rdf:resource="http://identifiers.org/ec-code/2.7.1.58"/>
+                  <rdf:li rdf:resource="http://identifiers.org/ec-code/2.7.1.178"/>
+                  <rdf:li rdf:resource="http://identifiers.org/kegg.reaction/R03387"/>
+                  <rdf:li rdf:resource="http://identifiers.org/metanetx.reaction/MNXR97213"/>
+                  <rdf:li rdf:resource="http://identifiers.org/rhea/16527"/>
+                  <rdf:li rdf:resource="http://identifiers.org/rhea/16525"/>
+                  <rdf:li rdf:resource="http://identifiers.org/rhea/16526"/>
+                  <rdf:li rdf:resource="http://identifiers.org/rhea/16528"/>
+                  <rdf:li rdf:resource="http://identifiers.org/seed.reaction/rxn02429"/>
+                </rdf:Bag>
+              </bqbiol:is>
+            </rdf:Description>
+          </rdf:RDF>
+        </sbml:annotation>
+        <listOfReactants>
+          <speciesReference species="M_2dh3dgal_c" stoichiometry="1" constant="true"/>
+          <speciesReference species="M_atp_c" stoichiometry="1" constant="true"/>
+        </listOfReactants>
+        <listOfProducts>
+          <speciesReference species="M_2dh3dgal6p_c" stoichiometry="1" constant="true"/>
+          <speciesReference species="M_adp_c" stoichiometry="1" constant="true"/>
+          <speciesReference species="M_h_c" stoichiometry="1" constant="true"/>
+        </listOfProducts>
+        <fbc:geneProductAssociation>
+          <fbc:geneProductRef fbc:geneProduct="G_b3693"/>
+        </fbc:geneProductAssociation>
+      </reaction>
+      <reaction id="R_EX_gam6p_e" fast="false" reversible="false" name="D-Glucosamine 6-phosphate exchange" metaid="R_EX_gam6p_e" sboTerm="SBO:0000627" fbc:upperFluxBound="cobra_default_ub" fbc:lowerFluxBound="cobra_0_bound">
+        <sbml:annotation xmlns:sbml="http://www.sbml.org/sbml/level3/version1/core">
+          <rdf:RDF xmlns:rdf="http://www.w3.org/1999/02/22-rdf-syntax-ns#">
+            <rdf:Description rdf:about="#R_EX_gam6p_e">
+              <bqbiol:is xmlns:bqbiol="http://biomodels.net/biology-qualifiers/">
+                <rdf:Bag>
+                  <rdf:li rdf:resource="http://identifiers.org/bigg.reaction/EX_gam6p_e"/>
+                  <rdf:li rdf:resource="http://identifiers.org/metanetx.reaction/MNXR100031"/>
+                  <rdf:li rdf:resource="http://identifiers.org/seed.reaction/rxn13642"/>
+                  <rdf:li rdf:resource="http://identifiers.org/seed.reaction/rxn08591"/>
+                  <rdf:li rdf:resource="http://identifiers.org/seed.reaction/rxn05568"/>
+                </rdf:Bag>
+              </bqbiol:is>
+            </rdf:Description>
+          </rdf:RDF>
+        </sbml:annotation>
+        <listOfReactants>
+          <speciesReference species="M_gam6p_e" stoichiometry="1" constant="true"/>
+        </listOfReactants>
+      </reaction>
+      <reaction id="R_EX_15dap_e" fast="false" reversible="false" name="1,5-Diaminopentane exchange" metaid="R_EX_15dap_e" sboTerm="SBO:0000627" fbc:upperFluxBound="cobra_default_ub" fbc:lowerFluxBound="cobra_0_bound">
+        <sbml:annotation xmlns:sbml="http://www.sbml.org/sbml/level3/version1/core">
+          <rdf:RDF xmlns:rdf="http://www.w3.org/1999/02/22-rdf-syntax-ns#">
+            <rdf:Description rdf:about="#R_EX_15dap_e">
+              <bqbiol:is xmlns:bqbiol="http://biomodels.net/biology-qualifiers/">
+                <rdf:Bag>
+                  <rdf:li rdf:resource="http://identifiers.org/bigg.reaction/EX_15dap_e"/>
+                  <rdf:li rdf:resource="http://identifiers.org/metanetx.reaction/MNXR97147"/>
+                  <rdf:li rdf:resource="http://identifiers.org/seed.reaction/rxn08305"/>
+                </rdf:Bag>
+              </bqbiol:is>
+            </rdf:Description>
+          </rdf:RDF>
+        </sbml:annotation>
+        <listOfReactants>
+          <speciesReference species="M_15dap_e" stoichiometry="1" constant="true"/>
+        </listOfReactants>
+      </reaction>
+      <reaction id="R_AB6PGH" fast="false" reversible="false" name="Arbutin 6-phosphate glucohydrolase" metaid="R_AB6PGH" sboTerm="SBO:0000176" fbc:upperFluxBound="cobra_default_ub" fbc:lowerFluxBound="cobra_0_bound">
+        <sbml:annotation xmlns:sbml="http://www.sbml.org/sbml/level3/version1/core">
+          <rdf:RDF xmlns:rdf="http://www.w3.org/1999/02/22-rdf-syntax-ns#">
+            <rdf:Description rdf:about="#R_AB6PGH">
+              <bqbiol:is xmlns:bqbiol="http://biomodels.net/biology-qualifiers/">
+                <rdf:Bag>
+                  <rdf:li rdf:resource="http://identifiers.org/bigg.reaction/AB6PGH"/>
+                  <rdf:li rdf:resource="http://identifiers.org/ec-code/3.2.1.86"/>
+                  <rdf:li rdf:resource="http://identifiers.org/metanetx.reaction/MNXR95165"/>
+                  <rdf:li rdf:resource="http://identifiers.org/seed.reaction/rxn08025"/>
+                </rdf:Bag>
+              </bqbiol:is>
+            </rdf:Description>
+          </rdf:RDF>
+        </sbml:annotation>
+        <listOfReactants>
+          <speciesReference species="M_arbt6p_c" stoichiometry="1" constant="true"/>
+          <speciesReference species="M_h2o_c" stoichiometry="1" constant="true"/>
+        </listOfReactants>
+        <listOfProducts>
+          <speciesReference species="M_g6p_c" stoichiometry="1" constant="true"/>
+          <speciesReference species="M_hqn_c" stoichiometry="1" constant="true"/>
+        </listOfProducts>
+        <fbc:geneProductAssociation>
+          <fbc:or>
+            <fbc:geneProductRef fbc:geneProduct="G_b2901"/>
+            <fbc:geneProductRef fbc:geneProduct="G_b3721"/>
+            <fbc:geneProductRef fbc:geneProduct="G_b2716"/>
+          </fbc:or>
+        </fbc:geneProductAssociation>
+      </reaction>
+      <reaction id="R_EX_ocdcea_e" fast="false" reversible="false" name="Octadecenoate (n-C18:1) exchange" metaid="R_EX_ocdcea_e" sboTerm="SBO:0000627" fbc:upperFluxBound="cobra_default_ub" fbc:lowerFluxBound="cobra_0_bound">
+        <sbml:annotation xmlns:sbml="http://www.sbml.org/sbml/level3/version1/core">
+          <rdf:RDF xmlns:rdf="http://www.w3.org/1999/02/22-rdf-syntax-ns#">
+            <rdf:Description rdf:about="#R_EX_ocdcea_e">
+              <bqbiol:is xmlns:bqbiol="http://biomodels.net/biology-qualifiers/">
+                <rdf:Bag>
+                  <rdf:li rdf:resource="http://identifiers.org/bigg.reaction/EX_ocdcea_e"/>
+                  <rdf:li rdf:resource="http://identifiers.org/metanetx.reaction/MNXR99110"/>
+                  <rdf:li rdf:resource="http://identifiers.org/rhea/33658"/>
+                  <rdf:li rdf:resource="http://identifiers.org/rhea/33655"/>
+                  <rdf:li rdf:resource="http://identifiers.org/rhea/33656"/>
+                  <rdf:li rdf:resource="http://identifiers.org/rhea/33657"/>
+                  <rdf:li rdf:resource="http://identifiers.org/sabiork/10346"/>
+                </rdf:Bag>
+              </bqbiol:is>
+            </rdf:Description>
+          </rdf:RDF>
+        </sbml:annotation>
+        <listOfReactants>
+          <speciesReference species="M_ocdcea_e" stoichiometry="1" constant="true"/>
+        </listOfReactants>
+      </reaction>
+      <reaction id="R_EX_cynt_e" fast="false" reversible="false" name="Cyanate exchange" metaid="R_EX_cynt_e" sboTerm="SBO:0000627" fbc:upperFluxBound="cobra_default_ub" fbc:lowerFluxBound="cobra_0_bound">
+        <sbml:annotation xmlns:sbml="http://www.sbml.org/sbml/level3/version1/core">
+          <rdf:RDF xmlns:rdf="http://www.w3.org/1999/02/22-rdf-syntax-ns#">
+            <rdf:Description rdf:about="#R_EX_cynt_e">
+              <bqbiol:is xmlns:bqbiol="http://biomodels.net/biology-qualifiers/">
+                <rdf:Bag>
+                  <rdf:li rdf:resource="http://identifiers.org/bigg.reaction/EX_cynt_e"/>
+                  <rdf:li rdf:resource="http://identifiers.org/biocyc/META:TRANS-RXN-14"/>
+                  <rdf:li rdf:resource="http://identifiers.org/metanetx.reaction/MNXR96963"/>
+                  <rdf:li rdf:resource="http://identifiers.org/seed.reaction/rxn08279"/>
+                </rdf:Bag>
+              </bqbiol:is>
+            </rdf:Description>
+          </rdf:RDF>
+        </sbml:annotation>
+        <listOfReactants>
+          <speciesReference species="M_cynt_e" stoichiometry="1" constant="true"/>
+        </listOfReactants>
+      </reaction>
+      <reaction id="R_EX_galctn__D_e" fast="false" reversible="false" name="D-Galactonate exchange" metaid="R_EX_galctn__D_e" sboTerm="SBO:0000627" fbc:upperFluxBound="cobra_default_ub" fbc:lowerFluxBound="cobra_0_bound">
+        <sbml:annotation xmlns:sbml="http://www.sbml.org/sbml/level3/version1/core">
+          <rdf:RDF xmlns:rdf="http://www.w3.org/1999/02/22-rdf-syntax-ns#">
+            <rdf:Description rdf:about="#R_EX_galctn__D_e">
+              <bqbiol:is xmlns:bqbiol="http://biomodels.net/biology-qualifiers/">
+                <rdf:Bag>
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+                  <rdf:li rdf:resource="http://identifiers.org/seed.reaction/rxn08126"/>
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+          <speciesReference species="M_malttr_c" stoichiometry="1" constant="true"/>
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+        <listOfProducts>
+          <speciesReference species="M_glc__D_c" stoichiometry="1" constant="true"/>
+          <speciesReference species="M_maltttr_c" stoichiometry="1" constant="true"/>
+        </listOfProducts>
+        <fbc:geneProductAssociation>
+          <fbc:geneProductRef fbc:geneProduct="G_b3416"/>
+        </fbc:geneProductAssociation>
+      </reaction>
+      <reaction id="R_EX_glyb_e" fast="false" reversible="false" name="Glycine betaine exchange" metaid="R_EX_glyb_e" sboTerm="SBO:0000627" fbc:upperFluxBound="cobra_default_ub" fbc:lowerFluxBound="cobra_0_bound">
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+                  <rdf:li rdf:resource="http://identifiers.org/seed.reaction/rxn12430"/>
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+                  <rdf:li rdf:resource="http://identifiers.org/ec-code/1.1.1.399"/>
+                  <rdf:li rdf:resource="http://identifiers.org/metanetx.reaction/MNXR95630"/>
+                  <rdf:li rdf:resource="http://identifiers.org/sabiork/9820"/>
+                  <rdf:li rdf:resource="http://identifiers.org/seed.reaction/rxn10432"/>
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+        </sbml:annotation>
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+          <speciesReference species="M_S2hglut_c" stoichiometry="1" constant="true"/>
+          <speciesReference species="M_nad_c" stoichiometry="1" constant="true"/>
+        </listOfReactants>
+        <listOfProducts>
+          <speciesReference species="M_akg_c" stoichiometry="1" constant="true"/>
+          <speciesReference species="M_h_c" stoichiometry="1" constant="true"/>
+          <speciesReference species="M_nadh_c" stoichiometry="1" constant="true"/>
+        </listOfProducts>
+        <fbc:geneProductAssociation>
+          <fbc:geneProductRef fbc:geneProduct="G_b2913"/>
+        </fbc:geneProductAssociation>
+      </reaction>
+      <reaction id="R_MLTP2" fast="false" reversible="true" name="Maltodextrin phosphorylase (maltohexaose)" metaid="R_MLTP2" sboTerm="SBO:0000176" fbc:upperFluxBound="cobra_default_ub" fbc:lowerFluxBound="cobra_default_lb">
+        <sbml:annotation xmlns:sbml="http://www.sbml.org/sbml/level3/version1/core">
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+                  <rdf:li rdf:resource="http://identifiers.org/rhea/29683"/>
+                  <rdf:li rdf:resource="http://identifiers.org/rhea/29684"/>
+                  <rdf:li rdf:resource="http://identifiers.org/rhea/29686"/>
+                  <rdf:li rdf:resource="http://identifiers.org/rhea/29685"/>
+                  <rdf:li rdf:resource="http://identifiers.org/sabiork/10080"/>
+                  <rdf:li rdf:resource="http://identifiers.org/seed.reaction/rxn08942"/>
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+        </sbml:annotation>
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+          <speciesReference species="M_malthx_c" stoichiometry="1" constant="true"/>
+          <speciesReference species="M_pi_c" stoichiometry="1" constant="true"/>
+        </listOfReactants>
+        <listOfProducts>
+          <speciesReference species="M_g1p_c" stoichiometry="1" constant="true"/>
+          <speciesReference species="M_maltpt_c" stoichiometry="1" constant="true"/>
+        </listOfProducts>
+        <fbc:geneProductAssociation>
+          <fbc:geneProductRef fbc:geneProduct="G_b3417"/>
+        </fbc:geneProductAssociation>
+      </reaction>
+      <reaction id="R_TAURabcpp" fast="false" reversible="false" name="Taurine transport via ABC system (periplasm)" metaid="R_TAURabcpp" sboTerm="SBO:0000185" fbc:upperFluxBound="cobra_default_ub" fbc:lowerFluxBound="cobra_0_bound">
+        <sbml:annotation xmlns:sbml="http://www.sbml.org/sbml/level3/version1/core">
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+                  <rdf:li rdf:resource="http://identifiers.org/rhea/14614#1"/>
+                  <rdf:li rdf:resource="http://identifiers.org/rhea/14615#1"/>
+                  <rdf:li rdf:resource="http://identifiers.org/rhea/14613#1"/>
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+                  <rdf:li rdf:resource="http://identifiers.org/seed.reaction/rxn09285"/>
+                  <rdf:li rdf:resource="http://identifiers.org/seed.reaction/rxn05172"/>
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+          <speciesReference species="M_taur_p" stoichiometry="1" constant="true"/>
+        </listOfReactants>
+        <listOfProducts>
+          <speciesReference species="M_adp_c" stoichiometry="1" constant="true"/>
+          <speciesReference species="M_h_c" stoichiometry="1" constant="true"/>
+          <speciesReference species="M_pi_c" stoichiometry="1" constant="true"/>
+          <speciesReference species="M_taur_c" stoichiometry="1" constant="true"/>
+        </listOfProducts>
+        <fbc:geneProductAssociation>
+          <fbc:and>
+            <fbc:geneProductRef fbc:geneProduct="G_b0365"/>
+            <fbc:geneProductRef fbc:geneProduct="G_b0367"/>
+            <fbc:geneProductRef fbc:geneProduct="G_b0366"/>
+          </fbc:and>
+        </fbc:geneProductAssociation>
+      </reaction>
+      <reaction id="R_THMDt2pp_copy1" fast="false" reversible="false" name="Thymidine transport in via proton symport (periplasm)" metaid="R_THMDt2pp_copy1" sboTerm="SBO:0000176" fbc:upperFluxBound="cobra_default_ub" fbc:lowerFluxBound="cobra_0_bound">
+        <sbml:annotation xmlns:sbml="http://www.sbml.org/sbml/level3/version1/core">
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+              <bqbiol:is xmlns:bqbiol="http://biomodels.net/biology-qualifiers/">
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+                  <rdf:li rdf:resource="http://identifiers.org/rhea/29958"/>
+                  <rdf:li rdf:resource="http://identifiers.org/rhea/29955"/>
+                  <rdf:li rdf:resource="http://identifiers.org/rhea/29956"/>
+                  <rdf:li rdf:resource="http://identifiers.org/seed.reaction/rxn09298"/>
+                  <rdf:li rdf:resource="http://identifiers.org/seed.reaction/rxn05200"/>
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+          <speciesReference species="M_h_p" stoichiometry="1" constant="true"/>
+          <speciesReference species="M_thymd_p" stoichiometry="1" constant="true"/>
+        </listOfReactants>
+        <listOfProducts>
+          <speciesReference species="M_h_c" stoichiometry="1" constant="true"/>
+          <speciesReference species="M_thymd_c" stoichiometry="1" constant="true"/>
+        </listOfProducts>
+        <fbc:geneProductAssociation>
+          <fbc:or>
+            <fbc:geneProductRef fbc:geneProduct="G_b2964"/>
+            <fbc:geneProductRef fbc:geneProduct="G_b2393"/>
+          </fbc:or>
+        </fbc:geneProductAssociation>
+      </reaction>
+      <reaction id="R_3HCINNMH" fast="false" reversible="false" name="3-hydroxycinnamate hydroxylase" metaid="R_3HCINNMH" sboTerm="SBO:0000176" fbc:upperFluxBound="cobra_default_ub" fbc:lowerFluxBound="cobra_0_bound">
+        <sbml:annotation xmlns:sbml="http://www.sbml.org/sbml/level3/version1/core">
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+                  <rdf:li rdf:resource="http://identifiers.org/metanetx.reaction/MNXR94893"/>
+                  <rdf:li rdf:resource="http://identifiers.org/rhea/27849"/>
+                  <rdf:li rdf:resource="http://identifiers.org/rhea/27847"/>
+                  <rdf:li rdf:resource="http://identifiers.org/rhea/27846"/>
+                  <rdf:li rdf:resource="http://identifiers.org/rhea/27848"/>
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+          <speciesReference species="M_h_c" stoichiometry="1" constant="true"/>
+          <speciesReference species="M_nadh_c" stoichiometry="1" constant="true"/>
+          <speciesReference species="M_o2_c" stoichiometry="1" constant="true"/>
+        </listOfReactants>
+        <listOfProducts>
+          <speciesReference species="M_dhcinnm_c" stoichiometry="1" constant="true"/>
+          <speciesReference species="M_h2o_c" stoichiometry="1" constant="true"/>
+          <speciesReference species="M_nad_c" stoichiometry="1" constant="true"/>
+        </listOfProducts>
+        <fbc:geneProductAssociation>
+          <fbc:geneProductRef fbc:geneProduct="G_b0347"/>
+        </fbc:geneProductAssociation>
+      </reaction>
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+        <sbml:annotation xmlns:sbml="http://www.sbml.org/sbml/level3/version1/core">
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+                  <rdf:li rdf:resource="http://identifiers.org/metanetx.reaction/MNXR96325"/>
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+                  <rdf:li rdf:resource="http://identifiers.org/rhea/30532"/>
+                  <rdf:li rdf:resource="http://identifiers.org/rhea/30533"/>
+                  <rdf:li rdf:resource="http://identifiers.org/rhea/30531"/>
+                  <rdf:li rdf:resource="http://identifiers.org/seed.reaction/rxn08178"/>
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+          <speciesReference species="M_h_c" stoichiometry="1" constant="true"/>
+          <speciesReference species="M_nadh_c" stoichiometry="1" constant="true"/>
+        </listOfReactants>
+        <listOfProducts>
+          <speciesReference species="M_btn_c" stoichiometry="1" constant="true"/>
+          <speciesReference species="M_h2o_c" stoichiometry="1" constant="true"/>
+          <speciesReference species="M_nad_c" stoichiometry="1" constant="true"/>
+        </listOfProducts>
+        <fbc:geneProductAssociation>
+          <fbc:geneProductRef fbc:geneProduct="G_b3551"/>
+        </fbc:geneProductAssociation>
+      </reaction>
+      <reaction id="R_PACCOAL" fast="false" reversible="false" name="Phenylacetate-CoA ligase" metaid="R_PACCOAL" sboTerm="SBO:0000176" fbc:upperFluxBound="cobra_default_ub" fbc:lowerFluxBound="cobra_0_bound">
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+                  <rdf:li rdf:resource="http://identifiers.org/seed.reaction/rxn01842"/>
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+          <speciesReference species="M_pac_c" stoichiometry="1" constant="true"/>
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+          <speciesReference species="M_amp_c" stoichiometry="1" constant="true"/>
+          <speciesReference species="M_phaccoa_c" stoichiometry="1" constant="true"/>
+          <speciesReference species="M_ppi_c" stoichiometry="1" constant="true"/>
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+        <fbc:geneProductAssociation>
+          <fbc:geneProductRef fbc:geneProduct="G_b1398"/>
+        </fbc:geneProductAssociation>
+      </reaction>
+      <reaction id="R_NMNt7pp" fast="false" reversible="false" name="NMN transport via NMN glycohydrolase (periplasm)" metaid="R_NMNt7pp" sboTerm="SBO:0000185" fbc:upperFluxBound="cobra_default_ub" fbc:lowerFluxBound="cobra_0_bound">
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+        </sbml:annotation>
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+          <speciesReference species="M_h2o_c" stoichiometry="1" constant="true"/>
+          <speciesReference species="M_nmn_p" stoichiometry="1" constant="true"/>
+        </listOfReactants>
+        <listOfProducts>
+          <speciesReference species="M_h_c" stoichiometry="1" constant="true"/>
+          <speciesReference species="M_ncam_c" stoichiometry="1" constant="true"/>
+          <speciesReference species="M_r5p_c" stoichiometry="1" constant="true"/>
+        </listOfProducts>
+      </reaction>
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+          <speciesReference species="M_k_p" stoichiometry="1" constant="true"/>
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+        <listOfProducts>
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+          <speciesReference species="M_k_c" stoichiometry="1" constant="true"/>
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+        <sbml:annotation xmlns:sbml="http://www.sbml.org/sbml/level3/version1/core">
+          <rdf:RDF xmlns:rdf="http://www.w3.org/1999/02/22-rdf-syntax-ns#">
+            <rdf:Description rdf:about="#R_SPODMpp">
+              <bqbiol:is xmlns:bqbiol="http://biomodels.net/biology-qualifiers/">
+                <rdf:Bag>
+                  <rdf:li rdf:resource="http://identifiers.org/bigg.reaction/SPODMpp"/>
+                  <rdf:li rdf:resource="http://identifiers.org/biocyc/META:SUPEROX-DISMUT-RXN"/>
+                  <rdf:li rdf:resource="http://identifiers.org/ec-code/1.15.1.1"/>
+                  <rdf:li rdf:resource="http://identifiers.org/kegg.reaction/R00275"/>
+                  <rdf:li rdf:resource="http://identifiers.org/metanetx.reaction/MNXR104498"/>
+                  <rdf:li rdf:resource="http://identifiers.org/rhea/20696"/>
+                  <rdf:li rdf:resource="http://identifiers.org/rhea/20699"/>
+                  <rdf:li rdf:resource="http://identifiers.org/rhea/20698"/>
+                  <rdf:li rdf:resource="http://identifiers.org/rhea/20697"/>
+                </rdf:Bag>
+              </bqbiol:is>
+            </rdf:Description>
+          </rdf:RDF>
+        </sbml:annotation>
+        <listOfReactants>
+          <speciesReference species="M_h_p" stoichiometry="2" constant="true"/>
+          <speciesReference species="M_o2s_p" stoichiometry="2" constant="true"/>
+        </listOfReactants>
+        <listOfProducts>
+          <speciesReference species="M_h2o2_p" stoichiometry="1" constant="true"/>
+          <speciesReference species="M_o2_p" stoichiometry="1" constant="true"/>
+        </listOfProducts>
+        <fbc:geneProductAssociation>
+          <fbc:geneProductRef fbc:geneProduct="G_b1646"/>
+        </fbc:geneProductAssociation>
+      </reaction>
+      <reaction id="R_EX_lyx__L_e" fast="false" reversible="false" name="L-Lyxose exchange" metaid="R_EX_lyx__L_e" sboTerm="SBO:0000627" fbc:upperFluxBound="cobra_default_ub" fbc:lowerFluxBound="cobra_0_bound">
+        <sbml:annotation xmlns:sbml="http://www.sbml.org/sbml/level3/version1/core">
+          <rdf:RDF xmlns:rdf="http://www.w3.org/1999/02/22-rdf-syntax-ns#">
+            <rdf:Description rdf:about="#R_EX_lyx__L_e">
+              <bqbiol:is xmlns:bqbiol="http://biomodels.net/biology-qualifiers/">
+                <rdf:Bag>
+                  <rdf:li rdf:resource="http://identifiers.org/bigg.reaction/EX_lyx__L_e"/>
+                  <rdf:li rdf:resource="http://identifiers.org/metanetx.reaction/MNXR101272"/>
+                  <rdf:li rdf:resource="http://identifiers.org/seed.reaction/rxn08859"/>
+                </rdf:Bag>
+              </bqbiol:is>
+            </rdf:Description>
+          </rdf:RDF>
+        </sbml:annotation>
+        <listOfReactants>
+          <speciesReference species="M_lyx__L_e" stoichiometry="1" constant="true"/>
+        </listOfReactants>
+      </reaction>
+      <reaction id="R_EX_acmum_e" fast="false" reversible="false" name="N-Acetylmuramate exchange" metaid="R_EX_acmum_e" sboTerm="SBO:0000627" fbc:upperFluxBound="cobra_default_ub" fbc:lowerFluxBound="cobra_0_bound">
+        <sbml:annotation xmlns:sbml="http://www.sbml.org/sbml/level3/version1/core">
+          <rdf:RDF xmlns:rdf="http://www.w3.org/1999/02/22-rdf-syntax-ns#">
+            <rdf:Description rdf:about="#R_EX_acmum_e">
+              <bqbiol:is xmlns:bqbiol="http://biomodels.net/biology-qualifiers/">
+                <rdf:Bag>
+                  <rdf:li rdf:resource="http://identifiers.org/bigg.reaction/EX_acmum_e"/>
+                  <rdf:li rdf:resource="http://identifiers.org/metanetx.reaction/MNXR95279"/>
+                  <rdf:li rdf:resource="http://identifiers.org/seed.reaction/rxn08049"/>
+                </rdf:Bag>
+              </bqbiol:is>
+            </rdf:Description>
+          </rdf:RDF>
+        </sbml:annotation>
+        <listOfReactants>
+          <speciesReference species="M_acmum_e" stoichiometry="1" constant="true"/>
+        </listOfReactants>
+      </reaction>
+      <reaction id="R_EX_dca_e" fast="false" reversible="false" name="Decanoate (n-C10:0) exchange" metaid="R_EX_dca_e" sboTerm="SBO:0000627" fbc:upperFluxBound="cobra_default_ub" fbc:lowerFluxBound="cobra_0_bound">
+        <sbml:annotation xmlns:sbml="http://www.sbml.org/sbml/level3/version1/core">
+          <rdf:RDF xmlns:rdf="http://www.w3.org/1999/02/22-rdf-syntax-ns#">
+            <rdf:Description rdf:about="#R_EX_dca_e">
+              <bqbiol:is xmlns:bqbiol="http://biomodels.net/biology-qualifiers/">
+                <rdf:Bag>
+                  <rdf:li rdf:resource="http://identifiers.org/bigg.reaction/EX_dca_e"/>
+                  <rdf:li rdf:resource="http://identifiers.org/metanetx.reaction/MNXR97181"/>
+                </rdf:Bag>
+              </bqbiol:is>
+            </rdf:Description>
+          </rdf:RDF>
+        </sbml:annotation>
+        <listOfReactants>
+          <speciesReference species="M_dca_e" stoichiometry="1" constant="true"/>
+        </listOfReactants>
+      </reaction>
+      <reaction id="R_EX_all__D_e" fast="false" reversible="false" name="D-Allose exchange" metaid="R_EX_all__D_e" sboTerm="SBO:0000627" fbc:upperFluxBound="cobra_default_ub" fbc:lowerFluxBound="cobra_0_bound">
+        <sbml:annotation xmlns:sbml="http://www.sbml.org/sbml/level3/version1/core">
+          <rdf:RDF xmlns:rdf="http://www.w3.org/1999/02/22-rdf-syntax-ns#">
+            <rdf:Description rdf:about="#R_EX_all__D_e">
+              <bqbiol:is xmlns:bqbiol="http://biomodels.net/biology-qualifiers/">
+                <rdf:Bag>
+                  <rdf:li rdf:resource="http://identifiers.org/bigg.reaction/EX_all__D_e"/>
+                  <rdf:li rdf:resource="http://identifiers.org/metanetx.reaction/MNXR95776"/>
+                  <rdf:li rdf:resource="http://identifiers.org/seed.reaction/rxn08115"/>
+                </rdf:Bag>
+              </bqbiol:is>
+            </rdf:Description>
+          </rdf:RDF>
+        </sbml:annotation>
+        <listOfReactants>
+          <speciesReference species="M_all__D_e" stoichiometry="1" constant="true"/>
+        </listOfReactants>
+      </reaction>
+      <reaction id="R_NO3R1bpp" fast="false" reversible="false" name="Nitrate reductase (Ubiquinol-8)" metaid="R_NO3R1bpp" sboTerm="SBO:0000185" fbc:upperFluxBound="cobra_default_ub" fbc:lowerFluxBound="cobra_0_bound">
+        <sbml:annotation xmlns:sbml="http://www.sbml.org/sbml/level3/version1/core">
+          <rdf:RDF xmlns:rdf="http://www.w3.org/1999/02/22-rdf-syntax-ns#">
+            <rdf:Description rdf:about="#R_NO3R1bpp">
+              <bqbiol:is xmlns:bqbiol="http://biomodels.net/biology-qualifiers/">
+                <rdf:Bag>
+                  <rdf:li rdf:resource="http://identifiers.org/bigg.reaction/NO3R1bpp"/>
+                  <rdf:li rdf:resource="http://identifiers.org/metanetx.reaction/MNXR101987"/>
+                  <rdf:li rdf:resource="http://identifiers.org/rhea/29126"/>
+                  <rdf:li rdf:resource="http://identifiers.org/rhea/29125"/>
+                  <rdf:li rdf:resource="http://identifiers.org/rhea/29123"/>
+                  <rdf:li rdf:resource="http://identifiers.org/rhea/29124"/>
+                  <rdf:li rdf:resource="http://identifiers.org/seed.reaction/rxn09000"/>
+                </rdf:Bag>
+              </bqbiol:is>
+            </rdf:Description>
+          </rdf:RDF>
+        </sbml:annotation>
+        <listOfReactants>
+          <speciesReference species="M_no3_p" stoichiometry="1" constant="true"/>
+          <speciesReference species="M_q8h2_c" stoichiometry="1" constant="true"/>
+        </listOfReactants>
+        <listOfProducts>
+          <speciesReference species="M_h2o_p" stoichiometry="1" constant="true"/>
+          <speciesReference species="M_no2_p" stoichiometry="1" constant="true"/>
+          <speciesReference species="M_q8_c" stoichiometry="1" constant="true"/>
+        </listOfProducts>
+        <fbc:geneProductAssociation>
+          <fbc:and>
+            <fbc:geneProductRef fbc:geneProduct="G_b2205"/>
+            <fbc:geneProductRef fbc:geneProduct="G_b2202"/>
+            <fbc:geneProductRef fbc:geneProduct="G_b2204"/>
+            <fbc:and>
+              <fbc:geneProductRef fbc:geneProduct="G_b2206"/>
+              <fbc:geneProductRef fbc:geneProduct="G_b2203"/>
+            </fbc:and>
+          </fbc:and>
+        </fbc:geneProductAssociation>
+      </reaction>
+      <reaction id="R_O2tpp" fast="false" reversible="true" name="O2 transport via diffusion (periplasm)" metaid="R_O2tpp" sboTerm="SBO:0000185" fbc:upperFluxBound="cobra_default_ub" fbc:lowerFluxBound="cobra_default_lb">
+        <sbml:annotation xmlns:sbml="http://www.sbml.org/sbml/level3/version1/core">
+          <rdf:RDF xmlns:rdf="http://www.w3.org/1999/02/22-rdf-syntax-ns#">
+            <rdf:Description rdf:about="#R_O2tpp">
+              <bqbiol:is xmlns:bqbiol="http://biomodels.net/biology-qualifiers/">
+                <rdf:Bag>
+                  <rdf:li rdf:resource="http://identifiers.org/bigg.reaction/O2tpp"/>
+                  <rdf:li rdf:resource="http://identifiers.org/biocyc/META:TRANS-RXN0-474"/>
+                  <rdf:li rdf:resource="http://identifiers.org/metanetx.reaction/MNXR102090"/>
+                  <rdf:li rdf:resource="http://identifiers.org/seed.reaction/rxn09641"/>
+                  <rdf:li rdf:resource="http://identifiers.org/seed.reaction/rxn05468"/>
+                  <rdf:li rdf:resource="http://identifiers.org/seed.reaction/rxn09031"/>
+                  <rdf:li rdf:resource="http://identifiers.org/seed.reaction/rxn09032"/>
+                  <rdf:li rdf:resource="http://identifiers.org/seed.reaction/rxn09734"/>
+                </rdf:Bag>
+              </bqbiol:is>
+            </rdf:Description>
+          </rdf:RDF>
+        </sbml:annotation>
+        <listOfReactants>
+          <speciesReference species="M_o2_p" stoichiometry="1" constant="true"/>
+        </listOfReactants>
+        <listOfProducts>
+          <speciesReference species="M_o2_c" stoichiometry="1" constant="true"/>
+        </listOfProducts>
+        <fbc:geneProductAssociation>
+          <fbc:geneProductRef fbc:geneProduct="G_s0001"/>
+        </fbc:geneProductAssociation>
+      </reaction>
+      <reaction id="R_EX_octa_e" fast="false" reversible="false" name="Octanoate (n-C8:0) exchange" metaid="R_EX_octa_e" sboTerm="SBO:0000627" fbc:upperFluxBound="cobra_default_ub" fbc:lowerFluxBound="cobra_0_bound">
+        <sbml:annotation xmlns:sbml="http://www.sbml.org/sbml/level3/version1/core">
+          <rdf:RDF xmlns:rdf="http://www.w3.org/1999/02/22-rdf-syntax-ns#">
+            <rdf:Description rdf:about="#R_EX_octa_e">
+              <bqbiol:is xmlns:bqbiol="http://biomodels.net/biology-qualifiers/">
+                <rdf:Bag>
+                  <rdf:li rdf:resource="http://identifiers.org/bigg.reaction/EX_octa_e"/>
+                  <rdf:li rdf:resource="http://identifiers.org/biocyc/META:TRANS-RXN0-272"/>
+                  <rdf:li rdf:resource="http://identifiers.org/metanetx.reaction/MNXR99126"/>
+                  <rdf:li rdf:resource="http://identifiers.org/rhea/29761"/>
+                  <rdf:li rdf:resource="http://identifiers.org/rhea/29762"/>
+                  <rdf:li rdf:resource="http://identifiers.org/rhea/29759"/>
+                  <rdf:li rdf:resource="http://identifiers.org/rhea/29760"/>
+                  <rdf:li rdf:resource="http://identifiers.org/seed.reaction/rxn09036"/>
+                  <rdf:li rdf:resource="http://identifiers.org/seed.reaction/rxn09840"/>
+                </rdf:Bag>
+              </bqbiol:is>
+            </rdf:Description>
+          </rdf:RDF>
+        </sbml:annotation>
+        <listOfReactants>
+          <speciesReference species="M_octa_e" stoichiometry="1" constant="true"/>
+        </listOfReactants>
+      </reaction>
+      <reaction id="R_PHYTSpp" fast="false" reversible="false" name="Phytase (periplasm)" metaid="R_PHYTSpp" sboTerm="SBO:0000176" fbc:upperFluxBound="cobra_default_ub" fbc:lowerFluxBound="cobra_0_bound">
+        <sbml:annotation xmlns:sbml="http://www.sbml.org/sbml/level3/version1/core">
+          <rdf:RDF xmlns:rdf="http://www.w3.org/1999/02/22-rdf-syntax-ns#">
+            <rdf:Description rdf:about="#R_PHYTSpp">
+              <bqbiol:is xmlns:bqbiol="http://biomodels.net/biology-qualifiers/">
+                <rdf:Bag>
+                  <rdf:li rdf:resource="http://identifiers.org/bigg.reaction/PHYTSpp"/>
+                  <rdf:li rdf:resource="http://identifiers.org/metanetx.reaction/MNXR102659"/>
+                  <rdf:li rdf:resource="http://identifiers.org/seed.reaction/rxn09119"/>
+                </rdf:Bag>
+              </bqbiol:is>
+            </rdf:Description>
+          </rdf:RDF>
+        </sbml:annotation>
+        <listOfReactants>
+          <speciesReference species="M_h2o_p" stoichiometry="6" constant="true"/>
+          <speciesReference species="M_minohp_p" stoichiometry="1" constant="true"/>
+        </listOfReactants>
+        <listOfProducts>
+          <speciesReference species="M_inost_p" stoichiometry="1" constant="true"/>
+          <speciesReference species="M_pi_p" stoichiometry="6" constant="true"/>
+        </listOfProducts>
+        <fbc:geneProductAssociation>
+          <fbc:geneProductRef fbc:geneProduct="G_b0980"/>
+        </fbc:geneProductAssociation>
+      </reaction>
+      <reaction id="R_EX_gbbtn_e" fast="false" reversible="false" name="Gamma-butyrobetaine exchange" metaid="R_EX_gbbtn_e" sboTerm="SBO:0000627" fbc:upperFluxBound="cobra_default_ub" fbc:lowerFluxBound="cobra_0_bound">
+        <sbml:annotation xmlns:sbml="http://www.sbml.org/sbml/level3/version1/core">
+          <rdf:RDF xmlns:rdf="http://www.w3.org/1999/02/22-rdf-syntax-ns#">
+            <rdf:Description rdf:about="#R_EX_gbbtn_e">
+              <bqbiol:is xmlns:bqbiol="http://biomodels.net/biology-qualifiers/">
+                <rdf:Bag>
+                  <rdf:li rdf:resource="http://identifiers.org/bigg.reaction/EX_gbbtn_e"/>
+                  <rdf:li rdf:resource="http://identifiers.org/metanetx.reaction/MNXR100053"/>
+                  <rdf:li rdf:resource="http://identifiers.org/rhea/32838"/>
+                  <rdf:li rdf:resource="http://identifiers.org/rhea/32837"/>
+                  <rdf:li rdf:resource="http://identifiers.org/rhea/32835"/>
+                  <rdf:li rdf:resource="http://identifiers.org/rhea/32836"/>
+                  <rdf:li rdf:resource="http://identifiers.org/seed.reaction/rxn08595"/>
+                </rdf:Bag>
+              </bqbiol:is>
+            </rdf:Description>
+          </rdf:RDF>
+        </sbml:annotation>
+        <listOfReactants>
+          <speciesReference species="M_gbbtn_e" stoichiometry="1" constant="true"/>
+        </listOfReactants>
+      </reaction>
+      <reaction id="R_PPTHpp" fast="false" reversible="false" name="Phosphonate hydrogenase (periplasm)" metaid="R_PPTHpp" sboTerm="SBO:0000176" fbc:upperFluxBound="cobra_default_ub" fbc:lowerFluxBound="cobra_0_bound">
+        <sbml:annotation xmlns:sbml="http://www.sbml.org/sbml/level3/version1/core">
+          <rdf:RDF xmlns:rdf="http://www.w3.org/1999/02/22-rdf-syntax-ns#">
+            <rdf:Description rdf:about="#R_PPTHpp">
+              <bqbiol:is xmlns:bqbiol="http://biomodels.net/biology-qualifiers/">
+                <rdf:Bag>
+                  <rdf:li rdf:resource="http://identifiers.org/bigg.reaction/PPTHpp"/>
+                  <rdf:li rdf:resource="http://identifiers.org/metanetx.reaction/MNXR103149"/>
+                  <rdf:li rdf:resource="http://identifiers.org/rhea/29453"/>
+                  <rdf:li rdf:resource="http://identifiers.org/rhea/29454"/>
+                  <rdf:li rdf:resource="http://identifiers.org/rhea/29451"/>
+                  <rdf:li rdf:resource="http://identifiers.org/rhea/29452"/>
+                  <rdf:li rdf:resource="http://identifiers.org/seed.reaction/rxn09184"/>
+                </rdf:Bag>
+              </bqbiol:is>
+            </rdf:Description>
+          </rdf:RDF>
+        </sbml:annotation>
+        <listOfReactants>
+          <speciesReference species="M_h2o_p" stoichiometry="1" constant="true"/>
+          <speciesReference species="M_ppt_p" stoichiometry="1" constant="true"/>
+        </listOfReactants>
+        <listOfProducts>
+          <speciesReference species="M_h2_p" stoichiometry="1" constant="true"/>
+          <speciesReference species="M_pi_p" stoichiometry="1" constant="true"/>
+        </listOfProducts>
+        <fbc:geneProductAssociation>
+          <fbc:geneProductRef fbc:geneProduct="G_b0383"/>
+        </fbc:geneProductAssociation>
+      </reaction>
+      <reaction id="R_PYRt2rpp" fast="false" reversible="true" name="Pyruvate reversible transport via proton symport (periplasm)" metaid="R_PYRt2rpp" sboTerm="SBO:0000185" fbc:upperFluxBound="cobra_default_ub" fbc:lowerFluxBound="cobra_default_lb">
+        <sbml:annotation xmlns:sbml="http://www.sbml.org/sbml/level3/version1/core">
+          <rdf:RDF xmlns:rdf="http://www.w3.org/1999/02/22-rdf-syntax-ns#">
+            <rdf:Description rdf:about="#R_PYRt2rpp">
+              <bqbiol:is xmlns:bqbiol="http://biomodels.net/biology-qualifiers/">
+                <rdf:Bag>
+                  <rdf:li rdf:resource="http://identifiers.org/bigg.reaction/PYRt2rpp"/>
+                  <rdf:li rdf:resource="http://identifiers.org/metanetx.reaction/MNXR103385"/>
+                  <rdf:li rdf:resource="http://identifiers.org/reactome.reaction/R-RNO-372347"/>
+                  <rdf:li rdf:resource="http://identifiers.org/reactome.reaction/R-HSA-372342"/>
+                  <rdf:li rdf:resource="http://identifiers.org/reactome.reaction/R-GGA-372359"/>
+                  <rdf:li rdf:resource="http://identifiers.org/seed.reaction/rxn05469"/>
+                  <rdf:li rdf:resource="http://identifiers.org/seed.reaction/rxn09832"/>
+                  <rdf:li rdf:resource="http://identifiers.org/seed.reaction/rxn09717"/>
+                  <rdf:li rdf:resource="http://identifiers.org/seed.reaction/rxn09217"/>
+                </rdf:Bag>
+              </bqbiol:is>
+            </rdf:Description>
+          </rdf:RDF>
+        </sbml:annotation>
+        <listOfReactants>
+          <speciesReference species="M_h_p" stoichiometry="1" constant="true"/>
+          <speciesReference species="M_pyr_p" stoichiometry="1" constant="true"/>
+        </listOfReactants>
+        <listOfProducts>
+          <speciesReference species="M_h_c" stoichiometry="1" constant="true"/>
+          <speciesReference species="M_pyr_c" stoichiometry="1" constant="true"/>
+        </listOfProducts>
+      </reaction>
+      <reaction id="R_NO3R2pp" fast="false" reversible="false" name="Nitrate reductase (Menaquinol-8) (periplasm)" metaid="R_NO3R2pp" sboTerm="SBO:0000185" fbc:upperFluxBound="cobra_default_ub" fbc:lowerFluxBound="cobra_0_bound">
+        <sbml:annotation xmlns:sbml="http://www.sbml.org/sbml/level3/version1/core">
+          <rdf:RDF xmlns:rdf="http://www.w3.org/1999/02/22-rdf-syntax-ns#">
+            <rdf:Description rdf:about="#R_NO3R2pp">
+              <bqbiol:is xmlns:bqbiol="http://biomodels.net/biology-qualifiers/">
+                <rdf:Bag>
+                  <rdf:li rdf:resource="http://identifiers.org/bigg.reaction/NO3R2pp"/>
+                  <rdf:li rdf:resource="http://identifiers.org/metanetx.reaction/MNXR101988"/>
+                  <rdf:li rdf:resource="http://identifiers.org/rhea/29141#1"/>
+                  <rdf:li rdf:resource="http://identifiers.org/rhea/29142#1"/>
+                  <rdf:li rdf:resource="http://identifiers.org/rhea/29140#1"/>
+                  <rdf:li rdf:resource="http://identifiers.org/rhea/29139#1"/>
+                  <rdf:li rdf:resource="http://identifiers.org/seed.reaction/rxn09003"/>
+                  <rdf:li rdf:resource="http://identifiers.org/seed.reaction/rxn10121"/>
+                </rdf:Bag>
+              </bqbiol:is>
+            </rdf:Description>
+          </rdf:RDF>
+        </sbml:annotation>
+        <listOfReactants>
+          <speciesReference species="M_h_c" stoichiometry="2" constant="true"/>
+          <speciesReference species="M_mql8_c" stoichiometry="1" constant="true"/>
+          <speciesReference species="M_no3_c" stoichiometry="1" constant="true"/>
+        </listOfReactants>
+        <listOfProducts>
+          <speciesReference species="M_h2o_c" stoichiometry="1" constant="true"/>
+          <speciesReference species="M_h_p" stoichiometry="2" constant="true"/>
+          <speciesReference species="M_mqn8_c" stoichiometry="1" constant="true"/>
+          <speciesReference species="M_no2_c" stoichiometry="1" constant="true"/>
+        </listOfProducts>
+        <fbc:geneProductAssociation>
+          <fbc:or>
+            <fbc:and>
+              <fbc:geneProductRef fbc:geneProduct="G_b1467"/>
+              <fbc:geneProductRef fbc:geneProduct="G_b1468"/>
+              <fbc:geneProductRef fbc:geneProduct="G_b1466"/>
+              <fbc:geneProductRef fbc:geneProduct="G_b1465"/>
+            </fbc:and>
+            <fbc:and>
+              <fbc:geneProductRef fbc:geneProduct="G_b1224"/>
+              <fbc:geneProductRef fbc:geneProduct="G_b1227"/>
+              <fbc:geneProductRef fbc:geneProduct="G_b1226"/>
+              <fbc:geneProductRef fbc:geneProduct="G_b1225"/>
+            </fbc:and>
+          </fbc:or>
+        </fbc:geneProductAssociation>
+      </reaction>
+      <reaction id="R_EX_xylu__L_e" fast="false" reversible="false" name="L-Xylulose exchange" metaid="R_EX_xylu__L_e" sboTerm="SBO:0000627" fbc:upperFluxBound="cobra_default_ub" fbc:lowerFluxBound="cobra_0_bound">
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+                  <rdf:li rdf:resource="http://identifiers.org/seed.reaction/rxn09387"/>
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+        </sbml:annotation>
+        <listOfReactants>
+          <speciesReference species="M_xylu__L_e" stoichiometry="1" constant="true"/>
+        </listOfReactants>
+      </reaction>
+      <reaction id="R_EX_gdp_e" fast="false" reversible="false" name="GDP exchange" metaid="R_EX_gdp_e" sboTerm="SBO:0000627" fbc:upperFluxBound="cobra_default_ub" fbc:lowerFluxBound="cobra_0_bound">
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+                  <rdf:li rdf:resource="http://identifiers.org/seed.reaction/rxn09815"/>
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+          <speciesReference species="M_gdp_e" stoichiometry="1" constant="true"/>
+        </listOfReactants>
+      </reaction>
+      <reaction id="R_EX_gtp_e" fast="false" reversible="false" name="GTP exchange" metaid="R_EX_gtp_e" sboTerm="SBO:0000627" fbc:upperFluxBound="cobra_default_ub" fbc:lowerFluxBound="cobra_0_bound">
+        <sbml:annotation xmlns:sbml="http://www.sbml.org/sbml/level3/version1/core">
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+                  <rdf:li rdf:resource="http://identifiers.org/seed.reaction/rxn12663"/>
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+          <speciesReference species="M_gtp_e" stoichiometry="1" constant="true"/>
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+      <reaction id="R_NTP3pp" fast="false" reversible="false" name="Nucleoside-triphosphatase (GTP) (periplasm)" metaid="R_NTP3pp" sboTerm="SBO:0000176" fbc:upperFluxBound="cobra_default_ub" fbc:lowerFluxBound="cobra_0_bound">
+        <sbml:annotation xmlns:sbml="http://www.sbml.org/sbml/level3/version1/core">
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+                  <rdf:li rdf:resource="http://identifiers.org/kegg.reaction/R00335"/>
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+                  <rdf:li rdf:resource="http://identifiers.org/rhea/19669"/>
+                  <rdf:li rdf:resource="http://identifiers.org/rhea/19671"/>
+                  <rdf:li rdf:resource="http://identifiers.org/rhea/19672"/>
+                  <rdf:li rdf:resource="http://identifiers.org/rhea/19670"/>
+                  <rdf:li rdf:resource="http://identifiers.org/sabiork/816"/>
+                  <rdf:li rdf:resource="http://identifiers.org/seed.reaction/rxn00241"/>
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+          <speciesReference species="M_h2o_p" stoichiometry="1" constant="true"/>
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+        <listOfProducts>
+          <speciesReference species="M_gdp_p" stoichiometry="1" constant="true"/>
+          <speciesReference species="M_h_p" stoichiometry="1" constant="true"/>
+          <speciesReference species="M_pi_p" stoichiometry="1" constant="true"/>
+        </listOfProducts>
+        <fbc:geneProductAssociation>
+          <fbc:geneProductRef fbc:geneProduct="G_b0980"/>
+        </fbc:geneProductAssociation>
+      </reaction>
+      <reaction id="R_NO3R2bpp" fast="false" reversible="false" name="Nitrate reductase (Menaquinol-8) (periplasm)" metaid="R_NO3R2bpp" sboTerm="SBO:0000185" fbc:upperFluxBound="cobra_default_ub" fbc:lowerFluxBound="cobra_0_bound">
+        <sbml:annotation xmlns:sbml="http://www.sbml.org/sbml/level3/version1/core">
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+              <bqbiol:is xmlns:bqbiol="http://biomodels.net/biology-qualifiers/">
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+                  <rdf:li rdf:resource="http://identifiers.org/ec-code/1.7.99.4"/>
+                  <rdf:li rdf:resource="http://identifiers.org/metanetx.reaction/MNXR101989"/>
+                  <rdf:li rdf:resource="http://identifiers.org/seed.reaction/rxn09002"/>
+                </rdf:Bag>
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+        </sbml:annotation>
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+          <speciesReference species="M_mql8_c" stoichiometry="1" constant="true"/>
+          <speciesReference species="M_no3_p" stoichiometry="1" constant="true"/>
+        </listOfReactants>
+        <listOfProducts>
+          <speciesReference species="M_h2o_p" stoichiometry="1" constant="true"/>
+          <speciesReference species="M_mqn8_c" stoichiometry="1" constant="true"/>
+          <speciesReference species="M_no2_p" stoichiometry="1" constant="true"/>
+        </listOfProducts>
+        <fbc:geneProductAssociation>
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+            <fbc:and>
+              <fbc:geneProductRef fbc:geneProduct="G_b2206"/>
+              <fbc:geneProductRef fbc:geneProduct="G_b2203"/>
+            </fbc:and>
+            <fbc:geneProductRef fbc:geneProduct="G_b2202"/>
+          </fbc:and>
+        </fbc:geneProductAssociation>
+      </reaction>
+      <reaction id="R_THMabcpp" fast="false" reversible="false" name="Thiamine transport via ABC system (periplasm)" metaid="R_THMabcpp" sboTerm="SBO:0000185" fbc:upperFluxBound="cobra_default_ub" fbc:lowerFluxBound="cobra_0_bound">
+        <sbml:annotation xmlns:sbml="http://www.sbml.org/sbml/level3/version1/core">
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+            <rdf:Description rdf:about="#R_THMabcpp">
+              <bqbiol:is xmlns:bqbiol="http://biomodels.net/biology-qualifiers/">
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+                  <rdf:li rdf:resource="http://identifiers.org/seed.reaction/rxn05177"/>
+                  <rdf:li rdf:resource="http://identifiers.org/seed.reaction/rxn09297"/>
+                </rdf:Bag>
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+            </rdf:Description>
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+        </sbml:annotation>
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+          <speciesReference species="M_atp_c" stoichiometry="1" constant="true"/>
+          <speciesReference species="M_h2o_c" stoichiometry="1" constant="true"/>
+          <speciesReference species="M_thm_p" stoichiometry="1" constant="true"/>
+        </listOfReactants>
+        <listOfProducts>
+          <speciesReference species="M_adp_c" stoichiometry="1" constant="true"/>
+          <speciesReference species="M_h_c" stoichiometry="1" constant="true"/>
+          <speciesReference species="M_pi_c" stoichiometry="1" constant="true"/>
+          <speciesReference species="M_thm_c" stoichiometry="1" constant="true"/>
+        </listOfProducts>
+        <fbc:geneProductAssociation>
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+            <fbc:geneProductRef fbc:geneProduct="G_b0066"/>
+            <fbc:geneProductRef fbc:geneProduct="G_b0068"/>
+            <fbc:geneProductRef fbc:geneProduct="G_b0067"/>
+          </fbc:and>
+        </fbc:geneProductAssociation>
+      </reaction>
+      <reaction id="R_THMDt2pp_copy2" fast="false" reversible="true" name="Thymidine transport in via proton symport (periplasm)" metaid="R_THMDt2pp_copy2" sboTerm="SBO:0000176" fbc:upperFluxBound="cobra_default_ub" fbc:lowerFluxBound="cobra_default_lb">
+        <sbml:annotation xmlns:sbml="http://www.sbml.org/sbml/level3/version1/core">
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+            <rdf:Description rdf:about="#R_THMDt2pp_copy2">
+              <bqbiol:is xmlns:bqbiol="http://biomodels.net/biology-qualifiers/">
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+                  <rdf:li rdf:resource="http://identifiers.org/rhea/29958"/>
+                  <rdf:li rdf:resource="http://identifiers.org/rhea/29955"/>
+                  <rdf:li rdf:resource="http://identifiers.org/rhea/29956"/>
+                  <rdf:li rdf:resource="http://identifiers.org/seed.reaction/rxn09298"/>
+                  <rdf:li rdf:resource="http://identifiers.org/seed.reaction/rxn05200"/>
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+        </sbml:annotation>
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+          <speciesReference species="M_thymd_p" stoichiometry="1" constant="true"/>
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+        <listOfProducts>
+          <speciesReference species="M_h_c" stoichiometry="1" constant="true"/>
+          <speciesReference species="M_thymd_c" stoichiometry="1" constant="true"/>
+        </listOfProducts>
+        <fbc:geneProductAssociation>
+          <fbc:geneProductRef fbc:geneProduct="G_b2406"/>
+        </fbc:geneProductAssociation>
+      </reaction>
+      <reaction id="R_THRabcpp" fast="false" reversible="false" name="L-threonine transport via ABC system (periplasm)" metaid="R_THRabcpp" sboTerm="SBO:0000185" fbc:upperFluxBound="cobra_default_ub" fbc:lowerFluxBound="cobra_0_bound">
+        <sbml:annotation xmlns:sbml="http://www.sbml.org/sbml/level3/version1/core">
+          <rdf:RDF xmlns:rdf="http://www.w3.org/1999/02/22-rdf-syntax-ns#">
+            <rdf:Description rdf:about="#R_THRabcpp">
+              <bqbiol:is xmlns:bqbiol="http://biomodels.net/biology-qualifiers/">
+                <rdf:Bag>
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+                  <rdf:li rdf:resource="http://identifiers.org/metanetx.reaction/MNXR104849"/>
+                  <rdf:li rdf:resource="http://identifiers.org/seed.reaction/rxn09301"/>
+                  <rdf:li rdf:resource="http://identifiers.org/seed.reaction/rxn05169"/>
+                </rdf:Bag>
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+          </rdf:RDF>
+        </sbml:annotation>
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+          <speciesReference species="M_atp_c" stoichiometry="1" constant="true"/>
+          <speciesReference species="M_h2o_c" stoichiometry="1" constant="true"/>
+          <speciesReference species="M_thr__L_p" stoichiometry="1" constant="true"/>
+        </listOfReactants>
+        <listOfProducts>
+          <speciesReference species="M_adp_c" stoichiometry="1" constant="true"/>
+          <speciesReference species="M_h_c" stoichiometry="1" constant="true"/>
+          <speciesReference species="M_pi_c" stoichiometry="1" constant="true"/>
+          <speciesReference species="M_thr__L_c" stoichiometry="1" constant="true"/>
+        </listOfProducts>
+        <fbc:geneProductAssociation>
+          <fbc:and>
+            <fbc:geneProductRef fbc:geneProduct="G_b3456"/>
+            <fbc:geneProductRef fbc:geneProduct="G_b3455"/>
+            <fbc:geneProductRef fbc:geneProduct="G_b3460"/>
+            <fbc:geneProductRef fbc:geneProduct="G_b3457"/>
+            <fbc:geneProductRef fbc:geneProduct="G_b3454"/>
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+        </fbc:geneProductAssociation>
+      </reaction>
+      <reaction id="R_TREptspp" fast="false" reversible="false" name="Trehalose transport via PEP:Pyr PTS (periplasm)" metaid="R_TREptspp" sboTerm="SBO:0000185" fbc:upperFluxBound="cobra_default_ub" fbc:lowerFluxBound="cobra_0_bound">
+        <sbml:annotation xmlns:sbml="http://www.sbml.org/sbml/level3/version1/core">
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+            <rdf:Description rdf:about="#R_TREptspp">
+              <bqbiol:is xmlns:bqbiol="http://biomodels.net/biology-qualifiers/">
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+                  <rdf:li rdf:resource="http://identifiers.org/seed.reaction/rxn09322"/>
+                  <rdf:li rdf:resource="http://identifiers.org/seed.reaction/rxn02005"/>
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+          <speciesReference species="M_tre_p" stoichiometry="1" constant="true"/>
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+        <listOfProducts>
+          <speciesReference species="M_pyr_c" stoichiometry="1" constant="true"/>
+          <speciesReference species="M_tre6p_c" stoichiometry="1" constant="true"/>
+        </listOfProducts>
+        <fbc:geneProductAssociation>
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+            <fbc:geneProductRef fbc:geneProduct="G_b2417"/>
+            <fbc:geneProductRef fbc:geneProduct="G_b4240"/>
+            <fbc:geneProductRef fbc:geneProduct="G_b2416"/>
+            <fbc:geneProductRef fbc:geneProduct="G_b2415"/>
+          </fbc:and>
+        </fbc:geneProductAssociation>
+      </reaction>
+      <reaction id="R_THD2pp" fast="false" reversible="false" name="NAD(P) transhydrogenase (periplasm)" metaid="R_THD2pp" sboTerm="SBO:0000185" fbc:upperFluxBound="cobra_default_ub" fbc:lowerFluxBound="cobra_0_bound">
+        <sbml:annotation xmlns:sbml="http://www.sbml.org/sbml/level3/version1/core">
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+            <rdf:Description rdf:about="#R_THD2pp">
+              <bqbiol:is xmlns:bqbiol="http://biomodels.net/biology-qualifiers/">
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+                  <rdf:li rdf:resource="http://identifiers.org/seed.reaction/rxn10125"/>
+                  <rdf:li rdf:resource="http://identifiers.org/seed.reaction/rxn09295"/>
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+          <speciesReference species="M_h_p" stoichiometry="2" constant="true"/>
+          <speciesReference species="M_nadh_c" stoichiometry="1" constant="true"/>
+          <speciesReference species="M_nadp_c" stoichiometry="1" constant="true"/>
+        </listOfReactants>
+        <listOfProducts>
+          <speciesReference species="M_h_c" stoichiometry="2" constant="true"/>
+          <speciesReference species="M_nad_c" stoichiometry="1" constant="true"/>
+          <speciesReference species="M_nadph_c" stoichiometry="1" constant="true"/>
+        </listOfProducts>
+        <fbc:geneProductAssociation>
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+            <fbc:geneProductRef fbc:geneProduct="G_b1602"/>
+            <fbc:geneProductRef fbc:geneProduct="G_b1603"/>
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+        </fbc:geneProductAssociation>
+      </reaction>
+      <reaction id="R_TMAOR1pp" fast="false" reversible="false" name="Trimethylamine N-oxide reductase (menaquinol 8) (periplasm)" metaid="R_TMAOR1pp" sboTerm="SBO:0000185" fbc:upperFluxBound="cobra_default_ub" fbc:lowerFluxBound="cobra_0_bound">
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+                  <rdf:li rdf:resource="http://identifiers.org/metanetx.reaction/MNXR104879"/>
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+                  <rdf:li rdf:resource="http://identifiers.org/seed.reaction/rxn10127"/>
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+        </sbml:annotation>
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+          <speciesReference species="M_mql8_c" stoichiometry="1" constant="true"/>
+          <speciesReference species="M_tmao_p" stoichiometry="1" constant="true"/>
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+        <listOfProducts>
+          <speciesReference species="M_h2o_p" stoichiometry="1" constant="true"/>
+          <speciesReference species="M_mqn8_c" stoichiometry="1" constant="true"/>
+          <speciesReference species="M_tma_p" stoichiometry="1" constant="true"/>
+        </listOfProducts>
+        <fbc:geneProductAssociation>
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+              <fbc:geneProductRef fbc:geneProduct="G_b0997"/>
+              <fbc:geneProductRef fbc:geneProduct="G_b0996"/>
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+              <fbc:geneProductRef fbc:geneProduct="G_b1872"/>
+              <fbc:geneProductRef fbc:geneProduct="G_b1873"/>
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+        </fbc:geneProductAssociation>
+      </reaction>
+      <reaction id="R_TMAOR2pp" fast="false" reversible="false" name="Trimethylamine N-oxide reductase (demethylmenaquinol 8) (periplasm)" metaid="R_TMAOR2pp" sboTerm="SBO:0000185" fbc:upperFluxBound="cobra_default_ub" fbc:lowerFluxBound="cobra_0_bound">
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+              <bqbiol:is xmlns:bqbiol="http://biomodels.net/biology-qualifiers/">
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+                  <rdf:li rdf:resource="http://identifiers.org/metanetx.reaction/MNXR104881"/>
+                  <rdf:li rdf:resource="http://identifiers.org/seed.reaction/rxn09316"/>
+                  <rdf:li rdf:resource="http://identifiers.org/seed.reaction/rxn10128"/>
+                </rdf:Bag>
+              </bqbiol:is>
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+        </sbml:annotation>
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+          <speciesReference species="M_h_p" stoichiometry="1" constant="true"/>
+          <speciesReference species="M_tmao_p" stoichiometry="1" constant="true"/>
+        </listOfReactants>
+        <listOfProducts>
+          <speciesReference species="M_2dmmq8_c" stoichiometry="1" constant="true"/>
+          <speciesReference species="M_h2o_p" stoichiometry="1" constant="true"/>
+          <speciesReference species="M_tma_p" stoichiometry="1" constant="true"/>
+        </listOfProducts>
+        <fbc:geneProductAssociation>
+          <fbc:or>
+            <fbc:and>
+              <fbc:geneProductRef fbc:geneProduct="G_b0997"/>
+              <fbc:geneProductRef fbc:geneProduct="G_b0996"/>
+            </fbc:and>
+            <fbc:and>
+              <fbc:geneProductRef fbc:geneProduct="G_b1872"/>
+              <fbc:geneProductRef fbc:geneProduct="G_b1873"/>
+            </fbc:and>
+          </fbc:or>
+        </fbc:geneProductAssociation>
+      </reaction>
+      <reaction id="R_XANtpp" fast="false" reversible="true" name="Xanthine reversible transport (periplasm)" metaid="R_XANtpp" sboTerm="SBO:0000185" fbc:upperFluxBound="cobra_default_ub" fbc:lowerFluxBound="cobra_default_lb">
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+              <bqbiol:is xmlns:bqbiol="http://biomodels.net/biology-qualifiers/">
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+                  <rdf:li rdf:resource="http://identifiers.org/seed.reaction/rxn09652"/>
+                  <rdf:li rdf:resource="http://identifiers.org/seed.reaction/rxn09378"/>
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+          <speciesReference species="M_xan_p" stoichiometry="1" constant="true"/>
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+        <listOfProducts>
+          <speciesReference species="M_xan_c" stoichiometry="1" constant="true"/>
+        </listOfProducts>
+      </reaction>
+      <reaction id="R_DAPtex" fast="false" reversible="true" name="1,5-Diaminopentane transport via diffusion (extracellular to periplasm)" metaid="R_DAPtex" sboTerm="SBO:0000185" fbc:upperFluxBound="cobra_default_ub" fbc:lowerFluxBound="cobra_default_lb">
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+          <speciesReference species="M_15dap_e" stoichiometry="1" constant="true"/>
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+        <listOfProducts>
+          <speciesReference species="M_15dap_p" stoichiometry="1" constant="true"/>
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+            <fbc:geneProductRef fbc:geneProduct="G_b0929"/>
+            <fbc:geneProductRef fbc:geneProduct="G_b1377"/>
+            <fbc:geneProductRef fbc:geneProduct="G_b2215"/>
+          </fbc:or>
+        </fbc:geneProductAssociation>
+      </reaction>
+      <reaction id="R_TRPt2rpp" fast="false" reversible="true" name="L-tryptophan reversible transport via proton symport (periplasm)" metaid="R_TRPt2rpp" sboTerm="SBO:0000185" fbc:upperFluxBound="cobra_default_ub" fbc:lowerFluxBound="cobra_default_lb">
+        <sbml:annotation xmlns:sbml="http://www.sbml.org/sbml/level3/version1/core">
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+                  <rdf:li rdf:resource="http://identifiers.org/biocyc/META:TRANS-RXN-76"/>
+                  <rdf:li rdf:resource="http://identifiers.org/metanetx.reaction/MNXR104950"/>
+                  <rdf:li rdf:resource="http://identifiers.org/rhea/28882"/>
+                  <rdf:li rdf:resource="http://identifiers.org/rhea/28881"/>
+                  <rdf:li rdf:resource="http://identifiers.org/rhea/28880"/>
+                  <rdf:li rdf:resource="http://identifiers.org/rhea/28879"/>
+                  <rdf:li rdf:resource="http://identifiers.org/seed.reaction/rxn09709"/>
+                  <rdf:li rdf:resource="http://identifiers.org/seed.reaction/rxn09326"/>
+                  <rdf:li rdf:resource="http://identifiers.org/seed.reaction/rxn05663"/>
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+            </rdf:Description>
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+          <speciesReference species="M_trp__L_p" stoichiometry="1" constant="true"/>
+        </listOfReactants>
+        <listOfProducts>
+          <speciesReference species="M_h_c" stoichiometry="1" constant="true"/>
+          <speciesReference species="M_trp__L_c" stoichiometry="1" constant="true"/>
+        </listOfProducts>
+        <fbc:geneProductAssociation>
+          <fbc:or>
+            <fbc:geneProductRef fbc:geneProduct="G_b3161"/>
+            <fbc:geneProductRef fbc:geneProduct="G_b3709"/>
+            <fbc:geneProductRef fbc:geneProduct="G_b0112"/>
+          </fbc:or>
+        </fbc:geneProductAssociation>
+      </reaction>
+      <reaction id="R_TYRt2rpp" fast="false" reversible="true" name="L-tyrosine reversible transport via proton symport (periplasm)" metaid="R_TYRt2rpp" sboTerm="SBO:0000185" fbc:upperFluxBound="cobra_default_ub" fbc:lowerFluxBound="cobra_default_lb">
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+                  <rdf:li rdf:resource="http://identifiers.org/metanetx.reaction/MNXR105003"/>
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+                  <rdf:li rdf:resource="http://identifiers.org/rhea/28875"/>
+                  <rdf:li rdf:resource="http://identifiers.org/rhea/28877"/>
+                  <rdf:li rdf:resource="http://identifiers.org/rhea/28878"/>
+                  <rdf:li rdf:resource="http://identifiers.org/seed.reaction/rxn09831"/>
+                  <rdf:li rdf:resource="http://identifiers.org/seed.reaction/rxn09338"/>
+                  <rdf:li rdf:resource="http://identifiers.org/seed.reaction/rxn13412"/>
+                  <rdf:li rdf:resource="http://identifiers.org/seed.reaction/rxn05301"/>
+                  <rdf:li rdf:resource="http://identifiers.org/seed.reaction/rxn09708"/>
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+        </sbml:annotation>
+        <listOfReactants>
+          <speciesReference species="M_h_p" stoichiometry="1" constant="true"/>
+          <speciesReference species="M_tyr__L_p" stoichiometry="1" constant="true"/>
+        </listOfReactants>
+        <listOfProducts>
+          <speciesReference species="M_h_c" stoichiometry="1" constant="true"/>
+          <speciesReference species="M_tyr__L_c" stoichiometry="1" constant="true"/>
+        </listOfProducts>
+        <fbc:geneProductAssociation>
+          <fbc:or>
+            <fbc:geneProductRef fbc:geneProduct="G_b1907"/>
+            <fbc:geneProductRef fbc:geneProduct="G_b0112"/>
+          </fbc:or>
+        </fbc:geneProductAssociation>
+      </reaction>
+      <reaction id="R_EX_tma_e" fast="false" reversible="false" name="Trimethylamine exchange" metaid="R_EX_tma_e" sboTerm="SBO:0000627" fbc:upperFluxBound="cobra_default_ub" fbc:lowerFluxBound="cobra_0_bound">
+        <sbml:annotation xmlns:sbml="http://www.sbml.org/sbml/level3/version1/core">
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+            <rdf:Description rdf:about="#R_EX_tma_e">
+              <bqbiol:is xmlns:bqbiol="http://biomodels.net/biology-qualifiers/">
+                <rdf:Bag>
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+                  <rdf:li rdf:resource="http://identifiers.org/seed.reaction/rxn09318"/>
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+        </sbml:annotation>
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+          <speciesReference species="M_tma_e" stoichiometry="1" constant="true"/>
+        </listOfReactants>
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+      <reaction id="R_URIt2pp_copy1" fast="false" reversible="false" name="Uridine transport in via proton symport (periplasm)" metaid="R_URIt2pp_copy1" sboTerm="SBO:0000176" fbc:upperFluxBound="cobra_default_ub" fbc:lowerFluxBound="cobra_0_bound">
+        <sbml:annotation xmlns:sbml="http://www.sbml.org/sbml/level3/version1/core">
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+                  <rdf:li rdf:resource="http://identifiers.org/rhea/29954"/>
+                  <rdf:li rdf:resource="http://identifiers.org/rhea/29952"/>
+                  <rdf:li rdf:resource="http://identifiers.org/rhea/29951"/>
+                  <rdf:li rdf:resource="http://identifiers.org/seed.reaction/rxn09371"/>
+                  <rdf:li rdf:resource="http://identifiers.org/seed.reaction/rxn05199"/>
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+              </bqbiol:is>
+            </rdf:Description>
+          </rdf:RDF>
+        </sbml:annotation>
+        <listOfReactants>
+          <speciesReference species="M_h_p" stoichiometry="1" constant="true"/>
+          <speciesReference species="M_uri_p" stoichiometry="1" constant="true"/>
+        </listOfReactants>
+        <listOfProducts>
+          <speciesReference species="M_h_c" stoichiometry="1" constant="true"/>
+          <speciesReference species="M_uri_c" stoichiometry="1" constant="true"/>
+        </listOfProducts>
+        <fbc:geneProductAssociation>
+          <fbc:or>
+            <fbc:geneProductRef fbc:geneProduct="G_b2964"/>
+            <fbc:geneProductRef fbc:geneProduct="G_b2393"/>
+          </fbc:or>
+        </fbc:geneProductAssociation>
+      </reaction>
+      <reaction id="R_URIt2pp_copy2" fast="false" reversible="true" name="Uridine transport in via proton symport (periplasm)" metaid="R_URIt2pp_copy2" sboTerm="SBO:0000176" fbc:upperFluxBound="cobra_default_ub" fbc:lowerFluxBound="cobra_default_lb">
+        <sbml:annotation xmlns:sbml="http://www.sbml.org/sbml/level3/version1/core">
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+                  <rdf:li rdf:resource="http://identifiers.org/rhea/29954"/>
+                  <rdf:li rdf:resource="http://identifiers.org/rhea/29952"/>
+                  <rdf:li rdf:resource="http://identifiers.org/rhea/29951"/>
+                  <rdf:li rdf:resource="http://identifiers.org/seed.reaction/rxn09371"/>
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+          </rdf:RDF>
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+          <speciesReference species="M_h_p" stoichiometry="1" constant="true"/>
+          <speciesReference species="M_uri_p" stoichiometry="1" constant="true"/>
+        </listOfReactants>
+        <listOfProducts>
+          <speciesReference species="M_h_c" stoichiometry="1" constant="true"/>
+          <speciesReference species="M_uri_c" stoichiometry="1" constant="true"/>
+        </listOfProducts>
+        <fbc:geneProductAssociation>
+          <fbc:geneProductRef fbc:geneProduct="G_b2406"/>
+        </fbc:geneProductAssociation>
+      </reaction>
+      <reaction id="R_VALabcpp" fast="false" reversible="false" name="L-valine transport via ABC system (periplasm)" metaid="R_VALabcpp" sboTerm="SBO:0000185" fbc:upperFluxBound="cobra_default_ub" fbc:lowerFluxBound="cobra_0_bound">
+        <sbml:annotation xmlns:sbml="http://www.sbml.org/sbml/level3/version1/core">
+          <rdf:RDF xmlns:rdf="http://www.w3.org/1999/02/22-rdf-syntax-ns#">
+            <rdf:Description rdf:about="#R_VALabcpp">
+              <bqbiol:is xmlns:bqbiol="http://biomodels.net/biology-qualifiers/">
+                <rdf:Bag>
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+                  <rdf:li rdf:resource="http://identifiers.org/biocyc/META:ABC-36-RXN"/>
+                  <rdf:li rdf:resource="http://identifiers.org/metanetx.reaction/MNXR105187"/>
+                  <rdf:li rdf:resource="http://identifiers.org/rhea/29805#2"/>
+                  <rdf:li rdf:resource="http://identifiers.org/rhea/29803#2"/>
+                  <rdf:li rdf:resource="http://identifiers.org/rhea/29806#2"/>
+                  <rdf:li rdf:resource="http://identifiers.org/rhea/29804#2"/>
+                  <rdf:li rdf:resource="http://identifiers.org/seed.reaction/rxn05168"/>
+                  <rdf:li rdf:resource="http://identifiers.org/seed.reaction/rxn09373"/>
+                </rdf:Bag>
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+            </rdf:Description>
+          </rdf:RDF>
+        </sbml:annotation>
+        <listOfReactants>
+          <speciesReference species="M_atp_c" stoichiometry="1" constant="true"/>
+          <speciesReference species="M_h2o_c" stoichiometry="1" constant="true"/>
+          <speciesReference species="M_val__L_p" stoichiometry="1" constant="true"/>
+        </listOfReactants>
+        <listOfProducts>
+          <speciesReference species="M_adp_c" stoichiometry="1" constant="true"/>
+          <speciesReference species="M_h_c" stoichiometry="1" constant="true"/>
+          <speciesReference species="M_pi_c" stoichiometry="1" constant="true"/>
+          <speciesReference species="M_val__L_c" stoichiometry="1" constant="true"/>
+        </listOfProducts>
+        <fbc:geneProductAssociation>
+          <fbc:and>
+            <fbc:geneProductRef fbc:geneProduct="G_b3457"/>
+            <fbc:geneProductRef fbc:geneProduct="G_b3456"/>
+            <fbc:geneProductRef fbc:geneProduct="G_b3460"/>
+            <fbc:geneProductRef fbc:geneProduct="G_b3455"/>
+            <fbc:geneProductRef fbc:geneProduct="G_b3454"/>
+          </fbc:and>
+        </fbc:geneProductAssociation>
+      </reaction>
+      <reaction id="R_12PPDStex" fast="false" reversible="true" name="(S)-Propane-1,2-diol transport via diffusion (extracellular to periplasm)" metaid="R_12PPDStex" sboTerm="SBO:0000185" fbc:upperFluxBound="cobra_default_ub" fbc:lowerFluxBound="cobra_default_lb">
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+              <bqbiol:is xmlns:bqbiol="http://biomodels.net/biology-qualifiers/">
+                <rdf:Bag>
+                  <rdf:li rdf:resource="http://identifiers.org/bigg.reaction/12PPDStex"/>
+                  <rdf:li rdf:resource="http://identifiers.org/metanetx.reaction/MNXR94684"/>
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+              </bqbiol:is>
+            </rdf:Description>
+          </rdf:RDF>
+        </sbml:annotation>
+        <listOfReactants>
+          <speciesReference species="M_12ppd__S_e" stoichiometry="1" constant="true"/>
+        </listOfReactants>
+        <listOfProducts>
+          <speciesReference species="M_12ppd__S_p" stoichiometry="1" constant="true"/>
+        </listOfProducts>
+        <fbc:geneProductAssociation>
+          <fbc:or>
+            <fbc:geneProductRef fbc:geneProduct="G_b0241"/>
+            <fbc:geneProductRef fbc:geneProduct="G_b0929"/>
+            <fbc:geneProductRef fbc:geneProduct="G_b1377"/>
+            <fbc:geneProductRef fbc:geneProduct="G_b2215"/>
+          </fbc:or>
+        </fbc:geneProductAssociation>
+      </reaction>
+      <reaction id="R_DDGLCNtex" fast="false" reversible="true" name="2-dehydro-3-deoxy-D-gluconate transport via diffusion (extracellular to periplasm)" metaid="R_DDGLCNtex" sboTerm="SBO:0000185" fbc:upperFluxBound="cobra_default_ub" fbc:lowerFluxBound="cobra_default_lb">
+        <sbml:annotation xmlns:sbml="http://www.sbml.org/sbml/level3/version1/core">
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+                  <rdf:li rdf:resource="http://identifiers.org/metanetx.reaction/MNXR138208"/>
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+          <speciesReference species="M_2ddglcn_e" stoichiometry="1" constant="true"/>
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+        <listOfProducts>
+          <speciesReference species="M_2ddglcn_p" stoichiometry="1" constant="true"/>
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+            <fbc:geneProductRef fbc:geneProduct="G_b2215"/>
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+        </fbc:geneProductAssociation>
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+      <reaction id="R_XTSNt2rpp" fast="false" reversible="true" name="Xanthosine transport via proton symport (periplasm)" metaid="R_XTSNt2rpp" sboTerm="SBO:0000185" fbc:upperFluxBound="cobra_default_ub" fbc:lowerFluxBound="cobra_default_lb">
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+                  <rdf:li rdf:resource="http://identifiers.org/seed.reaction/rxn09381"/>
+                  <rdf:li rdf:resource="http://identifiers.org/seed.reaction/rxn05680"/>
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+          <speciesReference species="M_h_p" stoichiometry="1" constant="true"/>
+          <speciesReference species="M_xtsn_p" stoichiometry="1" constant="true"/>
+        </listOfReactants>
+        <listOfProducts>
+          <speciesReference species="M_h_c" stoichiometry="1" constant="true"/>
+          <speciesReference species="M_xtsn_c" stoichiometry="1" constant="true"/>
+        </listOfProducts>
+        <fbc:geneProductAssociation>
+          <fbc:geneProductRef fbc:geneProduct="G_b2406"/>
+        </fbc:geneProductAssociation>
+      </reaction>
+      <reaction id="R_XYLabcpp" fast="false" reversible="false" name="D-xylose transport via ABC system (periplasm)" metaid="R_XYLabcpp" sboTerm="SBO:0000185" fbc:upperFluxBound="cobra_default_ub" fbc:lowerFluxBound="cobra_0_bound">
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+                  <rdf:li rdf:resource="http://identifiers.org/rhea/29900#1"/>
+                  <rdf:li rdf:resource="http://identifiers.org/rhea/29899#1"/>
+                  <rdf:li rdf:resource="http://identifiers.org/rhea/29901#1"/>
+                  <rdf:li rdf:resource="http://identifiers.org/seed.reaction/rxn05167"/>
+                  <rdf:li rdf:resource="http://identifiers.org/seed.reaction/rxn09383"/>
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+          <speciesReference species="M_h2o_c" stoichiometry="1" constant="true"/>
+          <speciesReference species="M_xyl__D_p" stoichiometry="1" constant="true"/>
+        </listOfReactants>
+        <listOfProducts>
+          <speciesReference species="M_adp_c" stoichiometry="1" constant="true"/>
+          <speciesReference species="M_h_c" stoichiometry="1" constant="true"/>
+          <speciesReference species="M_pi_c" stoichiometry="1" constant="true"/>
+          <speciesReference species="M_xyl__D_c" stoichiometry="1" constant="true"/>
+        </listOfProducts>
+        <fbc:geneProductAssociation>
+          <fbc:and>
+            <fbc:geneProductRef fbc:geneProduct="G_b3568"/>
+            <fbc:geneProductRef fbc:geneProduct="G_b3566"/>
+            <fbc:geneProductRef fbc:geneProduct="G_b3567"/>
+          </fbc:and>
+        </fbc:geneProductAssociation>
+      </reaction>
+      <reaction id="R_GMHEPK" fast="false" reversible="false" name="D-glycero-D-manno-heptose 7-phosphate kinase" metaid="R_GMHEPK" sboTerm="SBO:0000176" fbc:upperFluxBound="cobra_default_ub" fbc:lowerFluxBound="cobra_0_bound">
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+        </sbml:annotation>
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+          <speciesReference species="M_atp_c" stoichiometry="1" constant="true"/>
+          <speciesReference species="M_gmhep7p_c" stoichiometry="1" constant="true"/>
+        </listOfReactants>
+        <listOfProducts>
+          <speciesReference species="M_adp_c" stoichiometry="1" constant="true"/>
+          <speciesReference species="M_gmhep17bp_c" stoichiometry="1" constant="true"/>
+          <speciesReference species="M_h_c" stoichiometry="1" constant="true"/>
+        </listOfProducts>
+        <fbc:geneProductAssociation>
+          <fbc:geneProductRef fbc:geneProduct="G_b3052"/>
+        </fbc:geneProductAssociation>
+      </reaction>
+      <reaction id="R_XYLUt2pp" fast="false" reversible="false" name="L-xylulose transport in via proton symport (periplasm)" metaid="R_XYLUt2pp" sboTerm="SBO:0000185" fbc:upperFluxBound="cobra_default_ub" fbc:lowerFluxBound="cobra_0_bound">
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+            <rdf:Description rdf:about="#R_XYLUt2pp">
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+                <rdf:Bag>
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+                  <rdf:li rdf:resource="http://identifiers.org/metanetx.reaction/MNXR138930"/>
+                  <rdf:li rdf:resource="http://identifiers.org/seed.reaction/rxn09386"/>
+                </rdf:Bag>
+              </bqbiol:is>
+            </rdf:Description>
+          </rdf:RDF>
+        </sbml:annotation>
+        <listOfReactants>
+          <speciesReference species="M_h_p" stoichiometry="1" constant="true"/>
+          <speciesReference species="M_xylu__L_p" stoichiometry="1" constant="true"/>
+        </listOfReactants>
+        <listOfProducts>
+          <speciesReference species="M_h_c" stoichiometry="1" constant="true"/>
+          <speciesReference species="M_xylu__L_c" stoichiometry="1" constant="true"/>
+        </listOfProducts>
+        <fbc:geneProductAssociation>
+          <fbc:and>
+            <fbc:geneProductRef fbc:geneProduct="G_b3577"/>
+            <fbc:geneProductRef fbc:geneProduct="G_b3578"/>
+            <fbc:geneProductRef fbc:geneProduct="G_b3579"/>
+          </fbc:and>
+        </fbc:geneProductAssociation>
+      </reaction>
+      <reaction id="R_THRt4pp" fast="false" reversible="false" name="L-threonine  via sodium symport (periplasm)" metaid="R_THRt4pp" sboTerm="SBO:0000185" fbc:upperFluxBound="cobra_default_ub" fbc:lowerFluxBound="cobra_0_bound">
+        <sbml:annotation xmlns:sbml="http://www.sbml.org/sbml/level3/version1/core">
+          <rdf:RDF xmlns:rdf="http://www.w3.org/1999/02/22-rdf-syntax-ns#">
+            <rdf:Description rdf:about="#R_THRt4pp">
+              <bqbiol:is xmlns:bqbiol="http://biomodels.net/biology-qualifiers/">
+                <rdf:Bag>
+                  <rdf:li rdf:resource="http://identifiers.org/bigg.reaction/THRt4pp"/>
+                  <rdf:li rdf:resource="http://identifiers.org/metanetx.reaction/MNXR104842"/>
+                  <rdf:li rdf:resource="http://identifiers.org/seed.reaction/rxn10186"/>
+                  <rdf:li rdf:resource="http://identifiers.org/seed.reaction/rxn09306"/>
+                </rdf:Bag>
+              </bqbiol:is>
+            </rdf:Description>
+          </rdf:RDF>
+        </sbml:annotation>
+        <listOfReactants>
+          <speciesReference species="M_na1_p" stoichiometry="1" constant="true"/>
+          <speciesReference species="M_thr__L_p" stoichiometry="1" constant="true"/>
+        </listOfReactants>
+        <listOfProducts>
+          <speciesReference species="M_na1_c" stoichiometry="1" constant="true"/>
+          <speciesReference species="M_thr__L_c" stoichiometry="1" constant="true"/>
+        </listOfProducts>
+        <fbc:geneProductAssociation>
+          <fbc:geneProductRef fbc:geneProduct="G_b3089"/>
+        </fbc:geneProductAssociation>
+      </reaction>
+      <reaction id="R_GALURtex" fast="false" reversible="true" name="D-galacturonate transport via diffusion (extracellular to periplasm)" metaid="R_GALURtex" sboTerm="SBO:0000185" fbc:upperFluxBound="cobra_default_ub" fbc:lowerFluxBound="cobra_default_lb">
+        <sbml:annotation xmlns:sbml="http://www.sbml.org/sbml/level3/version1/core">
+          <rdf:RDF xmlns:rdf="http://www.w3.org/1999/02/22-rdf-syntax-ns#">
+            <rdf:Description rdf:about="#R_GALURtex">
+              <bqbiol:is xmlns:bqbiol="http://biomodels.net/biology-qualifiers/">
+                <rdf:Bag>
+                  <rdf:li rdf:resource="http://identifiers.org/bigg.reaction/GALURtex"/>
+                  <rdf:li rdf:resource="http://identifiers.org/metanetx.reaction/MNXR100021"/>
+                  <rdf:li rdf:resource="http://identifiers.org/seed.reaction/rxn08589"/>
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+              </bqbiol:is>
+            </rdf:Description>
+          </rdf:RDF>
+        </sbml:annotation>
+        <listOfReactants>
+          <speciesReference species="M_galur_e" stoichiometry="1" constant="true"/>
+        </listOfReactants>
+        <listOfProducts>
+          <speciesReference species="M_galur_p" stoichiometry="1" constant="true"/>
+        </listOfProducts>
+        <fbc:geneProductAssociation>
+          <fbc:or>
+            <fbc:geneProductRef fbc:geneProduct="G_b0241"/>
+            <fbc:geneProductRef fbc:geneProduct="G_b0929"/>
+            <fbc:geneProductRef fbc:geneProduct="G_b1377"/>
+            <fbc:geneProductRef fbc:geneProduct="G_b2215"/>
+          </fbc:or>
+        </fbc:geneProductAssociation>
+      </reaction>
+      <reaction id="R_GTPCI" fast="false" reversible="false" name="GTP cyclohydrolase I" metaid="R_GTPCI" sboTerm="SBO:0000176" fbc:upperFluxBound="cobra_default_ub" fbc:lowerFluxBound="cobra_0_bound">
+        <sbml:annotation xmlns:sbml="http://www.sbml.org/sbml/level3/version1/core">
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+            <rdf:Description rdf:about="#R_GTPCI">
+              <bqbiol:is xmlns:bqbiol="http://biomodels.net/biology-qualifiers/">
+                <rdf:Bag>
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+                  <rdf:li rdf:resource="http://identifiers.org/biocyc/META:GTP-CYCLOHYDRO-I-RXN"/>
+                  <rdf:li rdf:resource="http://identifiers.org/ec-code/3.5.4.16"/>
+                  <rdf:li rdf:resource="http://identifiers.org/kegg.reaction/R00424"/>
+                  <rdf:li rdf:resource="http://identifiers.org/metanetx.reaction/MNXR100453"/>
+                  <rdf:li rdf:resource="http://identifiers.org/reactome.reaction/R-ATH-1474146"/>
+                  <rdf:li rdf:resource="http://identifiers.org/reactome.reaction/R-TGU-1474146"/>
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+                  <rdf:li rdf:resource="http://identifiers.org/reactome.reaction/R-DME-1474146"/>
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+                  <rdf:li rdf:resource="http://identifiers.org/reactome.reaction/R-CEL-1474146"/>
+                  <rdf:li rdf:resource="http://identifiers.org/reactome.reaction/R-PFA-1474146"/>
+                  <rdf:li rdf:resource="http://identifiers.org/reactome.reaction/R-RNO-1474146"/>
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+                  <rdf:li rdf:resource="http://identifiers.org/reactome.reaction/R-BTA-1474146"/>
+                  <rdf:li rdf:resource="http://identifiers.org/reactome.reaction/R-SPO-1474146"/>
+                  <rdf:li rdf:resource="http://identifiers.org/reactome.reaction/R-GGA-1474146"/>
+                  <rdf:li rdf:resource="http://identifiers.org/reactome.reaction/R-OSA-1474146"/>
+                  <rdf:li rdf:resource="http://identifiers.org/reactome.reaction/R-CFA-1474146"/>
+                  <rdf:li rdf:resource="http://identifiers.org/reactome.reaction/R-SCE-1474146"/>
+                  <rdf:li rdf:resource="http://identifiers.org/rhea/17476"/>
+                  <rdf:li rdf:resource="http://identifiers.org/rhea/17473"/>
+                  <rdf:li rdf:resource="http://identifiers.org/rhea/17474"/>
+                  <rdf:li rdf:resource="http://identifiers.org/rhea/17475"/>
+                  <rdf:li rdf:resource="http://identifiers.org/sabiork/9177"/>
+                  <rdf:li rdf:resource="http://identifiers.org/seed.reaction/rxn00299"/>
+                  <rdf:li rdf:resource="http://identifiers.org/seed.reaction/rxn11232"/>
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+          </rdf:RDF>
+        </sbml:annotation>
+        <listOfReactants>
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+          <speciesReference species="M_h2o_c" stoichiometry="1" constant="true"/>
+        </listOfReactants>
+        <listOfProducts>
+          <speciesReference species="M_ahdt_c" stoichiometry="1" constant="true"/>
+          <speciesReference species="M_for_c" stoichiometry="1" constant="true"/>
+          <speciesReference species="M_h_c" stoichiometry="1" constant="true"/>
+        </listOfProducts>
+        <fbc:geneProductAssociation>
+          <fbc:geneProductRef fbc:geneProduct="G_b2153"/>
+        </fbc:geneProductAssociation>
+      </reaction>
+      <reaction id="R_FDMO" fast="false" reversible="false" name="FMNH2-dependent monooxygenase" metaid="R_FDMO" sboTerm="SBO:0000176" fbc:upperFluxBound="cobra_default_ub" fbc:lowerFluxBound="cobra_0_bound">
+        <sbml:annotation xmlns:sbml="http://www.sbml.org/sbml/level3/version1/core">
+          <rdf:RDF xmlns:rdf="http://www.w3.org/1999/02/22-rdf-syntax-ns#">
+            <rdf:Description rdf:about="#R_FDMO">
+              <bqbiol:is xmlns:bqbiol="http://biomodels.net/biology-qualifiers/">
+                <rdf:Bag>
+                  <rdf:li rdf:resource="http://identifiers.org/bigg.reaction/FDMO"/>
+                  <rdf:li rdf:resource="http://identifiers.org/biocyc/META:RXN-13418"/>
+                  <rdf:li rdf:resource="http://identifiers.org/ec-code/1.14.14.5"/>
+                  <rdf:li rdf:resource="http://identifiers.org/metanetx.reaction/MNXR99485"/>
+                  <rdf:li rdf:resource="http://identifiers.org/rhea/29718"/>
+                  <rdf:li rdf:resource="http://identifiers.org/rhea/29715"/>
+                  <rdf:li rdf:resource="http://identifiers.org/rhea/29716"/>
+                  <rdf:li rdf:resource="http://identifiers.org/rhea/29717"/>
+                  <rdf:li rdf:resource="http://identifiers.org/seed.reaction/rxn08467"/>
+                </rdf:Bag>
+              </bqbiol:is>
+            </rdf:Description>
+          </rdf:RDF>
+        </sbml:annotation>
+        <listOfReactants>
+          <speciesReference species="M_fmnh2_c" stoichiometry="1" constant="true"/>
+          <speciesReference species="M_isetac_c" stoichiometry="1" constant="true"/>
+          <speciesReference species="M_o2_c" stoichiometry="1" constant="true"/>
+        </listOfReactants>
+        <listOfProducts>
+          <speciesReference species="M_fmn_c" stoichiometry="1" constant="true"/>
+          <speciesReference species="M_gcald_c" stoichiometry="1" constant="true"/>
+          <speciesReference species="M_h2o_c" stoichiometry="1" constant="true"/>
+          <speciesReference species="M_h_c" stoichiometry="1" constant="true"/>
+          <speciesReference species="M_so3_c" stoichiometry="1" constant="true"/>
+        </listOfProducts>
+        <fbc:geneProductAssociation>
+          <fbc:geneProductRef fbc:geneProduct="G_b0935"/>
+        </fbc:geneProductAssociation>
+      </reaction>
+      <reaction id="R_FEOXAMabcpp" fast="false" reversible="false" name="Ferroxamine transport via ABC system (periplasm)" metaid="R_FEOXAMabcpp" sboTerm="SBO:0000185" fbc:upperFluxBound="cobra_default_ub" fbc:lowerFluxBound="cobra_0_bound">
+        <sbml:annotation xmlns:sbml="http://www.sbml.org/sbml/level3/version1/core">
+          <rdf:RDF xmlns:rdf="http://www.w3.org/1999/02/22-rdf-syntax-ns#">
+            <rdf:Description rdf:about="#R_FEOXAMabcpp">
+              <bqbiol:is xmlns:bqbiol="http://biomodels.net/biology-qualifiers/">
+                <rdf:Bag>
+                  <rdf:li rdf:resource="http://identifiers.org/bigg.reaction/FEOXAMabcpp"/>
+                  <rdf:li rdf:resource="http://identifiers.org/metanetx.reaction/MNXR143100"/>
+                  <rdf:li rdf:resource="http://identifiers.org/seed.reaction/rxn08509"/>
+                  <rdf:li rdf:resource="http://identifiers.org/seed.reaction/rxn05558"/>
+                </rdf:Bag>
+              </bqbiol:is>
+            </rdf:Description>
+          </rdf:RDF>
+        </sbml:annotation>
+        <listOfReactants>
+          <speciesReference species="M_atp_c" stoichiometry="1" constant="true"/>
+          <speciesReference species="M_feoxam_p" stoichiometry="1" constant="true"/>
+          <speciesReference species="M_h2o_c" stoichiometry="1" constant="true"/>
+        </listOfReactants>
+        <listOfProducts>
+          <speciesReference species="M_adp_c" stoichiometry="1" constant="true"/>
+          <speciesReference species="M_feoxam_c" stoichiometry="1" constant="true"/>
+          <speciesReference species="M_h_c" stoichiometry="1" constant="true"/>
+          <speciesReference species="M_pi_c" stoichiometry="1" constant="true"/>
+        </listOfProducts>
+        <fbc:geneProductAssociation>
+          <fbc:and>
+            <fbc:geneProductRef fbc:geneProduct="G_b0152"/>
+            <fbc:geneProductRef fbc:geneProduct="G_b0153"/>
+            <fbc:geneProductRef fbc:geneProduct="G_b0151"/>
+          </fbc:and>
+        </fbc:geneProductAssociation>
+      </reaction>
+      <reaction id="R_EX_fruur_e" fast="false" reversible="false" name="D-Fructuronate exchange" metaid="R_EX_fruur_e" sboTerm="SBO:0000627" fbc:upperFluxBound="cobra_default_ub" fbc:lowerFluxBound="cobra_0_bound">
+        <sbml:annotation xmlns:sbml="http://www.sbml.org/sbml/level3/version1/core">
+          <rdf:RDF xmlns:rdf="http://www.w3.org/1999/02/22-rdf-syntax-ns#">
+            <rdf:Description rdf:about="#R_EX_fruur_e">
+              <bqbiol:is xmlns:bqbiol="http://biomodels.net/biology-qualifiers/">
+                <rdf:Bag>
+                  <rdf:li rdf:resource="http://identifiers.org/bigg.reaction/EX_fruur_e"/>
+                  <rdf:li rdf:resource="http://identifiers.org/metanetx.reaction/MNXR99659"/>
+                  <rdf:li rdf:resource="http://identifiers.org/seed.reaction/rxn08539"/>
+                </rdf:Bag>
+              </bqbiol:is>
+            </rdf:Description>
+          </rdf:RDF>
+        </sbml:annotation>
+        <listOfReactants>
+          <speciesReference species="M_fruur_e" stoichiometry="1" constant="true"/>
+        </listOfReactants>
+      </reaction>
+      <reaction id="R_GALtex" fast="false" reversible="true" name="D-galactose transport via diffusion (extracellular to periplasm)" metaid="R_GALtex" sboTerm="SBO:0000185" fbc:upperFluxBound="cobra_default_ub" fbc:lowerFluxBound="cobra_default_lb">
+        <sbml:annotation xmlns:sbml="http://www.sbml.org/sbml/level3/version1/core">
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+              <bqbiol:is xmlns:bqbiol="http://biomodels.net/biology-qualifiers/">
+                <rdf:Bag>
+                  <rdf:li rdf:resource="http://identifiers.org/bigg.reaction/GALtex"/>
+                  <rdf:li rdf:resource="http://identifiers.org/metanetx.reaction/MNXR100025"/>
+                  <rdf:li rdf:resource="http://identifiers.org/rhea/34918"/>
+                  <rdf:li rdf:resource="http://identifiers.org/rhea/34917"/>
+                  <rdf:li rdf:resource="http://identifiers.org/rhea/34916"/>
+                  <rdf:li rdf:resource="http://identifiers.org/rhea/34915"/>
+                  <rdf:li rdf:resource="http://identifiers.org/sabiork/7001"/>
+                  <rdf:li rdf:resource="http://identifiers.org/seed.reaction/rxn10911"/>
+                  <rdf:li rdf:resource="http://identifiers.org/seed.reaction/rxn08585"/>
+                </rdf:Bag>
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+            </rdf:Description>
+          </rdf:RDF>
+        </sbml:annotation>
+        <listOfReactants>
+          <speciesReference species="M_gal_e" stoichiometry="1" constant="true"/>
+        </listOfReactants>
+        <listOfProducts>
+          <speciesReference species="M_gal_p" stoichiometry="1" constant="true"/>
+        </listOfProducts>
+        <fbc:geneProductAssociation>
+          <fbc:or>
+            <fbc:geneProductRef fbc:geneProduct="G_b0241"/>
+            <fbc:geneProductRef fbc:geneProduct="G_b0929"/>
+            <fbc:geneProductRef fbc:geneProduct="G_b1377"/>
+            <fbc:geneProductRef fbc:geneProduct="G_b2215"/>
+          </fbc:or>
+        </fbc:geneProductAssociation>
+      </reaction>
+      <reaction id="R_CBL1abcpp" fast="false" reversible="false" name="Cob(1)alamin transport via ABC system (periplasm)" metaid="R_CBL1abcpp" sboTerm="SBO:0000185" fbc:upperFluxBound="cobra_default_ub" fbc:lowerFluxBound="cobra_0_bound">
+        <sbml:annotation xmlns:sbml="http://www.sbml.org/sbml/level3/version1/core">
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+            <rdf:Description rdf:about="#R_CBL1abcpp">
+              <bqbiol:is xmlns:bqbiol="http://biomodels.net/biology-qualifiers/">
+                <rdf:Bag>
+                  <rdf:li rdf:resource="http://identifiers.org/bigg.reaction/CBL1abcpp"/>
+                  <rdf:li rdf:resource="http://identifiers.org/biocyc/META:ABC-5-RXN"/>
+                  <rdf:li rdf:resource="http://identifiers.org/ec-code/3.6.3.33"/>
+                  <rdf:li rdf:resource="http://identifiers.org/metanetx.reaction/MNXR96471"/>
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+            </rdf:Description>
+          </rdf:RDF>
+        </sbml:annotation>
+        <listOfReactants>
+          <speciesReference species="M_atp_c" stoichiometry="1" constant="true"/>
+          <speciesReference species="M_cbl1_p" stoichiometry="1" constant="true"/>
+          <speciesReference species="M_h2o_c" stoichiometry="1" constant="true"/>
+        </listOfReactants>
+        <listOfProducts>
+          <speciesReference species="M_adp_c" stoichiometry="1" constant="true"/>
+          <speciesReference species="M_cbl1_c" stoichiometry="1" constant="true"/>
+          <speciesReference species="M_h_c" stoichiometry="1" constant="true"/>
+          <speciesReference species="M_pi_c" stoichiometry="1" constant="true"/>
+        </listOfProducts>
+        <fbc:geneProductAssociation>
+          <fbc:and>
+            <fbc:geneProductRef fbc:geneProduct="G_b1709"/>
+            <fbc:geneProductRef fbc:geneProduct="G_b0158"/>
+            <fbc:geneProductRef fbc:geneProduct="G_b1711"/>
+          </fbc:and>
+        </fbc:geneProductAssociation>
+      </reaction>
+      <reaction id="R_EX_malttr_e" fast="false" reversible="false" name="Maltotriose exchange" metaid="R_EX_malttr_e" sboTerm="SBO:0000627" fbc:upperFluxBound="cobra_default_ub" fbc:lowerFluxBound="cobra_0_bound">
+        <sbml:annotation xmlns:sbml="http://www.sbml.org/sbml/level3/version1/core">
+          <rdf:RDF xmlns:rdf="http://www.w3.org/1999/02/22-rdf-syntax-ns#">
+            <rdf:Description rdf:about="#R_EX_malttr_e">
+              <bqbiol:is xmlns:bqbiol="http://biomodels.net/biology-qualifiers/">
+                <rdf:Bag>
+                  <rdf:li rdf:resource="http://identifiers.org/bigg.reaction/EX_malttr_e"/>
+                  <rdf:li rdf:resource="http://identifiers.org/metanetx.reaction/MNXR101359"/>
+                  <rdf:li rdf:resource="http://identifiers.org/sabiork/11212"/>
+                  <rdf:li rdf:resource="http://identifiers.org/seed.reaction/rxn08876"/>
+                </rdf:Bag>
+              </bqbiol:is>
+            </rdf:Description>
+          </rdf:RDF>
+        </sbml:annotation>
+        <listOfReactants>
+          <speciesReference species="M_malttr_e" stoichiometry="1" constant="true"/>
+        </listOfReactants>
+      </reaction>
+      <reaction id="R_ACACt2pp" fast="false" reversible="true" name="Acetoacetate transport via proton symport  (periplasm)" metaid="R_ACACt2pp" sboTerm="SBO:0000185" fbc:upperFluxBound="cobra_default_ub" fbc:lowerFluxBound="cobra_default_lb">
+        <sbml:annotation xmlns:sbml="http://www.sbml.org/sbml/level3/version1/core">
+          <rdf:RDF xmlns:rdf="http://www.w3.org/1999/02/22-rdf-syntax-ns#">
+            <rdf:Description rdf:about="#R_ACACt2pp">
+              <bqbiol:is xmlns:bqbiol="http://biomodels.net/biology-qualifiers/">
+                <rdf:Bag>
+                  <rdf:li rdf:resource="http://identifiers.org/bigg.reaction/ACACt2pp"/>
+                  <rdf:li rdf:resource="http://identifiers.org/metanetx.reaction/MNXR95207"/>
+                  <rdf:li rdf:resource="http://identifiers.org/seed.reaction/rxn05484"/>
+                  <rdf:li rdf:resource="http://identifiers.org/seed.reaction/rxn08029"/>
+                </rdf:Bag>
+              </bqbiol:is>
+            </rdf:Description>
+          </rdf:RDF>
+        </sbml:annotation>
+        <listOfReactants>
+          <speciesReference species="M_acac_p" stoichiometry="1" constant="true"/>
+          <speciesReference species="M_h_p" stoichiometry="1" constant="true"/>
+        </listOfReactants>
+        <listOfProducts>
+          <speciesReference species="M_acac_c" stoichiometry="1" constant="true"/>
+          <speciesReference species="M_h_c" stoichiometry="1" constant="true"/>
+        </listOfProducts>
+        <fbc:geneProductAssociation>
+          <fbc:geneProductRef fbc:geneProduct="G_b2223"/>
+        </fbc:geneProductAssociation>
+      </reaction>
+      <reaction id="R_ACGAptspp" fast="false" reversible="false" name="N-Acetyl-D-glucosamine transport via PEP:Pyr PTS  (periplasm)" metaid="R_ACGAptspp" sboTerm="SBO:0000185" fbc:upperFluxBound="cobra_default_ub" fbc:lowerFluxBound="cobra_0_bound">
+        <sbml:annotation xmlns:sbml="http://www.sbml.org/sbml/level3/version1/core">
+          <rdf:RDF xmlns:rdf="http://www.w3.org/1999/02/22-rdf-syntax-ns#">
+            <rdf:Description rdf:about="#R_ACGAptspp">
+              <bqbiol:is xmlns:bqbiol="http://biomodels.net/biology-qualifiers/">
+                <rdf:Bag>
+                  <rdf:li rdf:resource="http://identifiers.org/bigg.reaction/ACGAptspp"/>
+                  <rdf:li rdf:resource="http://identifiers.org/metanetx.reaction/MNXR95253"/>
+                  <rdf:li rdf:resource="http://identifiers.org/seed.reaction/rxn08041"/>
+                  <rdf:li rdf:resource="http://identifiers.org/seed.reaction/rxn05485"/>
+                </rdf:Bag>
+              </bqbiol:is>
+            </rdf:Description>
+          </rdf:RDF>
+        </sbml:annotation>
+        <listOfReactants>
+          <speciesReference species="M_acgam_p" stoichiometry="1" constant="true"/>
+          <speciesReference species="M_pep_c" stoichiometry="1" constant="true"/>
+        </listOfReactants>
+        <listOfProducts>
+          <speciesReference species="M_acgam6p_c" stoichiometry="1" constant="true"/>
+          <speciesReference species="M_pyr_c" stoichiometry="1" constant="true"/>
+        </listOfProducts>
+        <fbc:geneProductAssociation>
+          <fbc:or>
+            <fbc:and>
+              <fbc:geneProductRef fbc:geneProduct="G_b2416"/>
+              <fbc:geneProductRef fbc:geneProduct="G_b2417"/>
+              <fbc:geneProductRef fbc:geneProduct="G_b2415"/>
+              <fbc:geneProductRef fbc:geneProduct="G_b1101"/>
+            </fbc:and>
+            <fbc:and>
+              <fbc:geneProductRef fbc:geneProduct="G_b2415"/>
+              <fbc:geneProductRef fbc:geneProduct="G_b2416"/>
+              <fbc:geneProductRef fbc:geneProduct="G_b0679"/>
+            </fbc:and>
+          </fbc:or>
+        </fbc:geneProductAssociation>
+      </reaction>
+      <reaction id="R_ACMANAptspp" fast="false" reversible="false" name="N-acetyl-D-mannosamine transport via PTS  (periplasm)" metaid="R_ACMANAptspp" sboTerm="SBO:0000185" fbc:upperFluxBound="cobra_default_ub" fbc:lowerFluxBound="cobra_0_bound">
+        <sbml:annotation xmlns:sbml="http://www.sbml.org/sbml/level3/version1/core">
+          <rdf:RDF xmlns:rdf="http://www.w3.org/1999/02/22-rdf-syntax-ns#">
+            <rdf:Description rdf:about="#R_ACMANAptspp">
+              <bqbiol:is xmlns:bqbiol="http://biomodels.net/biology-qualifiers/">
+                <rdf:Bag>
+                  <rdf:li rdf:resource="http://identifiers.org/bigg.reaction/ACMANAptspp"/>
+                  <rdf:li rdf:resource="http://identifiers.org/metanetx.reaction/MNXR95275"/>
+                  <rdf:li rdf:resource="http://identifiers.org/seed.reaction/rxn08046"/>
+                  <rdf:li rdf:resource="http://identifiers.org/seed.reaction/rxn10183"/>
+                </rdf:Bag>
+              </bqbiol:is>
+            </rdf:Description>
+          </rdf:RDF>
+        </sbml:annotation>
+        <listOfReactants>
+          <speciesReference species="M_acmana_p" stoichiometry="1" constant="true"/>
+          <speciesReference species="M_pep_c" stoichiometry="1" constant="true"/>
+        </listOfReactants>
+        <listOfProducts>
+          <speciesReference species="M_acmanap_c" stoichiometry="1" constant="true"/>
+          <speciesReference species="M_pyr_c" stoichiometry="1" constant="true"/>
+        </listOfProducts>
+        <fbc:geneProductAssociation>
+          <fbc:and>
+            <fbc:geneProductRef fbc:geneProduct="G_b2415"/>
+            <fbc:geneProductRef fbc:geneProduct="G_b1818"/>
+            <fbc:geneProductRef fbc:geneProduct="G_b2416"/>
+            <fbc:geneProductRef fbc:geneProduct="G_b1817"/>
+            <fbc:geneProductRef fbc:geneProduct="G_b1819"/>
+          </fbc:and>
+        </fbc:geneProductAssociation>
+      </reaction>
+      <reaction id="R_ACNAMt2pp" fast="false" reversible="false" name="N-acetylneuraminate proton symport (periplasm)" metaid="R_ACNAMt2pp" sboTerm="SBO:0000185" fbc:upperFluxBound="cobra_default_ub" fbc:lowerFluxBound="cobra_0_bound">
+        <sbml:annotation xmlns:sbml="http://www.sbml.org/sbml/level3/version1/core">
+          <rdf:RDF xmlns:rdf="http://www.w3.org/1999/02/22-rdf-syntax-ns#">
+            <rdf:Description rdf:about="#R_ACNAMt2pp">
+              <bqbiol:is xmlns:bqbiol="http://biomodels.net/biology-qualifiers/">
+                <rdf:Bag>
+                  <rdf:li rdf:resource="http://identifiers.org/bigg.reaction/ACNAMt2pp"/>
+                  <rdf:li rdf:resource="http://identifiers.org/biocyc/META:TRANS-RXN-25"/>
+                  <rdf:li rdf:resource="http://identifiers.org/biocyc/META:RXN-15314"/>
+                  <rdf:li rdf:resource="http://identifiers.org/metanetx.reaction/MNXR95291"/>
+                  <rdf:li rdf:resource="http://identifiers.org/rhea/28990"/>
+                  <rdf:li rdf:resource="http://identifiers.org/rhea/28989"/>
+                  <rdf:li rdf:resource="http://identifiers.org/rhea/28987"/>
+                  <rdf:li rdf:resource="http://identifiers.org/rhea/28988"/>
+                  <rdf:li rdf:resource="http://identifiers.org/seed.reaction/rxn05487"/>
+                  <rdf:li rdf:resource="http://identifiers.org/seed.reaction/rxn08050"/>
+                </rdf:Bag>
+              </bqbiol:is>
+            </rdf:Description>
+          </rdf:RDF>
+        </sbml:annotation>
+        <listOfReactants>
+          <speciesReference species="M_acnam_p" stoichiometry="1" constant="true"/>
+          <speciesReference species="M_h_p" stoichiometry="1" constant="true"/>
+        </listOfReactants>
+        <listOfProducts>
+          <speciesReference species="M_acnam_c" stoichiometry="1" constant="true"/>
+          <speciesReference species="M_h_c" stoichiometry="1" constant="true"/>
+        </listOfProducts>
+        <fbc:geneProductAssociation>
+          <fbc:geneProductRef fbc:geneProduct="G_b3224"/>
+        </fbc:geneProductAssociation>
+      </reaction>
+      <reaction id="R_GALCTtex" fast="false" reversible="true" name="D-galactarte transport via diffusion (extracellular to periplasm)" metaid="R_GALCTtex" sboTerm="SBO:0000185" fbc:upperFluxBound="cobra_default_ub" fbc:lowerFluxBound="cobra_default_lb">
+        <sbml:annotation xmlns:sbml="http://www.sbml.org/sbml/level3/version1/core">
+          <rdf:RDF xmlns:rdf="http://www.w3.org/1999/02/22-rdf-syntax-ns#">
+            <rdf:Description rdf:about="#R_GALCTtex">
+              <bqbiol:is xmlns:bqbiol="http://biomodels.net/biology-qualifiers/">
+                <rdf:Bag>
+                  <rdf:li rdf:resource="http://identifiers.org/bigg.reaction/GALCTtex"/>
+                  <rdf:li rdf:resource="http://identifiers.org/biocyc/META:TRANS-RXN0-203"/>
+                  <rdf:li rdf:resource="http://identifiers.org/metanetx.reaction/MNXR99963"/>
+                  <rdf:li rdf:resource="http://identifiers.org/rhea/28478"/>
+                  <rdf:li rdf:resource="http://identifiers.org/rhea/28480"/>
+                  <rdf:li rdf:resource="http://identifiers.org/rhea/28479"/>
+                  <rdf:li rdf:resource="http://identifiers.org/rhea/28481"/>
+                  <rdf:li rdf:resource="http://identifiers.org/seed.reaction/rxn12441"/>
+                  <rdf:li rdf:resource="http://identifiers.org/seed.reaction/rxn08581"/>
+                </rdf:Bag>
+              </bqbiol:is>
+            </rdf:Description>
+          </rdf:RDF>
+        </sbml:annotation>
+        <listOfReactants>
+          <speciesReference species="M_galct__D_e" stoichiometry="1" constant="true"/>
+        </listOfReactants>
+        <listOfProducts>
+          <speciesReference species="M_galct__D_p" stoichiometry="1" constant="true"/>
+        </listOfProducts>
+        <fbc:geneProductAssociation>
+          <fbc:or>
+            <fbc:geneProductRef fbc:geneProduct="G_b0241"/>
+            <fbc:geneProductRef fbc:geneProduct="G_b0929"/>
+            <fbc:geneProductRef fbc:geneProduct="G_b1377"/>
+            <fbc:geneProductRef fbc:geneProduct="G_b2215"/>
+          </fbc:or>
+        </fbc:geneProductAssociation>
+      </reaction>
+      <reaction id="R_GALCTNtex" fast="false" reversible="true" name="D-galactonate transport via diffusion (extracellular to periplasm)" metaid="R_GALCTNtex" sboTerm="SBO:0000185" fbc:upperFluxBound="cobra_default_ub" fbc:lowerFluxBound="cobra_default_lb">
+        <sbml:annotation xmlns:sbml="http://www.sbml.org/sbml/level3/version1/core">
+          <rdf:RDF xmlns:rdf="http://www.w3.org/1999/02/22-rdf-syntax-ns#">
+            <rdf:Description rdf:about="#R_GALCTNtex">
+              <bqbiol:is xmlns:bqbiol="http://biomodels.net/biology-qualifiers/">
+                <rdf:Bag>
+                  <rdf:li rdf:resource="http://identifiers.org/bigg.reaction/GALCTNtex"/>
+                  <rdf:li rdf:resource="http://identifiers.org/metanetx.reaction/MNXR99961"/>
+                  <rdf:li rdf:resource="http://identifiers.org/seed.reaction/rxn08579"/>
+                </rdf:Bag>
+              </bqbiol:is>
+            </rdf:Description>
+          </rdf:RDF>
+        </sbml:annotation>
+        <listOfReactants>
+          <speciesReference species="M_galctn__D_e" stoichiometry="1" constant="true"/>
+        </listOfReactants>
+        <listOfProducts>
+          <speciesReference species="M_galctn__D_p" stoichiometry="1" constant="true"/>
+        </listOfProducts>
+        <fbc:geneProductAssociation>
+          <fbc:or>
+            <fbc:geneProductRef fbc:geneProduct="G_b0241"/>
+            <fbc:geneProductRef fbc:geneProduct="G_b0929"/>
+            <fbc:geneProductRef fbc:geneProduct="G_b1377"/>
+            <fbc:geneProductRef fbc:geneProduct="G_b2215"/>
+          </fbc:or>
+        </fbc:geneProductAssociation>
+      </reaction>
+      <reaction id="R_GALTtex" fast="false" reversible="true" name="Galactitol transport via diffusion (extracellular to periplasm)" metaid="R_GALTtex" sboTerm="SBO:0000185" fbc:upperFluxBound="cobra_default_ub" fbc:lowerFluxBound="cobra_default_lb">
+        <sbml:annotation xmlns:sbml="http://www.sbml.org/sbml/level3/version1/core">
+          <rdf:RDF xmlns:rdf="http://www.w3.org/1999/02/22-rdf-syntax-ns#">
+            <rdf:Description rdf:about="#R_GALTtex">
+              <bqbiol:is xmlns:bqbiol="http://biomodels.net/biology-qualifiers/">
+                <rdf:Bag>
+                  <rdf:li rdf:resource="http://identifiers.org/bigg.reaction/GALTtex"/>
+                  <rdf:li rdf:resource="http://identifiers.org/metanetx.reaction/MNXR100019"/>
+                  <rdf:li rdf:resource="http://identifiers.org/rhea/33146"/>
+                  <rdf:li rdf:resource="http://identifiers.org/rhea/33144"/>
+                  <rdf:li rdf:resource="http://identifiers.org/rhea/33143"/>
+                  <rdf:li rdf:resource="http://identifiers.org/rhea/33145"/>
+                  <rdf:li rdf:resource="http://identifiers.org/seed.reaction/rxn08587"/>
+                </rdf:Bag>
+              </bqbiol:is>
+            </rdf:Description>
+          </rdf:RDF>
+        </sbml:annotation>
+        <listOfReactants>
+          <speciesReference species="M_galt_e" stoichiometry="1" constant="true"/>
+        </listOfReactants>
+        <listOfProducts>
+          <speciesReference species="M_galt_p" stoichiometry="1" constant="true"/>
+        </listOfProducts>
+        <fbc:geneProductAssociation>
+          <fbc:or>
+            <fbc:geneProductRef fbc:geneProduct="G_b0241"/>
+            <fbc:geneProductRef fbc:geneProduct="G_b0929"/>
+            <fbc:geneProductRef fbc:geneProduct="G_b1377"/>
+            <fbc:geneProductRef fbc:geneProduct="G_b2215"/>
+          </fbc:or>
+        </fbc:geneProductAssociation>
+      </reaction>
+      <reaction id="R_EX_cbi_e" fast="false" reversible="false" name="Cobinamide exchange" metaid="R_EX_cbi_e" sboTerm="SBO:0000627" fbc:upperFluxBound="cobra_default_ub" fbc:lowerFluxBound="cobra_0_bound">
+        <sbml:annotation xmlns:sbml="http://www.sbml.org/sbml/level3/version1/core">
+          <rdf:RDF xmlns:rdf="http://www.w3.org/1999/02/22-rdf-syntax-ns#">
+            <rdf:Description rdf:about="#R_EX_cbi_e">
+              <bqbiol:is xmlns:bqbiol="http://biomodels.net/biology-qualifiers/">
+                <rdf:Bag>
+                  <rdf:li rdf:resource="http://identifiers.org/bigg.reaction/EX_cbi_e"/>
+                  <rdf:li rdf:resource="http://identifiers.org/biocyc/META:TRANS-RXN0-283"/>
+                  <rdf:li rdf:resource="http://identifiers.org/metanetx.reaction/MNXR124011"/>
+                  <rdf:li rdf:resource="http://identifiers.org/rhea/29695"/>
+                  <rdf:li rdf:resource="http://identifiers.org/rhea/29697"/>
+                  <rdf:li rdf:resource="http://identifiers.org/rhea/29696"/>
+                  <rdf:li rdf:resource="http://identifiers.org/rhea/29698"/>
+                </rdf:Bag>
+              </bqbiol:is>
+            </rdf:Description>
+          </rdf:RDF>
+        </sbml:annotation>
+        <listOfReactants>
+          <speciesReference species="M_cbi_e" stoichiometry="1" constant="true"/>
+        </listOfReactants>
+      </reaction>
+      <reaction id="R_CHOLD" fast="false" reversible="false" name="Choline dehydrogenase" metaid="R_CHOLD" sboTerm="SBO:0000176" fbc:upperFluxBound="cobra_default_ub" fbc:lowerFluxBound="cobra_0_bound">
+        <sbml:annotation xmlns:sbml="http://www.sbml.org/sbml/level3/version1/core">
+          <rdf:RDF xmlns:rdf="http://www.w3.org/1999/02/22-rdf-syntax-ns#">
+            <rdf:Description rdf:about="#R_CHOLD">
+              <bqbiol:is xmlns:bqbiol="http://biomodels.net/biology-qualifiers/">
+                <rdf:Bag>
+                  <rdf:li rdf:resource="http://identifiers.org/bigg.reaction/CHOLD"/>
+                  <rdf:li rdf:resource="http://identifiers.org/biocyc/META:RXN-6021"/>
+                  <rdf:li rdf:resource="http://identifiers.org/ec-code/1.1.1"/>
+                  <rdf:li rdf:resource="http://identifiers.org/ec-code/1.1.1.1"/>
+                  <rdf:li rdf:resource="http://identifiers.org/kegg.reaction/R08557"/>
+                  <rdf:li rdf:resource="http://identifiers.org/metanetx.reaction/MNXR96697"/>
+                  <rdf:li rdf:resource="http://identifiers.org/rhea/33054"/>
+                  <rdf:li rdf:resource="http://identifiers.org/rhea/33052"/>
+                  <rdf:li rdf:resource="http://identifiers.org/rhea/33051"/>
+                  <rdf:li rdf:resource="http://identifiers.org/rhea/33053"/>
+                  <rdf:li rdf:resource="http://identifiers.org/seed.reaction/rxn10770"/>
+                </rdf:Bag>
+              </bqbiol:is>
+            </rdf:Description>
+          </rdf:RDF>
+        </sbml:annotation>
+        <listOfReactants>
+          <speciesReference species="M_chol_c" stoichiometry="1" constant="true"/>
+          <speciesReference species="M_nad_c" stoichiometry="1" constant="true"/>
+        </listOfReactants>
+        <listOfProducts>
+          <speciesReference species="M_betald_c" stoichiometry="1" constant="true"/>
+          <speciesReference species="M_h_c" stoichiometry="1" constant="true"/>
+          <speciesReference species="M_nadh_c" stoichiometry="1" constant="true"/>
+        </listOfProducts>
+        <fbc:geneProductAssociation>
+          <fbc:geneProductRef fbc:geneProduct="G_b0311"/>
+        </fbc:geneProductAssociation>
+      </reaction>
+      <reaction id="R_TRE6PS" fast="false" reversible="false" name="Alpha,alpha-trehalose-phosphate synthase (UDP-forming)" metaid="R_TRE6PS" sboTerm="SBO:0000176" fbc:upperFluxBound="cobra_default_ub" fbc:lowerFluxBound="cobra_0_bound">
+        <sbml:annotation xmlns:sbml="http://www.sbml.org/sbml/level3/version1/core">
+          <rdf:RDF xmlns:rdf="http://www.w3.org/1999/02/22-rdf-syntax-ns#">
+            <rdf:Description rdf:about="#R_TRE6PS">
+              <bqbiol:is xmlns:bqbiol="http://biomodels.net/biology-qualifiers/">
+                <rdf:Bag>
+                  <rdf:li rdf:resource="http://identifiers.org/bigg.reaction/TRE6PS"/>
+                  <rdf:li rdf:resource="http://identifiers.org/biocyc/META:TREHALOSE6PSYN-RXN"/>
+                  <rdf:li rdf:resource="http://identifiers.org/ec-code/2.4.1.15"/>
+                  <rdf:li rdf:resource="http://identifiers.org/kegg.reaction/R00836"/>
+                  <rdf:li rdf:resource="http://identifiers.org/kegg.reaction/R06043"/>
+                  <rdf:li rdf:resource="http://identifiers.org/metanetx.reaction/MNXR143415"/>
+                  <rdf:li rdf:resource="http://identifiers.org/rhea/18890"/>
+                  <rdf:li rdf:resource="http://identifiers.org/rhea/18891"/>
+                  <rdf:li rdf:resource="http://identifiers.org/rhea/18889"/>
+                  <rdf:li rdf:resource="http://identifiers.org/rhea/18892"/>
+                  <rdf:li rdf:resource="http://identifiers.org/seed.reaction/rxn00605"/>
+                </rdf:Bag>
+              </bqbiol:is>
+            </rdf:Description>
+          </rdf:RDF>
+        </sbml:annotation>
+        <listOfReactants>
+          <speciesReference species="M_g6p_c" stoichiometry="1" constant="true"/>
+          <speciesReference species="M_udpg_c" stoichiometry="1" constant="true"/>
+        </listOfReactants>
+        <listOfProducts>
+          <speciesReference species="M_h_c" stoichiometry="1" constant="true"/>
+          <speciesReference species="M_tre6p_c" stoichiometry="1" constant="true"/>
+          <speciesReference species="M_udp_c" stoichiometry="1" constant="true"/>
+        </listOfProducts>
+        <fbc:geneProductAssociation>
+          <fbc:geneProductRef fbc:geneProduct="G_b1896"/>
+        </fbc:geneProductAssociation>
+      </reaction>
+      <reaction id="R_DRPA" fast="false" reversible="false" name="Deoxyribose-phosphate aldolase" metaid="R_DRPA" sboTerm="SBO:0000176" fbc:upperFluxBound="cobra_default_ub" fbc:lowerFluxBound="cobra_0_bound">
+        <sbml:annotation xmlns:sbml="http://www.sbml.org/sbml/level3/version1/core">
+          <rdf:RDF xmlns:rdf="http://www.w3.org/1999/02/22-rdf-syntax-ns#">
+            <rdf:Description rdf:about="#R_DRPA">
+              <bqbiol:is xmlns:bqbiol="http://biomodels.net/biology-qualifiers/">
+                <rdf:Bag>
+                  <rdf:li rdf:resource="http://identifiers.org/bigg.reaction/DRPA"/>
+                  <rdf:li rdf:resource="http://identifiers.org/biocyc/META:DEOXYRIBOSE-P-ALD-RXN"/>
+                  <rdf:li rdf:resource="http://identifiers.org/ec-code/4.1.2.4"/>
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+                  <rdf:li rdf:resource="http://identifiers.org/metanetx.reaction/MNXR97787"/>
+                  <rdf:li rdf:resource="http://identifiers.org/reactome.reaction/R-XTR-6787321"/>
+                  <rdf:li rdf:resource="http://identifiers.org/reactome.reaction/R-PFA-6787321"/>
+                  <rdf:li rdf:resource="http://identifiers.org/reactome.reaction/R-RNO-6787321"/>
+                  <rdf:li rdf:resource="http://identifiers.org/reactome.reaction/R-SSC-6787321"/>
+                  <rdf:li rdf:resource="http://identifiers.org/reactome.reaction/R-TGU-6787321"/>
+                  <rdf:li rdf:resource="http://identifiers.org/reactome.reaction/R-CEL-6787321"/>
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+                  <rdf:li rdf:resource="http://identifiers.org/reactome.reaction/R-CFA-6787321"/>
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+                  <rdf:li rdf:resource="http://identifiers.org/reactome.reaction/R-DME-6787321"/>
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+                  <rdf:li rdf:resource="http://identifiers.org/reactome.reaction/R-MMU-6787321"/>
+                  <rdf:li rdf:resource="http://identifiers.org/rhea/12823"/>
+                  <rdf:li rdf:resource="http://identifiers.org/rhea/12822"/>
+                  <rdf:li rdf:resource="http://identifiers.org/rhea/12821"/>
+                  <rdf:li rdf:resource="http://identifiers.org/rhea/12824"/>
+                  <rdf:li rdf:resource="http://identifiers.org/sabiork/64"/>
+                  <rdf:li rdf:resource="http://identifiers.org/seed.reaction/rxn00784"/>
+                </rdf:Bag>
+              </bqbiol:is>
+            </rdf:Description>
+          </rdf:RDF>
+        </sbml:annotation>
+        <listOfReactants>
+          <speciesReference species="M_2dr5p_c" stoichiometry="1" constant="true"/>
+        </listOfReactants>
+        <listOfProducts>
+          <speciesReference species="M_acald_c" stoichiometry="1" constant="true"/>
+          <speciesReference species="M_g3p_c" stoichiometry="1" constant="true"/>
+        </listOfProducts>
+        <fbc:geneProductAssociation>
+          <fbc:geneProductRef fbc:geneProduct="G_b4381"/>
+        </fbc:geneProductAssociation>
+      </reaction>
+      <reaction id="R_TKT2" fast="false" reversible="true" name="Transketolase" metaid="R_TKT2" sboTerm="SBO:0000176" fbc:upperFluxBound="cobra_default_ub" fbc:lowerFluxBound="cobra_default_lb">
+        <sbml:annotation xmlns:sbml="http://www.sbml.org/sbml/level3/version1/core">
+          <rdf:RDF xmlns:rdf="http://www.w3.org/1999/02/22-rdf-syntax-ns#">
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+              <bqbiol:is xmlns:bqbiol="http://biomodels.net/biology-qualifiers/">
+                <rdf:Bag>
+                  <rdf:li rdf:resource="http://identifiers.org/bigg.reaction/TKT2"/>
+                  <rdf:li rdf:resource="http://identifiers.org/biocyc/META:2TRANSKETO-RXN"/>
+                  <rdf:li rdf:resource="http://identifiers.org/ec-code/2.2.1.1"/>
+                  <rdf:li rdf:resource="http://identifiers.org/kegg.reaction/R01830"/>
+                  <rdf:li rdf:resource="http://identifiers.org/metanetx.reaction/MNXR104869"/>
+                  <rdf:li rdf:resource="http://identifiers.org/rhea/27627"/>
+                  <rdf:li rdf:resource="http://identifiers.org/rhea/27628"/>
+                  <rdf:li rdf:resource="http://identifiers.org/rhea/27626"/>
+                  <rdf:li rdf:resource="http://identifiers.org/rhea/27629"/>
+                </rdf:Bag>
+              </bqbiol:is>
+            </rdf:Description>
+          </rdf:RDF>
+        </sbml:annotation>
+        <listOfReactants>
+          <speciesReference species="M_e4p_c" stoichiometry="1" constant="true"/>
+          <speciesReference species="M_xu5p__D_c" stoichiometry="1" constant="true"/>
+        </listOfReactants>
+        <listOfProducts>
+          <speciesReference species="M_f6p_c" stoichiometry="1" constant="true"/>
+          <speciesReference species="M_g3p_c" stoichiometry="1" constant="true"/>
+        </listOfProducts>
+        <fbc:geneProductAssociation>
+          <fbc:or>
+            <fbc:geneProductRef fbc:geneProduct="G_b2935"/>
+            <fbc:geneProductRef fbc:geneProduct="G_b2465"/>
+          </fbc:or>
+        </fbc:geneProductAssociation>
+      </reaction>
+      <reaction id="R_EX_arbtn_fe3_e" fast="false" reversible="false" name="Aerobactin exchange" metaid="R_EX_arbtn_fe3_e" sboTerm="SBO:0000627" fbc:upperFluxBound="cobra_default_ub" fbc:lowerFluxBound="cobra_0_bound">
+        <sbml:annotation xmlns:sbml="http://www.sbml.org/sbml/level3/version1/core">
+          <rdf:RDF xmlns:rdf="http://www.w3.org/1999/02/22-rdf-syntax-ns#">
+            <rdf:Description rdf:about="#R_EX_arbtn_fe3_e">
+              <bqbiol:is xmlns:bqbiol="http://biomodels.net/biology-qualifiers/">
+                <rdf:Bag>
+                  <rdf:li rdf:resource="http://identifiers.org/bigg.reaction/EX_arbtn_fe3_e"/>
+                  <rdf:li rdf:resource="http://identifiers.org/metanetx.reaction/MNXR142930"/>
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+              </bqbiol:is>
+            </rdf:Description>
+          </rdf:RDF>
+        </sbml:annotation>
+        <listOfReactants>
+          <speciesReference species="M_arbtn_fe3_e" stoichiometry="1" constant="true"/>
+        </listOfReactants>
+      </reaction>
+      <reaction id="R_UDCPDP" fast="false" reversible="false" name="Undecaprenyl-diphosphatase" metaid="R_UDCPDP" sboTerm="SBO:0000176" fbc:upperFluxBound="cobra_default_ub" fbc:lowerFluxBound="cobra_0_bound">
+        <sbml:annotation xmlns:sbml="http://www.sbml.org/sbml/level3/version1/core">
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+            <rdf:Description rdf:about="#R_UDCPDP">
+              <bqbiol:is xmlns:bqbiol="http://biomodels.net/biology-qualifiers/">
+                <rdf:Bag>
+                  <rdf:li rdf:resource="http://identifiers.org/bigg.reaction/UDCPDP"/>
+                  <rdf:li rdf:resource="http://identifiers.org/metanetx.reaction/MNXR105042"/>
+                  <rdf:li rdf:resource="http://identifiers.org/rhea/17069"/>
+                  <rdf:li rdf:resource="http://identifiers.org/rhea/17070"/>
+                  <rdf:li rdf:resource="http://identifiers.org/rhea/17072"/>
+                  <rdf:li rdf:resource="http://identifiers.org/rhea/17071"/>
+                  <rdf:li rdf:resource="http://identifiers.org/sabiork/5225"/>
+                </rdf:Bag>
+              </bqbiol:is>
+            </rdf:Description>
+          </rdf:RDF>
+        </sbml:annotation>
+        <listOfReactants>
+          <speciesReference species="M_h2o_c" stoichiometry="1" constant="true"/>
+          <speciesReference species="M_udcpdp_c" stoichiometry="1" constant="true"/>
+        </listOfReactants>
+        <listOfProducts>
+          <speciesReference species="M_h_c" stoichiometry="1" constant="true"/>
+          <speciesReference species="M_pi_c" stoichiometry="1" constant="true"/>
+          <speciesReference species="M_udcpp_c" stoichiometry="1" constant="true"/>
+        </listOfProducts>
+        <fbc:geneProductAssociation>
+          <fbc:or>
+            <fbc:geneProductRef fbc:geneProduct="G_b0841"/>
+            <fbc:geneProductRef fbc:geneProduct="G_b1278"/>
+            <fbc:geneProductRef fbc:geneProduct="G_b3057"/>
+          </fbc:or>
+        </fbc:geneProductAssociation>
+      </reaction>
+      <reaction id="R_EX_cpgn_e" fast="false" reversible="false" name="Coprogen exchange" metaid="R_EX_cpgn_e" sboTerm="SBO:0000627" fbc:upperFluxBound="cobra_default_ub" fbc:lowerFluxBound="cobra_0_bound">
+        <sbml:annotation xmlns:sbml="http://www.sbml.org/sbml/level3/version1/core">
+          <rdf:RDF xmlns:rdf="http://www.w3.org/1999/02/22-rdf-syntax-ns#">
+            <rdf:Description rdf:about="#R_EX_cpgn_e">
+              <bqbiol:is xmlns:bqbiol="http://biomodels.net/biology-qualifiers/">
+                <rdf:Bag>
+                  <rdf:li rdf:resource="http://identifiers.org/bigg.reaction/EX_cpgn_e"/>
+                  <rdf:li rdf:resource="http://identifiers.org/metanetx.reaction/MNXR142942"/>
+                </rdf:Bag>
+              </bqbiol:is>
+            </rdf:Description>
+          </rdf:RDF>
+        </sbml:annotation>
+        <listOfReactants>
+          <speciesReference species="M_cpgn_e" stoichiometry="1" constant="true"/>
+        </listOfReactants>
+      </reaction>
+      <reaction id="R_EX_ch4_e" fast="false" reversible="false" name="EX ch4 LPAREN e RPAREN " metaid="R_EX_ch4_e" sboTerm="SBO:0000627" fbc:upperFluxBound="cobra_default_ub" fbc:lowerFluxBound="cobra_0_bound">
+        <sbml:annotation xmlns:sbml="http://www.sbml.org/sbml/level3/version1/core">
+          <rdf:RDF xmlns:rdf="http://www.w3.org/1999/02/22-rdf-syntax-ns#">
+            <rdf:Description rdf:about="#R_EX_ch4_e">
+              <bqbiol:is xmlns:bqbiol="http://biomodels.net/biology-qualifiers/">
+                <rdf:Bag>
+                  <rdf:li rdf:resource="http://identifiers.org/bigg.reaction/EX_ch4_e"/>
+                  <rdf:li rdf:resource="http://identifiers.org/biocyc/META:TRANS-RXN0-526"/>
+                  <rdf:li rdf:resource="http://identifiers.org/metanetx.reaction/MNXR96664"/>
+                  <rdf:li rdf:resource="http://identifiers.org/seed.reaction/rxn13109"/>
+                  <rdf:li rdf:resource="http://identifiers.org/seed.reaction/rxn10471"/>
+                </rdf:Bag>
+              </bqbiol:is>
+            </rdf:Description>
+          </rdf:RDF>
+        </sbml:annotation>
+        <listOfReactants>
+          <speciesReference species="M_ch4_e" stoichiometry="1" constant="true"/>
+        </listOfReactants>
+      </reaction>
+      <reaction id="R_FEENTERabcpp" fast="false" reversible="false" name="Fe-enterobactin transport via ABC system (periplasm)" metaid="R_FEENTERabcpp" sboTerm="SBO:0000185" fbc:upperFluxBound="cobra_default_ub" fbc:lowerFluxBound="cobra_0_bound">
+        <sbml:annotation xmlns:sbml="http://www.sbml.org/sbml/level3/version1/core">
+          <rdf:RDF xmlns:rdf="http://www.w3.org/1999/02/22-rdf-syntax-ns#">
+            <rdf:Description rdf:about="#R_FEENTERabcpp">
+              <bqbiol:is xmlns:bqbiol="http://biomodels.net/biology-qualifiers/">
+                <rdf:Bag>
+                  <rdf:li rdf:resource="http://identifiers.org/bigg.reaction/FEENTERabcpp"/>
+                  <rdf:li rdf:resource="http://identifiers.org/ec-code/3.6.3.34"/>
+                  <rdf:li rdf:resource="http://identifiers.org/metanetx.reaction/MNXR99546"/>
+                </rdf:Bag>
+              </bqbiol:is>
+            </rdf:Description>
+          </rdf:RDF>
+        </sbml:annotation>
+        <listOfReactants>
+          <speciesReference species="M_atp_c" stoichiometry="1" constant="true"/>
+          <speciesReference species="M_feenter_p" stoichiometry="1" constant="true"/>
+          <speciesReference species="M_h2o_c" stoichiometry="1" constant="true"/>
+        </listOfReactants>
+        <listOfProducts>
+          <speciesReference species="M_adp_c" stoichiometry="1" constant="true"/>
+          <speciesReference species="M_feenter_c" stoichiometry="1" constant="true"/>
+          <speciesReference species="M_h_c" stoichiometry="1" constant="true"/>
+          <speciesReference species="M_pi_c" stoichiometry="1" constant="true"/>
+        </listOfProducts>
+        <fbc:geneProductAssociation>
+          <fbc:and>
+            <fbc:geneProductRef fbc:geneProduct="G_b0589"/>
+            <fbc:geneProductRef fbc:geneProduct="G_b0592"/>
+            <fbc:geneProductRef fbc:geneProduct="G_b0590"/>
+            <fbc:geneProductRef fbc:geneProduct="G_b0588"/>
+          </fbc:and>
+        </fbc:geneProductAssociation>
+      </reaction>
+      <reaction id="R_EX_adocbl_e" fast="false" reversible="false" name="Adenosylcobalamin exchange" metaid="R_EX_adocbl_e" sboTerm="SBO:0000627" fbc:upperFluxBound="cobra_default_ub" fbc:lowerFluxBound="cobra_0_bound">
+        <sbml:annotation xmlns:sbml="http://www.sbml.org/sbml/level3/version1/core">
+          <rdf:RDF xmlns:rdf="http://www.w3.org/1999/02/22-rdf-syntax-ns#">
+            <rdf:Description rdf:about="#R_EX_adocbl_e">
+              <bqbiol:is xmlns:bqbiol="http://biomodels.net/biology-qualifiers/">
+                <rdf:Bag>
+                  <rdf:li rdf:resource="http://identifiers.org/bigg.reaction/EX_adocbl_e"/>
+                  <rdf:li rdf:resource="http://identifiers.org/metanetx.reaction/MNXR96480"/>
+                </rdf:Bag>
+              </bqbiol:is>
+            </rdf:Description>
+          </rdf:RDF>
+        </sbml:annotation>
+        <listOfReactants>
+          <speciesReference species="M_adocbl_e" stoichiometry="1" constant="true"/>
+        </listOfReactants>
+      </reaction>
+      <reaction id="R_FECRMabcpp" fast="false" reversible="false" name="Ferrichrome transport via ABC system (periplasm)" metaid="R_FECRMabcpp" sboTerm="SBO:0000185" fbc:upperFluxBound="cobra_default_ub" fbc:lowerFluxBound="cobra_0_bound">
+        <sbml:annotation xmlns:sbml="http://www.sbml.org/sbml/level3/version1/core">
+          <rdf:RDF xmlns:rdf="http://www.w3.org/1999/02/22-rdf-syntax-ns#">
+            <rdf:Description rdf:about="#R_FECRMabcpp">
+              <bqbiol:is xmlns:bqbiol="http://biomodels.net/biology-qualifiers/">
+                <rdf:Bag>
+                  <rdf:li rdf:resource="http://identifiers.org/bigg.reaction/FECRMabcpp"/>
+                  <rdf:li rdf:resource="http://identifiers.org/biocyc/META:TRANS-RXN-298"/>
+                  <rdf:li rdf:resource="http://identifiers.org/ec-code/3.6.3.34"/>
+                  <rdf:li rdf:resource="http://identifiers.org/metanetx.reaction/MNXR99535"/>
+                  <rdf:li rdf:resource="http://identifiers.org/seed.reaction/rxn08493"/>
+                  <rdf:li rdf:resource="http://identifiers.org/seed.reaction/rxn05188"/>
+                </rdf:Bag>
+              </bqbiol:is>
+            </rdf:Description>
+          </rdf:RDF>
+        </sbml:annotation>
+        <listOfReactants>
+          <speciesReference species="M_atp_c" stoichiometry="1" constant="true"/>
+          <speciesReference species="M_fecrm_p" stoichiometry="1" constant="true"/>
+          <speciesReference species="M_h2o_c" stoichiometry="1" constant="true"/>
+        </listOfReactants>
+        <listOfProducts>
+          <speciesReference species="M_adp_c" stoichiometry="1" constant="true"/>
+          <speciesReference species="M_fecrm_c" stoichiometry="1" constant="true"/>
+          <speciesReference species="M_h_c" stoichiometry="1" constant="true"/>
+          <speciesReference species="M_pi_c" stoichiometry="1" constant="true"/>
+        </listOfProducts>
+        <fbc:geneProductAssociation>
+          <fbc:and>
+            <fbc:geneProductRef fbc:geneProduct="G_b0153"/>
+            <fbc:geneProductRef fbc:geneProduct="G_b0152"/>
+            <fbc:geneProductRef fbc:geneProduct="G_b0151"/>
+          </fbc:and>
+        </fbc:geneProductAssociation>
+      </reaction>
+      <reaction id="R_TREH" fast="false" reversible="false" name="Alpha,alpha-trehalase" metaid="R_TREH" sboTerm="SBO:0000176" fbc:upperFluxBound="cobra_default_ub" fbc:lowerFluxBound="cobra_0_bound">
+        <sbml:annotation xmlns:sbml="http://www.sbml.org/sbml/level3/version1/core">
+          <rdf:RDF xmlns:rdf="http://www.w3.org/1999/02/22-rdf-syntax-ns#">
+            <rdf:Description rdf:about="#R_TREH">
+              <bqbiol:is xmlns:bqbiol="http://biomodels.net/biology-qualifiers/">
+                <rdf:Bag>
+                  <rdf:li rdf:resource="http://identifiers.org/bigg.reaction/TREH"/>
+                  <rdf:li rdf:resource="http://identifiers.org/ec-code/3.2.1.28"/>
+                  <rdf:li rdf:resource="http://identifiers.org/kegg.reaction/R00010"/>
+                  <rdf:li rdf:resource="http://identifiers.org/kegg.reaction/R06103"/>
+                  <rdf:li rdf:resource="http://identifiers.org/metanetx.reaction/MNXR95163"/>
+                  <rdf:li rdf:resource="http://identifiers.org/rhea/20868"/>
+                  <rdf:li rdf:resource="http://identifiers.org/rhea/20869"/>
+                  <rdf:li rdf:resource="http://identifiers.org/rhea/20870"/>
+                  <rdf:li rdf:resource="http://identifiers.org/rhea/20871"/>
+                  <rdf:li rdf:resource="http://identifiers.org/sabiork/6476"/>
+                  <rdf:li rdf:resource="http://identifiers.org/seed.reaction/rxn00007"/>
+                </rdf:Bag>
+              </bqbiol:is>
+            </rdf:Description>
+          </rdf:RDF>
+        </sbml:annotation>
+        <listOfReactants>
+          <speciesReference species="M_h2o_c" stoichiometry="1" constant="true"/>
+          <speciesReference species="M_tre_c" stoichiometry="1" constant="true"/>
+        </listOfReactants>
+        <listOfProducts>
+          <speciesReference species="M_glc__D_c" stoichiometry="2" constant="true"/>
+        </listOfProducts>
+        <fbc:geneProductAssociation>
+          <fbc:geneProductRef fbc:geneProduct="G_b3519"/>
+        </fbc:geneProductAssociation>
+      </reaction>
+      <reaction id="R_GAMtex" fast="false" reversible="true" name="D-glucosamine transport via diffusion (extracellular to periplasm)" metaid="R_GAMtex" sboTerm="SBO:0000185" fbc:upperFluxBound="cobra_default_ub" fbc:lowerFluxBound="cobra_default_lb">
+        <sbml:annotation xmlns:sbml="http://www.sbml.org/sbml/level3/version1/core">
+          <rdf:RDF xmlns:rdf="http://www.w3.org/1999/02/22-rdf-syntax-ns#">
+            <rdf:Description rdf:about="#R_GAMtex">
+              <bqbiol:is xmlns:bqbiol="http://biomodels.net/biology-qualifiers/">
+                <rdf:Bag>
+                  <rdf:li rdf:resource="http://identifiers.org/bigg.reaction/GAMtex"/>
+                  <rdf:li rdf:resource="http://identifiers.org/metanetx.reaction/MNXR100035"/>
+                  <rdf:li rdf:resource="http://identifiers.org/seed.reaction/rxn08593"/>
+                </rdf:Bag>
+              </bqbiol:is>
+            </rdf:Description>
+          </rdf:RDF>
+        </sbml:annotation>
+        <listOfReactants>
+          <speciesReference species="M_gam_e" stoichiometry="1" constant="true"/>
+        </listOfReactants>
+        <listOfProducts>
+          <speciesReference species="M_gam_p" stoichiometry="1" constant="true"/>
+        </listOfProducts>
+        <fbc:geneProductAssociation>
+          <fbc:or>
+            <fbc:geneProductRef fbc:geneProduct="G_b0241"/>
+            <fbc:geneProductRef fbc:geneProduct="G_b0929"/>
+            <fbc:geneProductRef fbc:geneProduct="G_b1377"/>
+            <fbc:geneProductRef fbc:geneProduct="G_b2215"/>
+          </fbc:or>
+        </fbc:geneProductAssociation>
+      </reaction>
+      <reaction id="R_GBBTNtex" fast="false" reversible="true" name="Gamma-butyrobetaine transport via diffusion (extracellular to periplasm)" metaid="R_GBBTNtex" sboTerm="SBO:0000185" fbc:upperFluxBound="cobra_default_ub" fbc:lowerFluxBound="cobra_default_lb">
+        <sbml:annotation xmlns:sbml="http://www.sbml.org/sbml/level3/version1/core">
+          <rdf:RDF xmlns:rdf="http://www.w3.org/1999/02/22-rdf-syntax-ns#">
+            <rdf:Description rdf:about="#R_GBBTNtex">
+              <bqbiol:is xmlns:bqbiol="http://biomodels.net/biology-qualifiers/">
+                <rdf:Bag>
+                  <rdf:li rdf:resource="http://identifiers.org/bigg.reaction/GBBTNtex"/>
+                  <rdf:li rdf:resource="http://identifiers.org/metanetx.reaction/MNXR100053"/>
+                  <rdf:li rdf:resource="http://identifiers.org/rhea/32838"/>
+                  <rdf:li rdf:resource="http://identifiers.org/rhea/32837"/>
+                  <rdf:li rdf:resource="http://identifiers.org/rhea/32835"/>
+                  <rdf:li rdf:resource="http://identifiers.org/rhea/32836"/>
+                  <rdf:li rdf:resource="http://identifiers.org/seed.reaction/rxn08595"/>
+                </rdf:Bag>
+              </bqbiol:is>
+            </rdf:Description>
+          </rdf:RDF>
+        </sbml:annotation>
+        <listOfReactants>
+          <speciesReference species="M_gbbtn_e" stoichiometry="1" constant="true"/>
+        </listOfReactants>
+        <listOfProducts>
+          <speciesReference species="M_gbbtn_p" stoichiometry="1" constant="true"/>
+        </listOfProducts>
+        <fbc:geneProductAssociation>
+          <fbc:or>
+            <fbc:geneProductRef fbc:geneProduct="G_b0241"/>
+            <fbc:geneProductRef fbc:geneProduct="G_b0929"/>
+            <fbc:geneProductRef fbc:geneProduct="G_b1377"/>
+            <fbc:geneProductRef fbc:geneProduct="G_b2215"/>
+          </fbc:or>
+        </fbc:geneProductAssociation>
+      </reaction>
+      <reaction id="R_ATPS4rpp" fast="false" reversible="true" name="ATP synthase (four protons for one ATP) (periplasm)" metaid="R_ATPS4rpp" sboTerm="SBO:0000185" fbc:upperFluxBound="cobra_default_ub" fbc:lowerFluxBound="cobra_default_lb">
+        <sbml:annotation xmlns:sbml="http://www.sbml.org/sbml/level3/version1/core">
+          <rdf:RDF xmlns:rdf="http://www.w3.org/1999/02/22-rdf-syntax-ns#">
+            <rdf:Description rdf:about="#R_ATPS4rpp">
+              <bqbiol:is xmlns:bqbiol="http://biomodels.net/biology-qualifiers/">
+                <rdf:Bag>
+                  <rdf:li rdf:resource="http://identifiers.org/bigg.reaction/ATPS4rpp"/>
+                  <rdf:li rdf:resource="http://identifiers.org/biocyc/META:ATPSYN-RXN"/>
+                  <rdf:li rdf:resource="http://identifiers.org/ec-code/3.6.3.14"/>
+                  <rdf:li rdf:resource="http://identifiers.org/metanetx.reaction/MNXR96136"/>
+                  <rdf:li rdf:resource="http://identifiers.org/seed.reaction/rxn08173"/>
+                  <rdf:li rdf:resource="http://identifiers.org/seed.reaction/rxn10042"/>
+                </rdf:Bag>
+              </bqbiol:is>
+            </rdf:Description>
+          </rdf:RDF>
+        </sbml:annotation>
+        <listOfReactants>
+          <speciesReference species="M_adp_c" stoichiometry="1" constant="true"/>
+          <speciesReference species="M_h_p" stoichiometry="4" constant="true"/>
+          <speciesReference species="M_pi_c" stoichiometry="1" constant="true"/>
+        </listOfReactants>
+        <listOfProducts>
+          <speciesReference species="M_atp_c" stoichiometry="1" constant="true"/>
+          <speciesReference species="M_h2o_c" stoichiometry="1" constant="true"/>
+          <speciesReference species="M_h_c" stoichiometry="3" constant="true"/>
+        </listOfProducts>
+        <fbc:geneProductAssociation>
+          <fbc:or>
+            <fbc:and>
+              <fbc:geneProductRef fbc:geneProduct="G_b3739"/>
+              <fbc:and>
+                <fbc:geneProductRef fbc:geneProduct="G_b3731"/>
+                <fbc:geneProductRef fbc:geneProduct="G_b3733"/>
+                <fbc:geneProductRef fbc:geneProduct="G_b3735"/>
+                <fbc:geneProductRef fbc:geneProduct="G_b3734"/>
+                <fbc:geneProductRef fbc:geneProduct="G_b3732"/>
+              </fbc:and>
+              <fbc:and>
+                <fbc:geneProductRef fbc:geneProduct="G_b3738"/>
+                <fbc:geneProductRef fbc:geneProduct="G_b3736"/>
+                <fbc:geneProductRef fbc:geneProduct="G_b3737"/>
+              </fbc:and>
+            </fbc:and>
+            <fbc:and>
+              <fbc:and>
+                <fbc:geneProductRef fbc:geneProduct="G_b3731"/>
+                <fbc:geneProductRef fbc:geneProduct="G_b3733"/>
+                <fbc:geneProductRef fbc:geneProduct="G_b3735"/>
+                <fbc:geneProductRef fbc:geneProduct="G_b3734"/>
+                <fbc:geneProductRef fbc:geneProduct="G_b3732"/>
+              </fbc:and>
+              <fbc:and>
+                <fbc:geneProductRef fbc:geneProduct="G_b3738"/>
+                <fbc:geneProductRef fbc:geneProduct="G_b3736"/>
+                <fbc:geneProductRef fbc:geneProduct="G_b3737"/>
+              </fbc:and>
+            </fbc:and>
+          </fbc:or>
+        </fbc:geneProductAssociation>
+      </reaction>
+      <reaction id="R_INDOLEtex" fast="false" reversible="true" name="Indole transport via diffusion (extracellular to periplasm)" metaid="R_INDOLEtex" sboTerm="SBO:0000185" fbc:upperFluxBound="cobra_default_ub" fbc:lowerFluxBound="cobra_default_lb">
+        <sbml:annotation xmlns:sbml="http://www.sbml.org/sbml/level3/version1/core">
+          <rdf:RDF xmlns:rdf="http://www.w3.org/1999/02/22-rdf-syntax-ns#">
+            <rdf:Description rdf:about="#R_INDOLEtex">
+              <bqbiol:is xmlns:bqbiol="http://biomodels.net/biology-qualifiers/">
+                <rdf:Bag>
+                  <rdf:li rdf:resource="http://identifiers.org/bigg.reaction/INDOLEtex"/>
+                  <rdf:li rdf:resource="http://identifiers.org/biocyc/META:TRANS-RXN0-563"/>
+                  <rdf:li rdf:resource="http://identifiers.org/metanetx.reaction/MNXR100836"/>
+                  <rdf:li rdf:resource="http://identifiers.org/seed.reaction/rxn08751"/>
+                </rdf:Bag>
+              </bqbiol:is>
+            </rdf:Description>
+          </rdf:RDF>
+        </sbml:annotation>
+        <listOfReactants>
+          <speciesReference species="M_indole_e" stoichiometry="1" constant="true"/>
+        </listOfReactants>
+        <listOfProducts>
+          <speciesReference species="M_indole_p" stoichiometry="1" constant="true"/>
+        </listOfProducts>
+        <fbc:geneProductAssociation>
+          <fbc:or>
+            <fbc:geneProductRef fbc:geneProduct="G_b0241"/>
+            <fbc:geneProductRef fbc:geneProduct="G_b0929"/>
+            <fbc:geneProductRef fbc:geneProduct="G_b1377"/>
+            <fbc:geneProductRef fbc:geneProduct="G_b2215"/>
+          </fbc:or>
+        </fbc:geneProductAssociation>
+      </reaction>
+      <reaction id="R_ARBt2rpp" fast="false" reversible="true" name="L-arabinose transport via proton symport (periplasm)" metaid="R_ARBt2rpp" sboTerm="SBO:0000185" fbc:upperFluxBound="cobra_default_ub" fbc:lowerFluxBound="cobra_default_lb">
+        <sbml:annotation xmlns:sbml="http://www.sbml.org/sbml/level3/version1/core">
+          <rdf:RDF xmlns:rdf="http://www.w3.org/1999/02/22-rdf-syntax-ns#">
+            <rdf:Description rdf:about="#R_ARBt2rpp">
+              <bqbiol:is xmlns:bqbiol="http://biomodels.net/biology-qualifiers/">
+                <rdf:Bag>
+                  <rdf:li rdf:resource="http://identifiers.org/bigg.reaction/ARBt2rpp"/>
+                  <rdf:li rdf:resource="http://identifiers.org/biocyc/META:TRANS-RXN-10"/>
+                  <rdf:li rdf:resource="http://identifiers.org/metanetx.reaction/MNXR95936"/>
+                </rdf:Bag>
+              </bqbiol:is>
+            </rdf:Description>
+          </rdf:RDF>
+        </sbml:annotation>
+        <listOfReactants>
+          <speciesReference species="M_arab__L_p" stoichiometry="1" constant="true"/>
+          <speciesReference species="M_h_p" stoichiometry="1" constant="true"/>
+        </listOfReactants>
+        <listOfProducts>
+          <speciesReference species="M_arab__L_c" stoichiometry="1" constant="true"/>
+          <speciesReference species="M_h_c" stoichiometry="1" constant="true"/>
+        </listOfProducts>
+        <fbc:geneProductAssociation>
+          <fbc:geneProductRef fbc:geneProduct="G_b2841"/>
+        </fbc:geneProductAssociation>
+      </reaction>
+      <reaction id="R_CYTK1" fast="false" reversible="true" name="Cytidylate kinase (CMP)" metaid="R_CYTK1" sboTerm="SBO:0000176" fbc:upperFluxBound="cobra_default_ub" fbc:lowerFluxBound="cobra_default_lb">
+        <sbml:annotation xmlns:sbml="http://www.sbml.org/sbml/level3/version1/core">
+          <rdf:RDF xmlns:rdf="http://www.w3.org/1999/02/22-rdf-syntax-ns#">
+            <rdf:Description rdf:about="#R_CYTK1">
+              <bqbiol:is xmlns:bqbiol="http://biomodels.net/biology-qualifiers/">
+                <rdf:Bag>
+                  <rdf:li rdf:resource="http://identifiers.org/bigg.reaction/CYTK1"/>
+                  <rdf:li rdf:resource="http://identifiers.org/biocyc/META:RXN-11832"/>
+                  <rdf:li rdf:resource="http://identifiers.org/ec-code/2.7.4.25"/>
+                  <rdf:li rdf:resource="http://identifiers.org/ec-code/2.7.4.14"/>
+                  <rdf:li rdf:resource="http://identifiers.org/kegg.reaction/R00512"/>
+                  <rdf:li rdf:resource="http://identifiers.org/metanetx.reaction/MNXR97047"/>
+                  <rdf:li rdf:resource="http://identifiers.org/rhea/11603"/>
+                  <rdf:li rdf:resource="http://identifiers.org/rhea/11601"/>
+                  <rdf:li rdf:resource="http://identifiers.org/rhea/11602"/>
+                  <rdf:li rdf:resource="http://identifiers.org/rhea/11600"/>
+                  <rdf:li rdf:resource="http://identifiers.org/seed.reaction/rxn00364"/>
+                </rdf:Bag>
+              </bqbiol:is>
+            </rdf:Description>
+          </rdf:RDF>
+        </sbml:annotation>
+        <listOfReactants>
+          <speciesReference species="M_atp_c" stoichiometry="1" constant="true"/>
+          <speciesReference species="M_cmp_c" stoichiometry="1" constant="true"/>
+        </listOfReactants>
+        <listOfProducts>
+          <speciesReference species="M_adp_c" stoichiometry="1" constant="true"/>
+          <speciesReference species="M_cdp_c" stoichiometry="1" constant="true"/>
+        </listOfProducts>
+        <fbc:geneProductAssociation>
+          <fbc:geneProductRef fbc:geneProduct="G_b0910"/>
+        </fbc:geneProductAssociation>
+      </reaction>
+      <reaction id="R_DAPabcpp" fast="false" reversible="false" name="M-diaminopimelic acid ABC transport (periplasm)" metaid="R_DAPabcpp" sboTerm="SBO:0000185" fbc:upperFluxBound="cobra_default_ub" fbc:lowerFluxBound="cobra_0_bound">
+        <sbml:annotation xmlns:sbml="http://www.sbml.org/sbml/level3/version1/core">
+          <rdf:RDF xmlns:rdf="http://www.w3.org/1999/02/22-rdf-syntax-ns#">
+            <rdf:Description rdf:about="#R_DAPabcpp">
+              <bqbiol:is xmlns:bqbiol="http://biomodels.net/biology-qualifiers/">
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+                  <rdf:li rdf:resource="http://identifiers.org/bigg.reaction/DAPabcpp"/>
+                  <rdf:li rdf:resource="http://identifiers.org/biocyc/META:TRANS-RXN-291"/>
+                  <rdf:li rdf:resource="http://identifiers.org/metanetx.reaction/MNXR97146"/>
+                  <rdf:li rdf:resource="http://identifiers.org/seed.reaction/rxn08304"/>
+                  <rdf:li rdf:resource="http://identifiers.org/seed.reaction/rxn10145"/>
+                </rdf:Bag>
+              </bqbiol:is>
+            </rdf:Description>
+          </rdf:RDF>
+        </sbml:annotation>
+        <listOfReactants>
+          <speciesReference species="M_26dap__M_p" stoichiometry="1" constant="true"/>
+          <speciesReference species="M_atp_c" stoichiometry="1" constant="true"/>
+          <speciesReference species="M_h2o_c" stoichiometry="1" constant="true"/>
+        </listOfReactants>
+        <listOfProducts>
+          <speciesReference species="M_26dap__M_c" stoichiometry="1" constant="true"/>
+          <speciesReference species="M_adp_c" stoichiometry="1" constant="true"/>
+          <speciesReference species="M_h_c" stoichiometry="1" constant="true"/>
+          <speciesReference species="M_pi_c" stoichiometry="1" constant="true"/>
+        </listOfProducts>
+      </reaction>
+      <reaction id="R_L_LACtex" fast="false" reversible="true" name="L-lactate transport via diffusion (extracellular to periplasm)" metaid="R_L_LACtex" sboTerm="SBO:0000185" fbc:upperFluxBound="cobra_default_ub" fbc:lowerFluxBound="cobra_default_lb">
+        <sbml:annotation xmlns:sbml="http://www.sbml.org/sbml/level3/version1/core">
+          <rdf:RDF xmlns:rdf="http://www.w3.org/1999/02/22-rdf-syntax-ns#">
+            <rdf:Description rdf:about="#R_L_LACtex">
+              <bqbiol:is xmlns:bqbiol="http://biomodels.net/biology-qualifiers/">
+                <rdf:Bag>
+                  <rdf:li rdf:resource="http://identifiers.org/bigg.reaction/L_LACtex"/>
+                  <rdf:li rdf:resource="http://identifiers.org/metanetx.reaction/MNXR100999"/>
+                  <rdf:li rdf:resource="http://identifiers.org/rhea/34989"/>
+                  <rdf:li rdf:resource="http://identifiers.org/rhea/34988"/>
+                  <rdf:li rdf:resource="http://identifiers.org/rhea/34987"/>
+                  <rdf:li rdf:resource="http://identifiers.org/rhea/34990"/>
+                  <rdf:li rdf:resource="http://identifiers.org/sabiork/10553"/>
+                  <rdf:li rdf:resource="http://identifiers.org/seed.reaction/rxn11016"/>
+                  <rdf:li rdf:resource="http://identifiers.org/seed.reaction/rxn08795"/>
+                </rdf:Bag>
+              </bqbiol:is>
+            </rdf:Description>
+          </rdf:RDF>
+        </sbml:annotation>
+        <listOfReactants>
+          <speciesReference species="M_lac__L_e" stoichiometry="1" constant="true"/>
+        </listOfReactants>
+        <listOfProducts>
+          <speciesReference species="M_lac__L_p" stoichiometry="1" constant="true"/>
+        </listOfProducts>
+        <fbc:geneProductAssociation>
+          <fbc:or>
+            <fbc:geneProductRef fbc:geneProduct="G_b0929"/>
+            <fbc:geneProductRef fbc:geneProduct="G_b1377"/>
+            <fbc:geneProductRef fbc:geneProduct="G_b2215"/>
+            <fbc:geneProductRef fbc:geneProduct="G_b0241"/>
+          </fbc:or>
+        </fbc:geneProductAssociation>
+      </reaction>
+      <reaction id="R_ACt4pp" fast="false" reversible="false" name="Na+/Acetate symport (periplasm)" metaid="R_ACt4pp" sboTerm="SBO:0000185" fbc:upperFluxBound="cobra_default_ub" fbc:lowerFluxBound="cobra_0_bound">
+        <sbml:annotation xmlns:sbml="http://www.sbml.org/sbml/level3/version1/core">
+          <rdf:RDF xmlns:rdf="http://www.w3.org/1999/02/22-rdf-syntax-ns#">
+            <rdf:Description rdf:about="#R_ACt4pp">
+              <bqbiol:is xmlns:bqbiol="http://biomodels.net/biology-qualifiers/">
+                <rdf:Bag>
+                  <rdf:li rdf:resource="http://identifiers.org/bigg.reaction/ACt4pp"/>
+                  <rdf:li rdf:resource="http://identifiers.org/metanetx.reaction/MNXR95430"/>
+                  <rdf:li rdf:resource="http://identifiers.org/seed.reaction/rxn08062"/>
+                </rdf:Bag>
+              </bqbiol:is>
+            </rdf:Description>
+          </rdf:RDF>
+        </sbml:annotation>
+        <listOfReactants>
+          <speciesReference species="M_ac_p" stoichiometry="1" constant="true"/>
+          <speciesReference species="M_na1_p" stoichiometry="1" constant="true"/>
+        </listOfReactants>
+        <listOfProducts>
+          <speciesReference species="M_ac_c" stoichiometry="1" constant="true"/>
+          <speciesReference species="M_na1_c" stoichiometry="1" constant="true"/>
+        </listOfProducts>
+        <fbc:geneProductAssociation>
+          <fbc:geneProductRef fbc:geneProduct="G_b4067"/>
+        </fbc:geneProductAssociation>
+      </reaction>
+      <reaction id="R_ADEt2rpp" fast="false" reversible="true" name="Adenine transport via proton symport (reversible) (periplasm)" metaid="R_ADEt2rpp" sboTerm="SBO:0000185" fbc:upperFluxBound="cobra_default_ub" fbc:lowerFluxBound="cobra_default_lb">
+        <sbml:annotation xmlns:sbml="http://www.sbml.org/sbml/level3/version1/core">
+          <rdf:RDF xmlns:rdf="http://www.w3.org/1999/02/22-rdf-syntax-ns#">
+            <rdf:Description rdf:about="#R_ADEt2rpp">
+              <bqbiol:is xmlns:bqbiol="http://biomodels.net/biology-qualifiers/">
+                <rdf:Bag>
+                  <rdf:li rdf:resource="http://identifiers.org/bigg.reaction/ADEt2rpp"/>
+                  <rdf:li rdf:resource="http://identifiers.org/biocyc/META:TRANS-RXN-198"/>
+                  <rdf:li rdf:resource="http://identifiers.org/biocyc/META:TRANS-RXN0-447"/>
+                  <rdf:li rdf:resource="http://identifiers.org/metanetx.reaction/MNXR95446"/>
+                  <rdf:li rdf:resource="http://identifiers.org/rhea/28722"/>
+                  <rdf:li rdf:resource="http://identifiers.org/rhea/28720"/>
+                  <rdf:li rdf:resource="http://identifiers.org/rhea/28719"/>
+                  <rdf:li rdf:resource="http://identifiers.org/rhea/28721"/>
+                  <rdf:li rdf:resource="http://identifiers.org/seed.reaction/rxn08064"/>
+                  <rdf:li rdf:resource="http://identifiers.org/seed.reaction/rxn05491"/>
+                </rdf:Bag>
+              </bqbiol:is>
+            </rdf:Description>
+          </rdf:RDF>
+        </sbml:annotation>
+        <listOfReactants>
+          <speciesReference species="M_ade_p" stoichiometry="1" constant="true"/>
+          <speciesReference species="M_h_p" stoichiometry="1" constant="true"/>
+        </listOfReactants>
+        <listOfProducts>
+          <speciesReference species="M_ade_c" stoichiometry="1" constant="true"/>
+          <speciesReference species="M_h_c" stoichiometry="1" constant="true"/>
+        </listOfProducts>
+        <fbc:geneProductAssociation>
+          <fbc:or>
+            <fbc:geneProductRef fbc:geneProduct="G_b3654"/>
+            <fbc:geneProductRef fbc:geneProduct="G_b3714"/>
+            <fbc:geneProductRef fbc:geneProduct="G_b3664"/>
+          </fbc:or>
+        </fbc:geneProductAssociation>
+      </reaction>
+      <reaction id="R_CO2tpp" fast="false" reversible="true" name="CO2 transporter via diffusion (periplasm)" metaid="R_CO2tpp" sboTerm="SBO:0000185" fbc:upperFluxBound="cobra_default_ub" fbc:lowerFluxBound="cobra_default_lb">
+        <sbml:annotation xmlns:sbml="http://www.sbml.org/sbml/level3/version1/core">
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+            <rdf:Description rdf:about="#R_CO2tpp">
+              <bqbiol:is xmlns:bqbiol="http://biomodels.net/biology-qualifiers/">
+                <rdf:Bag>
+                  <rdf:li rdf:resource="http://identifiers.org/bigg.reaction/CO2tpp"/>
+                  <rdf:li rdf:resource="http://identifiers.org/biocyc/META:TRANS-RXN0-545"/>
+                  <rdf:li rdf:resource="http://identifiers.org/metanetx.reaction/MNXR96810"/>
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+                  <rdf:li rdf:resource="http://identifiers.org/reactome.reaction/R-CFA-1237069"/>
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+                  <rdf:li rdf:resource="http://identifiers.org/reactome.reaction/R-CEL-1247645"/>
+                  <rdf:li rdf:resource="http://identifiers.org/reactome.reaction/R-XTR-1237069"/>
+                  <rdf:li rdf:resource="http://identifiers.org/reactome.reaction/R-HSA-1247645"/>
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+                  <rdf:li rdf:resource="http://identifiers.org/reactome.reaction/R-BTA-1247645"/>
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+                  <rdf:li rdf:resource="http://identifiers.org/reactome.reaction/R-DDI-1237069"/>
+                  <rdf:li rdf:resource="http://identifiers.org/reactome.reaction/R-MMU-1237069"/>
+                  <rdf:li rdf:resource="http://identifiers.org/reactome.reaction/R-DME-1247645"/>
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+                  <rdf:li rdf:resource="http://identifiers.org/seed.reaction/rxn09775"/>
+                  <rdf:li rdf:resource="http://identifiers.org/seed.reaction/rxn09876"/>
+                  <rdf:li rdf:resource="http://identifiers.org/seed.reaction/rxn08238"/>
+                  <rdf:li rdf:resource="http://identifiers.org/seed.reaction/rxn09860"/>
+                </rdf:Bag>
+              </bqbiol:is>
+            </rdf:Description>
+          </rdf:RDF>
+        </sbml:annotation>
+        <listOfReactants>
+          <speciesReference species="M_co2_p" stoichiometry="1" constant="true"/>
+        </listOfReactants>
+        <listOfProducts>
+          <speciesReference species="M_co2_c" stoichiometry="1" constant="true"/>
+        </listOfProducts>
+        <fbc:geneProductAssociation>
+          <fbc:geneProductRef fbc:geneProduct="G_s0001"/>
+        </fbc:geneProductAssociation>
+      </reaction>
+      <reaction id="R_DHAtpp" fast="false" reversible="true" name="Dihydroxyacetone transport via facilitated diffusion (periplasm)" metaid="R_DHAtpp" sboTerm="SBO:0000185" fbc:upperFluxBound="cobra_default_ub" fbc:lowerFluxBound="cobra_default_lb">
+        <sbml:annotation xmlns:sbml="http://www.sbml.org/sbml/level3/version1/core">
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+            <rdf:Description rdf:about="#R_DHAtpp">
+              <bqbiol:is xmlns:bqbiol="http://biomodels.net/biology-qualifiers/">
+                <rdf:Bag>
+                  <rdf:li rdf:resource="http://identifiers.org/bigg.reaction/DHAtpp"/>
+                  <rdf:li rdf:resource="http://identifiers.org/biocyc/META:TRANS-RXN0-559"/>
+                  <rdf:li rdf:resource="http://identifiers.org/metanetx.reaction/MNXR97367"/>
+                  <rdf:li rdf:resource="http://identifiers.org/seed.reaction/rxn08325"/>
+                  <rdf:li rdf:resource="http://identifiers.org/seed.reaction/rxn08326"/>
+                  <rdf:li rdf:resource="http://identifiers.org/seed.reaction/rxn05532"/>
+                </rdf:Bag>
+              </bqbiol:is>
+            </rdf:Description>
+          </rdf:RDF>
+        </sbml:annotation>
+        <listOfReactants>
+          <speciesReference species="M_dha_p" stoichiometry="1" constant="true"/>
+        </listOfReactants>
+        <listOfProducts>
+          <speciesReference species="M_dha_c" stoichiometry="1" constant="true"/>
+        </listOfProducts>
+      </reaction>
+      <reaction id="R_DMSOR1pp" fast="false" reversible="false" name="Dimethyl sulfoxide reductase (Menaquinol 8) (periplasm)" metaid="R_DMSOR1pp" sboTerm="SBO:0000185" fbc:upperFluxBound="cobra_default_ub" fbc:lowerFluxBound="cobra_0_bound">
+        <sbml:annotation xmlns:sbml="http://www.sbml.org/sbml/level3/version1/core">
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+            <rdf:Description rdf:about="#R_DMSOR1pp">
+              <bqbiol:is xmlns:bqbiol="http://biomodels.net/biology-qualifiers/">
+                <rdf:Bag>
+                  <rdf:li rdf:resource="http://identifiers.org/bigg.reaction/DMSOR1pp"/>
+                  <rdf:li rdf:resource="http://identifiers.org/metanetx.reaction/MNXR97530"/>
+                  <rdf:li rdf:resource="http://identifiers.org/seed.reaction/rxn08355"/>
+                  <rdf:li rdf:resource="http://identifiers.org/seed.reaction/rxn10129"/>
+                </rdf:Bag>
+              </bqbiol:is>
+            </rdf:Description>
+          </rdf:RDF>
+        </sbml:annotation>
+        <listOfReactants>
+          <speciesReference species="M_dmso_p" stoichiometry="1" constant="true"/>
+          <speciesReference species="M_mql8_c" stoichiometry="1" constant="true"/>
+        </listOfReactants>
+        <listOfProducts>
+          <speciesReference species="M_dms_p" stoichiometry="1" constant="true"/>
+          <speciesReference species="M_h2o_p" stoichiometry="1" constant="true"/>
+          <speciesReference species="M_mqn8_c" stoichiometry="1" constant="true"/>
+        </listOfProducts>
+        <fbc:geneProductAssociation>
+          <fbc:and>
+            <fbc:geneProductRef fbc:geneProduct="G_b1872"/>
+            <fbc:geneProductRef fbc:geneProduct="G_b1873"/>
+          </fbc:and>
+        </fbc:geneProductAssociation>
+      </reaction>
+      <reaction id="R_ARGabcpp" fast="false" reversible="false" name="L-arginine transport via ABC system (periplasm)" metaid="R_ARGabcpp" sboTerm="SBO:0000185" fbc:upperFluxBound="cobra_default_ub" fbc:lowerFluxBound="cobra_0_bound">
+        <sbml:annotation xmlns:sbml="http://www.sbml.org/sbml/level3/version1/core">
+          <rdf:RDF xmlns:rdf="http://www.w3.org/1999/02/22-rdf-syntax-ns#">
+            <rdf:Description rdf:about="#R_ARGabcpp">
+              <bqbiol:is xmlns:bqbiol="http://biomodels.net/biology-qualifiers/">
+                <rdf:Bag>
+                  <rdf:li rdf:resource="http://identifiers.org/bigg.reaction/ARGabcpp"/>
+                  <rdf:li rdf:resource="http://identifiers.org/biocyc/META:ABC-4-RXN"/>
+                  <rdf:li rdf:resource="http://identifiers.org/ec-code/3.6.3.21"/>
+                  <rdf:li rdf:resource="http://identifiers.org/metanetx.reaction/MNXR95952"/>
+                  <rdf:li rdf:resource="http://identifiers.org/rhea/29880#1"/>
+                  <rdf:li rdf:resource="http://identifiers.org/rhea/29882#1"/>
+                  <rdf:li rdf:resource="http://identifiers.org/rhea/29881#1"/>
+                  <rdf:li rdf:resource="http://identifiers.org/rhea/29879#1"/>
+                  <rdf:li rdf:resource="http://identifiers.org/seed.reaction/rxn08151"/>
+                  <rdf:li rdf:resource="http://identifiers.org/seed.reaction/rxn11236"/>
+                  <rdf:li rdf:resource="http://identifiers.org/seed.reaction/rxn05154"/>
+                </rdf:Bag>
+              </bqbiol:is>
+            </rdf:Description>
+          </rdf:RDF>
+        </sbml:annotation>
+        <listOfReactants>
+          <speciesReference species="M_arg__L_p" stoichiometry="1" constant="true"/>
+          <speciesReference species="M_atp_c" stoichiometry="1" constant="true"/>
+          <speciesReference species="M_h2o_c" stoichiometry="1" constant="true"/>
+        </listOfReactants>
+        <listOfProducts>
+          <speciesReference species="M_adp_c" stoichiometry="1" constant="true"/>
+          <speciesReference species="M_arg__L_c" stoichiometry="1" constant="true"/>
+          <speciesReference species="M_h_c" stoichiometry="1" constant="true"/>
+          <speciesReference species="M_pi_c" stoichiometry="1" constant="true"/>
+        </listOfProducts>
+        <fbc:geneProductAssociation>
+          <fbc:or>
+            <fbc:and>
+              <fbc:geneProductRef fbc:geneProduct="G_b2308"/>
+              <fbc:geneProductRef fbc:geneProduct="G_b2306"/>
+              <fbc:geneProductRef fbc:geneProduct="G_b2310"/>
+              <fbc:geneProductRef fbc:geneProduct="G_b2307"/>
+            </fbc:and>
+            <fbc:and>
+              <fbc:geneProductRef fbc:geneProduct="G_b0864"/>
+              <fbc:geneProductRef fbc:geneProduct="G_b0860"/>
+              <fbc:geneProductRef fbc:geneProduct="G_b0863"/>
+              <fbc:geneProductRef fbc:geneProduct="G_b0862"/>
+              <fbc:geneProductRef fbc:geneProduct="G_b0861"/>
+            </fbc:and>
+          </fbc:or>
+        </fbc:geneProductAssociation>
+      </reaction>
+      <reaction id="R_ADNt2pp_copy1" fast="false" reversible="false" name="Adenosine transport in via proton symport (periplasm)" metaid="R_ADNt2pp_copy1" sboTerm="SBO:0000176" fbc:upperFluxBound="cobra_default_ub" fbc:lowerFluxBound="cobra_0_bound">
+        <sbml:annotation xmlns:sbml="http://www.sbml.org/sbml/level3/version1/core">
+          <rdf:RDF xmlns:rdf="http://www.w3.org/1999/02/22-rdf-syntax-ns#">
+            <rdf:Description rdf:about="#R_ADNt2pp_copy1">
+              <bqbiol:is xmlns:bqbiol="http://biomodels.net/biology-qualifiers/">
+                <rdf:Bag>
+                  <rdf:li rdf:resource="http://identifiers.org/bigg.reaction/ADNt2pp"/>
+                  <rdf:li rdf:resource="http://identifiers.org/biocyc/META:TRANS-RXN-203"/>
+                  <rdf:li rdf:resource="http://identifiers.org/biocyc/META:TRANS-RXN-108A"/>
+                  <rdf:li rdf:resource="http://identifiers.org/metanetx.reaction/MNXR95461"/>
+                  <rdf:li rdf:resource="http://identifiers.org/rhea/29988"/>
+                  <rdf:li rdf:resource="http://identifiers.org/rhea/29990"/>
+                  <rdf:li rdf:resource="http://identifiers.org/rhea/29987"/>
+                  <rdf:li rdf:resource="http://identifiers.org/rhea/29989"/>
+                  <rdf:li rdf:resource="http://identifiers.org/seed.reaction/rxn05318"/>
+                  <rdf:li rdf:resource="http://identifiers.org/seed.reaction/rxn08068"/>
+                </rdf:Bag>
+              </bqbiol:is>
+            </rdf:Description>
+          </rdf:RDF>
+        </sbml:annotation>
+        <listOfReactants>
+          <speciesReference species="M_adn_p" stoichiometry="1" constant="true"/>
+          <speciesReference species="M_h_p" stoichiometry="1" constant="true"/>
+        </listOfReactants>
+        <listOfProducts>
+          <speciesReference species="M_adn_c" stoichiometry="1" constant="true"/>
+          <speciesReference species="M_h_c" stoichiometry="1" constant="true"/>
+        </listOfProducts>
+        <fbc:geneProductAssociation>
+          <fbc:or>
+            <fbc:geneProductRef fbc:geneProduct="G_b2964"/>
+            <fbc:geneProductRef fbc:geneProduct="G_b2393"/>
+          </fbc:or>
+        </fbc:geneProductAssociation>
+      </reaction>
+      <reaction id="R_ADNt2pp_copy2" fast="false" reversible="true" name="Adenosine transport in via proton symport (periplasm)" metaid="R_ADNt2pp_copy2" sboTerm="SBO:0000176" fbc:upperFluxBound="cobra_default_ub" fbc:lowerFluxBound="cobra_default_lb">
+        <sbml:annotation xmlns:sbml="http://www.sbml.org/sbml/level3/version1/core">
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+              <bqbiol:is xmlns:bqbiol="http://biomodels.net/biology-qualifiers/">
+                <rdf:Bag>
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+                  <rdf:li rdf:resource="http://identifiers.org/biocyc/META:TRANS-RXN-203"/>
+                  <rdf:li rdf:resource="http://identifiers.org/biocyc/META:TRANS-RXN-108A"/>
+                  <rdf:li rdf:resource="http://identifiers.org/metanetx.reaction/MNXR95461"/>
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+                  <rdf:li rdf:resource="http://identifiers.org/rhea/29990"/>
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+                  <rdf:li rdf:resource="http://identifiers.org/rhea/29989"/>
+                  <rdf:li rdf:resource="http://identifiers.org/seed.reaction/rxn05318"/>
+                  <rdf:li rdf:resource="http://identifiers.org/seed.reaction/rxn08068"/>
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+            </rdf:Description>
+          </rdf:RDF>
+        </sbml:annotation>
+        <listOfReactants>
+          <speciesReference species="M_adn_p" stoichiometry="1" constant="true"/>
+          <speciesReference species="M_h_p" stoichiometry="1" constant="true"/>
+        </listOfReactants>
+        <listOfProducts>
+          <speciesReference species="M_adn_c" stoichiometry="1" constant="true"/>
+          <speciesReference species="M_h_c" stoichiometry="1" constant="true"/>
+        </listOfProducts>
+        <fbc:geneProductAssociation>
+          <fbc:geneProductRef fbc:geneProduct="G_b2406"/>
+        </fbc:geneProductAssociation>
+      </reaction>
+      <reaction id="R_ALAabcpp" fast="false" reversible="false" name="L-alanine transport via ABC system (periplasm)" metaid="R_ALAabcpp" sboTerm="SBO:0000185" fbc:upperFluxBound="cobra_default_ub" fbc:lowerFluxBound="cobra_0_bound">
+        <sbml:annotation xmlns:sbml="http://www.sbml.org/sbml/level3/version1/core">
+          <rdf:RDF xmlns:rdf="http://www.w3.org/1999/02/22-rdf-syntax-ns#">
+            <rdf:Description rdf:about="#R_ALAabcpp">
+              <bqbiol:is xmlns:bqbiol="http://biomodels.net/biology-qualifiers/">
+                <rdf:Bag>
+                  <rdf:li rdf:resource="http://identifiers.org/bigg.reaction/ALAabcpp"/>
+                  <rdf:li rdf:resource="http://identifiers.org/metanetx.reaction/MNXR95703"/>
+                  <rdf:li rdf:resource="http://identifiers.org/seed.reaction/rxn10170"/>
+                  <rdf:li rdf:resource="http://identifiers.org/seed.reaction/rxn08097"/>
+                </rdf:Bag>
+              </bqbiol:is>
+            </rdf:Description>
+          </rdf:RDF>
+        </sbml:annotation>
+        <listOfReactants>
+          <speciesReference species="M_ala__L_p" stoichiometry="1" constant="true"/>
+          <speciesReference species="M_atp_c" stoichiometry="1" constant="true"/>
+          <speciesReference species="M_h2o_c" stoichiometry="1" constant="true"/>
+        </listOfReactants>
+        <listOfProducts>
+          <speciesReference species="M_adp_c" stoichiometry="1" constant="true"/>
+          <speciesReference species="M_ala__L_c" stoichiometry="1" constant="true"/>
+          <speciesReference species="M_h_c" stoichiometry="1" constant="true"/>
+          <speciesReference species="M_pi_c" stoichiometry="1" constant="true"/>
+        </listOfProducts>
+        <fbc:geneProductAssociation>
+          <fbc:and>
+            <fbc:geneProductRef fbc:geneProduct="G_b3454"/>
+            <fbc:geneProductRef fbc:geneProduct="G_b3456"/>
+            <fbc:geneProductRef fbc:geneProduct="G_b3455"/>
+            <fbc:geneProductRef fbc:geneProduct="G_b3460"/>
+            <fbc:geneProductRef fbc:geneProduct="G_b3457"/>
+          </fbc:and>
+        </fbc:geneProductAssociation>
+      </reaction>
+      <reaction id="R_ALLabcpp" fast="false" reversible="false" name="D-allose transport via ABC system (periplasm)" metaid="R_ALLabcpp" sboTerm="SBO:0000185" fbc:upperFluxBound="cobra_default_ub" fbc:lowerFluxBound="cobra_0_bound">
+        <sbml:annotation xmlns:sbml="http://www.sbml.org/sbml/level3/version1/core">
+          <rdf:RDF xmlns:rdf="http://www.w3.org/1999/02/22-rdf-syntax-ns#">
+            <rdf:Description rdf:about="#R_ALLabcpp">
+              <bqbiol:is xmlns:bqbiol="http://biomodels.net/biology-qualifiers/">
+                <rdf:Bag>
+                  <rdf:li rdf:resource="http://identifiers.org/bigg.reaction/ALLabcpp"/>
+                  <rdf:li rdf:resource="http://identifiers.org/biocyc/META:ABC-42-RXN"/>
+                  <rdf:li rdf:resource="http://identifiers.org/metanetx.reaction/MNXR95775"/>
+                  <rdf:li rdf:resource="http://identifiers.org/seed.reaction/rxn05185"/>
+                  <rdf:li rdf:resource="http://identifiers.org/seed.reaction/rxn08112"/>
+                </rdf:Bag>
+              </bqbiol:is>
+            </rdf:Description>
+          </rdf:RDF>
+        </sbml:annotation>
+        <listOfReactants>
+          <speciesReference species="M_all__D_p" stoichiometry="1" constant="true"/>
+          <speciesReference species="M_atp_c" stoichiometry="1" constant="true"/>
+          <speciesReference species="M_h2o_c" stoichiometry="1" constant="true"/>
+        </listOfReactants>
+        <listOfProducts>
+          <speciesReference species="M_adp_c" stoichiometry="1" constant="true"/>
+          <speciesReference species="M_all__D_c" stoichiometry="1" constant="true"/>
+          <speciesReference species="M_h_c" stoichiometry="1" constant="true"/>
+          <speciesReference species="M_pi_c" stoichiometry="1" constant="true"/>
+        </listOfProducts>
+        <fbc:geneProductAssociation>
+          <fbc:and>
+            <fbc:geneProductRef fbc:geneProduct="G_b4087"/>
+            <fbc:geneProductRef fbc:geneProduct="G_b4088"/>
+            <fbc:geneProductRef fbc:geneProduct="G_b4086"/>
+          </fbc:and>
+        </fbc:geneProductAssociation>
+      </reaction>
+      <reaction id="R_ALLTNt2rpp" fast="false" reversible="true" name="Allantoin transport in via proton symport (periplasm)" metaid="R_ALLTNt2rpp" sboTerm="SBO:0000185" fbc:upperFluxBound="cobra_default_ub" fbc:lowerFluxBound="cobra_default_lb">
+        <sbml:annotation xmlns:sbml="http://www.sbml.org/sbml/level3/version1/core">
+          <rdf:RDF xmlns:rdf="http://www.w3.org/1999/02/22-rdf-syntax-ns#">
+            <rdf:Description rdf:about="#R_ALLTNt2rpp">
+              <bqbiol:is xmlns:bqbiol="http://biomodels.net/biology-qualifiers/">
+                <rdf:Bag>
+                  <rdf:li rdf:resource="http://identifiers.org/bigg.reaction/ALLTNt2rpp"/>
+                  <rdf:li rdf:resource="http://identifiers.org/metanetx.reaction/MNXR95770"/>
+                  <rdf:li rdf:resource="http://identifiers.org/seed.reaction/rxn08116"/>
+                  <rdf:li rdf:resource="http://identifiers.org/seed.reaction/rxn05682"/>
+                </rdf:Bag>
+              </bqbiol:is>
+            </rdf:Description>
+          </rdf:RDF>
+        </sbml:annotation>
+        <listOfReactants>
+          <speciesReference species="M_alltn_p" stoichiometry="1" constant="true"/>
+          <speciesReference species="M_h_p" stoichiometry="1" constant="true"/>
+        </listOfReactants>
+        <listOfProducts>
+          <speciesReference species="M_alltn_c" stoichiometry="1" constant="true"/>
+          <speciesReference species="M_h_c" stoichiometry="1" constant="true"/>
+        </listOfProducts>
+        <fbc:geneProductAssociation>
+          <fbc:geneProductRef fbc:geneProduct="G_b0511"/>
+        </fbc:geneProductAssociation>
+      </reaction>
+      <reaction id="R_ARBabcpp" fast="false" reversible="false" name="L-arabinose transport via ABC system (periplasm)" metaid="R_ARBabcpp" sboTerm="SBO:0000185" fbc:upperFluxBound="cobra_default_ub" fbc:lowerFluxBound="cobra_0_bound">
+        <sbml:annotation xmlns:sbml="http://www.sbml.org/sbml/level3/version1/core">
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+            <rdf:Description rdf:about="#R_ARBabcpp">
+              <bqbiol:is xmlns:bqbiol="http://biomodels.net/biology-qualifiers/">
+                <rdf:Bag>
+                  <rdf:li rdf:resource="http://identifiers.org/bigg.reaction/ARBabcpp"/>
+                  <rdf:li rdf:resource="http://identifiers.org/biocyc/META:ABC-2-RXN"/>
+                  <rdf:li rdf:resource="http://identifiers.org/ec-code/3.6.3.17"/>
+                  <rdf:li rdf:resource="http://identifiers.org/metanetx.reaction/MNXR95935"/>
+                </rdf:Bag>
+              </bqbiol:is>
+            </rdf:Description>
+          </rdf:RDF>
+        </sbml:annotation>
+        <listOfReactants>
+          <speciesReference species="M_arab__L_p" stoichiometry="1" constant="true"/>
+          <speciesReference species="M_atp_c" stoichiometry="1" constant="true"/>
+          <speciesReference species="M_h2o_c" stoichiometry="1" constant="true"/>
+        </listOfReactants>
+        <listOfProducts>
+          <speciesReference species="M_adp_c" stoichiometry="1" constant="true"/>
+          <speciesReference species="M_arab__L_c" stoichiometry="1" constant="true"/>
+          <speciesReference species="M_h_c" stoichiometry="1" constant="true"/>
+          <speciesReference species="M_pi_c" stoichiometry="1" constant="true"/>
+        </listOfProducts>
+        <fbc:geneProductAssociation>
+          <fbc:and>
+            <fbc:geneProductRef fbc:geneProduct="G_b4460"/>
+            <fbc:geneProductRef fbc:geneProduct="G_b1901"/>
+            <fbc:geneProductRef fbc:geneProduct="G_b1900"/>
+          </fbc:and>
+        </fbc:geneProductAssociation>
+      </reaction>
+      <reaction id="R_ARGAGMt7pp" fast="false" reversible="true" name="Arginine/agmatine antiport (periplasm)" metaid="R_ARGAGMt7pp" sboTerm="SBO:0000185" fbc:upperFluxBound="cobra_default_ub" fbc:lowerFluxBound="cobra_default_lb">
+        <sbml:annotation xmlns:sbml="http://www.sbml.org/sbml/level3/version1/core">
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+            <rdf:Description rdf:about="#R_ARGAGMt7pp">
+              <bqbiol:is xmlns:bqbiol="http://biomodels.net/biology-qualifiers/">
+                <rdf:Bag>
+                  <rdf:li rdf:resource="http://identifiers.org/bigg.reaction/ARGAGMt7pp"/>
+                  <rdf:li rdf:resource="http://identifiers.org/biocyc/META:RXN0-2162"/>
+                  <rdf:li rdf:resource="http://identifiers.org/metanetx.reaction/MNXR95938"/>
+                  <rdf:li rdf:resource="http://identifiers.org/rhea/29654"/>
+                  <rdf:li rdf:resource="http://identifiers.org/rhea/29653"/>
+                  <rdf:li rdf:resource="http://identifiers.org/rhea/29652"/>
+                  <rdf:li rdf:resource="http://identifiers.org/rhea/29651"/>
+                  <rdf:li rdf:resource="http://identifiers.org/seed.reaction/rxn13809"/>
+                  <rdf:li rdf:resource="http://identifiers.org/seed.reaction/rxn08152"/>
+                </rdf:Bag>
+              </bqbiol:is>
+            </rdf:Description>
+          </rdf:RDF>
+        </sbml:annotation>
+        <listOfReactants>
+          <speciesReference species="M_agm_c" stoichiometry="1" constant="true"/>
+          <speciesReference species="M_arg__L_p" stoichiometry="1" constant="true"/>
+        </listOfReactants>
+        <listOfProducts>
+          <speciesReference species="M_agm_p" stoichiometry="1" constant="true"/>
+          <speciesReference species="M_arg__L_c" stoichiometry="1" constant="true"/>
+        </listOfProducts>
+        <fbc:geneProductAssociation>
+          <fbc:geneProductRef fbc:geneProduct="G_b4115"/>
+        </fbc:geneProductAssociation>
+      </reaction>
+      <reaction id="R_ASCBptspp" fast="false" reversible="false" name="L-ascorbate transport via PEP:Pyr PTS (periplasm)" metaid="R_ASCBptspp" sboTerm="SBO:0000185" fbc:upperFluxBound="cobra_default_ub" fbc:lowerFluxBound="cobra_0_bound">
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+                  <rdf:li rdf:resource="http://identifiers.org/seed.reaction/rxn08158"/>
+                  <rdf:li rdf:resource="http://identifiers.org/seed.reaction/rxn13758"/>
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+          </rdf:RDF>
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+          <speciesReference species="M_pep_c" stoichiometry="1" constant="true"/>
+        </listOfReactants>
+        <listOfProducts>
+          <speciesReference species="M_ascb6p_c" stoichiometry="1" constant="true"/>
+          <speciesReference species="M_pyr_c" stoichiometry="1" constant="true"/>
+        </listOfProducts>
+        <fbc:geneProductAssociation>
+          <fbc:and>
+            <fbc:geneProductRef fbc:geneProduct="G_b4195"/>
+            <fbc:geneProductRef fbc:geneProduct="G_b4193"/>
+            <fbc:geneProductRef fbc:geneProduct="G_b2415"/>
+            <fbc:geneProductRef fbc:geneProduct="G_b2416"/>
+            <fbc:geneProductRef fbc:geneProduct="G_b4194"/>
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+        </fbc:geneProductAssociation>
+      </reaction>
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+                  <rdf:li rdf:resource="http://identifiers.org/rhea/25094"/>
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+          <speciesReference species="M_dcmp_c" stoichiometry="1" constant="true"/>
+        </listOfReactants>
+        <listOfProducts>
+          <speciesReference species="M_adp_c" stoichiometry="1" constant="true"/>
+          <speciesReference species="M_dcdp_c" stoichiometry="1" constant="true"/>
+        </listOfProducts>
+        <fbc:geneProductAssociation>
+          <fbc:geneProductRef fbc:geneProduct="G_b0910"/>
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+                  <rdf:li rdf:resource="http://identifiers.org/seed.reaction/rxn05508"/>
+                  <rdf:li rdf:resource="http://identifiers.org/seed.reaction/rxn08161"/>
+                  <rdf:li rdf:resource="http://identifiers.org/seed.reaction/rxn11321"/>
+                  <rdf:li rdf:resource="http://identifiers.org/seed.reaction/rxn13230"/>
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+          <speciesReference species="M_asn__L_p" stoichiometry="1" constant="true"/>
+          <speciesReference species="M_h_p" stoichiometry="1" constant="true"/>
+        </listOfReactants>
+        <listOfProducts>
+          <speciesReference species="M_asn__L_c" stoichiometry="1" constant="true"/>
+          <speciesReference species="M_h_c" stoichiometry="1" constant="true"/>
+        </listOfProducts>
+        <fbc:geneProductAssociation>
+          <fbc:geneProductRef fbc:geneProduct="G_b1453"/>
+        </fbc:geneProductAssociation>
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+      <reaction id="R_ASPabcpp" fast="false" reversible="false" name="L-aspartate transport via ABC system (periplasm)" metaid="R_ASPabcpp" sboTerm="SBO:0000185" fbc:upperFluxBound="cobra_default_ub" fbc:lowerFluxBound="cobra_0_bound">
+        <sbml:annotation xmlns:sbml="http://www.sbml.org/sbml/level3/version1/core">
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+              <bqbiol:is xmlns:bqbiol="http://biomodels.net/biology-qualifiers/">
+                <rdf:Bag>
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+                  <rdf:li rdf:resource="http://identifiers.org/rhea/29040#1"/>
+                  <rdf:li rdf:resource="http://identifiers.org/rhea/29041#1"/>
+                  <rdf:li rdf:resource="http://identifiers.org/rhea/29042#1"/>
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+                  <rdf:li rdf:resource="http://identifiers.org/seed.reaction/rxn08165"/>
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+          <speciesReference species="M_asp__L_p" stoichiometry="1" constant="true"/>
+          <speciesReference species="M_atp_c" stoichiometry="1" constant="true"/>
+          <speciesReference species="M_h2o_c" stoichiometry="1" constant="true"/>
+        </listOfReactants>
+        <listOfProducts>
+          <speciesReference species="M_adp_c" stoichiometry="1" constant="true"/>
+          <speciesReference species="M_asp__L_c" stoichiometry="1" constant="true"/>
+          <speciesReference species="M_h_c" stoichiometry="1" constant="true"/>
+          <speciesReference species="M_pi_c" stoichiometry="1" constant="true"/>
+        </listOfProducts>
+        <fbc:geneProductAssociation>
+          <fbc:and>
+            <fbc:geneProductRef fbc:geneProduct="G_b0654"/>
+            <fbc:geneProductRef fbc:geneProduct="G_b0652"/>
+            <fbc:geneProductRef fbc:geneProduct="G_b0655"/>
+            <fbc:geneProductRef fbc:geneProduct="G_b0653"/>
+          </fbc:and>
+        </fbc:geneProductAssociation>
+      </reaction>
+      <reaction id="R_ASPt2pp" fast="false" reversible="false" name="L-aspartate transport in via proton symport (periplasm)" metaid="R_ASPt2pp" sboTerm="SBO:0000185" fbc:upperFluxBound="cobra_default_ub" fbc:lowerFluxBound="cobra_0_bound">
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+              <bqbiol:is xmlns:bqbiol="http://biomodels.net/biology-qualifiers/">
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+                  <rdf:li rdf:resource="http://identifiers.org/metanetx.reaction/MNXR96106"/>
+                  <rdf:li rdf:resource="http://identifiers.org/seed.reaction/rxn09781"/>
+                  <rdf:li rdf:resource="http://identifiers.org/seed.reaction/rxn05217"/>
+                  <rdf:li rdf:resource="http://identifiers.org/seed.reaction/rxn09825"/>
+                  <rdf:li rdf:resource="http://identifiers.org/seed.reaction/rxn13233"/>
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+          <speciesReference species="M_asp__L_p" stoichiometry="1" constant="true"/>
+          <speciesReference species="M_h_p" stoichiometry="1" constant="true"/>
+        </listOfReactants>
+        <listOfProducts>
+          <speciesReference species="M_asp__L_c" stoichiometry="1" constant="true"/>
+          <speciesReference species="M_h_c" stoichiometry="1" constant="true"/>
+        </listOfProducts>
+        <fbc:geneProductAssociation>
+          <fbc:geneProductRef fbc:geneProduct="G_b4077"/>
+        </fbc:geneProductAssociation>
+      </reaction>
+      <reaction id="R_ECOAH8" fast="false" reversible="true" name="3-hydroxyacyl-CoA dehydratase (3-hydroxyoctadecanoyl-CoA)" metaid="R_ECOAH8" sboTerm="SBO:0000176" fbc:upperFluxBound="cobra_default_ub" fbc:lowerFluxBound="cobra_default_lb">
+        <sbml:annotation xmlns:sbml="http://www.sbml.org/sbml/level3/version1/core">
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+              <bqbiol:is xmlns:bqbiol="http://biomodels.net/biology-qualifiers/">
+                <rdf:Bag>
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+                  <rdf:li rdf:resource="http://identifiers.org/ec-code/4.2.1.134"/>
+                  <rdf:li rdf:resource="http://identifiers.org/ec-code/4.2.1.17"/>
+                  <rdf:li rdf:resource="http://identifiers.org/metanetx.reaction/MNXR97893"/>
+                  <rdf:li rdf:resource="http://identifiers.org/seed.reaction/rxn08413"/>
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+        </sbml:annotation>
+        <listOfReactants>
+          <speciesReference species="M_3hodcoa_c" stoichiometry="1" constant="true"/>
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+        <listOfProducts>
+          <speciesReference species="M_h2o_c" stoichiometry="1" constant="true"/>
+          <speciesReference species="M_od2coa_c" stoichiometry="1" constant="true"/>
+        </listOfProducts>
+        <fbc:geneProductAssociation>
+          <fbc:or>
+            <fbc:geneProductRef fbc:geneProduct="G_b2341"/>
+            <fbc:geneProductRef fbc:geneProduct="G_b3846"/>
+          </fbc:or>
+        </fbc:geneProductAssociation>
+      </reaction>
+      <reaction id="R_GLCDpp" fast="false" reversible="false" name="Glucose dehydrogenase (ubiquinone-8 as acceptor) (periplasm)" metaid="R_GLCDpp" sboTerm="SBO:0000185" fbc:upperFluxBound="cobra_default_ub" fbc:lowerFluxBound="cobra_0_bound">
+        <sbml:annotation xmlns:sbml="http://www.sbml.org/sbml/level3/version1/core">
+          <rdf:RDF xmlns:rdf="http://www.w3.org/1999/02/22-rdf-syntax-ns#">
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+              <bqbiol:is xmlns:bqbiol="http://biomodels.net/biology-qualifiers/">
+                <rdf:Bag>
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+                  <rdf:li rdf:resource="http://identifiers.org/metanetx.reaction/MNXR100177"/>
+                  <rdf:li rdf:resource="http://identifiers.org/seed.reaction/rxn08608"/>
+                  <rdf:li rdf:resource="http://identifiers.org/seed.reaction/rxn10116"/>
+                </rdf:Bag>
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+            </rdf:Description>
+          </rdf:RDF>
+        </sbml:annotation>
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+          <speciesReference species="M_glc__D_p" stoichiometry="1" constant="true"/>
+          <speciesReference species="M_h2o_p" stoichiometry="1" constant="true"/>
+          <speciesReference species="M_q8_c" stoichiometry="1" constant="true"/>
+        </listOfReactants>
+        <listOfProducts>
+          <speciesReference species="M_glcn_p" stoichiometry="1" constant="true"/>
+          <speciesReference species="M_h_p" stoichiometry="1" constant="true"/>
+          <speciesReference species="M_q8h2_c" stoichiometry="1" constant="true"/>
+        </listOfProducts>
+        <fbc:geneProductAssociation>
+          <fbc:or>
+            <fbc:geneProductRef fbc:geneProduct="G_b0124"/>
+            <fbc:geneProductRef fbc:geneProduct="G_b0837"/>
+          </fbc:or>
+        </fbc:geneProductAssociation>
+      </reaction>
+      <reaction id="R_GUAtpp" fast="false" reversible="true" name="Guanine transport via diffusion (periplasm)" metaid="R_GUAtpp" sboTerm="SBO:0000185" fbc:upperFluxBound="cobra_default_ub" fbc:lowerFluxBound="cobra_default_lb">
+        <sbml:annotation xmlns:sbml="http://www.sbml.org/sbml/level3/version1/core">
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+              <bqbiol:is xmlns:bqbiol="http://biomodels.net/biology-qualifiers/">
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+                  <rdf:li rdf:resource="http://identifiers.org/seed.reaction/rxn10142"/>
+                  <rdf:li rdf:resource="http://identifiers.org/seed.reaction/rxn08683"/>
+                  <rdf:li rdf:resource="http://identifiers.org/seed.reaction/rxn08682"/>
+                  <rdf:li rdf:resource="http://identifiers.org/seed.reaction/rxn09746"/>
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+        </sbml:annotation>
+        <listOfReactants>
+          <speciesReference species="M_gua_p" stoichiometry="1" constant="true"/>
+        </listOfReactants>
+        <listOfProducts>
+          <speciesReference species="M_gua_c" stoichiometry="1" constant="true"/>
+        </listOfProducts>
+        <fbc:geneProductAssociation>
+          <fbc:or>
+            <fbc:geneProductRef fbc:geneProduct="G_b4464"/>
+            <fbc:geneProductRef fbc:geneProduct="G_b4064"/>
+          </fbc:or>
+        </fbc:geneProductAssociation>
+      </reaction>
+      <reaction id="R_ASPt2_2pp" fast="false" reversible="false" name="Aspartate transport via proton symport (2 H) (periplasm)" metaid="R_ASPt2_2pp" sboTerm="SBO:0000185" fbc:upperFluxBound="cobra_default_ub" fbc:lowerFluxBound="cobra_0_bound">
+        <sbml:annotation xmlns:sbml="http://www.sbml.org/sbml/level3/version1/core">
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+                  <rdf:li rdf:resource="http://identifiers.org/rhea/29289"/>
+                  <rdf:li rdf:resource="http://identifiers.org/rhea/29287"/>
+                  <rdf:li rdf:resource="http://identifiers.org/rhea/29290"/>
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+            </rdf:Description>
+          </rdf:RDF>
+        </sbml:annotation>
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+          <speciesReference species="M_h_p" stoichiometry="2" constant="true"/>
+        </listOfReactants>
+        <listOfProducts>
+          <speciesReference species="M_asp__L_c" stoichiometry="1" constant="true"/>
+          <speciesReference species="M_h_c" stoichiometry="2" constant="true"/>
+        </listOfProducts>
+        <fbc:geneProductAssociation>
+          <fbc:geneProductRef fbc:geneProduct="G_b3528"/>
+        </fbc:geneProductAssociation>
+      </reaction>
+      <reaction id="R_HYD2pp" fast="false" reversible="false" name="Hydrogenase (menaquinone8: 2 protons) (periplasm)" metaid="R_HYD2pp" sboTerm="SBO:0000185" fbc:upperFluxBound="cobra_default_ub" fbc:lowerFluxBound="cobra_0_bound">
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+              <bqbiol:is xmlns:bqbiol="http://biomodels.net/biology-qualifiers/">
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+                  <rdf:li rdf:resource="http://identifiers.org/rhea/29054#1"/>
+                  <rdf:li rdf:resource="http://identifiers.org/rhea/29053#1"/>
+                  <rdf:li rdf:resource="http://identifiers.org/seed.reaction/rxn08735"/>
+                  <rdf:li rdf:resource="http://identifiers.org/seed.reaction/rxn10119"/>
+                </rdf:Bag>
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+            </rdf:Description>
+          </rdf:RDF>
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+          <speciesReference species="M_h2_c" stoichiometry="1" constant="true"/>
+          <speciesReference species="M_h_c" stoichiometry="2" constant="true"/>
+          <speciesReference species="M_mqn8_c" stoichiometry="1" constant="true"/>
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+        <listOfProducts>
+          <speciesReference species="M_h_p" stoichiometry="2" constant="true"/>
+          <speciesReference species="M_mql8_c" stoichiometry="1" constant="true"/>
+        </listOfProducts>
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+          <fbc:or>
+            <fbc:and>
+              <fbc:geneProductRef fbc:geneProduct="G_b0973"/>
+              <fbc:geneProductRef fbc:geneProduct="G_b0974"/>
+              <fbc:geneProductRef fbc:geneProduct="G_b0972"/>
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+            <fbc:and>
+              <fbc:geneProductRef fbc:geneProduct="G_b2994"/>
+              <fbc:geneProductRef fbc:geneProduct="G_b2997"/>
+              <fbc:geneProductRef fbc:geneProduct="G_b2996"/>
+              <fbc:geneProductRef fbc:geneProduct="G_b2995"/>
+            </fbc:and>
+          </fbc:or>
+        </fbc:geneProductAssociation>
+      </reaction>
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+                  <rdf:li rdf:resource="http://identifiers.org/biocyc/META:GUANYL-KIN-RXN"/>
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+                  <rdf:li rdf:resource="http://identifiers.org/metanetx.reaction/MNXR100144"/>
+                  <rdf:li rdf:resource="http://identifiers.org/rhea/20783"/>
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+                  <rdf:li rdf:resource="http://identifiers.org/rhea/20781"/>
+                  <rdf:li rdf:resource="http://identifiers.org/sabiork/77"/>
+                  <rdf:li rdf:resource="http://identifiers.org/seed.reaction/rxn00239"/>
+                </rdf:Bag>
+              </bqbiol:is>
+            </rdf:Description>
+          </rdf:RDF>
+        </sbml:annotation>
+        <listOfReactants>
+          <speciesReference species="M_atp_c" stoichiometry="1" constant="true"/>
+          <speciesReference species="M_gmp_c" stoichiometry="1" constant="true"/>
+        </listOfReactants>
+        <listOfProducts>
+          <speciesReference species="M_adp_c" stoichiometry="1" constant="true"/>
+          <speciesReference species="M_gdp_c" stoichiometry="1" constant="true"/>
+        </listOfProducts>
+        <fbc:geneProductAssociation>
+          <fbc:geneProductRef fbc:geneProduct="G_b3648"/>
+        </fbc:geneProductAssociation>
+      </reaction>
+      <reaction id="R_HYXNtpp" fast="false" reversible="true" name="Hypoxanthine transport (periplasm)" metaid="R_HYXNtpp" sboTerm="SBO:0000185" fbc:upperFluxBound="cobra_default_ub" fbc:lowerFluxBound="cobra_default_lb">
+        <sbml:annotation xmlns:sbml="http://www.sbml.org/sbml/level3/version1/core">
+          <rdf:RDF xmlns:rdf="http://www.w3.org/1999/02/22-rdf-syntax-ns#">
+            <rdf:Description rdf:about="#R_HYXNtpp">
+              <bqbiol:is xmlns:bqbiol="http://biomodels.net/biology-qualifiers/">
+                <rdf:Bag>
+                  <rdf:li rdf:resource="http://identifiers.org/bigg.reaction/HYXNtpp"/>
+                  <rdf:li rdf:resource="http://identifiers.org/biocyc/META:TRANS-RXN0-579"/>
+                  <rdf:li rdf:resource="http://identifiers.org/biocyc/META:TRANS-RXN0-562"/>
+                  <rdf:li rdf:resource="http://identifiers.org/metanetx.reaction/MNXR100749"/>
+                  <rdf:li rdf:resource="http://identifiers.org/seed.reaction/rxn10143"/>
+                  <rdf:li rdf:resource="http://identifiers.org/seed.reaction/rxn08737"/>
+                  <rdf:li rdf:resource="http://identifiers.org/seed.reaction/rxn08738"/>
+                </rdf:Bag>
+              </bqbiol:is>
+            </rdf:Description>
+          </rdf:RDF>
+        </sbml:annotation>
+        <listOfReactants>
+          <speciesReference species="M_hxan_p" stoichiometry="1" constant="true"/>
+        </listOfReactants>
+        <listOfProducts>
+          <speciesReference species="M_hxan_c" stoichiometry="1" constant="true"/>
+        </listOfProducts>
+        <fbc:geneProductAssociation>
+          <fbc:or>
+            <fbc:geneProductRef fbc:geneProduct="G_b4064"/>
+            <fbc:geneProductRef fbc:geneProduct="G_b4464"/>
+          </fbc:or>
+        </fbc:geneProductAssociation>
+      </reaction>
+      <reaction id="R_NACtpp" fast="false" reversible="false" name="Nicotinic acid uptake (periplasm)" metaid="R_NACtpp" sboTerm="SBO:0000185" fbc:upperFluxBound="cobra_default_ub" fbc:lowerFluxBound="cobra_0_bound">
+        <sbml:annotation xmlns:sbml="http://www.sbml.org/sbml/level3/version1/core">
+          <rdf:RDF xmlns:rdf="http://www.w3.org/1999/02/22-rdf-syntax-ns#">
+            <rdf:Description rdf:about="#R_NACtpp">
+              <bqbiol:is xmlns:bqbiol="http://biomodels.net/biology-qualifiers/">
+                <rdf:Bag>
+                  <rdf:li rdf:resource="http://identifiers.org/bigg.reaction/NACtpp"/>
+                  <rdf:li rdf:resource="http://identifiers.org/metanetx.reaction/MNXR101808"/>
+                  <rdf:li rdf:resource="http://identifiers.org/reactome.reaction/R-TGU-8869603"/>
+                  <rdf:li rdf:resource="http://identifiers.org/reactome.reaction/R-BTA-8869603"/>
+                  <rdf:li rdf:resource="http://identifiers.org/reactome.reaction/R-XTR-8869603"/>
+                  <rdf:li rdf:resource="http://identifiers.org/reactome.reaction/R-CFA-8869603"/>
+                  <rdf:li rdf:resource="http://identifiers.org/reactome.reaction/R-GGA-8869603"/>
+                  <rdf:li rdf:resource="http://identifiers.org/reactome.reaction/R-RNO-8869603"/>
+                  <rdf:li rdf:resource="http://identifiers.org/reactome.reaction/R-HSA-8869603"/>
+                  <rdf:li rdf:resource="http://identifiers.org/reactome.reaction/R-DME-8869603"/>
+                  <rdf:li rdf:resource="http://identifiers.org/reactome.reaction/R-SSC-8869603"/>
+                  <rdf:li rdf:resource="http://identifiers.org/reactome.reaction/R-MMU-8869603"/>
+                  <rdf:li rdf:resource="http://identifiers.org/reactome.reaction/R-DRE-8869603"/>
+                  <rdf:li rdf:resource="http://identifiers.org/seed.reaction/rxn08970"/>
+                  <rdf:li rdf:resource="http://identifiers.org/seed.reaction/rxn05310"/>
+                  <rdf:li rdf:resource="http://identifiers.org/seed.reaction/rxn08969"/>
+                </rdf:Bag>
+              </bqbiol:is>
+            </rdf:Description>
+          </rdf:RDF>
+        </sbml:annotation>
+        <listOfReactants>
+          <speciesReference species="M_nac_p" stoichiometry="1" constant="true"/>
+        </listOfReactants>
+        <listOfProducts>
+          <speciesReference species="M_nac_c" stoichiometry="1" constant="true"/>
+        </listOfProducts>
+      </reaction>
+      <reaction id="R_ASPt2_3pp" fast="false" reversible="false" name="L-asparate transport via proton symport (3 H) (periplasm)" metaid="R_ASPt2_3pp" sboTerm="SBO:0000185" fbc:upperFluxBound="cobra_default_ub" fbc:lowerFluxBound="cobra_0_bound">
+        <sbml:annotation xmlns:sbml="http://www.sbml.org/sbml/level3/version1/core">
+          <rdf:RDF xmlns:rdf="http://www.w3.org/1999/02/22-rdf-syntax-ns#">
+            <rdf:Description rdf:about="#R_ASPt2_3pp">
+              <bqbiol:is xmlns:bqbiol="http://biomodels.net/biology-qualifiers/">
+                <rdf:Bag>
+                  <rdf:li rdf:resource="http://identifiers.org/bigg.reaction/ASPt2_3pp"/>
+                  <rdf:li rdf:resource="http://identifiers.org/metanetx.reaction/MNXR96105"/>
+                  <rdf:li rdf:resource="http://identifiers.org/seed.reaction/rxn10155"/>
+                </rdf:Bag>
+              </bqbiol:is>
+            </rdf:Description>
+          </rdf:RDF>
+        </sbml:annotation>
+        <listOfReactants>
+          <speciesReference species="M_asp__L_p" stoichiometry="1" constant="true"/>
+          <speciesReference species="M_h_p" stoichiometry="3" constant="true"/>
+        </listOfReactants>
+        <listOfProducts>
+          <speciesReference species="M_asp__L_c" stoichiometry="1" constant="true"/>
+          <speciesReference species="M_h_c" stoichiometry="3" constant="true"/>
+        </listOfProducts>
+        <fbc:geneProductAssociation>
+          <fbc:or>
+            <fbc:geneProductRef fbc:geneProduct="G_b4138"/>
+            <fbc:geneProductRef fbc:geneProduct="G_b4123"/>
+          </fbc:or>
+        </fbc:geneProductAssociation>
+      </reaction>
+      <reaction id="R_HIStex" fast="false" reversible="true" name="L-histidine transport via diffusion (extracellular to periplasm)" metaid="R_HIStex" sboTerm="SBO:0000185" fbc:upperFluxBound="cobra_default_ub" fbc:lowerFluxBound="cobra_default_lb">
+        <sbml:annotation xmlns:sbml="http://www.sbml.org/sbml/level3/version1/core">
+          <rdf:RDF xmlns:rdf="http://www.w3.org/1999/02/22-rdf-syntax-ns#">
+            <rdf:Description rdf:about="#R_HIStex">
+              <bqbiol:is xmlns:bqbiol="http://biomodels.net/biology-qualifiers/">
+                <rdf:Bag>
+                  <rdf:li rdf:resource="http://identifiers.org/bigg.reaction/HIStex"/>
+                  <rdf:li rdf:resource="http://identifiers.org/metanetx.reaction/MNXR100649"/>
+                  <rdf:li rdf:resource="http://identifiers.org/sabiork/13472"/>
+                  <rdf:li rdf:resource="http://identifiers.org/seed.reaction/rxn08721"/>
+                  <rdf:li rdf:resource="http://identifiers.org/seed.reaction/rxn10932"/>
+                </rdf:Bag>
+              </bqbiol:is>
+            </rdf:Description>
+          </rdf:RDF>
+        </sbml:annotation>
+        <listOfReactants>
+          <speciesReference species="M_his__L_e" stoichiometry="1" constant="true"/>
+        </listOfReactants>
+        <listOfProducts>
+          <speciesReference species="M_his__L_p" stoichiometry="1" constant="true"/>
+        </listOfProducts>
+        <fbc:geneProductAssociation>
+          <fbc:or>
+            <fbc:geneProductRef fbc:geneProduct="G_b0241"/>
+            <fbc:geneProductRef fbc:geneProduct="G_b0929"/>
+            <fbc:geneProductRef fbc:geneProduct="G_b1377"/>
+            <fbc:geneProductRef fbc:geneProduct="G_b2215"/>
+          </fbc:or>
+        </fbc:geneProductAssociation>
+      </reaction>
+      <reaction id="R_FE3DCITabcpp" fast="false" reversible="false" name="Iron transport from ferric-dicitrate via ABC system (periplasm)" metaid="R_FE3DCITabcpp" sboTerm="SBO:0000185" fbc:upperFluxBound="cobra_default_ub" fbc:lowerFluxBound="cobra_0_bound">
+        <sbml:annotation xmlns:sbml="http://www.sbml.org/sbml/level3/version1/core">
+          <rdf:RDF xmlns:rdf="http://www.w3.org/1999/02/22-rdf-syntax-ns#">
+            <rdf:Description rdf:about="#R_FE3DCITabcpp">
+              <bqbiol:is xmlns:bqbiol="http://biomodels.net/biology-qualifiers/">
+                <rdf:Bag>
+                  <rdf:li rdf:resource="http://identifiers.org/bigg.reaction/FE3DCITabcpp"/>
+                  <rdf:li rdf:resource="http://identifiers.org/metanetx.reaction/MNXR99508"/>
+                  <rdf:li rdf:resource="http://identifiers.org/seed.reaction/rxn08478"/>
+                </rdf:Bag>
+              </bqbiol:is>
+            </rdf:Description>
+          </rdf:RDF>
+        </sbml:annotation>
+        <listOfReactants>
+          <speciesReference species="M_atp_c" stoichiometry="1" constant="true"/>
+          <speciesReference species="M_fe3dcit_p" stoichiometry="1" constant="true"/>
+          <speciesReference species="M_h2o_c" stoichiometry="1" constant="true"/>
+        </listOfReactants>
+        <listOfProducts>
+          <speciesReference species="M_adp_c" stoichiometry="1" constant="true"/>
+          <speciesReference species="M_cit_c" stoichiometry="2" constant="true"/>
+          <speciesReference species="M_fe3_c" stoichiometry="1" constant="true"/>
+          <speciesReference species="M_h_c" stoichiometry="1" constant="true"/>
+          <speciesReference species="M_pi_c" stoichiometry="1" constant="true"/>
+        </listOfProducts>
+        <fbc:geneProductAssociation>
+          <fbc:and>
+            <fbc:geneProductRef fbc:geneProduct="G_b4287"/>
+            <fbc:geneProductRef fbc:geneProduct="G_b4288"/>
+            <fbc:geneProductRef fbc:geneProduct="G_b4289"/>
+            <fbc:geneProductRef fbc:geneProduct="G_b4290"/>
+          </fbc:and>
+        </fbc:geneProductAssociation>
+      </reaction>
+      <reaction id="R_HXAtex" fast="false" reversible="true" name="Hexanoate transport via diffusion (extracellular to periplasm)" metaid="R_HXAtex" sboTerm="SBO:0000185" fbc:upperFluxBound="cobra_default_ub" fbc:lowerFluxBound="cobra_default_lb">
+        <sbml:annotation xmlns:sbml="http://www.sbml.org/sbml/level3/version1/core">
+          <rdf:RDF xmlns:rdf="http://www.w3.org/1999/02/22-rdf-syntax-ns#">
+            <rdf:Description rdf:about="#R_HXAtex">
+              <bqbiol:is xmlns:bqbiol="http://biomodels.net/biology-qualifiers/">
+                <rdf:Bag>
+                  <rdf:li rdf:resource="http://identifiers.org/bigg.reaction/HXAtex"/>
+                  <rdf:li rdf:resource="http://identifiers.org/metanetx.reaction/MNXR100750"/>
+                  <rdf:li rdf:resource="http://identifiers.org/seed.reaction/rxn08732"/>
+                </rdf:Bag>
+              </bqbiol:is>
+            </rdf:Description>
+          </rdf:RDF>
+        </sbml:annotation>
+        <listOfReactants>
+          <speciesReference species="M_hxa_e" stoichiometry="1" constant="true"/>
+        </listOfReactants>
+        <listOfProducts>
+          <speciesReference species="M_hxa_p" stoichiometry="1" constant="true"/>
+        </listOfProducts>
+        <fbc:geneProductAssociation>
+          <fbc:or>
+            <fbc:geneProductRef fbc:geneProduct="G_b0241"/>
+            <fbc:geneProductRef fbc:geneProduct="G_b0929"/>
+            <fbc:geneProductRef fbc:geneProduct="G_b1377"/>
+            <fbc:geneProductRef fbc:geneProduct="G_b2215"/>
+          </fbc:or>
+        </fbc:geneProductAssociation>
+      </reaction>
+      <reaction id="R_HACD1" fast="false" reversible="true" name="3-hydroxyacyl-CoA dehydrogenase (acetoacetyl-CoA)" metaid="R_HACD1" sboTerm="SBO:0000176" fbc:upperFluxBound="cobra_default_ub" fbc:lowerFluxBound="cobra_default_lb">
+        <sbml:annotation xmlns:sbml="http://www.sbml.org/sbml/level3/version1/core">
+          <rdf:RDF xmlns:rdf="http://www.w3.org/1999/02/22-rdf-syntax-ns#">
+            <rdf:Description rdf:about="#R_HACD1">
+              <bqbiol:is xmlns:bqbiol="http://biomodels.net/biology-qualifiers/">
+                <rdf:Bag>
+                  <rdf:li rdf:resource="http://identifiers.org/bigg.reaction/HACD1"/>
+                  <rdf:li rdf:resource="http://identifiers.org/biocyc/META:RXN-11662"/>
+                  <rdf:li rdf:resource="http://identifiers.org/ec-code/1.1.1.35"/>
+                  <rdf:li rdf:resource="http://identifiers.org/kegg.reaction/R01975"/>
+                  <rdf:li rdf:resource="http://identifiers.org/metanetx.reaction/MNXR100541"/>
+                  <rdf:li rdf:resource="http://identifiers.org/reactome.reaction/R-HSA-77312"/>
+                  <rdf:li rdf:resource="http://identifiers.org/reactome.reaction/R-MMU-77312"/>
+                  <rdf:li rdf:resource="http://identifiers.org/reactome.reaction/R-OSA-77312"/>
+                  <rdf:li rdf:resource="http://identifiers.org/reactome.reaction/R-XTR-77312"/>
+                  <rdf:li rdf:resource="http://identifiers.org/reactome.reaction/R-ATH-77312"/>
+                  <rdf:li rdf:resource="http://identifiers.org/reactome.reaction/R-CFA-77312"/>
+                  <rdf:li rdf:resource="http://identifiers.org/reactome.reaction/R-RNO-77312"/>
+                  <rdf:li rdf:resource="http://identifiers.org/reactome.reaction/R-BTA-77312"/>
+                  <rdf:li rdf:resource="http://identifiers.org/reactome.reaction/R-SSC-77312"/>
+                  <rdf:li rdf:resource="http://identifiers.org/reactome.reaction/R-DRE-77312"/>
+                  <rdf:li rdf:resource="http://identifiers.org/reactome.reaction/R-DDI-77312"/>
+                  <rdf:li rdf:resource="http://identifiers.org/reactome.reaction/R-TGU-77312"/>
+                  <rdf:li rdf:resource="http://identifiers.org/reactome.reaction/R-CEL-77312"/>
+                  <rdf:li rdf:resource="http://identifiers.org/reactome.reaction/R-GGA-77312"/>
+                  <rdf:li rdf:resource="http://identifiers.org/rhea/30801"/>
+                  <rdf:li rdf:resource="http://identifiers.org/rhea/30802"/>
+                  <rdf:li rdf:resource="http://identifiers.org/rhea/30799"/>
+                  <rdf:li rdf:resource="http://identifiers.org/rhea/30800"/>
+                  <rdf:li rdf:resource="http://identifiers.org/sabiork/2018"/>
+                  <rdf:li rdf:resource="http://identifiers.org/seed.reaction/rxn01451"/>
+                </rdf:Bag>
+              </bqbiol:is>
+            </rdf:Description>
+          </rdf:RDF>
+        </sbml:annotation>
+        <listOfReactants>
+          <speciesReference species="M_aacoa_c" stoichiometry="1" constant="true"/>
+          <speciesReference species="M_h_c" stoichiometry="1" constant="true"/>
+          <speciesReference species="M_nadh_c" stoichiometry="1" constant="true"/>
+        </listOfReactants>
+        <listOfProducts>
+          <speciesReference species="M_3hbcoa_c" stoichiometry="1" constant="true"/>
+          <speciesReference species="M_nad_c" stoichiometry="1" constant="true"/>
+        </listOfProducts>
+        <fbc:geneProductAssociation>
+          <fbc:or>
+            <fbc:geneProductRef fbc:geneProduct="G_b3846"/>
+            <fbc:geneProductRef fbc:geneProduct="G_b2341"/>
+          </fbc:or>
+        </fbc:geneProductAssociation>
+      </reaction>
+      <reaction id="R_HYXNtex" fast="false" reversible="true" name="Hypoxanthine transport via diffusion (extracellular to periplasm)" metaid="R_HYXNtex" sboTerm="SBO:0000185" fbc:upperFluxBound="cobra_default_ub" fbc:lowerFluxBound="cobra_default_lb">
+        <sbml:annotation xmlns:sbml="http://www.sbml.org/sbml/level3/version1/core">
+          <rdf:RDF xmlns:rdf="http://www.w3.org/1999/02/22-rdf-syntax-ns#">
+            <rdf:Description rdf:about="#R_HYXNtex">
+              <bqbiol:is xmlns:bqbiol="http://biomodels.net/biology-qualifiers/">
+                <rdf:Bag>
+                  <rdf:li rdf:resource="http://identifiers.org/bigg.reaction/HYXNtex"/>
+                  <rdf:li rdf:resource="http://identifiers.org/biocyc/META:TRANS-RXN0-579"/>
+                  <rdf:li rdf:resource="http://identifiers.org/biocyc/META:TRANS-RXN0-562"/>
+                  <rdf:li rdf:resource="http://identifiers.org/metanetx.reaction/MNXR100749"/>
+                  <rdf:li rdf:resource="http://identifiers.org/seed.reaction/rxn10143"/>
+                  <rdf:li rdf:resource="http://identifiers.org/seed.reaction/rxn08737"/>
+                  <rdf:li rdf:resource="http://identifiers.org/seed.reaction/rxn08738"/>
+                </rdf:Bag>
+              </bqbiol:is>
+            </rdf:Description>
+          </rdf:RDF>
+        </sbml:annotation>
+        <listOfReactants>
+          <speciesReference species="M_hxan_e" stoichiometry="1" constant="true"/>
+        </listOfReactants>
+        <listOfProducts>
+          <speciesReference species="M_hxan_p" stoichiometry="1" constant="true"/>
+        </listOfProducts>
+        <fbc:geneProductAssociation>
+          <fbc:or>
+            <fbc:geneProductRef fbc:geneProduct="G_b2215"/>
+            <fbc:geneProductRef fbc:geneProduct="G_b0241"/>
+            <fbc:geneProductRef fbc:geneProduct="G_b0929"/>
+            <fbc:geneProductRef fbc:geneProduct="G_b1377"/>
+          </fbc:or>
+        </fbc:geneProductAssociation>
+      </reaction>
+      <reaction id="R_IDONtex" fast="false" reversible="true" name="L-idonate transport via diffusion (extracellular to periplasm)" metaid="R_IDONtex" sboTerm="SBO:0000185" fbc:upperFluxBound="cobra_default_ub" fbc:lowerFluxBound="cobra_default_lb">
+        <sbml:annotation xmlns:sbml="http://www.sbml.org/sbml/level3/version1/core">
+          <rdf:RDF xmlns:rdf="http://www.w3.org/1999/02/22-rdf-syntax-ns#">
+            <rdf:Description rdf:about="#R_IDONtex">
+              <bqbiol:is xmlns:bqbiol="http://biomodels.net/biology-qualifiers/">
+                <rdf:Bag>
+                  <rdf:li rdf:resource="http://identifiers.org/bigg.reaction/IDONtex"/>
+                  <rdf:li rdf:resource="http://identifiers.org/metanetx.reaction/MNXR100804"/>
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+                </rdf:Bag>
+              </bqbiol:is>
+            </rdf:Description>
+          </rdf:RDF>
+        </sbml:annotation>
+        <listOfReactants>
+          <speciesReference species="M_idon__L_e" stoichiometry="1" constant="true"/>
+        </listOfReactants>
+        <listOfProducts>
+          <speciesReference species="M_idon__L_p" stoichiometry="1" constant="true"/>
+        </listOfProducts>
+        <fbc:geneProductAssociation>
+          <fbc:or>
+            <fbc:geneProductRef fbc:geneProduct="G_b0241"/>
+            <fbc:geneProductRef fbc:geneProduct="G_b0929"/>
+            <fbc:geneProductRef fbc:geneProduct="G_b1377"/>
+            <fbc:geneProductRef fbc:geneProduct="G_b2215"/>
+          </fbc:or>
+        </fbc:geneProductAssociation>
+      </reaction>
+      <reaction id="R_ILEtex" fast="false" reversible="true" name="L-isoleucine transport via diffusion (extracellular to periplasm)" metaid="R_ILEtex" sboTerm="SBO:0000185" fbc:upperFluxBound="cobra_default_ub" fbc:lowerFluxBound="cobra_default_lb">
+        <sbml:annotation xmlns:sbml="http://www.sbml.org/sbml/level3/version1/core">
+          <rdf:RDF xmlns:rdf="http://www.w3.org/1999/02/22-rdf-syntax-ns#">
+            <rdf:Description rdf:about="#R_ILEtex">
+              <bqbiol:is xmlns:bqbiol="http://biomodels.net/biology-qualifiers/">
+                <rdf:Bag>
+                  <rdf:li rdf:resource="http://identifiers.org/bigg.reaction/ILEtex"/>
+                  <rdf:li rdf:resource="http://identifiers.org/metanetx.reaction/MNXR100824"/>
+                  <rdf:li rdf:resource="http://identifiers.org/sabiork/13467"/>
+                  <rdf:li rdf:resource="http://identifiers.org/seed.reaction/rxn08747"/>
+                  <rdf:li rdf:resource="http://identifiers.org/seed.reaction/rxn13323"/>
+                  <rdf:li rdf:resource="http://identifiers.org/seed.reaction/rxn10933"/>
+                </rdf:Bag>
+              </bqbiol:is>
+            </rdf:Description>
+          </rdf:RDF>
+        </sbml:annotation>
+        <listOfReactants>
+          <speciesReference species="M_ile__L_e" stoichiometry="1" constant="true"/>
+        </listOfReactants>
+        <listOfProducts>
+          <speciesReference species="M_ile__L_p" stoichiometry="1" constant="true"/>
+        </listOfProducts>
+        <fbc:geneProductAssociation>
+          <fbc:or>
+            <fbc:geneProductRef fbc:geneProduct="G_b0241"/>
+            <fbc:geneProductRef fbc:geneProduct="G_b0929"/>
+            <fbc:geneProductRef fbc:geneProduct="G_b1377"/>
+            <fbc:geneProductRef fbc:geneProduct="G_b2215"/>
+          </fbc:or>
+        </fbc:geneProductAssociation>
+      </reaction>
+      <reaction id="R_INSTtex" fast="false" reversible="true" name="Inositol transport via diffusion (extracellular to periplasm)" metaid="R_INSTtex" sboTerm="SBO:0000185" fbc:upperFluxBound="cobra_default_ub" fbc:lowerFluxBound="cobra_default_lb">
+        <sbml:annotation xmlns:sbml="http://www.sbml.org/sbml/level3/version1/core">
+          <rdf:RDF xmlns:rdf="http://www.w3.org/1999/02/22-rdf-syntax-ns#">
+            <rdf:Description rdf:about="#R_INSTtex">
+              <bqbiol:is xmlns:bqbiol="http://biomodels.net/biology-qualifiers/">
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+                  <rdf:li rdf:resource="http://identifiers.org/rhea/31143"/>
+                  <rdf:li rdf:resource="http://identifiers.org/rhea/31146"/>
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+                  <rdf:li rdf:resource="http://identifiers.org/seed.reaction/rxn03249"/>
+                </rdf:Bag>
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+            </rdf:Description>
+          </rdf:RDF>
+        </sbml:annotation>
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+          <speciesReference species="M_3ohcoa_c" stoichiometry="1" constant="true"/>
+          <speciesReference species="M_h_c" stoichiometry="1" constant="true"/>
+          <speciesReference species="M_nadh_c" stoichiometry="1" constant="true"/>
+        </listOfReactants>
+        <listOfProducts>
+          <speciesReference species="M_3hhcoa_c" stoichiometry="1" constant="true"/>
+          <speciesReference species="M_nad_c" stoichiometry="1" constant="true"/>
+        </listOfProducts>
+        <fbc:geneProductAssociation>
+          <fbc:or>
+            <fbc:geneProductRef fbc:geneProduct="G_b3846"/>
+            <fbc:geneProductRef fbc:geneProduct="G_b2341"/>
+          </fbc:or>
+        </fbc:geneProductAssociation>
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+                  <rdf:li rdf:resource="http://identifiers.org/rhea/29762"/>
+                  <rdf:li rdf:resource="http://identifiers.org/rhea/29759"/>
+                  <rdf:li rdf:resource="http://identifiers.org/rhea/29760"/>
+                  <rdf:li rdf:resource="http://identifiers.org/seed.reaction/rxn09036"/>
+                  <rdf:li rdf:resource="http://identifiers.org/seed.reaction/rxn09840"/>
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+          <speciesReference species="M_octa_e" stoichiometry="1" constant="true"/>
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+        <listOfProducts>
+          <speciesReference species="M_octa_p" stoichiometry="1" constant="true"/>
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+        <fbc:geneProductAssociation>
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+            <fbc:geneProductRef fbc:geneProduct="G_b0241"/>
+            <fbc:geneProductRef fbc:geneProduct="G_b0929"/>
+            <fbc:geneProductRef fbc:geneProduct="G_b1377"/>
+            <fbc:geneProductRef fbc:geneProduct="G_b2215"/>
+          </fbc:or>
+        </fbc:geneProductAssociation>
+      </reaction>
+      <reaction id="R_D_LACtex" fast="false" reversible="true" name="D-lactate transport via diffusion (extracellular to periplasm)" metaid="R_D_LACtex" sboTerm="SBO:0000185" fbc:upperFluxBound="cobra_default_ub" fbc:lowerFluxBound="cobra_default_lb">
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+                  <rdf:li rdf:resource="http://identifiers.org/seed.reaction/rxn08351"/>
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+        <listOfProducts>
+          <speciesReference species="M_lac__D_p" stoichiometry="1" constant="true"/>
+        </listOfProducts>
+        <fbc:geneProductAssociation>
+          <fbc:or>
+            <fbc:geneProductRef fbc:geneProduct="G_b0241"/>
+            <fbc:geneProductRef fbc:geneProduct="G_b0929"/>
+            <fbc:geneProductRef fbc:geneProduct="G_b1377"/>
+            <fbc:geneProductRef fbc:geneProduct="G_b2215"/>
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+        </fbc:geneProductAssociation>
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+        <sbml:annotation xmlns:sbml="http://www.sbml.org/sbml/level3/version1/core">
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+                  <rdf:li rdf:resource="http://identifiers.org/rhea/29382"/>
+                  <rdf:li rdf:resource="http://identifiers.org/rhea/29380"/>
+                  <rdf:li rdf:resource="http://identifiers.org/rhea/29381"/>
+                  <rdf:li rdf:resource="http://identifiers.org/rhea/29379"/>
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+                  <rdf:li rdf:resource="http://identifiers.org/seed.reaction/rxn01445"/>
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+          <speciesReference species="M_dgmp_p" stoichiometry="1" constant="true"/>
+          <speciesReference species="M_h2o_p" stoichiometry="1" constant="true"/>
+        </listOfReactants>
+        <listOfProducts>
+          <speciesReference species="M_dgsn_p" stoichiometry="1" constant="true"/>
+          <speciesReference species="M_pi_p" stoichiometry="1" constant="true"/>
+        </listOfProducts>
+        <fbc:geneProductAssociation>
+          <fbc:or>
+            <fbc:geneProductRef fbc:geneProduct="G_b4055"/>
+            <fbc:geneProductRef fbc:geneProduct="G_b0480"/>
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+        </fbc:geneProductAssociation>
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+        <sbml:annotation xmlns:sbml="http://www.sbml.org/sbml/level3/version1/core">
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+              <bqbiol:is xmlns:bqbiol="http://biomodels.net/biology-qualifiers/">
+                <rdf:Bag>
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+                  <rdf:li rdf:resource="http://identifiers.org/biocyc/META:TRANS-RXN-230"/>
+                  <rdf:li rdf:resource="http://identifiers.org/metanetx.reaction/MNXR102223"/>
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+                  <rdf:li rdf:resource="http://identifiers.org/seed.reaction/rxn10824"/>
+                  <rdf:li rdf:resource="http://identifiers.org/seed.reaction/rxn09048"/>
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+        <listOfProducts>
+          <speciesReference species="M_orn_p" stoichiometry="1" constant="true"/>
+        </listOfProducts>
+        <fbc:geneProductAssociation>
+          <fbc:or>
+            <fbc:geneProductRef fbc:geneProduct="G_b0241"/>
+            <fbc:geneProductRef fbc:geneProduct="G_b0929"/>
+            <fbc:geneProductRef fbc:geneProduct="G_b1377"/>
+            <fbc:geneProductRef fbc:geneProduct="G_b2215"/>
+          </fbc:or>
+        </fbc:geneProductAssociation>
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+        <sbml:annotation xmlns:sbml="http://www.sbml.org/sbml/level3/version1/core">
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+              <bqbiol:is xmlns:bqbiol="http://biomodels.net/biology-qualifiers/">
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+                  <rdf:li rdf:resource="http://identifiers.org/rhea/28455"/>
+                  <rdf:li rdf:resource="http://identifiers.org/rhea/28456"/>
+                  <rdf:li rdf:resource="http://identifiers.org/rhea/28454"/>
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+          <speciesReference species="M_frulys_p" stoichiometry="1" constant="true"/>
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+        <fbc:geneProductAssociation>
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+            <fbc:geneProductRef fbc:geneProduct="G_b0241"/>
+            <fbc:geneProductRef fbc:geneProduct="G_b0929"/>
+            <fbc:geneProductRef fbc:geneProduct="G_b1377"/>
+            <fbc:geneProductRef fbc:geneProduct="G_b2215"/>
+          </fbc:or>
+        </fbc:geneProductAssociation>
+      </reaction>
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+        <sbml:annotation xmlns:sbml="http://www.sbml.org/sbml/level3/version1/core">
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+              <bqbiol:is xmlns:bqbiol="http://biomodels.net/biology-qualifiers/">
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+                  <rdf:li rdf:resource="http://identifiers.org/biocyc/META:RXN-14351"/>
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+                  <rdf:li rdf:resource="http://identifiers.org/metanetx.reaction/MNXR101364"/>
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+                  <rdf:li rdf:resource="http://identifiers.org/rhea/33172"/>
+                  <rdf:li rdf:resource="http://identifiers.org/rhea/33171"/>
+                  <rdf:li rdf:resource="http://identifiers.org/rhea/33174"/>
+                  <rdf:li rdf:resource="http://identifiers.org/sabiork/11211"/>
+                  <rdf:li rdf:resource="http://identifiers.org/seed.reaction/rxn08874"/>
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+          <speciesReference species="M_malt_e" stoichiometry="1" constant="true"/>
+        </listOfReactants>
+        <listOfProducts>
+          <speciesReference species="M_malt_p" stoichiometry="1" constant="true"/>
+        </listOfProducts>
+        <fbc:geneProductAssociation>
+          <fbc:geneProductRef fbc:geneProduct="G_b4036"/>
+        </fbc:geneProductAssociation>
+      </reaction>
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+        <sbml:annotation xmlns:sbml="http://www.sbml.org/sbml/level3/version1/core">
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+                <rdf:Bag>
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+                  <rdf:li rdf:resource="http://identifiers.org/metanetx.reaction/MNXR97890"/>
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+                  <rdf:li rdf:resource="http://identifiers.org/reactome.reaction/R-BTA-77256"/>
+                  <rdf:li rdf:resource="http://identifiers.org/reactome.reaction/R-CEL-77256"/>
+                  <rdf:li rdf:resource="http://identifiers.org/reactome.reaction/R-CFA-77256"/>
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+                  <rdf:li rdf:resource="http://identifiers.org/reactome.reaction/R-DRE-77256"/>
+                  <rdf:li rdf:resource="http://identifiers.org/reactome.reaction/R-RNO-77256"/>
+                  <rdf:li rdf:resource="http://identifiers.org/reactome.reaction/R-GGA-77256"/>
+                  <rdf:li rdf:resource="http://identifiers.org/reactome.reaction/R-MMU-77256"/>
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+                  <rdf:li rdf:resource="http://identifiers.org/reactome.reaction/R-XTR-77256"/>
+                  <rdf:li rdf:resource="http://identifiers.org/reactome.reaction/R-HSA-77256"/>
+                  <rdf:li rdf:resource="http://identifiers.org/reactome.reaction/R-SCE-77256"/>
+                  <rdf:li rdf:resource="http://identifiers.org/reactome.reaction/R-SSC-77256"/>
+                  <rdf:li rdf:resource="http://identifiers.org/rhea/31078"/>
+                  <rdf:li rdf:resource="http://identifiers.org/rhea/31075"/>
+                  <rdf:li rdf:resource="http://identifiers.org/rhea/31077"/>
+                  <rdf:li rdf:resource="http://identifiers.org/rhea/31076"/>
+                  <rdf:li rdf:resource="http://identifiers.org/sabiork/3890"/>
+                  <rdf:li rdf:resource="http://identifiers.org/seed.reaction/rxn02911"/>
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+        <listOfProducts>
+          <speciesReference species="M_dd2coa_c" stoichiometry="1" constant="true"/>
+          <speciesReference species="M_h2o_c" stoichiometry="1" constant="true"/>
+        </listOfProducts>
+        <fbc:geneProductAssociation>
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+            <fbc:geneProductRef fbc:geneProduct="G_b2341"/>
+            <fbc:geneProductRef fbc:geneProduct="G_b3846"/>
+          </fbc:or>
+        </fbc:geneProductAssociation>
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+        <sbml:annotation xmlns:sbml="http://www.sbml.org/sbml/level3/version1/core">
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+                  <rdf:li rdf:resource="http://identifiers.org/biocyc/META:DIHYDROFOLATESYNTH-RXN"/>
+                  <rdf:li rdf:resource="http://identifiers.org/ec-code/6.3.2.12"/>
+                  <rdf:li rdf:resource="http://identifiers.org/ec-code/6.3.2.17"/>
+                  <rdf:li rdf:resource="http://identifiers.org/kegg.reaction/R02237"/>
+                  <rdf:li rdf:resource="http://identifiers.org/metanetx.reaction/MNXR140043"/>
+                  <rdf:li rdf:resource="http://identifiers.org/rhea/23585"/>
+                  <rdf:li rdf:resource="http://identifiers.org/rhea/23587"/>
+                  <rdf:li rdf:resource="http://identifiers.org/rhea/23584"/>
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+          <speciesReference species="M_atp_c" stoichiometry="1" constant="true"/>
+          <speciesReference species="M_dhpt_c" stoichiometry="1" constant="true"/>
+          <speciesReference species="M_glu__L_c" stoichiometry="1" constant="true"/>
+        </listOfReactants>
+        <listOfProducts>
+          <speciesReference species="M_adp_c" stoichiometry="1" constant="true"/>
+          <speciesReference species="M_dhf_c" stoichiometry="1" constant="true"/>
+          <speciesReference species="M_h_c" stoichiometry="1" constant="true"/>
+          <speciesReference species="M_pi_c" stoichiometry="1" constant="true"/>
+        </listOfProducts>
+        <fbc:geneProductAssociation>
+          <fbc:geneProductRef fbc:geneProduct="G_b2315"/>
+        </fbc:geneProductAssociation>
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+      <reaction id="R_CITt7pp" fast="false" reversible="false" name="Citrate transport via succinate antiport (periplasm)" metaid="R_CITt7pp" sboTerm="SBO:0000185" fbc:upperFluxBound="cobra_default_ub" fbc:lowerFluxBound="cobra_0_bound">
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+                  <rdf:li rdf:resource="http://identifiers.org/metanetx.reaction/MNXR96752"/>
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+                  <rdf:li rdf:resource="http://identifiers.org/rhea/28836"/>
+                  <rdf:li rdf:resource="http://identifiers.org/rhea/28838"/>
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+                  <rdf:li rdf:resource="http://identifiers.org/seed.reaction/rxn08216"/>
+                  <rdf:li rdf:resource="http://identifiers.org/seed.reaction/rxn10150"/>
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+          <speciesReference species="M_cit_p" stoichiometry="1" constant="true"/>
+          <speciesReference species="M_succ_c" stoichiometry="1" constant="true"/>
+        </listOfReactants>
+        <listOfProducts>
+          <speciesReference species="M_cit_c" stoichiometry="1" constant="true"/>
+          <speciesReference species="M_succ_p" stoichiometry="1" constant="true"/>
+        </listOfProducts>
+        <fbc:geneProductAssociation>
+          <fbc:geneProductRef fbc:geneProduct="G_b0612"/>
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+      </reaction>
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+                  <rdf:li rdf:resource="http://identifiers.org/rhea/29427"/>
+                  <rdf:li rdf:resource="http://identifiers.org/rhea/29430"/>
+                  <rdf:li rdf:resource="http://identifiers.org/rhea/29429"/>
+                  <rdf:li rdf:resource="http://identifiers.org/rhea/29428"/>
+                  <rdf:li rdf:resource="http://identifiers.org/seed.reaction/rxn08263"/>
+                  <rdf:li rdf:resource="http://identifiers.org/seed.reaction/rxn10149"/>
+                </rdf:Bag>
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+            </rdf:Description>
+          </rdf:RDF>
+        </sbml:annotation>
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+          <speciesReference species="M_crn_p" stoichiometry="1" constant="true"/>
+          <speciesReference species="M_gbbtn_c" stoichiometry="1" constant="true"/>
+        </listOfReactants>
+        <listOfProducts>
+          <speciesReference species="M_crn_c" stoichiometry="1" constant="true"/>
+          <speciesReference species="M_gbbtn_p" stoichiometry="1" constant="true"/>
+        </listOfProducts>
+        <fbc:geneProductAssociation>
+          <fbc:geneProductRef fbc:geneProduct="G_b0040"/>
+        </fbc:geneProductAssociation>
+      </reaction>
+      <reaction id="R_EX_ni2_e" fast="false" reversible="true" name="Ni2+ exchange" metaid="R_EX_ni2_e" sboTerm="SBO:0000627" fbc:upperFluxBound="cobra_default_ub" fbc:lowerFluxBound="cobra_default_lb">
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+              <bqbiol:is xmlns:bqbiol="http://biomodels.net/biology-qualifiers/">
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+                  <rdf:li rdf:resource="http://identifiers.org/rhea/29831"/>
+                  <rdf:li rdf:resource="http://identifiers.org/rhea/29834"/>
+                  <rdf:li rdf:resource="http://identifiers.org/rhea/29832"/>
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+          <speciesReference species="M_ni2_e" stoichiometry="1" constant="true"/>
+        </listOfReactants>
+      </reaction>
+      <reaction id="R_GLCtex_copy1" fast="false" reversible="false" name="Glucose transport via diffusion (extracellular to periplasm)" metaid="R_GLCtex_copy1" sboTerm="SBO:0000176" fbc:upperFluxBound="cobra_default_ub" fbc:lowerFluxBound="cobra_0_bound">
+        <sbml:annotation xmlns:sbml="http://www.sbml.org/sbml/level3/version1/core">
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+              <bqbiol:is xmlns:bqbiol="http://biomodels.net/biology-qualifiers/">
+                <rdf:Bag>
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+                  <rdf:li rdf:resource="http://identifiers.org/biocyc/META:TRANS-RXN0-574"/>
+                  <rdf:li rdf:resource="http://identifiers.org/metanetx.reaction/MNXR100188"/>
+                  <rdf:li rdf:resource="http://identifiers.org/sabiork/7002"/>
+                  <rdf:li rdf:resource="http://identifiers.org/sabiork/601"/>
+                  <rdf:li rdf:resource="http://identifiers.org/seed.reaction/rxn09875"/>
+                  <rdf:li rdf:resource="http://identifiers.org/seed.reaction/rxn09679"/>
+                  <rdf:li rdf:resource="http://identifiers.org/seed.reaction/rxn08617"/>
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+          <speciesReference species="M_glc__D_e" stoichiometry="1" constant="true"/>
+        </listOfReactants>
+        <listOfProducts>
+          <speciesReference species="M_glc__D_p" stoichiometry="1" constant="true"/>
+        </listOfProducts>
+        <fbc:geneProductAssociation>
+          <fbc:geneProductRef fbc:geneProduct="G_b4036"/>
+        </fbc:geneProductAssociation>
+      </reaction>
+      <reaction id="R_EX_no_e" fast="false" reversible="false" name="Nitric oxide exchange" metaid="R_EX_no_e" sboTerm="SBO:0000627" fbc:upperFluxBound="cobra_default_ub" fbc:lowerFluxBound="cobra_0_bound">
+        <sbml:annotation xmlns:sbml="http://www.sbml.org/sbml/level3/version1/core">
+          <rdf:RDF xmlns:rdf="http://www.w3.org/1999/02/22-rdf-syntax-ns#">
+            <rdf:Description rdf:about="#R_EX_no_e">
+              <bqbiol:is xmlns:bqbiol="http://biomodels.net/biology-qualifiers/">
+                <rdf:Bag>
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+                  <rdf:li rdf:resource="http://identifiers.org/metanetx.reaction/MNXR101998"/>
+                </rdf:Bag>
+              </bqbiol:is>
+            </rdf:Description>
+          </rdf:RDF>
+        </sbml:annotation>
+        <listOfReactants>
+          <speciesReference species="M_no_e" stoichiometry="1" constant="true"/>
+        </listOfReactants>
+      </reaction>
+      <reaction id="R_CHLabcpp" fast="false" reversible="false" name="Choline transport via ABC system (periplasm)" metaid="R_CHLabcpp" sboTerm="SBO:0000185" fbc:upperFluxBound="cobra_default_ub" fbc:lowerFluxBound="cobra_0_bound">
+        <sbml:annotation xmlns:sbml="http://www.sbml.org/sbml/level3/version1/core">
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+            <rdf:Description rdf:about="#R_CHLabcpp">
+              <bqbiol:is xmlns:bqbiol="http://biomodels.net/biology-qualifiers/">
+                <rdf:Bag>
+                  <rdf:li rdf:resource="http://identifiers.org/bigg.reaction/CHLabcpp"/>
+                  <rdf:li rdf:resource="http://identifiers.org/metanetx.reaction/MNXR96691"/>
+                  <rdf:li rdf:resource="http://identifiers.org/rhea/38715#1"/>
+                  <rdf:li rdf:resource="http://identifiers.org/rhea/38718#1"/>
+                  <rdf:li rdf:resource="http://identifiers.org/rhea/38717#1"/>
+                  <rdf:li rdf:resource="http://identifiers.org/rhea/38716#1"/>
+                  <rdf:li rdf:resource="http://identifiers.org/seed.reaction/rxn05159"/>
+                  <rdf:li rdf:resource="http://identifiers.org/seed.reaction/rxn08212"/>
+                </rdf:Bag>
+              </bqbiol:is>
+            </rdf:Description>
+          </rdf:RDF>
+        </sbml:annotation>
+        <listOfReactants>
+          <speciesReference species="M_atp_c" stoichiometry="1" constant="true"/>
+          <speciesReference species="M_chol_p" stoichiometry="1" constant="true"/>
+          <speciesReference species="M_h2o_c" stoichiometry="1" constant="true"/>
+        </listOfReactants>
+        <listOfProducts>
+          <speciesReference species="M_adp_c" stoichiometry="1" constant="true"/>
+          <speciesReference species="M_chol_c" stoichiometry="1" constant="true"/>
+          <speciesReference species="M_h_c" stoichiometry="1" constant="true"/>
+          <speciesReference species="M_pi_c" stoichiometry="1" constant="true"/>
+        </listOfProducts>
+        <fbc:geneProductAssociation>
+          <fbc:and>
+            <fbc:geneProductRef fbc:geneProduct="G_b2129"/>
+            <fbc:geneProductRef fbc:geneProduct="G_b2128"/>
+            <fbc:geneProductRef fbc:geneProduct="G_b2131"/>
+            <fbc:geneProductRef fbc:geneProduct="G_b2130"/>
+          </fbc:and>
+        </fbc:geneProductAssociation>
+      </reaction>
+      <reaction id="R_DGSNt2pp" fast="false" reversible="false" name="Deoxyguanosine transport in via proton symport (periplasm)" metaid="R_DGSNt2pp" sboTerm="SBO:0000185" fbc:upperFluxBound="cobra_default_ub" fbc:lowerFluxBound="cobra_0_bound">
+        <sbml:annotation xmlns:sbml="http://www.sbml.org/sbml/level3/version1/core">
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+              <bqbiol:is xmlns:bqbiol="http://biomodels.net/biology-qualifiers/">
+                <rdf:Bag>
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+                  <rdf:li rdf:resource="http://identifiers.org/metanetx.reaction/MNXR97325"/>
+                  <rdf:li rdf:resource="http://identifiers.org/seed.reaction/rxn09688"/>
+                  <rdf:li rdf:resource="http://identifiers.org/seed.reaction/rxn08323"/>
+                </rdf:Bag>
+              </bqbiol:is>
+            </rdf:Description>
+          </rdf:RDF>
+        </sbml:annotation>
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+          <speciesReference species="M_dgsn_p" stoichiometry="1" constant="true"/>
+          <speciesReference species="M_h_p" stoichiometry="1" constant="true"/>
+        </listOfReactants>
+        <listOfProducts>
+          <speciesReference species="M_dgsn_c" stoichiometry="1" constant="true"/>
+          <speciesReference species="M_h_c" stoichiometry="1" constant="true"/>
+        </listOfProducts>
+        <fbc:geneProductAssociation>
+          <fbc:geneProductRef fbc:geneProduct="G_b2964"/>
+        </fbc:geneProductAssociation>
+      </reaction>
+      <reaction id="R_FE3DCITtonex" fast="false" reversible="false" name="Ferric-dicitrate transport via ton system (extracellular)" metaid="R_FE3DCITtonex" sboTerm="SBO:0000185" fbc:upperFluxBound="cobra_default_ub" fbc:lowerFluxBound="cobra_0_bound">
+        <sbml:annotation xmlns:sbml="http://www.sbml.org/sbml/level3/version1/core">
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+              <bqbiol:is xmlns:bqbiol="http://biomodels.net/biology-qualifiers/">
+                <rdf:Bag>
+                  <rdf:li rdf:resource="http://identifiers.org/bigg.reaction/FE3DCITtonex"/>
+                  <rdf:li rdf:resource="http://identifiers.org/metanetx.reaction/MNXR99509"/>
+                  <rdf:li rdf:resource="http://identifiers.org/seed.reaction/rxn08479"/>
+                </rdf:Bag>
+              </bqbiol:is>
+            </rdf:Description>
+          </rdf:RDF>
+        </sbml:annotation>
+        <listOfReactants>
+          <speciesReference species="M_fe3dcit_e" stoichiometry="1" constant="true"/>
+          <speciesReference species="M_h_p" stoichiometry="1" constant="true"/>
+        </listOfReactants>
+        <listOfProducts>
+          <speciesReference species="M_fe3dcit_p" stoichiometry="1" constant="true"/>
+          <speciesReference species="M_h_c" stoichiometry="1" constant="true"/>
+        </listOfProducts>
+        <fbc:geneProductAssociation>
+          <fbc:and>
+            <fbc:and>
+              <fbc:geneProductRef fbc:geneProduct="G_b1252"/>
+              <fbc:geneProductRef fbc:geneProduct="G_b3005"/>
+              <fbc:geneProductRef fbc:geneProduct="G_b3006"/>
+            </fbc:and>
+            <fbc:geneProductRef fbc:geneProduct="G_b4291"/>
+          </fbc:and>
+        </fbc:geneProductAssociation>
+      </reaction>
+      <reaction id="R_DINSt2pp" fast="false" reversible="false" name="Deoxyinosine transport in via proton symport (periplasm)" metaid="R_DINSt2pp" sboTerm="SBO:0000185" fbc:upperFluxBound="cobra_default_ub" fbc:lowerFluxBound="cobra_0_bound">
+        <sbml:annotation xmlns:sbml="http://www.sbml.org/sbml/level3/version1/core">
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+            <rdf:Description rdf:about="#R_DINSt2pp">
+              <bqbiol:is xmlns:bqbiol="http://biomodels.net/biology-qualifiers/">
+                <rdf:Bag>
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+                  <rdf:li rdf:resource="http://identifiers.org/metanetx.reaction/MNXR97465"/>
+                  <rdf:li rdf:resource="http://identifiers.org/rhea/29971"/>
+                  <rdf:li rdf:resource="http://identifiers.org/rhea/29972"/>
+                  <rdf:li rdf:resource="http://identifiers.org/rhea/29974"/>
+                  <rdf:li rdf:resource="http://identifiers.org/rhea/29973"/>
+                  <rdf:li rdf:resource="http://identifiers.org/seed.reaction/rxn08343"/>
+                  <rdf:li rdf:resource="http://identifiers.org/seed.reaction/rxn09687"/>
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+            </rdf:Description>
+          </rdf:RDF>
+        </sbml:annotation>
+        <listOfReactants>
+          <speciesReference species="M_din_p" stoichiometry="1" constant="true"/>
+          <speciesReference species="M_h_p" stoichiometry="1" constant="true"/>
+        </listOfReactants>
+        <listOfProducts>
+          <speciesReference species="M_din_c" stoichiometry="1" constant="true"/>
+          <speciesReference species="M_h_c" stoichiometry="1" constant="true"/>
+        </listOfProducts>
+        <fbc:geneProductAssociation>
+          <fbc:geneProductRef fbc:geneProduct="G_b2964"/>
+        </fbc:geneProductAssociation>
+      </reaction>
+      <reaction id="R_DURIt2pp" fast="false" reversible="false" name="Deoxyuridine transport in via proton symport (periplasm)" metaid="R_DURIt2pp" sboTerm="SBO:0000185" fbc:upperFluxBound="cobra_default_ub" fbc:lowerFluxBound="cobra_0_bound">
+        <sbml:annotation xmlns:sbml="http://www.sbml.org/sbml/level3/version1/core">
+          <rdf:RDF xmlns:rdf="http://www.w3.org/1999/02/22-rdf-syntax-ns#">
+            <rdf:Description rdf:about="#R_DURIt2pp">
+              <bqbiol:is xmlns:bqbiol="http://biomodels.net/biology-qualifiers/">
+                <rdf:Bag>
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+                  <rdf:li rdf:resource="http://identifiers.org/biocyc/META:TRANS-RXN-108F"/>
+                  <rdf:li rdf:resource="http://identifiers.org/metanetx.reaction/MNXR97820"/>
+                  <rdf:li rdf:resource="http://identifiers.org/rhea/29970"/>
+                  <rdf:li rdf:resource="http://identifiers.org/rhea/29969"/>
+                  <rdf:li rdf:resource="http://identifiers.org/rhea/29968"/>
+                  <rdf:li rdf:resource="http://identifiers.org/rhea/29967"/>
+                  <rdf:li rdf:resource="http://identifiers.org/seed.reaction/rxn09685"/>
+                  <rdf:li rdf:resource="http://identifiers.org/seed.reaction/rxn08376"/>
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+          </rdf:RDF>
+        </sbml:annotation>
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+          <speciesReference species="M_duri_p" stoichiometry="1" constant="true"/>
+          <speciesReference species="M_h_p" stoichiometry="1" constant="true"/>
+        </listOfReactants>
+        <listOfProducts>
+          <speciesReference species="M_duri_c" stoichiometry="1" constant="true"/>
+          <speciesReference species="M_h_c" stoichiometry="1" constant="true"/>
+        </listOfProducts>
+        <fbc:geneProductAssociation>
+          <fbc:or>
+            <fbc:geneProductRef fbc:geneProduct="G_b2393"/>
+            <fbc:geneProductRef fbc:geneProduct="G_b2964"/>
+          </fbc:or>
+        </fbc:geneProductAssociation>
+      </reaction>
+      <reaction id="R_FE2abcpp" fast="false" reversible="false" name="Iron (II) transport via ABC system (periplasm)" metaid="R_FE2abcpp" sboTerm="SBO:0000185" fbc:upperFluxBound="cobra_default_ub" fbc:lowerFluxBound="cobra_0_bound">
+        <sbml:annotation xmlns:sbml="http://www.sbml.org/sbml/level3/version1/core">
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+            <rdf:Description rdf:about="#R_FE2abcpp">
+              <bqbiol:is xmlns:bqbiol="http://biomodels.net/biology-qualifiers/">
+                <rdf:Bag>
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+                  <rdf:li rdf:resource="http://identifiers.org/metanetx.reaction/MNXR99504"/>
+                  <rdf:li rdf:resource="http://identifiers.org/seed.reaction/rxn05555"/>
+                  <rdf:li rdf:resource="http://identifiers.org/seed.reaction/rxn08472"/>
+                </rdf:Bag>
+              </bqbiol:is>
+            </rdf:Description>
+          </rdf:RDF>
+        </sbml:annotation>
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+          <speciesReference species="M_atp_c" stoichiometry="1" constant="true"/>
+          <speciesReference species="M_fe2_p" stoichiometry="1" constant="true"/>
+          <speciesReference species="M_h2o_c" stoichiometry="1" constant="true"/>
+        </listOfReactants>
+        <listOfProducts>
+          <speciesReference species="M_adp_c" stoichiometry="1" constant="true"/>
+          <speciesReference species="M_fe2_c" stoichiometry="1" constant="true"/>
+          <speciesReference species="M_h_c" stoichiometry="1" constant="true"/>
+          <speciesReference species="M_pi_c" stoichiometry="1" constant="true"/>
+        </listOfProducts>
+        <fbc:geneProductAssociation>
+          <fbc:geneProductRef fbc:geneProduct="G_b3409"/>
+        </fbc:geneProductAssociation>
+      </reaction>
+      <reaction id="R_FRUptspp" fast="false" reversible="false" name="D-fructose transport via PEP:Pyr PTS (periplasm)" metaid="R_FRUptspp" sboTerm="SBO:0000185" fbc:upperFluxBound="cobra_default_ub" fbc:lowerFluxBound="cobra_0_bound">
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+              <bqbiol:is xmlns:bqbiol="http://biomodels.net/biology-qualifiers/">
+                <rdf:Bag>
+                  <rdf:li rdf:resource="http://identifiers.org/bigg.reaction/FRUptspp"/>
+                  <rdf:li rdf:resource="http://identifiers.org/metanetx.reaction/MNXR99661"/>
+                  <rdf:li rdf:resource="http://identifiers.org/seed.reaction/rxn05560"/>
+                  <rdf:li rdf:resource="http://identifiers.org/seed.reaction/rxn08536"/>
+                </rdf:Bag>
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+          <speciesReference species="M_pep_c" stoichiometry="1" constant="true"/>
+        </listOfReactants>
+        <listOfProducts>
+          <speciesReference species="M_f1p_c" stoichiometry="1" constant="true"/>
+          <speciesReference species="M_pyr_c" stoichiometry="1" constant="true"/>
+        </listOfProducts>
+        <fbc:geneProductAssociation>
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+            <fbc:geneProductRef fbc:geneProduct="G_b2167"/>
+            <fbc:geneProductRef fbc:geneProduct="G_b2169"/>
+            <fbc:geneProductRef fbc:geneProduct="G_b2416"/>
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+        </fbc:geneProductAssociation>
+      </reaction>
+      <reaction id="R_FUCtpp" fast="false" reversible="true" name="L-fucose transport via proton symport (periplasm)" metaid="R_FUCtpp" sboTerm="SBO:0000185" fbc:upperFluxBound="cobra_default_ub" fbc:lowerFluxBound="cobra_default_lb">
+        <sbml:annotation xmlns:sbml="http://www.sbml.org/sbml/level3/version1/core">
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+            <rdf:Description rdf:about="#R_FUCtpp">
+              <bqbiol:is xmlns:bqbiol="http://biomodels.net/biology-qualifiers/">
+                <rdf:Bag>
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+                  <rdf:li rdf:resource="http://identifiers.org/biocyc/META:TRANS-RXN-20"/>
+                  <rdf:li rdf:resource="http://identifiers.org/metanetx.reaction/MNXR99703"/>
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+        </sbml:annotation>
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+          <speciesReference species="M_fuc__L_p" stoichiometry="1" constant="true"/>
+          <speciesReference species="M_h_p" stoichiometry="1" constant="true"/>
+        </listOfReactants>
+        <listOfProducts>
+          <speciesReference species="M_fuc__L_c" stoichiometry="1" constant="true"/>
+          <speciesReference species="M_h_c" stoichiometry="1" constant="true"/>
+        </listOfProducts>
+        <fbc:geneProductAssociation>
+          <fbc:geneProductRef fbc:geneProduct="G_b2801"/>
+        </fbc:geneProductAssociation>
+      </reaction>
+      <reaction id="R_EX_fad_e" fast="false" reversible="false" name="Exchange of Flavin adenine dinucleotide oxidized" metaid="R_EX_fad_e" sboTerm="SBO:0000627" fbc:upperFluxBound="cobra_default_ub" fbc:lowerFluxBound="cobra_0_bound">
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+              <bqbiol:is xmlns:bqbiol="http://biomodels.net/biology-qualifiers/">
+                <rdf:Bag>
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+                  <rdf:li rdf:resource="http://identifiers.org/metanetx.reaction/MNXR99217"/>
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+              </bqbiol:is>
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+        </sbml:annotation>
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+          <speciesReference species="M_fad_e" stoichiometry="1" constant="true"/>
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+          <speciesReference species="M_h_p" stoichiometry="1" constant="true"/>
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+        <listOfProducts>
+          <speciesReference species="M_galct__D_c" stoichiometry="1" constant="true"/>
+          <speciesReference species="M_h_c" stoichiometry="1" constant="true"/>
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+            <fbc:geneProductRef fbc:geneProduct="G_b3127"/>
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+        </fbc:geneProductAssociation>
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+          <fbc:geneProductRef fbc:geneProduct="G_b2943"/>
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+                  <rdf:li rdf:resource="http://identifiers.org/seed.reaction/rxn08170"/>
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+            <fbc:geneProductRef fbc:geneProduct="G_b0929"/>
+            <fbc:geneProductRef fbc:geneProduct="G_b1377"/>
+            <fbc:geneProductRef fbc:geneProduct="G_b2215"/>
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+        </fbc:geneProductAssociation>
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+                  <rdf:li rdf:resource="http://identifiers.org/rhea/28917"/>
+                  <rdf:li rdf:resource="http://identifiers.org/rhea/28918"/>
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+          <speciesReference species="M_h_p" stoichiometry="1" constant="true"/>
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+          <speciesReference species="M_4abut_c" stoichiometry="1" constant="true"/>
+          <speciesReference species="M_h_c" stoichiometry="1" constant="true"/>
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+          <fbc:geneProductRef fbc:geneProduct="G_b2663"/>
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+          <speciesReference species="M_h_c" stoichiometry="2" constant="true"/>
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+          <fbc:geneProductRef fbc:geneProduct="G_b3528"/>
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+            <fbc:geneProductRef fbc:geneProduct="G_b4123"/>
+            <fbc:geneProductRef fbc:geneProduct="G_b0621"/>
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+        </fbc:geneProductAssociation>
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+                  <rdf:li rdf:resource="http://identifiers.org/rhea/27953"/>
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+        <listOfProducts>
+          <speciesReference species="M_phe__L_p" stoichiometry="1" constant="true"/>
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+            <fbc:geneProductRef fbc:geneProduct="G_b1377"/>
+            <fbc:geneProductRef fbc:geneProduct="G_b2215"/>
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+        </fbc:geneProductAssociation>
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+        <sbml:annotation xmlns:sbml="http://www.sbml.org/sbml/level3/version1/core">
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+                  <rdf:li rdf:resource="http://identifiers.org/metanetx.reaction/MNXR99549"/>
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+          <speciesReference species="M_feenter_p" stoichiometry="1" constant="true"/>
+          <speciesReference species="M_h_c" stoichiometry="1" constant="true"/>
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+              <fbc:geneProductRef fbc:geneProduct="G_b3005"/>
+              <fbc:geneProductRef fbc:geneProduct="G_b3006"/>
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+        </fbc:geneProductAssociation>
+      </reaction>
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+        <listOfProducts>
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+          <speciesReference species="M_h_c" stoichiometry="1" constant="true"/>
+        </listOfProducts>
+        <fbc:geneProductAssociation>
+          <fbc:geneProductRef fbc:geneProduct="G_b0336"/>
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+        </listOfProducts>
+        <fbc:geneProductAssociation>
+          <fbc:geneProductRef fbc:geneProduct="G_b0341"/>
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+        <listOfProducts>
+          <speciesReference species="M_adp_c" stoichiometry="1" constant="true"/>
+          <speciesReference species="M_cys__L_c" stoichiometry="1" constant="true"/>
+          <speciesReference species="M_h_c" stoichiometry="1" constant="true"/>
+          <speciesReference species="M_pi_c" stoichiometry="1" constant="true"/>
+        </listOfProducts>
+        <fbc:geneProductAssociation>
+          <fbc:and>
+            <fbc:geneProductRef fbc:geneProduct="G_b1918"/>
+            <fbc:geneProductRef fbc:geneProduct="G_b1920"/>
+            <fbc:geneProductRef fbc:geneProduct="G_b1917"/>
+          </fbc:and>
+        </fbc:geneProductAssociation>
+      </reaction>
+      <reaction id="R_SBTptspp" fast="false" reversible="false" name="D-sorbitol transport via PEP:Pyr PTS (periplasm)" metaid="R_SBTptspp" sboTerm="SBO:0000185" fbc:upperFluxBound="cobra_default_ub" fbc:lowerFluxBound="cobra_0_bound">
+        <sbml:annotation xmlns:sbml="http://www.sbml.org/sbml/level3/version1/core">
+          <rdf:RDF xmlns:rdf="http://www.w3.org/1999/02/22-rdf-syntax-ns#">
+            <rdf:Description rdf:about="#R_SBTptspp">
+              <bqbiol:is xmlns:bqbiol="http://biomodels.net/biology-qualifiers/">
+                <rdf:Bag>
+                  <rdf:li rdf:resource="http://identifiers.org/bigg.reaction/SBTptspp"/>
+                  <rdf:li rdf:resource="http://identifiers.org/metanetx.reaction/MNXR104290"/>
+                  <rdf:li rdf:resource="http://identifiers.org/seed.reaction/rxn09242"/>
+                  <rdf:li rdf:resource="http://identifiers.org/seed.reaction/rxn10184"/>
+                </rdf:Bag>
+              </bqbiol:is>
+            </rdf:Description>
+          </rdf:RDF>
+        </sbml:annotation>
+        <listOfReactants>
+          <speciesReference species="M_pep_c" stoichiometry="1" constant="true"/>
+          <speciesReference species="M_sbt__D_p" stoichiometry="1" constant="true"/>
+        </listOfReactants>
+        <listOfProducts>
+          <speciesReference species="M_pyr_c" stoichiometry="1" constant="true"/>
+          <speciesReference species="M_sbt6p_c" stoichiometry="1" constant="true"/>
+        </listOfProducts>
+        <fbc:geneProductAssociation>
+          <fbc:and>
+            <fbc:geneProductRef fbc:geneProduct="G_b2416"/>
+            <fbc:geneProductRef fbc:geneProduct="G_b2704"/>
+            <fbc:geneProductRef fbc:geneProduct="G_b2703"/>
+            <fbc:geneProductRef fbc:geneProduct="G_b2702"/>
+            <fbc:geneProductRef fbc:geneProduct="G_b2415"/>
+          </fbc:and>
+        </fbc:geneProductAssociation>
+      </reaction>
+      <reaction id="R_PItex" fast="false" reversible="true" name="Phosphate transport via diffusion (extracellular to periplasm)" metaid="R_PItex" sboTerm="SBO:0000185" fbc:upperFluxBound="cobra_default_ub" fbc:lowerFluxBound="cobra_default_lb">
+        <sbml:annotation xmlns:sbml="http://www.sbml.org/sbml/level3/version1/core">
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+            <rdf:Description rdf:about="#R_PItex">
+              <bqbiol:is xmlns:bqbiol="http://biomodels.net/biology-qualifiers/">
+                <rdf:Bag>
+                  <rdf:li rdf:resource="http://identifiers.org/bigg.reaction/PItex"/>
+                  <rdf:li rdf:resource="http://identifiers.org/biocyc/META:TRANS-RXN0-470"/>
+                  <rdf:li rdf:resource="http://identifiers.org/metanetx.reaction/MNXR102871"/>
+                  <rdf:li rdf:resource="http://identifiers.org/rhea/32824"/>
+                  <rdf:li rdf:resource="http://identifiers.org/rhea/32826"/>
+                  <rdf:li rdf:resource="http://identifiers.org/rhea/32825"/>
+                  <rdf:li rdf:resource="http://identifiers.org/rhea/32823"/>
+                  <rdf:li rdf:resource="http://identifiers.org/sabiork/10985"/>
+                  <rdf:li rdf:resource="http://identifiers.org/seed.reaction/rxn10838"/>
+                  <rdf:li rdf:resource="http://identifiers.org/seed.reaction/rxn09722"/>
+                  <rdf:li rdf:resource="http://identifiers.org/seed.reaction/rxn09121"/>
+                  <rdf:li rdf:resource="http://identifiers.org/seed.reaction/rxn13178"/>
+                </rdf:Bag>
+              </bqbiol:is>
+            </rdf:Description>
+          </rdf:RDF>
+        </sbml:annotation>
+        <listOfReactants>
+          <speciesReference species="M_pi_e" stoichiometry="1" constant="true"/>
+        </listOfReactants>
+        <listOfProducts>
+          <speciesReference species="M_pi_p" stoichiometry="1" constant="true"/>
+        </listOfProducts>
+        <fbc:geneProductAssociation>
+          <fbc:or>
+            <fbc:geneProductRef fbc:geneProduct="G_b0241"/>
+            <fbc:geneProductRef fbc:geneProduct="G_b0929"/>
+            <fbc:geneProductRef fbc:geneProduct="G_b1377"/>
+            <fbc:geneProductRef fbc:geneProduct="G_b2215"/>
+          </fbc:or>
+        </fbc:geneProductAssociation>
+      </reaction>
+      <reaction id="R_TREHpp" fast="false" reversible="false" name="Alpha,alpha-trehalase (periplasm)" metaid="R_TREHpp" sboTerm="SBO:0000176" fbc:upperFluxBound="cobra_default_ub" fbc:lowerFluxBound="cobra_0_bound">
+        <sbml:annotation xmlns:sbml="http://www.sbml.org/sbml/level3/version1/core">
+          <rdf:RDF xmlns:rdf="http://www.w3.org/1999/02/22-rdf-syntax-ns#">
+            <rdf:Description rdf:about="#R_TREHpp">
+              <bqbiol:is xmlns:bqbiol="http://biomodels.net/biology-qualifiers/">
+                <rdf:Bag>
+                  <rdf:li rdf:resource="http://identifiers.org/bigg.reaction/TREHpp"/>
+                  <rdf:li rdf:resource="http://identifiers.org/ec-code/3.2.1.28"/>
+                  <rdf:li rdf:resource="http://identifiers.org/kegg.reaction/R00010"/>
+                  <rdf:li rdf:resource="http://identifiers.org/kegg.reaction/R06103"/>
+                  <rdf:li rdf:resource="http://identifiers.org/metanetx.reaction/MNXR95163"/>
+                  <rdf:li rdf:resource="http://identifiers.org/rhea/20868"/>
+                  <rdf:li rdf:resource="http://identifiers.org/rhea/20869"/>
+                  <rdf:li rdf:resource="http://identifiers.org/rhea/20870"/>
+                  <rdf:li rdf:resource="http://identifiers.org/rhea/20871"/>
+                  <rdf:li rdf:resource="http://identifiers.org/sabiork/6476"/>
+                  <rdf:li rdf:resource="http://identifiers.org/seed.reaction/rxn00007"/>
+                </rdf:Bag>
+              </bqbiol:is>
+            </rdf:Description>
+          </rdf:RDF>
+        </sbml:annotation>
+        <listOfReactants>
+          <speciesReference species="M_h2o_p" stoichiometry="1" constant="true"/>
+          <speciesReference species="M_tre_p" stoichiometry="1" constant="true"/>
+        </listOfReactants>
+        <listOfProducts>
+          <speciesReference species="M_glc__D_p" stoichiometry="2" constant="true"/>
+        </listOfProducts>
+        <fbc:geneProductAssociation>
+          <fbc:geneProductRef fbc:geneProduct="G_b1197"/>
+        </fbc:geneProductAssociation>
+      </reaction>
+      <reaction id="R_CYTBDpp" fast="false" reversible="false" name="Cytochrome oxidase bd (ubiquinol-8: 2 protons) (periplasm)" metaid="R_CYTBDpp" sboTerm="SBO:0000185" fbc:upperFluxBound="cobra_default_ub" fbc:lowerFluxBound="cobra_0_bound">
+        <sbml:annotation xmlns:sbml="http://www.sbml.org/sbml/level3/version1/core">
+          <rdf:RDF xmlns:rdf="http://www.w3.org/1999/02/22-rdf-syntax-ns#">
+            <rdf:Description rdf:about="#R_CYTBDpp">
+              <bqbiol:is xmlns:bqbiol="http://biomodels.net/biology-qualifiers/">
+                <rdf:Bag>
+                  <rdf:li rdf:resource="http://identifiers.org/bigg.reaction/CYTBDpp"/>
+                  <rdf:li rdf:resource="http://identifiers.org/metanetx.reaction/MNXR97031"/>
+                  <rdf:li rdf:resource="http://identifiers.org/seed.reaction/rxn12494"/>
+                  <rdf:li rdf:resource="http://identifiers.org/seed.reaction/rxn10112"/>
+                  <rdf:li rdf:resource="http://identifiers.org/seed.reaction/rxn08288"/>
+                </rdf:Bag>
+              </bqbiol:is>
+            </rdf:Description>
+          </rdf:RDF>
+        </sbml:annotation>
+        <listOfReactants>
+          <speciesReference species="M_h_c" stoichiometry="2" constant="true"/>
+          <speciesReference species="M_o2_c" stoichiometry="0.5" constant="true"/>
+          <speciesReference species="M_q8h2_c" stoichiometry="1" constant="true"/>
+        </listOfReactants>
+        <listOfProducts>
+          <speciesReference species="M_h2o_c" stoichiometry="1" constant="true"/>
+          <speciesReference species="M_h_p" stoichiometry="2" constant="true"/>
+          <speciesReference species="M_q8_c" stoichiometry="1" constant="true"/>
+        </listOfProducts>
+        <fbc:geneProductAssociation>
+          <fbc:or>
+            <fbc:and>
+              <fbc:geneProductRef fbc:geneProduct="G_b0978"/>
+              <fbc:geneProductRef fbc:geneProduct="G_b0979"/>
+            </fbc:and>
+            <fbc:and>
+              <fbc:geneProductRef fbc:geneProduct="G_b0734"/>
+              <fbc:geneProductRef fbc:geneProduct="G_b0733"/>
+              <fbc:geneProductRef fbc:geneProduct="G_b4515"/>
+            </fbc:and>
+          </fbc:or>
+        </fbc:geneProductAssociation>
+      </reaction>
+      <reaction id="R_CYTDt2pp_copy1" fast="false" reversible="false" name="Cytidine transport in via proton symport (periplasm)" metaid="R_CYTDt2pp_copy1" sboTerm="SBO:0000176" fbc:upperFluxBound="cobra_default_ub" fbc:lowerFluxBound="cobra_0_bound">
+        <sbml:annotation xmlns:sbml="http://www.sbml.org/sbml/level3/version1/core">
+          <rdf:RDF xmlns:rdf="http://www.w3.org/1999/02/22-rdf-syntax-ns#">
+            <rdf:Description rdf:about="#R_CYTDt2pp_copy1">
+              <bqbiol:is xmlns:bqbiol="http://biomodels.net/biology-qualifiers/">
+                <rdf:Bag>
+                  <rdf:li rdf:resource="http://identifiers.org/bigg.reaction/CYTDt2pp"/>
+                  <rdf:li rdf:resource="http://identifiers.org/biocyc/META:TRANS-RXN-108B"/>
+                  <rdf:li rdf:resource="http://identifiers.org/metanetx.reaction/MNXR97044"/>
+                  <rdf:li rdf:resource="http://identifiers.org/rhea/29986"/>
+                  <rdf:li rdf:resource="http://identifiers.org/rhea/29984"/>
+                  <rdf:li rdf:resource="http://identifiers.org/rhea/29985"/>
+                  <rdf:li rdf:resource="http://identifiers.org/rhea/29983"/>
+                  <rdf:li rdf:resource="http://identifiers.org/seed.reaction/rxn08289"/>
+                  <rdf:li rdf:resource="http://identifiers.org/seed.reaction/rxn05198"/>
+                </rdf:Bag>
+              </bqbiol:is>
+            </rdf:Description>
+          </rdf:RDF>
+        </sbml:annotation>
+        <listOfReactants>
+          <speciesReference species="M_cytd_p" stoichiometry="1" constant="true"/>
+          <speciesReference species="M_h_p" stoichiometry="1" constant="true"/>
+        </listOfReactants>
+        <listOfProducts>
+          <speciesReference species="M_cytd_c" stoichiometry="1" constant="true"/>
+          <speciesReference species="M_h_c" stoichiometry="1" constant="true"/>
+        </listOfProducts>
+        <fbc:geneProductAssociation>
+          <fbc:or>
+            <fbc:geneProductRef fbc:geneProduct="G_b2393"/>
+            <fbc:geneProductRef fbc:geneProduct="G_b2964"/>
+          </fbc:or>
+        </fbc:geneProductAssociation>
+      </reaction>
+      <reaction id="R_CYTDt2pp_copy2" fast="false" reversible="true" name="Cytidine transport in via proton symport (periplasm)" metaid="R_CYTDt2pp_copy2" sboTerm="SBO:0000176" fbc:upperFluxBound="cobra_default_ub" fbc:lowerFluxBound="cobra_default_lb">
+        <sbml:annotation xmlns:sbml="http://www.sbml.org/sbml/level3/version1/core">
+          <rdf:RDF xmlns:rdf="http://www.w3.org/1999/02/22-rdf-syntax-ns#">
+            <rdf:Description rdf:about="#R_CYTDt2pp_copy2">
+              <bqbiol:is xmlns:bqbiol="http://biomodels.net/biology-qualifiers/">
+                <rdf:Bag>
+                  <rdf:li rdf:resource="http://identifiers.org/bigg.reaction/CYTDt2pp"/>
+                  <rdf:li rdf:resource="http://identifiers.org/biocyc/META:TRANS-RXN-108B"/>
+                  <rdf:li rdf:resource="http://identifiers.org/metanetx.reaction/MNXR97044"/>
+                  <rdf:li rdf:resource="http://identifiers.org/rhea/29986"/>
+                  <rdf:li rdf:resource="http://identifiers.org/rhea/29984"/>
+                  <rdf:li rdf:resource="http://identifiers.org/rhea/29985"/>
+                  <rdf:li rdf:resource="http://identifiers.org/rhea/29983"/>
+                  <rdf:li rdf:resource="http://identifiers.org/seed.reaction/rxn08289"/>
+                  <rdf:li rdf:resource="http://identifiers.org/seed.reaction/rxn05198"/>
+                </rdf:Bag>
+              </bqbiol:is>
+            </rdf:Description>
+          </rdf:RDF>
+        </sbml:annotation>
+        <listOfReactants>
+          <speciesReference species="M_cytd_p" stoichiometry="1" constant="true"/>
+          <speciesReference species="M_h_p" stoichiometry="1" constant="true"/>
+        </listOfReactants>
+        <listOfProducts>
+          <speciesReference species="M_cytd_c" stoichiometry="1" constant="true"/>
+          <speciesReference species="M_h_c" stoichiometry="1" constant="true"/>
+        </listOfProducts>
+        <fbc:geneProductAssociation>
+          <fbc:geneProductRef fbc:geneProduct="G_b2406"/>
+        </fbc:geneProductAssociation>
+      </reaction>
+      <reaction id="R_DADNt2pp" fast="false" reversible="false" name="Deoxyadenosine transport in via proton symport (periplasm)" metaid="R_DADNt2pp" sboTerm="SBO:0000185" fbc:upperFluxBound="cobra_default_ub" fbc:lowerFluxBound="cobra_0_bound">
+        <sbml:annotation xmlns:sbml="http://www.sbml.org/sbml/level3/version1/core">
+          <rdf:RDF xmlns:rdf="http://www.w3.org/1999/02/22-rdf-syntax-ns#">
+            <rdf:Description rdf:about="#R_DADNt2pp">
+              <bqbiol:is xmlns:bqbiol="http://biomodels.net/biology-qualifiers/">
+                <rdf:Bag>
+                  <rdf:li rdf:resource="http://identifiers.org/bigg.reaction/DADNt2pp"/>
+                  <rdf:li rdf:resource="http://identifiers.org/biocyc/META:TRANS-RXN-108C"/>
+                  <rdf:li rdf:resource="http://identifiers.org/metanetx.reaction/MNXR97080"/>
+                  <rdf:li rdf:resource="http://identifiers.org/rhea/29982"/>
+                  <rdf:li rdf:resource="http://identifiers.org/rhea/29979"/>
+                  <rdf:li rdf:resource="http://identifiers.org/rhea/29981"/>
+                  <rdf:li rdf:resource="http://identifiers.org/rhea/29980"/>
+                  <rdf:li rdf:resource="http://identifiers.org/seed.reaction/rxn05317"/>
+                  <rdf:li rdf:resource="http://identifiers.org/seed.reaction/rxn08292"/>
+                </rdf:Bag>
+              </bqbiol:is>
+            </rdf:Description>
+          </rdf:RDF>
+        </sbml:annotation>
+        <listOfReactants>
+          <speciesReference species="M_dad_2_p" stoichiometry="1" constant="true"/>
+          <speciesReference species="M_h_p" stoichiometry="1" constant="true"/>
+        </listOfReactants>
+        <listOfProducts>
+          <speciesReference species="M_dad_2_c" stoichiometry="1" constant="true"/>
+          <speciesReference species="M_h_c" stoichiometry="1" constant="true"/>
+        </listOfProducts>
+        <fbc:geneProductAssociation>
+          <fbc:or>
+            <fbc:geneProductRef fbc:geneProduct="G_b2393"/>
+            <fbc:geneProductRef fbc:geneProduct="G_b2964"/>
+          </fbc:or>
+        </fbc:geneProductAssociation>
+      </reaction>
+      <reaction id="R_DCYTt2pp" fast="false" reversible="false" name="Deoxycytidine transport in via proton symport (periplasm)" metaid="R_DCYTt2pp" sboTerm="SBO:0000185" fbc:upperFluxBound="cobra_default_ub" fbc:lowerFluxBound="cobra_0_bound">
+        <sbml:annotation xmlns:sbml="http://www.sbml.org/sbml/level3/version1/core">
+          <rdf:RDF xmlns:rdf="http://www.w3.org/1999/02/22-rdf-syntax-ns#">
+            <rdf:Description rdf:about="#R_DCYTt2pp">
+              <bqbiol:is xmlns:bqbiol="http://biomodels.net/biology-qualifiers/">
+                <rdf:Bag>
+                  <rdf:li rdf:resource="http://identifiers.org/bigg.reaction/DCYTt2pp"/>
+                  <rdf:li rdf:resource="http://identifiers.org/biocyc/META:TRANS-RXN-108D"/>
+                  <rdf:li rdf:resource="http://identifiers.org/metanetx.reaction/MNXR97209"/>
+                  <rdf:li rdf:resource="http://identifiers.org/rhea/29975"/>
+                  <rdf:li rdf:resource="http://identifiers.org/rhea/29976"/>
+                  <rdf:li rdf:resource="http://identifiers.org/rhea/29978"/>
+                  <rdf:li rdf:resource="http://identifiers.org/rhea/29977"/>
+                  <rdf:li rdf:resource="http://identifiers.org/seed.reaction/rxn05205"/>
+                  <rdf:li rdf:resource="http://identifiers.org/seed.reaction/rxn08316"/>
+                </rdf:Bag>
+              </bqbiol:is>
+            </rdf:Description>
+          </rdf:RDF>
+        </sbml:annotation>
+        <listOfReactants>
+          <speciesReference species="M_dcyt_p" stoichiometry="1" constant="true"/>
+          <speciesReference species="M_h_p" stoichiometry="1" constant="true"/>
+        </listOfReactants>
+        <listOfProducts>
+          <speciesReference species="M_dcyt_c" stoichiometry="1" constant="true"/>
+          <speciesReference species="M_h_c" stoichiometry="1" constant="true"/>
+        </listOfProducts>
+        <fbc:geneProductAssociation>
+          <fbc:or>
+            <fbc:geneProductRef fbc:geneProduct="G_b2393"/>
+            <fbc:geneProductRef fbc:geneProduct="G_b2964"/>
+          </fbc:or>
+        </fbc:geneProductAssociation>
+      </reaction>
+      <reaction id="R_CYTBD2pp" fast="false" reversible="false" name="Cytochrome oxidase bd (menaquinol-8: 2 protons) (periplasm)" metaid="R_CYTBD2pp" sboTerm="SBO:0000185" fbc:upperFluxBound="cobra_default_ub" fbc:lowerFluxBound="cobra_0_bound">
+        <sbml:annotation xmlns:sbml="http://www.sbml.org/sbml/level3/version1/core">
+          <rdf:RDF xmlns:rdf="http://www.w3.org/1999/02/22-rdf-syntax-ns#">
+            <rdf:Description rdf:about="#R_CYTBD2pp">
+              <bqbiol:is xmlns:bqbiol="http://biomodels.net/biology-qualifiers/">
+                <rdf:Bag>
+                  <rdf:li rdf:resource="http://identifiers.org/bigg.reaction/CYTBD2pp"/>
+                  <rdf:li rdf:resource="http://identifiers.org/metanetx.reaction/MNXR97032"/>
+                  <rdf:li rdf:resource="http://identifiers.org/seed.reaction/rxn08287"/>
+                  <rdf:li rdf:resource="http://identifiers.org/seed.reaction/rxn10806"/>
+                </rdf:Bag>
+              </bqbiol:is>
+            </rdf:Description>
+          </rdf:RDF>
+        </sbml:annotation>
+        <listOfReactants>
+          <speciesReference species="M_h_c" stoichiometry="2" constant="true"/>
+          <speciesReference species="M_mql8_c" stoichiometry="1" constant="true"/>
+          <speciesReference species="M_o2_c" stoichiometry="0.5" constant="true"/>
+        </listOfReactants>
+        <listOfProducts>
+          <speciesReference species="M_h2o_c" stoichiometry="1" constant="true"/>
+          <speciesReference species="M_h_p" stoichiometry="2" constant="true"/>
+          <speciesReference species="M_mqn8_c" stoichiometry="1" constant="true"/>
+        </listOfProducts>
+        <fbc:geneProductAssociation>
+          <fbc:and>
+            <fbc:geneProductRef fbc:geneProduct="G_b0978"/>
+            <fbc:geneProductRef fbc:geneProduct="G_b0979"/>
+          </fbc:and>
+        </fbc:geneProductAssociation>
+      </reaction>
+      <reaction id="R_ACGAMK" fast="false" reversible="false" name="N-acetylglucosamine kinase" metaid="R_ACGAMK" sboTerm="SBO:0000176" fbc:upperFluxBound="cobra_default_ub" fbc:lowerFluxBound="cobra_0_bound">
+        <sbml:annotation xmlns:sbml="http://www.sbml.org/sbml/level3/version1/core">
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+            <rdf:Description rdf:about="#R_ACGAMK">
+              <bqbiol:is xmlns:bqbiol="http://biomodels.net/biology-qualifiers/">
+                <rdf:Bag>
+                  <rdf:li rdf:resource="http://identifiers.org/bigg.reaction/ACGAMK"/>
+                  <rdf:li rdf:resource="http://identifiers.org/biocyc/META:N-ACETYLGLUCOSAMINE-KINASE-RXN"/>
+                  <rdf:li rdf:resource="http://identifiers.org/ec-code/2.7.1.59"/>
+                  <rdf:li rdf:resource="http://identifiers.org/kegg.reaction/R01201"/>
+                  <rdf:li rdf:resource="http://identifiers.org/metanetx.reaction/MNXR95249"/>
+                  <rdf:li rdf:resource="http://identifiers.org/rhea/17420"/>
+                  <rdf:li rdf:resource="http://identifiers.org/rhea/17418"/>
+                  <rdf:li rdf:resource="http://identifiers.org/rhea/17419"/>
+                  <rdf:li rdf:resource="http://identifiers.org/rhea/17417"/>
+                  <rdf:li rdf:resource="http://identifiers.org/sabiork/1435"/>
+                  <rdf:li rdf:resource="http://identifiers.org/seed.reaction/rxn00892"/>
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+            </rdf:Description>
+          </rdf:RDF>
+        </sbml:annotation>
+        <listOfReactants>
+          <speciesReference species="M_acgam_c" stoichiometry="1" constant="true"/>
+          <speciesReference species="M_atp_c" stoichiometry="1" constant="true"/>
+        </listOfReactants>
+        <listOfProducts>
+          <speciesReference species="M_acgam6p_c" stoichiometry="1" constant="true"/>
+          <speciesReference species="M_adp_c" stoichiometry="1" constant="true"/>
+          <speciesReference species="M_h_c" stoichiometry="1" constant="true"/>
+        </listOfProducts>
+        <fbc:geneProductAssociation>
+          <fbc:geneProductRef fbc:geneProduct="G_b1119"/>
+        </fbc:geneProductAssociation>
+      </reaction>
+      <reaction id="R_ACALDtpp" fast="false" reversible="true" name="Acetaldehyde reversible transport (periplasm)" metaid="R_ACALDtpp" sboTerm="SBO:0000185" fbc:upperFluxBound="cobra_default_ub" fbc:lowerFluxBound="cobra_default_lb">
+        <sbml:annotation xmlns:sbml="http://www.sbml.org/sbml/level3/version1/core">
+          <rdf:RDF xmlns:rdf="http://www.w3.org/1999/02/22-rdf-syntax-ns#">
+            <rdf:Description rdf:about="#R_ACALDtpp">
+              <bqbiol:is xmlns:bqbiol="http://biomodels.net/biology-qualifiers/">
+                <rdf:Bag>
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+                  <rdf:li rdf:resource="http://identifiers.org/metanetx.reaction/MNXR95212"/>
+                  <rdf:li rdf:resource="http://identifiers.org/reactome.reaction/R-HSA-449872"/>
+                  <rdf:li rdf:resource="http://identifiers.org/seed.reaction/rxn09700"/>
+                  <rdf:li rdf:resource="http://identifiers.org/seed.reaction/rxn08033"/>
+                  <rdf:li rdf:resource="http://identifiers.org/seed.reaction/rxn13212"/>
+                  <rdf:li rdf:resource="http://identifiers.org/seed.reaction/rxn08032"/>
+                </rdf:Bag>
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+            </rdf:Description>
+          </rdf:RDF>
+        </sbml:annotation>
+        <listOfReactants>
+          <speciesReference species="M_acald_p" stoichiometry="1" constant="true"/>
+        </listOfReactants>
+        <listOfProducts>
+          <speciesReference species="M_acald_c" stoichiometry="1" constant="true"/>
+        </listOfProducts>
+        <fbc:geneProductAssociation>
+          <fbc:geneProductRef fbc:geneProduct="G_s0001"/>
+        </fbc:geneProductAssociation>
+      </reaction>
+      <reaction id="R_ACt2rpp" fast="false" reversible="true" name="Acetate reversible transport via proton symport (periplasm)" metaid="R_ACt2rpp" sboTerm="SBO:0000185" fbc:upperFluxBound="cobra_default_ub" fbc:lowerFluxBound="cobra_default_lb">
+        <sbml:annotation xmlns:sbml="http://www.sbml.org/sbml/level3/version1/core">
+          <rdf:RDF xmlns:rdf="http://www.w3.org/1999/02/22-rdf-syntax-ns#">
+            <rdf:Description rdf:about="#R_ACt2rpp">
+              <bqbiol:is xmlns:bqbiol="http://biomodels.net/biology-qualifiers/">
+                <rdf:Bag>
+                  <rdf:li rdf:resource="http://identifiers.org/bigg.reaction/ACt2rpp"/>
+                  <rdf:li rdf:resource="http://identifiers.org/biocyc/META:TRANS-RXN0-571"/>
+                  <rdf:li rdf:resource="http://identifiers.org/metanetx.reaction/MNXR95429"/>
+                  <rdf:li rdf:resource="http://identifiers.org/seed.reaction/rxn08061"/>
+                  <rdf:li rdf:resource="http://identifiers.org/seed.reaction/rxn05488"/>
+                </rdf:Bag>
+              </bqbiol:is>
+            </rdf:Description>
+          </rdf:RDF>
+        </sbml:annotation>
+        <listOfReactants>
+          <speciesReference species="M_ac_p" stoichiometry="1" constant="true"/>
+          <speciesReference species="M_h_p" stoichiometry="1" constant="true"/>
+        </listOfReactants>
+        <listOfProducts>
+          <speciesReference species="M_ac_c" stoichiometry="1" constant="true"/>
+          <speciesReference species="M_h_c" stoichiometry="1" constant="true"/>
+        </listOfProducts>
+        <fbc:geneProductAssociation>
+          <fbc:geneProductRef fbc:geneProduct="G_b0010"/>
+        </fbc:geneProductAssociation>
+      </reaction>
+      <reaction id="R_DDGLCNt2rpp" fast="false" reversible="true" name="2-dehydro-3-deoxy-D-gluconate transport via proton symport, reversible (periplasm)" metaid="R_DDGLCNt2rpp" sboTerm="SBO:0000185" fbc:upperFluxBound="cobra_default_ub" fbc:lowerFluxBound="cobra_default_lb">
+        <sbml:annotation xmlns:sbml="http://www.sbml.org/sbml/level3/version1/core">
+          <rdf:RDF xmlns:rdf="http://www.w3.org/1999/02/22-rdf-syntax-ns#">
+            <rdf:Description rdf:about="#R_DDGLCNt2rpp">
+              <bqbiol:is xmlns:bqbiol="http://biomodels.net/biology-qualifiers/">
+                <rdf:Bag>
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+                  <rdf:li rdf:resource="http://identifiers.org/biocyc/META:TRANS-RXN-113"/>
+                  <rdf:li rdf:resource="http://identifiers.org/metanetx.reaction/MNXR138207"/>
+                  <rdf:li rdf:resource="http://identifiers.org/rhea/29945"/>
+                  <rdf:li rdf:resource="http://identifiers.org/rhea/29943"/>
+                  <rdf:li rdf:resource="http://identifiers.org/rhea/29946"/>
+                  <rdf:li rdf:resource="http://identifiers.org/rhea/29944"/>
+                  <rdf:li rdf:resource="http://identifiers.org/seed.reaction/rxn05681"/>
+                  <rdf:li rdf:resource="http://identifiers.org/seed.reaction/rxn08319"/>
+                </rdf:Bag>
+              </bqbiol:is>
+            </rdf:Description>
+          </rdf:RDF>
+        </sbml:annotation>
+        <listOfReactants>
+          <speciesReference species="M_2ddglcn_p" stoichiometry="1" constant="true"/>
+          <speciesReference species="M_h_p" stoichiometry="1" constant="true"/>
+        </listOfReactants>
+        <listOfProducts>
+          <speciesReference species="M_2ddglcn_c" stoichiometry="1" constant="true"/>
+          <speciesReference species="M_h_c" stoichiometry="1" constant="true"/>
+        </listOfProducts>
+        <fbc:geneProductAssociation>
+          <fbc:geneProductRef fbc:geneProduct="G_b3909"/>
+        </fbc:geneProductAssociation>
+      </reaction>
+      <reaction id="R_RMNtex" fast="false" reversible="true" name="L-rhamnose transport via diffusion (extracellular to periplasm)" metaid="R_RMNtex" sboTerm="SBO:0000185" fbc:upperFluxBound="cobra_default_ub" fbc:lowerFluxBound="cobra_default_lb">
+        <sbml:annotation xmlns:sbml="http://www.sbml.org/sbml/level3/version1/core">
+          <rdf:RDF xmlns:rdf="http://www.w3.org/1999/02/22-rdf-syntax-ns#">
+            <rdf:Description rdf:about="#R_RMNtex">
+              <bqbiol:is xmlns:bqbiol="http://biomodels.net/biology-qualifiers/">
+                <rdf:Bag>
+                  <rdf:li rdf:resource="http://identifiers.org/bigg.reaction/RMNtex"/>
+                  <rdf:li rdf:resource="http://identifiers.org/metanetx.reaction/MNXR104042"/>
+                  <rdf:li rdf:resource="http://identifiers.org/rhea/34995"/>
+                  <rdf:li rdf:resource="http://identifiers.org/rhea/34998"/>
+                  <rdf:li rdf:resource="http://identifiers.org/rhea/34997"/>
+                  <rdf:li rdf:resource="http://identifiers.org/rhea/34996"/>
+                  <rdf:li rdf:resource="http://identifiers.org/seed.reaction/rxn09229"/>
+                </rdf:Bag>
+              </bqbiol:is>
+            </rdf:Description>
+          </rdf:RDF>
+        </sbml:annotation>
+        <listOfReactants>
+          <speciesReference species="M_rmn_e" stoichiometry="1" constant="true"/>
+        </listOfReactants>
+        <listOfProducts>
+          <speciesReference species="M_rmn_p" stoichiometry="1" constant="true"/>
+        </listOfProducts>
+        <fbc:geneProductAssociation>
+          <fbc:or>
+            <fbc:geneProductRef fbc:geneProduct="G_b0241"/>
+            <fbc:geneProductRef fbc:geneProduct="G_b2215"/>
+            <fbc:geneProductRef fbc:geneProduct="G_b0929"/>
+            <fbc:geneProductRef fbc:geneProduct="G_b1377"/>
+          </fbc:or>
+        </fbc:geneProductAssociation>
+      </reaction>
+      <reaction id="R_EX_meoh_e" fast="false" reversible="false" name="Methanol exchange" metaid="R_EX_meoh_e" sboTerm="SBO:0000627" fbc:upperFluxBound="cobra_default_ub" fbc:lowerFluxBound="cobra_0_bound">
+        <sbml:annotation xmlns:sbml="http://www.sbml.org/sbml/level3/version1/core">
+          <rdf:RDF xmlns:rdf="http://www.w3.org/1999/02/22-rdf-syntax-ns#">
+            <rdf:Description rdf:about="#R_EX_meoh_e">
+              <bqbiol:is xmlns:bqbiol="http://biomodels.net/biology-qualifiers/">
+                <rdf:Bag>
+                  <rdf:li rdf:resource="http://identifiers.org/bigg.reaction/EX_meoh_e"/>
+                  <rdf:li rdf:resource="http://identifiers.org/biocyc/META:TRANS-RXN0-459"/>
+                  <rdf:li rdf:resource="http://identifiers.org/metanetx.reaction/MNXR101464"/>
+                  <rdf:li rdf:resource="http://identifiers.org/rhea/34873"/>
+                  <rdf:li rdf:resource="http://identifiers.org/rhea/34872"/>
+                  <rdf:li rdf:resource="http://identifiers.org/rhea/34874"/>
+                  <rdf:li rdf:resource="http://identifiers.org/rhea/34871"/>
+                  <rdf:li rdf:resource="http://identifiers.org/seed.reaction/rxn10570"/>
+                </rdf:Bag>
+              </bqbiol:is>
+            </rdf:Description>
+          </rdf:RDF>
+        </sbml:annotation>
+        <listOfReactants>
+          <speciesReference species="M_meoh_e" stoichiometry="1" constant="true"/>
+        </listOfReactants>
+      </reaction>
+      <reaction id="R_EX_fe3dcit_e" fast="false" reversible="false" name="Fe(III)dicitrate exchange" metaid="R_EX_fe3dcit_e" sboTerm="SBO:0000627" fbc:upperFluxBound="cobra_default_ub" fbc:lowerFluxBound="cobra_0_bound">
+        <sbml:annotation xmlns:sbml="http://www.sbml.org/sbml/level3/version1/core">
+          <rdf:RDF xmlns:rdf="http://www.w3.org/1999/02/22-rdf-syntax-ns#">
+            <rdf:Description rdf:about="#R_EX_fe3dcit_e">
+              <bqbiol:is xmlns:bqbiol="http://biomodels.net/biology-qualifiers/">
+                <rdf:Bag>
+                  <rdf:li rdf:resource="http://identifiers.org/bigg.reaction/EX_fe3dcit_e"/>
+                  <rdf:li rdf:resource="http://identifiers.org/metanetx.reaction/MNXR142958"/>
+                </rdf:Bag>
+              </bqbiol:is>
+            </rdf:Description>
+          </rdf:RDF>
+        </sbml:annotation>
+        <listOfReactants>
+          <speciesReference species="M_fe3dcit_e" stoichiometry="1" constant="true"/>
+        </listOfReactants>
+      </reaction>
+      <reaction id="R_EX_fe3hox_e" fast="false" reversible="false" name="Fe(III)hydroxamate exchange" metaid="R_EX_fe3hox_e" sboTerm="SBO:0000627" fbc:upperFluxBound="cobra_default_ub" fbc:lowerFluxBound="cobra_0_bound">
+        <sbml:annotation xmlns:sbml="http://www.sbml.org/sbml/level3/version1/core">
+          <rdf:RDF xmlns:rdf="http://www.w3.org/1999/02/22-rdf-syntax-ns#">
+            <rdf:Description rdf:about="#R_EX_fe3hox_e">
+              <bqbiol:is xmlns:bqbiol="http://biomodels.net/biology-qualifiers/">
+                <rdf:Bag>
+                  <rdf:li rdf:resource="http://identifiers.org/bigg.reaction/EX_fe3hox_e"/>
+                  <rdf:li rdf:resource="http://identifiers.org/metanetx.reaction/MNXR142961"/>
+                </rdf:Bag>
+              </bqbiol:is>
+            </rdf:Description>
+          </rdf:RDF>
+        </sbml:annotation>
+        <listOfReactants>
+          <speciesReference species="M_fe3hox_e" stoichiometry="1" constant="true"/>
+        </listOfReactants>
+      </reaction>
+      <reaction id="R_EX_fecrm_e" fast="false" reversible="false" name="Ferrichrome exchange" metaid="R_EX_fecrm_e" sboTerm="SBO:0000627" fbc:upperFluxBound="cobra_default_ub" fbc:lowerFluxBound="cobra_0_bound">
+        <sbml:annotation xmlns:sbml="http://www.sbml.org/sbml/level3/version1/core">
+          <rdf:RDF xmlns:rdf="http://www.w3.org/1999/02/22-rdf-syntax-ns#">
+            <rdf:Description rdf:about="#R_EX_fecrm_e">
+              <bqbiol:is xmlns:bqbiol="http://biomodels.net/biology-qualifiers/">
+                <rdf:Bag>
+                  <rdf:li rdf:resource="http://identifiers.org/bigg.reaction/EX_fecrm_e"/>
+                  <rdf:li rdf:resource="http://identifiers.org/biocyc/META:RXN0-1701"/>
+                  <rdf:li rdf:resource="http://identifiers.org/biocyc/META:RXN0-2241"/>
+                  <rdf:li rdf:resource="http://identifiers.org/metanetx.reaction/MNXR123118"/>
+                </rdf:Bag>
+              </bqbiol:is>
+            </rdf:Description>
+          </rdf:RDF>
+        </sbml:annotation>
+        <listOfReactants>
+          <speciesReference species="M_fecrm_e" stoichiometry="1" constant="true"/>
+        </listOfReactants>
+      </reaction>
+      <reaction id="R_EX_feenter_e" fast="false" reversible="false" name="Fe-enterobactin exchange" metaid="R_EX_feenter_e" sboTerm="SBO:0000627" fbc:upperFluxBound="cobra_default_ub" fbc:lowerFluxBound="cobra_0_bound">
+        <sbml:annotation xmlns:sbml="http://www.sbml.org/sbml/level3/version1/core">
+          <rdf:RDF xmlns:rdf="http://www.w3.org/1999/02/22-rdf-syntax-ns#">
+            <rdf:Description rdf:about="#R_EX_feenter_e">
+              <bqbiol:is xmlns:bqbiol="http://biomodels.net/biology-qualifiers/">
+                <rdf:Bag>
+                  <rdf:li rdf:resource="http://identifiers.org/bigg.reaction/EX_feenter_e"/>
+                  <rdf:li rdf:resource="http://identifiers.org/metanetx.reaction/MNXR142965"/>
+                </rdf:Bag>
+              </bqbiol:is>
+            </rdf:Description>
+          </rdf:RDF>
+        </sbml:annotation>
+        <listOfReactants>
+          <speciesReference species="M_feenter_e" stoichiometry="1" constant="true"/>
+        </listOfReactants>
+      </reaction>
+      <reaction id="R_EX_feoxam_e" fast="false" reversible="false" name="Ferroxamine exchange" metaid="R_EX_feoxam_e" sboTerm="SBO:0000627" fbc:upperFluxBound="cobra_default_ub" fbc:lowerFluxBound="cobra_0_bound">
+        <sbml:annotation xmlns:sbml="http://www.sbml.org/sbml/level3/version1/core">
+          <rdf:RDF xmlns:rdf="http://www.w3.org/1999/02/22-rdf-syntax-ns#">
+            <rdf:Description rdf:about="#R_EX_feoxam_e">
+              <bqbiol:is xmlns:bqbiol="http://biomodels.net/biology-qualifiers/">
+                <rdf:Bag>
+                  <rdf:li rdf:resource="http://identifiers.org/bigg.reaction/EX_feoxam_e"/>
+                  <rdf:li rdf:resource="http://identifiers.org/metanetx.reaction/MNXR99567"/>
+                </rdf:Bag>
+              </bqbiol:is>
+            </rdf:Description>
+          </rdf:RDF>
+        </sbml:annotation>
+        <listOfReactants>
+          <speciesReference species="M_feoxam_e" stoichiometry="1" constant="true"/>
+        </listOfReactants>
+      </reaction>
+      <reaction id="R_MALTTRtexi" fast="false" reversible="false" name="Maltotriose transport via diffusion (extracellular to periplasm) irreversible" metaid="R_MALTTRtexi" sboTerm="SBO:0000185" fbc:upperFluxBound="cobra_default_ub" fbc:lowerFluxBound="cobra_0_bound">
+        <sbml:annotation xmlns:sbml="http://www.sbml.org/sbml/level3/version1/core">
+          <rdf:RDF xmlns:rdf="http://www.w3.org/1999/02/22-rdf-syntax-ns#">
+            <rdf:Description rdf:about="#R_MALTTRtexi">
+              <bqbiol:is xmlns:bqbiol="http://biomodels.net/biology-qualifiers/">
+                <rdf:Bag>
+                  <rdf:li rdf:resource="http://identifiers.org/bigg.reaction/MALTTRtexi"/>
+                  <rdf:li rdf:resource="http://identifiers.org/metanetx.reaction/MNXR101359"/>
+                  <rdf:li rdf:resource="http://identifiers.org/sabiork/11212"/>
+                  <rdf:li rdf:resource="http://identifiers.org/seed.reaction/rxn08876"/>
+                </rdf:Bag>
+              </bqbiol:is>
+            </rdf:Description>
+          </rdf:RDF>
+        </sbml:annotation>
+        <listOfReactants>
+          <speciesReference species="M_malttr_e" stoichiometry="1" constant="true"/>
+        </listOfReactants>
+        <listOfProducts>
+          <speciesReference species="M_malttr_p" stoichiometry="1" constant="true"/>
+        </listOfProducts>
+        <fbc:geneProductAssociation>
+          <fbc:geneProductRef fbc:geneProduct="G_b4036"/>
+        </fbc:geneProductAssociation>
+      </reaction>
+      <reaction id="R_MALTTTRtexi" fast="false" reversible="false" name="MaltotetraoseMaltotriose transport via diffusion (extracellular to periplasm) irreversible" metaid="R_MALTTTRtexi" sboTerm="SBO:0000185" fbc:upperFluxBound="cobra_default_ub" fbc:lowerFluxBound="cobra_0_bound">
+        <sbml:annotation xmlns:sbml="http://www.sbml.org/sbml/level3/version1/core">
+          <rdf:RDF xmlns:rdf="http://www.w3.org/1999/02/22-rdf-syntax-ns#">
+            <rdf:Description rdf:about="#R_MALTTTRtexi">
+              <bqbiol:is xmlns:bqbiol="http://biomodels.net/biology-qualifiers/">
+                <rdf:Bag>
+                  <rdf:li rdf:resource="http://identifiers.org/bigg.reaction/MALTTTRtexi"/>
+                  <rdf:li rdf:resource="http://identifiers.org/metanetx.reaction/MNXR101361"/>
+                  <rdf:li rdf:resource="http://identifiers.org/seed.reaction/rxn08878"/>
+                </rdf:Bag>
+              </bqbiol:is>
+            </rdf:Description>
+          </rdf:RDF>
+        </sbml:annotation>
+        <listOfReactants>
+          <speciesReference species="M_maltttr_e" stoichiometry="1" constant="true"/>
+        </listOfReactants>
+        <listOfProducts>
+          <speciesReference species="M_maltttr_p" stoichiometry="1" constant="true"/>
+        </listOfProducts>
+        <fbc:geneProductAssociation>
+          <fbc:geneProductRef fbc:geneProduct="G_b4036"/>
+        </fbc:geneProductAssociation>
+      </reaction>
+      <reaction id="R_MALTPTtexi" fast="false" reversible="false" name="MaltopentaoseMaltotriose transport via diffusion (extracellular to periplasm) irreversible" metaid="R_MALTPTtexi" sboTerm="SBO:0000185" fbc:upperFluxBound="cobra_default_ub" fbc:lowerFluxBound="cobra_0_bound">
+        <sbml:annotation xmlns:sbml="http://www.sbml.org/sbml/level3/version1/core">
+          <rdf:RDF xmlns:rdf="http://www.w3.org/1999/02/22-rdf-syntax-ns#">
+            <rdf:Description rdf:about="#R_MALTPTtexi">
+              <bqbiol:is xmlns:bqbiol="http://biomodels.net/biology-qualifiers/">
+                <rdf:Bag>
+                  <rdf:li rdf:resource="http://identifiers.org/bigg.reaction/MALTPTtexi"/>
+                  <rdf:li rdf:resource="http://identifiers.org/metanetx.reaction/MNXR101356"/>
+                  <rdf:li rdf:resource="http://identifiers.org/seed.reaction/rxn08873"/>
+                </rdf:Bag>
+              </bqbiol:is>
+            </rdf:Description>
+          </rdf:RDF>
+        </sbml:annotation>
+        <listOfReactants>
+          <speciesReference species="M_maltpt_e" stoichiometry="1" constant="true"/>
+        </listOfReactants>
+        <listOfProducts>
+          <speciesReference species="M_maltpt_p" stoichiometry="1" constant="true"/>
+        </listOfProducts>
+        <fbc:geneProductAssociation>
+          <fbc:geneProductRef fbc:geneProduct="G_b4036"/>
+        </fbc:geneProductAssociation>
+      </reaction>
+      <reaction id="R_METS" fast="false" reversible="false" name="Methionine synthase" metaid="R_METS" sboTerm="SBO:0000176" fbc:upperFluxBound="cobra_default_ub" fbc:lowerFluxBound="cobra_0_bound">
+        <sbml:annotation xmlns:sbml="http://www.sbml.org/sbml/level3/version1/core">
+          <rdf:RDF xmlns:rdf="http://www.w3.org/1999/02/22-rdf-syntax-ns#">
+            <rdf:Description rdf:about="#R_METS">
+              <bqbiol:is xmlns:bqbiol="http://biomodels.net/biology-qualifiers/">
+                <rdf:Bag>
+                  <rdf:li rdf:resource="http://identifiers.org/bigg.reaction/METS"/>
+                  <rdf:li rdf:resource="http://identifiers.org/ec-code/2.1.1.13"/>
+                  <rdf:li rdf:resource="http://identifiers.org/kegg.reaction/R00946"/>
+                  <rdf:li rdf:resource="http://identifiers.org/metanetx.reaction/MNXR101481"/>
+                  <rdf:li rdf:resource="http://identifiers.org/rhea/11173"/>
+                  <rdf:li rdf:resource="http://identifiers.org/rhea/11175"/>
+                  <rdf:li rdf:resource="http://identifiers.org/rhea/11174"/>
+                  <rdf:li rdf:resource="http://identifiers.org/rhea/11172"/>
+                  <rdf:li rdf:resource="http://identifiers.org/sabiork/1260"/>
+                </rdf:Bag>
+              </bqbiol:is>
+            </rdf:Description>
+          </rdf:RDF>
+        </sbml:annotation>
+        <listOfReactants>
+          <speciesReference species="M_5mthf_c" stoichiometry="1" constant="true"/>
+          <speciesReference species="M_hcys__L_c" stoichiometry="1" constant="true"/>
+        </listOfReactants>
+        <listOfProducts>
+          <speciesReference species="M_h_c" stoichiometry="1" constant="true"/>
+          <speciesReference species="M_met__L_c" stoichiometry="1" constant="true"/>
+          <speciesReference species="M_thf_c" stoichiometry="1" constant="true"/>
+        </listOfProducts>
+        <fbc:geneProductAssociation>
+          <fbc:or>
+            <fbc:geneProductRef fbc:geneProduct="G_b4019"/>
+            <fbc:geneProductRef fbc:geneProduct="G_b3829"/>
+          </fbc:or>
+        </fbc:geneProductAssociation>
+      </reaction>
+      <reaction id="R_ASPO3" fast="false" reversible="false" name="L-aspartate oxidase" metaid="R_ASPO3" sboTerm="SBO:0000176" fbc:upperFluxBound="cobra_default_ub" fbc:lowerFluxBound="cobra_0_bound">
+        <sbml:annotation xmlns:sbml="http://www.sbml.org/sbml/level3/version1/core">
+          <rdf:RDF xmlns:rdf="http://www.w3.org/1999/02/22-rdf-syntax-ns#">
+            <rdf:Description rdf:about="#R_ASPO3">
+              <bqbiol:is xmlns:bqbiol="http://biomodels.net/biology-qualifiers/">
+                <rdf:Bag>
+                  <rdf:li rdf:resource="http://identifiers.org/bigg.reaction/ASPO3"/>
+                  <rdf:li rdf:resource="http://identifiers.org/metanetx.reaction/MNXR96091"/>
+                  <rdf:li rdf:resource="http://identifiers.org/rhea/28685"/>
+                  <rdf:li rdf:resource="http://identifiers.org/rhea/28686"/>
+                  <rdf:li rdf:resource="http://identifiers.org/rhea/28683"/>
+                  <rdf:li rdf:resource="http://identifiers.org/rhea/28684"/>
+                  <rdf:li rdf:resource="http://identifiers.org/seed.reaction/rxn08166"/>
+                </rdf:Bag>
+              </bqbiol:is>
+            </rdf:Description>
+          </rdf:RDF>
+        </sbml:annotation>
+        <listOfReactants>
+          <speciesReference species="M_asp__L_c" stoichiometry="1" constant="true"/>
+          <speciesReference species="M_q8_c" stoichiometry="1" constant="true"/>
+        </listOfReactants>
+        <listOfProducts>
+          <speciesReference species="M_h_c" stoichiometry="1" constant="true"/>
+          <speciesReference species="M_iasp_c" stoichiometry="1" constant="true"/>
+          <speciesReference species="M_q8h2_c" stoichiometry="1" constant="true"/>
+        </listOfProducts>
+        <fbc:geneProductAssociation>
+          <fbc:geneProductRef fbc:geneProduct="G_b2574"/>
+        </fbc:geneProductAssociation>
+      </reaction>
+      <reaction id="R_ASPO5" fast="false" reversible="false" name="L-aspartate oxidase" metaid="R_ASPO5" sboTerm="SBO:0000176" fbc:upperFluxBound="cobra_default_ub" fbc:lowerFluxBound="cobra_0_bound">
+        <sbml:annotation xmlns:sbml="http://www.sbml.org/sbml/level3/version1/core">
+          <rdf:RDF xmlns:rdf="http://www.w3.org/1999/02/22-rdf-syntax-ns#">
+            <rdf:Description rdf:about="#R_ASPO5">
+              <bqbiol:is xmlns:bqbiol="http://biomodels.net/biology-qualifiers/">
+                <rdf:Bag>
+                  <rdf:li rdf:resource="http://identifiers.org/bigg.reaction/ASPO5"/>
+                  <rdf:li rdf:resource="http://identifiers.org/biocyc/META:RXN-9772"/>
+                  <rdf:li rdf:resource="http://identifiers.org/ec-code/1.5.99"/>
+                  <rdf:li rdf:resource="http://identifiers.org/metanetx.reaction/MNXR96093"/>
+                  <rdf:li rdf:resource="http://identifiers.org/rhea/30043"/>
+                  <rdf:li rdf:resource="http://identifiers.org/rhea/30045"/>
+                  <rdf:li rdf:resource="http://identifiers.org/rhea/30044"/>
+                  <rdf:li rdf:resource="http://identifiers.org/rhea/30046"/>
+                  <rdf:li rdf:resource="http://identifiers.org/seed.reaction/rxn08168"/>
+                </rdf:Bag>
+              </bqbiol:is>
+            </rdf:Description>
+          </rdf:RDF>
+        </sbml:annotation>
+        <listOfReactants>
+          <speciesReference species="M_asp__L_c" stoichiometry="1" constant="true"/>
+          <speciesReference species="M_fum_c" stoichiometry="1" constant="true"/>
+        </listOfReactants>
+        <listOfProducts>
+          <speciesReference species="M_h_c" stoichiometry="1" constant="true"/>
+          <speciesReference species="M_iasp_c" stoichiometry="1" constant="true"/>
+          <speciesReference species="M_succ_c" stoichiometry="1" constant="true"/>
+        </listOfProducts>
+        <fbc:geneProductAssociation>
+          <fbc:geneProductRef fbc:geneProduct="G_b2574"/>
+        </fbc:geneProductAssociation>
+      </reaction>
+      <reaction id="R_ASPO4" fast="false" reversible="false" name="L-aspartate oxidase" metaid="R_ASPO4" sboTerm="SBO:0000176" fbc:upperFluxBound="cobra_default_ub" fbc:lowerFluxBound="cobra_0_bound">
+        <sbml:annotation xmlns:sbml="http://www.sbml.org/sbml/level3/version1/core">
+          <rdf:RDF xmlns:rdf="http://www.w3.org/1999/02/22-rdf-syntax-ns#">
+            <rdf:Description rdf:about="#R_ASPO4">
+              <bqbiol:is xmlns:bqbiol="http://biomodels.net/biology-qualifiers/">
+                <rdf:Bag>
+                  <rdf:li rdf:resource="http://identifiers.org/bigg.reaction/ASPO4"/>
+                  <rdf:li rdf:resource="http://identifiers.org/metanetx.reaction/MNXR96092"/>
+                  <rdf:li rdf:resource="http://identifiers.org/rhea/29192"/>
+                  <rdf:li rdf:resource="http://identifiers.org/rhea/29193"/>
+                  <rdf:li rdf:resource="http://identifiers.org/rhea/29191"/>
+                  <rdf:li rdf:resource="http://identifiers.org/rhea/29194"/>
+                  <rdf:li rdf:resource="http://identifiers.org/seed.reaction/rxn08167"/>
+                </rdf:Bag>
+              </bqbiol:is>
+            </rdf:Description>
+          </rdf:RDF>
+        </sbml:annotation>
+        <listOfReactants>
+          <speciesReference species="M_asp__L_c" stoichiometry="1" constant="true"/>
+          <speciesReference species="M_mqn8_c" stoichiometry="1" constant="true"/>
+        </listOfReactants>
+        <listOfProducts>
+          <speciesReference species="M_h_c" stoichiometry="1" constant="true"/>
+          <speciesReference species="M_iasp_c" stoichiometry="1" constant="true"/>
+          <speciesReference species="M_mql8_c" stoichiometry="1" constant="true"/>
+        </listOfProducts>
+        <fbc:geneProductAssociation>
+          <fbc:geneProductRef fbc:geneProduct="G_b2574"/>
+        </fbc:geneProductAssociation>
+      </reaction>
+      <reaction id="R_EX_3amp_e" fast="false" reversible="false" name="3'-AMP exchange" metaid="R_EX_3amp_e" sboTerm="SBO:0000627" fbc:upperFluxBound="cobra_default_ub" fbc:lowerFluxBound="cobra_0_bound">
+        <sbml:annotation xmlns:sbml="http://www.sbml.org/sbml/level3/version1/core">
+          <rdf:RDF xmlns:rdf="http://www.w3.org/1999/02/22-rdf-syntax-ns#">
+            <rdf:Description rdf:about="#R_EX_3amp_e">
+              <bqbiol:is xmlns:bqbiol="http://biomodels.net/biology-qualifiers/">
+                <rdf:Bag>
+                  <rdf:li rdf:resource="http://identifiers.org/bigg.reaction/EX_3amp_e"/>
+                  <rdf:li rdf:resource="http://identifiers.org/metanetx.reaction/MNXR94857"/>
+                  <rdf:li rdf:resource="http://identifiers.org/seed.reaction/rxn07973"/>
+                </rdf:Bag>
+              </bqbiol:is>
+            </rdf:Description>
+          </rdf:RDF>
+        </sbml:annotation>
+        <listOfReactants>
+          <speciesReference species="M_3amp_e" stoichiometry="1" constant="true"/>
+        </listOfReactants>
+      </reaction>
+      <reaction id="R_EX_3gmp_e" fast="false" reversible="false" name="3'-GMP exchange" metaid="R_EX_3gmp_e" sboTerm="SBO:0000627" fbc:upperFluxBound="cobra_default_ub" fbc:lowerFluxBound="cobra_0_bound">
+        <sbml:annotation xmlns:sbml="http://www.sbml.org/sbml/level3/version1/core">
+          <rdf:RDF xmlns:rdf="http://www.w3.org/1999/02/22-rdf-syntax-ns#">
+            <rdf:Description rdf:about="#R_EX_3gmp_e">
+              <bqbiol:is xmlns:bqbiol="http://biomodels.net/biology-qualifiers/">
+                <rdf:Bag>
+                  <rdf:li rdf:resource="http://identifiers.org/bigg.reaction/EX_3gmp_e"/>
+                  <rdf:li rdf:resource="http://identifiers.org/metanetx.reaction/MNXR94868"/>
+                  <rdf:li rdf:resource="http://identifiers.org/seed.reaction/rxn07975"/>
+                </rdf:Bag>
+              </bqbiol:is>
+            </rdf:Description>
+          </rdf:RDF>
+        </sbml:annotation>
+        <listOfReactants>
+          <speciesReference species="M_3gmp_e" stoichiometry="1" constant="true"/>
+        </listOfReactants>
+      </reaction>
+      <reaction id="R_EX_3ump_e" fast="false" reversible="false" name="3'-UMP exchange" metaid="R_EX_3ump_e" sboTerm="SBO:0000627" fbc:upperFluxBound="cobra_default_ub" fbc:lowerFluxBound="cobra_0_bound">
+        <sbml:annotation xmlns:sbml="http://www.sbml.org/sbml/level3/version1/core">
+          <rdf:RDF xmlns:rdf="http://www.w3.org/1999/02/22-rdf-syntax-ns#">
+            <rdf:Description rdf:about="#R_EX_3ump_e">
+              <bqbiol:is xmlns:bqbiol="http://biomodels.net/biology-qualifiers/">
+                <rdf:Bag>
+                  <rdf:li rdf:resource="http://identifiers.org/bigg.reaction/EX_3ump_e"/>
+                  <rdf:li rdf:resource="http://identifiers.org/metanetx.reaction/MNXR94983"/>
+                  <rdf:li rdf:resource="http://identifiers.org/seed.reaction/rxn08005"/>
+                </rdf:Bag>
+              </bqbiol:is>
+            </rdf:Description>
+          </rdf:RDF>
+        </sbml:annotation>
+        <listOfReactants>
+          <speciesReference species="M_3ump_e" stoichiometry="1" constant="true"/>
+        </listOfReactants>
+      </reaction>
+      <reaction id="R_ASPO6" fast="false" reversible="false" name="L-aspartate oxidase" metaid="R_ASPO6" sboTerm="SBO:0000176" fbc:upperFluxBound="cobra_default_ub" fbc:lowerFluxBound="cobra_0_bound">
+        <sbml:annotation xmlns:sbml="http://www.sbml.org/sbml/level3/version1/core">
+          <rdf:RDF xmlns:rdf="http://www.w3.org/1999/02/22-rdf-syntax-ns#">
+            <rdf:Description rdf:about="#R_ASPO6">
+              <bqbiol:is xmlns:bqbiol="http://biomodels.net/biology-qualifiers/">
+                <rdf:Bag>
+                  <rdf:li rdf:resource="http://identifiers.org/bigg.reaction/ASPO6"/>
+                  <rdf:li rdf:resource="http://identifiers.org/biocyc/META:L-ASPARTATE-OXID-RXN"/>
+                  <rdf:li rdf:resource="http://identifiers.org/ec-code/1.4.3.16"/>
+                  <rdf:li rdf:resource="http://identifiers.org/kegg.reaction/R00481"/>
+                  <rdf:li rdf:resource="http://identifiers.org/metanetx.reaction/MNXR96094"/>
+                  <rdf:li rdf:resource="http://identifiers.org/rhea/25879"/>
+                  <rdf:li rdf:resource="http://identifiers.org/rhea/25878"/>
+                  <rdf:li rdf:resource="http://identifiers.org/rhea/25877"/>
+                  <rdf:li rdf:resource="http://identifiers.org/rhea/25876"/>
+                  <rdf:li rdf:resource="http://identifiers.org/seed.reaction/rxn00338"/>
+                </rdf:Bag>
+              </bqbiol:is>
+            </rdf:Description>
+          </rdf:RDF>
+        </sbml:annotation>
+        <listOfReactants>
+          <speciesReference species="M_asp__L_c" stoichiometry="1" constant="true"/>
+          <speciesReference species="M_o2_c" stoichiometry="1" constant="true"/>
+        </listOfReactants>
+        <listOfProducts>
+          <speciesReference species="M_h2o2_c" stoichiometry="1" constant="true"/>
+          <speciesReference species="M_h_c" stoichiometry="1" constant="true"/>
+          <speciesReference species="M_iasp_c" stoichiometry="1" constant="true"/>
+        </listOfProducts>
+        <fbc:geneProductAssociation>
+          <fbc:geneProductRef fbc:geneProduct="G_b2574"/>
+        </fbc:geneProductAssociation>
+      </reaction>
+      <reaction id="R_EX_cu2_e" fast="false" reversible="true" name="Cu2+ exchange" metaid="R_EX_cu2_e" sboTerm="SBO:0000627" fbc:upperFluxBound="cobra_default_ub" fbc:lowerFluxBound="cobra_default_lb">
+        <sbml:annotation xmlns:sbml="http://www.sbml.org/sbml/level3/version1/core">
+          <rdf:RDF xmlns:rdf="http://www.w3.org/1999/02/22-rdf-syntax-ns#">
+            <rdf:Description rdf:about="#R_EX_cu2_e">
+              <bqbiol:is xmlns:bqbiol="http://biomodels.net/biology-qualifiers/">
+                <rdf:Bag>
+                  <rdf:li rdf:resource="http://identifiers.org/bigg.reaction/EX_cu2_e"/>
+                  <rdf:li rdf:resource="http://identifiers.org/biocyc/META:RXN0-14"/>
+                  <rdf:li rdf:resource="http://identifiers.org/metanetx.reaction/MNXR96951"/>
+                  <rdf:li rdf:resource="http://identifiers.org/reactome.reaction/R-HSA-437300"/>
+                  <rdf:li rdf:resource="http://identifiers.org/reactome.reaction/R-DME-437300"/>
+                  <rdf:li rdf:resource="http://identifiers.org/reactome.reaction/R-RNO-437300"/>
+                  <rdf:li rdf:resource="http://identifiers.org/reactome.reaction/R-SCE-437300"/>
+                  <rdf:li rdf:resource="http://identifiers.org/reactome.reaction/R-DRE-437300"/>
+                  <rdf:li rdf:resource="http://identifiers.org/reactome.reaction/R-XTR-437300"/>
+                  <rdf:li rdf:resource="http://identifiers.org/reactome.reaction/R-TGU-437300"/>
+                  <rdf:li rdf:resource="http://identifiers.org/reactome.reaction/R-BTA-437300"/>
+                  <rdf:li rdf:resource="http://identifiers.org/reactome.reaction/R-CFA-437300"/>
+                  <rdf:li rdf:resource="http://identifiers.org/reactome.reaction/R-SSC-437300"/>
+                  <rdf:li rdf:resource="http://identifiers.org/reactome.reaction/R-MMU-437300"/>
+                  <rdf:li rdf:resource="http://identifiers.org/reactome.reaction/R-GGA-437300"/>
+                  <rdf:li rdf:resource="http://identifiers.org/rhea/28705"/>
+                  <rdf:li rdf:resource="http://identifiers.org/rhea/28706"/>
+                  <rdf:li rdf:resource="http://identifiers.org/rhea/28704"/>
+                  <rdf:li rdf:resource="http://identifiers.org/rhea/28703"/>
+                  <rdf:li rdf:resource="http://identifiers.org/seed.reaction/rxn08274"/>
+                  <rdf:li rdf:resource="http://identifiers.org/seed.reaction/rxn05212"/>
+                  <rdf:li rdf:resource="http://identifiers.org/seed.reaction/rxn08273"/>
+                </rdf:Bag>
+              </bqbiol:is>
+            </rdf:Description>
+          </rdf:RDF>
+        </sbml:annotation>
+        <listOfReactants>
+          <speciesReference species="M_cu2_e" stoichiometry="1" constant="true"/>
+        </listOfReactants>
+      </reaction>
+      <reaction id="R_LCTStex" fast="false" reversible="true" name="Lactose transport via diffusion (extracellular to periplasm)" metaid="R_LCTStex" sboTerm="SBO:0000185" fbc:upperFluxBound="cobra_default_ub" fbc:lowerFluxBound="cobra_default_lb">
+        <sbml:annotation xmlns:sbml="http://www.sbml.org/sbml/level3/version1/core">
+          <rdf:RDF xmlns:rdf="http://www.w3.org/1999/02/22-rdf-syntax-ns#">
+            <rdf:Description rdf:about="#R_LCTStex">
+              <bqbiol:is xmlns:bqbiol="http://biomodels.net/biology-qualifiers/">
+                <rdf:Bag>
+                  <rdf:li rdf:resource="http://identifiers.org/bigg.reaction/LCTStex"/>
+                  <rdf:li rdf:resource="http://identifiers.org/metanetx.reaction/MNXR101027"/>
+                  <rdf:li rdf:resource="http://identifiers.org/seed.reaction/rxn08780"/>
+                </rdf:Bag>
+              </bqbiol:is>
+            </rdf:Description>
+          </rdf:RDF>
+        </sbml:annotation>
+        <listOfReactants>
+          <speciesReference species="M_lcts_e" stoichiometry="1" constant="true"/>
+        </listOfReactants>
+        <listOfProducts>
+          <speciesReference species="M_lcts_p" stoichiometry="1" constant="true"/>
+        </listOfProducts>
+        <fbc:geneProductAssociation>
+          <fbc:or>
+            <fbc:geneProductRef fbc:geneProduct="G_b0241"/>
+            <fbc:geneProductRef fbc:geneProduct="G_b0929"/>
+            <fbc:geneProductRef fbc:geneProduct="G_b1377"/>
+            <fbc:geneProductRef fbc:geneProduct="G_b2215"/>
+          </fbc:or>
+        </fbc:geneProductAssociation>
+      </reaction>
+      <reaction id="R_LEUtex" fast="false" reversible="true" name="L-leucine transport via diffusion (extracellular to periplasm)" metaid="R_LEUtex" sboTerm="SBO:0000185" fbc:upperFluxBound="cobra_default_ub" fbc:lowerFluxBound="cobra_default_lb">
+        <sbml:annotation xmlns:sbml="http://www.sbml.org/sbml/level3/version1/core">
+          <rdf:RDF xmlns:rdf="http://www.w3.org/1999/02/22-rdf-syntax-ns#">
+            <rdf:Description rdf:about="#R_LEUtex">
+              <bqbiol:is xmlns:bqbiol="http://biomodels.net/biology-qualifiers/">
+                <rdf:Bag>
+                  <rdf:li rdf:resource="http://identifiers.org/bigg.reaction/LEUtex"/>
+                  <rdf:li rdf:resource="http://identifiers.org/biocyc/META:RXN66-447"/>
+                  <rdf:li rdf:resource="http://identifiers.org/metanetx.reaction/MNXR101057"/>
+                  <rdf:li rdf:resource="http://identifiers.org/sabiork/13056"/>
+                  <rdf:li rdf:resource="http://identifiers.org/seed.reaction/rxn08786"/>
+                  <rdf:li rdf:resource="http://identifiers.org/seed.reaction/rxn11003"/>
+                </rdf:Bag>
+              </bqbiol:is>
+            </rdf:Description>
+          </rdf:RDF>
+        </sbml:annotation>
+        <listOfReactants>
+          <speciesReference species="M_leu__L_e" stoichiometry="1" constant="true"/>
+        </listOfReactants>
+        <listOfProducts>
+          <speciesReference species="M_leu__L_p" stoichiometry="1" constant="true"/>
+        </listOfProducts>
+        <fbc:geneProductAssociation>
+          <fbc:or>
+            <fbc:geneProductRef fbc:geneProduct="G_b0241"/>
+            <fbc:geneProductRef fbc:geneProduct="G_b0929"/>
+            <fbc:geneProductRef fbc:geneProduct="G_b1377"/>
+            <fbc:geneProductRef fbc:geneProduct="G_b2215"/>
+          </fbc:or>
+        </fbc:geneProductAssociation>
+      </reaction>
+      <reaction id="R_LYStex" fast="false" reversible="true" name="L-lysine transport via diffusion (extracellular to periplasm)" metaid="R_LYStex" sboTerm="SBO:0000185" fbc:upperFluxBound="cobra_default_ub" fbc:lowerFluxBound="cobra_default_lb">
+        <sbml:annotation xmlns:sbml="http://www.sbml.org/sbml/level3/version1/core">
+          <rdf:RDF xmlns:rdf="http://www.w3.org/1999/02/22-rdf-syntax-ns#">
+            <rdf:Description rdf:about="#R_LYStex">
+              <bqbiol:is xmlns:bqbiol="http://biomodels.net/biology-qualifiers/">
+                <rdf:Bag>
+                  <rdf:li rdf:resource="http://identifiers.org/bigg.reaction/LYStex"/>
+                  <rdf:li rdf:resource="http://identifiers.org/biocyc/META:TRANS-RXN0-569"/>
+                  <rdf:li rdf:resource="http://identifiers.org/metanetx.reaction/MNXR101269"/>
+                  <rdf:li rdf:resource="http://identifiers.org/sabiork/7984"/>
+                  <rdf:li rdf:resource="http://identifiers.org/seed.reaction/rxn10834"/>
+                  <rdf:li rdf:resource="http://identifiers.org/seed.reaction/rxn08856"/>
+                </rdf:Bag>
+              </bqbiol:is>
+            </rdf:Description>
+          </rdf:RDF>
+        </sbml:annotation>
+        <listOfReactants>
+          <speciesReference species="M_lys__L_e" stoichiometry="1" constant="true"/>
+        </listOfReactants>
+        <listOfProducts>
+          <speciesReference species="M_lys__L_p" stoichiometry="1" constant="true"/>
+        </listOfProducts>
+        <fbc:geneProductAssociation>
+          <fbc:or>
+            <fbc:geneProductRef fbc:geneProduct="G_b0241"/>
+            <fbc:geneProductRef fbc:geneProduct="G_b0929"/>
+            <fbc:geneProductRef fbc:geneProduct="G_b1377"/>
+            <fbc:geneProductRef fbc:geneProduct="G_b2215"/>
+          </fbc:or>
+        </fbc:geneProductAssociation>
+      </reaction>
+      <reaction id="R_EX_glyc__R_e" fast="false" reversible="false" name="(R)-Glycerate exchange" metaid="R_EX_glyc__R_e" sboTerm="SBO:0000627" fbc:upperFluxBound="cobra_default_ub" fbc:lowerFluxBound="cobra_0_bound">
+        <sbml:annotation xmlns:sbml="http://www.sbml.org/sbml/level3/version1/core">
+          <rdf:RDF xmlns:rdf="http://www.w3.org/1999/02/22-rdf-syntax-ns#">
+            <rdf:Description rdf:about="#R_EX_glyc__R_e">
+              <bqbiol:is xmlns:bqbiol="http://biomodels.net/biology-qualifiers/">
+                <rdf:Bag>
+                  <rdf:li rdf:resource="http://identifiers.org/bigg.reaction/EX_glyc__R_e"/>
+                  <rdf:li rdf:resource="http://identifiers.org/biocyc/META:TRANS-RXN0-523"/>
+                  <rdf:li rdf:resource="http://identifiers.org/metanetx.reaction/MNXR100323"/>
+                  <rdf:li rdf:resource="http://identifiers.org/seed.reaction/rxn08645"/>
+                </rdf:Bag>
+              </bqbiol:is>
+            </rdf:Description>
+          </rdf:RDF>
+        </sbml:annotation>
+        <listOfReactants>
+          <speciesReference species="M_glyc__R_e" stoichiometry="1" constant="true"/>
+        </listOfReactants>
+      </reaction>
+      <reaction id="R_EX_eca4colipa_e" fast="false" reversible="false" name="(enterobacterial common antigen)x4 core oligosaccharide lipid A exchange" metaid="R_EX_eca4colipa_e" sboTerm="SBO:0000627" fbc:upperFluxBound="cobra_default_ub" fbc:lowerFluxBound="cobra_0_bound">
+        <sbml:annotation xmlns:sbml="http://www.sbml.org/sbml/level3/version1/core">
+          <rdf:RDF xmlns:rdf="http://www.w3.org/1999/02/22-rdf-syntax-ns#">
+            <rdf:Description rdf:about="#R_EX_eca4colipa_e">
+              <bqbiol:is xmlns:bqbiol="http://biomodels.net/biology-qualifiers/">
+                <rdf:Bag>
+                  <rdf:li rdf:resource="http://identifiers.org/bigg.reaction/EX_eca4colipa_e"/>
+                  <rdf:li rdf:resource="http://identifiers.org/metanetx.reaction/MNXR97872"/>
+                  <rdf:li rdf:resource="http://identifiers.org/seed.reaction/rxn08406"/>
+                </rdf:Bag>
+              </bqbiol:is>
+            </rdf:Description>
+          </rdf:RDF>
+        </sbml:annotation>
+        <listOfReactants>
+          <speciesReference species="M_eca4colipa_e" stoichiometry="1" constant="true"/>
+        </listOfReactants>
+      </reaction>
+      <reaction id="R_GLYOX3" fast="false" reversible="false" name="Glyoxalase III" metaid="R_GLYOX3" sboTerm="SBO:0000176" fbc:upperFluxBound="cobra_default_ub" fbc:lowerFluxBound="cobra_0_bound">
+        <sbml:annotation xmlns:sbml="http://www.sbml.org/sbml/level3/version1/core">
+          <rdf:RDF xmlns:rdf="http://www.w3.org/1999/02/22-rdf-syntax-ns#">
+            <rdf:Description rdf:about="#R_GLYOX3">
+              <bqbiol:is xmlns:bqbiol="http://biomodels.net/biology-qualifiers/">
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+        </sbml:annotation>
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+          <speciesReference species="M_mthgxl_c" stoichiometry="1" constant="true"/>
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+        <listOfProducts>
+          <speciesReference species="M_h_c" stoichiometry="1" constant="true"/>
+          <speciesReference species="M_lac__D_c" stoichiometry="1" constant="true"/>
+        </listOfProducts>
+        <fbc:geneProductAssociation>
+          <fbc:geneProductRef fbc:geneProduct="G_b1967"/>
+        </fbc:geneProductAssociation>
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+                  <rdf:li rdf:resource="http://identifiers.org/rhea/29729"/>
+                  <rdf:li rdf:resource="http://identifiers.org/rhea/29728"/>
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+          <speciesReference species="M_fmnh2_c" stoichiometry="1" constant="true"/>
+          <speciesReference species="M_o2_c" stoichiometry="1" constant="true"/>
+        </listOfReactants>
+        <listOfProducts>
+          <speciesReference species="M_acald_c" stoichiometry="1" constant="true"/>
+          <speciesReference species="M_fmn_c" stoichiometry="1" constant="true"/>
+          <speciesReference species="M_h2o_c" stoichiometry="1" constant="true"/>
+          <speciesReference species="M_h_c" stoichiometry="1" constant="true"/>
+          <speciesReference species="M_so3_c" stoichiometry="1" constant="true"/>
+        </listOfProducts>
+        <fbc:geneProductAssociation>
+          <fbc:geneProductRef fbc:geneProduct="G_b0935"/>
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+      <reaction id="R_LYXtex" fast="false" reversible="true" name="L-Lyxose transport via diffusion (extracellular to periplasm)" metaid="R_LYXtex" sboTerm="SBO:0000185" fbc:upperFluxBound="cobra_default_ub" fbc:lowerFluxBound="cobra_default_lb">
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+        <listOfProducts>
+          <speciesReference species="M_lyx__L_p" stoichiometry="1" constant="true"/>
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+            <fbc:geneProductRef fbc:geneProduct="G_b1377"/>
+            <fbc:geneProductRef fbc:geneProduct="G_b2215"/>
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+        </fbc:geneProductAssociation>
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+      <reaction id="R_MANtex" fast="false" reversible="true" name="D-mannose transport via diffusion (extracellular to periplasm)" metaid="R_MANtex" sboTerm="SBO:0000185" fbc:upperFluxBound="cobra_default_ub" fbc:lowerFluxBound="cobra_default_lb">
+        <sbml:annotation xmlns:sbml="http://www.sbml.org/sbml/level3/version1/core">
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+                  <rdf:li rdf:resource="http://identifiers.org/sabiork/11452"/>
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+                  <rdf:li rdf:resource="http://identifiers.org/seed.reaction/rxn08886"/>
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+        <listOfProducts>
+          <speciesReference species="M_man_p" stoichiometry="1" constant="true"/>
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+            <fbc:geneProductRef fbc:geneProduct="G_b2215"/>
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+        </fbc:geneProductAssociation>
+      </reaction>
+      <reaction id="R_MAN6Ptex" fast="false" reversible="true" name="Mannose 6-phosphate transport via diffusion (extracellular to periplasm)" metaid="R_MAN6Ptex" sboTerm="SBO:0000185" fbc:upperFluxBound="cobra_default_ub" fbc:lowerFluxBound="cobra_default_lb">
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+                  <rdf:li rdf:resource="http://identifiers.org/seed.reaction/rxn13644"/>
+                  <rdf:li rdf:resource="http://identifiers.org/seed.reaction/rxn08880"/>
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+        </sbml:annotation>
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+        <listOfProducts>
+          <speciesReference species="M_man6p_p" stoichiometry="1" constant="true"/>
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+            <fbc:geneProductRef fbc:geneProduct="G_b1377"/>
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+        </fbc:geneProductAssociation>
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+          <speciesReference species="M_o2_c" stoichiometry="1" constant="true"/>
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+          <speciesReference species="M_btal_c" stoichiometry="1" constant="true"/>
+          <speciesReference species="M_fmn_c" stoichiometry="1" constant="true"/>
+          <speciesReference species="M_h2o_c" stoichiometry="1" constant="true"/>
+          <speciesReference species="M_h_c" stoichiometry="1" constant="true"/>
+          <speciesReference species="M_so3_c" stoichiometry="1" constant="true"/>
+        </listOfProducts>
+        <fbc:geneProductAssociation>
+          <fbc:geneProductRef fbc:geneProduct="G_b0935"/>
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+                  <rdf:li rdf:resource="http://identifiers.org/rhea/29783#1"/>
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+                  <rdf:li rdf:resource="http://identifiers.org/rhea/32798#2"/>
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+          <speciesReference species="M_cys__L_c" stoichiometry="1" constant="true"/>
+          <speciesReference species="M_h2o_c" stoichiometry="1" constant="true"/>
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+        <listOfProducts>
+          <speciesReference species="M_adp_c" stoichiometry="1" constant="true"/>
+          <speciesReference species="M_cys__L_p" stoichiometry="1" constant="true"/>
+          <speciesReference species="M_h_c" stoichiometry="1" constant="true"/>
+          <speciesReference species="M_pi_c" stoichiometry="1" constant="true"/>
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+            <fbc:geneProductRef fbc:geneProduct="G_b0886"/>
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+        </fbc:geneProductAssociation>
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+                  <rdf:li rdf:resource="http://identifiers.org/seed.reaction/rxn05512"/>
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+          <speciesReference species="M_h2o_c" stoichiometry="1" constant="true"/>
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+          <speciesReference species="M_adp_c" stoichiometry="1" constant="true"/>
+          <speciesReference species="M_butso3_c" stoichiometry="1" constant="true"/>
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+          <speciesReference species="M_pi_c" stoichiometry="1" constant="true"/>
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+              <fbc:geneProductRef fbc:geneProduct="G_b0934"/>
+              <fbc:geneProductRef fbc:geneProduct="G_b0933"/>
+              <fbc:geneProductRef fbc:geneProduct="G_b0936"/>
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+            <fbc:and>
+              <fbc:geneProductRef fbc:geneProduct="G_b0366"/>
+              <fbc:geneProductRef fbc:geneProduct="G_b0365"/>
+              <fbc:geneProductRef fbc:geneProduct="G_b0367"/>
+            </fbc:and>
+          </fbc:or>
+        </fbc:geneProductAssociation>
+      </reaction>
+      <reaction id="R_ETHSO3abcpp" fast="false" reversible="false" name="Ethanesulfonate transport via ABC system (periplasm)" metaid="R_ETHSO3abcpp" sboTerm="SBO:0000185" fbc:upperFluxBound="cobra_default_ub" fbc:lowerFluxBound="cobra_0_bound">
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+                  <rdf:li rdf:resource="http://identifiers.org/seed.reaction/rxn08425"/>
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+          <speciesReference species="M_h2o_c" stoichiometry="1" constant="true"/>
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+          <speciesReference species="M_pi_c" stoichiometry="1" constant="true"/>
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+            <fbc:geneProductRef fbc:geneProduct="G_b0933"/>
+            <fbc:geneProductRef fbc:geneProduct="G_b0936"/>
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+        </fbc:geneProductAssociation>
+      </reaction>
+      <reaction id="R_MELIBtex" fast="false" reversible="true" name="Melibiose transport via diffusion (extracellular to periplasm)" metaid="R_MELIBtex" sboTerm="SBO:0000185" fbc:upperFluxBound="cobra_default_ub" fbc:lowerFluxBound="cobra_default_lb">
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+        <listOfProducts>
+          <speciesReference species="M_melib_p" stoichiometry="1" constant="true"/>
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+            <fbc:geneProductRef fbc:geneProduct="G_b2215"/>
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+        </fbc:geneProductAssociation>
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+                  <rdf:li rdf:resource="http://identifiers.org/rhea/29701"/>
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+            <fbc:geneProductRef fbc:geneProduct="G_b2215"/>
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+        </fbc:geneProductAssociation>
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+                  <rdf:li rdf:resource="http://identifiers.org/seed.reaction/rxn10984"/>
+                  <rdf:li rdf:resource="http://identifiers.org/seed.reaction/rxn08377"/>
+                </rdf:Bag>
+              </bqbiol:is>
+            </rdf:Description>
+          </rdf:RDF>
+        </sbml:annotation>
+        <listOfReactants>
+          <speciesReference species="M_duri_e" stoichiometry="1" constant="true"/>
+        </listOfReactants>
+        <listOfProducts>
+          <speciesReference species="M_duri_p" stoichiometry="1" constant="true"/>
+        </listOfProducts>
+        <fbc:geneProductAssociation>
+          <fbc:geneProductRef fbc:geneProduct="G_b0411"/>
+        </fbc:geneProductAssociation>
+      </reaction>
+      <reaction id="R_EX_mal__D_e" fast="false" reversible="false" name="D-Malate exchange" metaid="R_EX_mal__D_e" sboTerm="SBO:0000627" fbc:upperFluxBound="cobra_default_ub" fbc:lowerFluxBound="cobra_0_bound">
+        <sbml:annotation xmlns:sbml="http://www.sbml.org/sbml/level3/version1/core">
+          <rdf:RDF xmlns:rdf="http://www.w3.org/1999/02/22-rdf-syntax-ns#">
+            <rdf:Description rdf:about="#R_EX_mal__D_e">
+              <bqbiol:is xmlns:bqbiol="http://biomodels.net/biology-qualifiers/">
+                <rdf:Bag>
+                  <rdf:li rdf:resource="http://identifiers.org/bigg.reaction/EX_mal__D_e"/>
+                  <rdf:li rdf:resource="http://identifiers.org/metanetx.reaction/MNXR101341"/>
+                  <rdf:li rdf:resource="http://identifiers.org/seed.reaction/rxn08864"/>
+                </rdf:Bag>
+              </bqbiol:is>
+            </rdf:Description>
+          </rdf:RDF>
+        </sbml:annotation>
+        <listOfReactants>
+          <speciesReference species="M_mal__D_e" stoichiometry="1" constant="true"/>
+        </listOfReactants>
+      </reaction>
+      <reaction id="R_FRUtex" fast="false" reversible="true" name="D-fructose transport via diffusion (extracellular to periplasm)" metaid="R_FRUtex" sboTerm="SBO:0000185" fbc:upperFluxBound="cobra_default_ub" fbc:lowerFluxBound="cobra_default_lb">
+        <sbml:annotation xmlns:sbml="http://www.sbml.org/sbml/level3/version1/core">
+          <rdf:RDF xmlns:rdf="http://www.w3.org/1999/02/22-rdf-syntax-ns#">
+            <rdf:Description rdf:about="#R_FRUtex">
+              <bqbiol:is xmlns:bqbiol="http://biomodels.net/biology-qualifiers/">
+                <rdf:Bag>
+                  <rdf:li rdf:resource="http://identifiers.org/bigg.reaction/FRUtex"/>
+                  <rdf:li rdf:resource="http://identifiers.org/metanetx.reaction/MNXR99663"/>
+                  <rdf:li rdf:resource="http://identifiers.org/reactome.reaction/R-OSA-189222"/>
+                  <rdf:li rdf:resource="http://identifiers.org/reactome.reaction/R-XTR-189222"/>
+                  <rdf:li rdf:resource="http://identifiers.org/reactome.reaction/R-SCE-189222"/>
+                  <rdf:li rdf:resource="http://identifiers.org/reactome.reaction/R-ATH-189222"/>
+                  <rdf:li rdf:resource="http://identifiers.org/reactome.reaction/R-RNO-189222"/>
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+                  <rdf:li rdf:resource="http://identifiers.org/reactome.reaction/R-TGU-189222"/>
+                  <rdf:li rdf:resource="http://identifiers.org/reactome.reaction/R-SSC-189222"/>
+                  <rdf:li rdf:resource="http://identifiers.org/reactome.reaction/R-CFA-189222"/>
+                  <rdf:li rdf:resource="http://identifiers.org/reactome.reaction/R-DRE-189222"/>
+                  <rdf:li rdf:resource="http://identifiers.org/reactome.reaction/R-HSA-189222"/>
+                  <rdf:li rdf:resource="http://identifiers.org/reactome.reaction/R-GGA-189222"/>
+                  <rdf:li rdf:resource="http://identifiers.org/reactome.reaction/R-BTA-189222"/>
+                  <rdf:li rdf:resource="http://identifiers.org/reactome.reaction/R-MMU-189222"/>
+                  <rdf:li rdf:resource="http://identifiers.org/reactome.reaction/R-DDI-189222"/>
+                  <rdf:li rdf:resource="http://identifiers.org/sabiork/13415"/>
+                  <rdf:li rdf:resource="http://identifiers.org/seed.reaction/rxn12996"/>
+                  <rdf:li rdf:resource="http://identifiers.org/seed.reaction/rxn08537"/>
+                </rdf:Bag>
+              </bqbiol:is>
+            </rdf:Description>
+          </rdf:RDF>
+        </sbml:annotation>
+        <listOfReactants>
+          <speciesReference species="M_fru_e" stoichiometry="1" constant="true"/>
+        </listOfReactants>
+        <listOfProducts>
+          <speciesReference species="M_fru_p" stoichiometry="1" constant="true"/>
+        </listOfProducts>
+        <fbc:geneProductAssociation>
+          <fbc:or>
+            <fbc:geneProductRef fbc:geneProduct="G_b0241"/>
+            <fbc:geneProductRef fbc:geneProduct="G_b0929"/>
+            <fbc:geneProductRef fbc:geneProduct="G_b1377"/>
+            <fbc:geneProductRef fbc:geneProduct="G_b2215"/>
+          </fbc:or>
+        </fbc:geneProductAssociation>
+      </reaction>
+      <reaction id="R_FUCtex" fast="false" reversible="true" name="L-fucose transport via diffusion (extracellular to periplasm)" metaid="R_FUCtex" sboTerm="SBO:0000185" fbc:upperFluxBound="cobra_default_ub" fbc:lowerFluxBound="cobra_default_lb">
+        <sbml:annotation xmlns:sbml="http://www.sbml.org/sbml/level3/version1/core">
+          <rdf:RDF xmlns:rdf="http://www.w3.org/1999/02/22-rdf-syntax-ns#">
+            <rdf:Description rdf:about="#R_FUCtex">
+              <bqbiol:is xmlns:bqbiol="http://biomodels.net/biology-qualifiers/">
+                <rdf:Bag>
+                  <rdf:li rdf:resource="http://identifiers.org/bigg.reaction/FUCtex"/>
+                  <rdf:li rdf:resource="http://identifiers.org/metanetx.reaction/MNXR99704"/>
+                </rdf:Bag>
+              </bqbiol:is>
+            </rdf:Description>
+          </rdf:RDF>
+        </sbml:annotation>
+        <listOfReactants>
+          <speciesReference species="M_fuc__L_e" stoichiometry="1" constant="true"/>
+        </listOfReactants>
+        <listOfProducts>
+          <speciesReference species="M_fuc__L_p" stoichiometry="1" constant="true"/>
+        </listOfProducts>
+        <fbc:geneProductAssociation>
+          <fbc:or>
+            <fbc:geneProductRef fbc:geneProduct="G_b0241"/>
+            <fbc:geneProductRef fbc:geneProduct="G_b0929"/>
+            <fbc:geneProductRef fbc:geneProduct="G_b1377"/>
+            <fbc:geneProductRef fbc:geneProduct="G_b2215"/>
+          </fbc:or>
+        </fbc:geneProductAssociation>
+      </reaction>
+      <reaction id="R_EX_sel_e" fast="false" reversible="true" name="Selenate exchange" metaid="R_EX_sel_e" sboTerm="SBO:0000627" fbc:upperFluxBound="cobra_default_ub" fbc:lowerFluxBound="cobra_default_lb">
+        <sbml:annotation xmlns:sbml="http://www.sbml.org/sbml/level3/version1/core">
+          <rdf:RDF xmlns:rdf="http://www.w3.org/1999/02/22-rdf-syntax-ns#">
+            <rdf:Description rdf:about="#R_EX_sel_e">
+              <bqbiol:is xmlns:bqbiol="http://biomodels.net/biology-qualifiers/">
+                <rdf:Bag>
+                  <rdf:li rdf:resource="http://identifiers.org/bigg.reaction/EX_sel_e"/>
+                  <rdf:li rdf:resource="http://identifiers.org/metanetx.reaction/MNXR104327"/>
+                  <rdf:li rdf:resource="http://identifiers.org/rhea/34889"/>
+                  <rdf:li rdf:resource="http://identifiers.org/rhea/34887"/>
+                  <rdf:li rdf:resource="http://identifiers.org/rhea/34888"/>
+                  <rdf:li rdf:resource="http://identifiers.org/rhea/34890"/>
+                </rdf:Bag>
+              </bqbiol:is>
+            </rdf:Description>
+          </rdf:RDF>
+        </sbml:annotation>
+        <listOfReactants>
+          <speciesReference species="M_sel_e" stoichiometry="1" constant="true"/>
+        </listOfReactants>
+      </reaction>
+      <reaction id="R_EX_hg2_e" fast="false" reversible="false" name="Hg2+ exchange" metaid="R_EX_hg2_e" sboTerm="SBO:0000627" fbc:upperFluxBound="cobra_default_ub" fbc:lowerFluxBound="cobra_0_bound">
+        <sbml:annotation xmlns:sbml="http://www.sbml.org/sbml/level3/version1/core">
+          <rdf:RDF xmlns:rdf="http://www.w3.org/1999/02/22-rdf-syntax-ns#">
+            <rdf:Description rdf:about="#R_EX_hg2_e">
+              <bqbiol:is xmlns:bqbiol="http://biomodels.net/biology-qualifiers/">
+                <rdf:Bag>
+                  <rdf:li rdf:resource="http://identifiers.org/bigg.reaction/EX_hg2_e"/>
+                  <rdf:li rdf:resource="http://identifiers.org/metanetx.reaction/MNXR100625"/>
+                  <rdf:li rdf:resource="http://identifiers.org/rhea/32815"/>
+                  <rdf:li rdf:resource="http://identifiers.org/rhea/32817"/>
+                  <rdf:li rdf:resource="http://identifiers.org/rhea/32816"/>
+                  <rdf:li rdf:resource="http://identifiers.org/rhea/32818"/>
+                  <rdf:li rdf:resource="http://identifiers.org/seed.reaction/rxn05586"/>
+                  <rdf:li rdf:resource="http://identifiers.org/seed.reaction/rxn08717"/>
+                </rdf:Bag>
+              </bqbiol:is>
+            </rdf:Description>
+          </rdf:RDF>
+        </sbml:annotation>
+        <listOfReactants>
+          <speciesReference species="M_hg2_e" stoichiometry="1" constant="true"/>
+        </listOfReactants>
+      </reaction>
+      <reaction id="R_O16GLCT1" fast="false" reversible="false" name="Glucosyltransferase I (LPS O16 antigen biosynthesis)" metaid="R_O16GLCT1" sboTerm="SBO:0000176" fbc:upperFluxBound="cobra_default_ub" fbc:lowerFluxBound="cobra_0_bound">
+        <sbml:annotation xmlns:sbml="http://www.sbml.org/sbml/level3/version1/core">
+          <rdf:RDF xmlns:rdf="http://www.w3.org/1999/02/22-rdf-syntax-ns#">
+            <rdf:Description rdf:about="#R_O16GLCT1">
+              <bqbiol:is xmlns:bqbiol="http://biomodels.net/biology-qualifiers/">
+                <rdf:Bag>
+                  <rdf:li rdf:resource="http://identifiers.org/bigg.reaction/O16GLCT1"/>
+                  <rdf:li rdf:resource="http://identifiers.org/metanetx.reaction/MNXR143258"/>
+                  <rdf:li rdf:resource="http://identifiers.org/seed.reaction/rxn09028"/>
+                </rdf:Bag>
+              </bqbiol:is>
+            </rdf:Description>
+          </rdf:RDF>
+        </sbml:annotation>
+        <listOfReactants>
+          <speciesReference species="M_aragund_c" stoichiometry="1" constant="true"/>
+          <speciesReference species="M_udpg_c" stoichiometry="1" constant="true"/>
+        </listOfReactants>
+        <listOfProducts>
+          <speciesReference species="M_garagund_c" stoichiometry="1" constant="true"/>
+          <speciesReference species="M_h_c" stoichiometry="1" constant="true"/>
+          <speciesReference species="M_udp_c" stoichiometry="1" constant="true"/>
+        </listOfProducts>
+        <fbc:geneProductAssociation>
+          <fbc:geneProductRef fbc:geneProduct="G_b2032"/>
+        </fbc:geneProductAssociation>
+      </reaction>
+      <reaction id="R_O16AP2pp" fast="false" reversible="false" name="O16 antigen polymerase (periplasm)" metaid="R_O16AP2pp" sboTerm="SBO:0000176" fbc:upperFluxBound="cobra_default_ub" fbc:lowerFluxBound="cobra_0_bound">
+        <sbml:annotation xmlns:sbml="http://www.sbml.org/sbml/level3/version1/core">
+          <rdf:RDF xmlns:rdf="http://www.w3.org/1999/02/22-rdf-syntax-ns#">
+            <rdf:Description rdf:about="#R_O16AP2pp">
+              <bqbiol:is xmlns:bqbiol="http://biomodels.net/biology-qualifiers/">
+                <rdf:Bag>
+                  <rdf:li rdf:resource="http://identifiers.org/bigg.reaction/O16AP2pp"/>
+                  <rdf:li rdf:resource="http://identifiers.org/metanetx.reaction/MNXR138661"/>
+                </rdf:Bag>
+              </bqbiol:is>
+            </rdf:Description>
+          </rdf:RDF>
+        </sbml:annotation>
+        <listOfReactants>
+          <speciesReference species="M_o16a2und_p" stoichiometry="1" constant="true"/>
+          <speciesReference species="M_o16aund_p" stoichiometry="1" constant="true"/>
+        </listOfReactants>
+        <listOfProducts>
+          <speciesReference species="M_h_p" stoichiometry="1" constant="true"/>
+          <speciesReference species="M_o16a3und_p" stoichiometry="1" constant="true"/>
+          <speciesReference species="M_udcpdp_p" stoichiometry="1" constant="true"/>
+        </listOfProducts>
+        <fbc:geneProductAssociation>
+          <fbc:and>
+            <fbc:geneProductRef fbc:geneProduct="G_b2027"/>
+            <fbc:geneProductRef fbc:geneProduct="G_b2035"/>
+          </fbc:and>
+        </fbc:geneProductAssociation>
+      </reaction>
+      <reaction id="R_O16AP3pp" fast="false" reversible="false" name="O16 antigen polymerase (periplasm)" metaid="R_O16AP3pp" sboTerm="SBO:0000176" fbc:upperFluxBound="cobra_default_ub" fbc:lowerFluxBound="cobra_0_bound">
+        <sbml:annotation xmlns:sbml="http://www.sbml.org/sbml/level3/version1/core">
+          <rdf:RDF xmlns:rdf="http://www.w3.org/1999/02/22-rdf-syntax-ns#">
+            <rdf:Description rdf:about="#R_O16AP3pp">
+              <bqbiol:is xmlns:bqbiol="http://biomodels.net/biology-qualifiers/">
+                <rdf:Bag>
+                  <rdf:li rdf:resource="http://identifiers.org/bigg.reaction/O16AP3pp"/>
+                  <rdf:li rdf:resource="http://identifiers.org/metanetx.reaction/MNXR138662"/>
+                </rdf:Bag>
+              </bqbiol:is>
+            </rdf:Description>
+          </rdf:RDF>
+        </sbml:annotation>
+        <listOfReactants>
+          <speciesReference species="M_o16a3und_p" stoichiometry="1" constant="true"/>
+          <speciesReference species="M_o16aund_p" stoichiometry="1" constant="true"/>
+        </listOfReactants>
+        <listOfProducts>
+          <speciesReference species="M_h_p" stoichiometry="1" constant="true"/>
+          <speciesReference species="M_o16a4und_p" stoichiometry="1" constant="true"/>
+          <speciesReference species="M_udcpdp_p" stoichiometry="1" constant="true"/>
+        </listOfProducts>
+        <fbc:geneProductAssociation>
+          <fbc:and>
+            <fbc:geneProductRef fbc:geneProduct="G_b2027"/>
+            <fbc:geneProductRef fbc:geneProduct="G_b2035"/>
+          </fbc:and>
+        </fbc:geneProductAssociation>
+      </reaction>
+      <reaction id="R_FUMtex" fast="false" reversible="true" name="Fumarate transport via diffusion (extracellular to periplasm)" metaid="R_FUMtex" sboTerm="SBO:0000185" fbc:upperFluxBound="cobra_default_ub" fbc:lowerFluxBound="cobra_default_lb">
+        <sbml:annotation xmlns:sbml="http://www.sbml.org/sbml/level3/version1/core">
+          <rdf:RDF xmlns:rdf="http://www.w3.org/1999/02/22-rdf-syntax-ns#">
+            <rdf:Description rdf:about="#R_FUMtex">
+              <bqbiol:is xmlns:bqbiol="http://biomodels.net/biology-qualifiers/">
+                <rdf:Bag>
+                  <rdf:li rdf:resource="http://identifiers.org/bigg.reaction/FUMtex"/>
+                  <rdf:li rdf:resource="http://identifiers.org/biocyc/META:TRANS-RXN0-553"/>
+                  <rdf:li rdf:resource="http://identifiers.org/metanetx.reaction/MNXR99715"/>
+                  <rdf:li rdf:resource="http://identifiers.org/seed.reaction/rxn08544"/>
+                  <rdf:li rdf:resource="http://identifiers.org/seed.reaction/rxn11013"/>
+                </rdf:Bag>
+              </bqbiol:is>
+            </rdf:Description>
+          </rdf:RDF>
+        </sbml:annotation>
+        <listOfReactants>
+          <speciesReference species="M_fum_e" stoichiometry="1" constant="true"/>
+        </listOfReactants>
+        <listOfProducts>
+          <speciesReference species="M_fum_p" stoichiometry="1" constant="true"/>
+        </listOfProducts>
+        <fbc:geneProductAssociation>
+          <fbc:or>
+            <fbc:geneProductRef fbc:geneProduct="G_b0241"/>
+            <fbc:geneProductRef fbc:geneProduct="G_b0929"/>
+            <fbc:geneProductRef fbc:geneProduct="G_b1377"/>
+            <fbc:geneProductRef fbc:geneProduct="G_b2215"/>
+          </fbc:or>
+        </fbc:geneProductAssociation>
+      </reaction>
+      <reaction id="R_ACACT5r" fast="false" reversible="true" name="Acetyl-CoA C-acyltransferase (decanoyl-CoA) (r)" metaid="R_ACACT5r" sboTerm="SBO:0000176" fbc:upperFluxBound="cobra_default_ub" fbc:lowerFluxBound="cobra_default_lb">
+        <sbml:annotation xmlns:sbml="http://www.sbml.org/sbml/level3/version1/core">
+          <rdf:RDF xmlns:rdf="http://www.w3.org/1999/02/22-rdf-syntax-ns#">
+            <rdf:Description rdf:about="#R_ACACT5r">
+              <bqbiol:is xmlns:bqbiol="http://biomodels.net/biology-qualifiers/">
+                <rdf:Bag>
+                  <rdf:li rdf:resource="http://identifiers.org/bigg.reaction/ACACT5r"/>
+                  <rdf:li rdf:resource="http://identifiers.org/ec-code/2.3.1.9"/>
+                  <rdf:li rdf:resource="http://identifiers.org/metanetx.reaction/MNXR95199"/>
+                </rdf:Bag>
+              </bqbiol:is>
+            </rdf:Description>
+          </rdf:RDF>
+        </sbml:annotation>
+        <listOfReactants>
+          <speciesReference species="M_accoa_c" stoichiometry="1" constant="true"/>
+          <speciesReference species="M_dcacoa_c" stoichiometry="1" constant="true"/>
+        </listOfReactants>
+        <listOfProducts>
+          <speciesReference species="M_3oddcoa_c" stoichiometry="1" constant="true"/>
+          <speciesReference species="M_coa_c" stoichiometry="1" constant="true"/>
+        </listOfProducts>
+        <fbc:geneProductAssociation>
+          <fbc:or>
+            <fbc:geneProductRef fbc:geneProduct="G_b3845"/>
+            <fbc:geneProductRef fbc:geneProduct="G_b2342"/>
+          </fbc:or>
+        </fbc:geneProductAssociation>
+      </reaction>
+      <reaction id="R_O16A4Lpp" fast="false" reversible="false" name="O16 anitgen (x4) ligase (periplasm)" metaid="R_O16A4Lpp" sboTerm="SBO:0000176" fbc:upperFluxBound="cobra_default_ub" fbc:lowerFluxBound="cobra_0_bound">
+        <sbml:annotation xmlns:sbml="http://www.sbml.org/sbml/level3/version1/core">
+          <rdf:RDF xmlns:rdf="http://www.w3.org/1999/02/22-rdf-syntax-ns#">
+            <rdf:Description rdf:about="#R_O16A4Lpp">
+              <bqbiol:is xmlns:bqbiol="http://biomodels.net/biology-qualifiers/">
+                <rdf:Bag>
+                  <rdf:li rdf:resource="http://identifiers.org/bigg.reaction/O16A4Lpp"/>
+                  <rdf:li rdf:resource="http://identifiers.org/metanetx.reaction/MNXR143257"/>
+                </rdf:Bag>
+              </bqbiol:is>
+            </rdf:Description>
+          </rdf:RDF>
+        </sbml:annotation>
+        <listOfReactants>
+          <speciesReference species="M_colipa_p" stoichiometry="1" constant="true"/>
+          <speciesReference species="M_o16a4und_p" stoichiometry="1" constant="true"/>
+        </listOfReactants>
+        <listOfProducts>
+          <speciesReference species="M_h_p" stoichiometry="1" constant="true"/>
+          <speciesReference species="M_o16a4colipa_p" stoichiometry="1" constant="true"/>
+          <speciesReference species="M_udcpdp_p" stoichiometry="1" constant="true"/>
+        </listOfProducts>
+        <fbc:geneProductAssociation>
+          <fbc:geneProductRef fbc:geneProduct="G_b3622"/>
+        </fbc:geneProductAssociation>
+      </reaction>
+      <reaction id="R_PRASCSi" fast="false" reversible="false" name="Phosphoribosylaminoimidazolesuccinocarboxamide synthase" metaid="R_PRASCSi" sboTerm="SBO:0000176" fbc:upperFluxBound="cobra_default_ub" fbc:lowerFluxBound="cobra_0_bound">
+        <sbml:annotation xmlns:sbml="http://www.sbml.org/sbml/level3/version1/core">
+          <rdf:RDF xmlns:rdf="http://www.w3.org/1999/02/22-rdf-syntax-ns#">
+            <rdf:Description rdf:about="#R_PRASCSi">
+              <bqbiol:is xmlns:bqbiol="http://biomodels.net/biology-qualifiers/">
+                <rdf:Bag>
+                  <rdf:li rdf:resource="http://identifiers.org/bigg.reaction/PRASCSi"/>
+                  <rdf:li rdf:resource="http://identifiers.org/biocyc/META:SAICARSYN-RXN"/>
+                  <rdf:li rdf:resource="http://identifiers.org/ec-code/6.3.2.6"/>
+                  <rdf:li rdf:resource="http://identifiers.org/kegg.reaction/R04591"/>
+                  <rdf:li rdf:resource="http://identifiers.org/metanetx.reaction/MNXR108987"/>
+                  <rdf:li rdf:resource="http://identifiers.org/reactome.reaction/R-TGU-73805"/>
+                  <rdf:li rdf:resource="http://identifiers.org/reactome.reaction/R-DME-73805"/>
+                  <rdf:li rdf:resource="http://identifiers.org/reactome.reaction/R-GGA-419223"/>
+                  <rdf:li rdf:resource="http://identifiers.org/reactome.reaction/R-GGA-73805"/>
+                  <rdf:li rdf:resource="http://identifiers.org/reactome.reaction/R-CEL-73805"/>
+                  <rdf:li rdf:resource="http://identifiers.org/reactome.reaction/R-HSA-73805"/>
+                  <rdf:li rdf:resource="http://identifiers.org/reactome.reaction/R-BTA-73805"/>
+                  <rdf:li rdf:resource="http://identifiers.org/reactome.reaction/R-XTR-73805"/>
+                  <rdf:li rdf:resource="http://identifiers.org/reactome.reaction/R-DRE-73805"/>
+                  <rdf:li rdf:resource="http://identifiers.org/reactome.reaction/R-RNO-73805"/>
+                  <rdf:li rdf:resource="http://identifiers.org/reactome.reaction/R-CFA-73805"/>
+                  <rdf:li rdf:resource="http://identifiers.org/reactome.reaction/R-MMU-73805"/>
+                  <rdf:li rdf:resource="http://identifiers.org/reactome.reaction/R-SSC-73805"/>
+                  <rdf:li rdf:resource="http://identifiers.org/rhea/22631"/>
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+                  <rdf:li rdf:resource="http://identifiers.org/rhea/22629"/>
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+          <speciesReference species="M_asp__L_c" stoichiometry="1" constant="true"/>
+          <speciesReference species="M_atp_c" stoichiometry="1" constant="true"/>
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+        <listOfProducts>
+          <speciesReference species="M_25aics_c" stoichiometry="1" constant="true"/>
+          <speciesReference species="M_adp_c" stoichiometry="1" constant="true"/>
+          <speciesReference species="M_h_c" stoichiometry="1" constant="true"/>
+          <speciesReference species="M_pi_c" stoichiometry="1" constant="true"/>
+        </listOfProducts>
+        <fbc:geneProductAssociation>
+          <fbc:geneProductRef fbc:geneProduct="G_b2476"/>
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+          <speciesReference species="M_coa_c" stoichiometry="1" constant="true"/>
+        </listOfProducts>
+        <fbc:geneProductAssociation>
+          <fbc:geneProductRef fbc:geneProduct="G_b0459"/>
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+      <reaction id="R_DHBSH" fast="false" reversible="false" name="2,3-dihydroxybenzoylserine hydrolase" metaid="R_DHBSH" sboTerm="SBO:0000176" fbc:upperFluxBound="cobra_default_ub" fbc:lowerFluxBound="cobra_0_bound">
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+          <speciesReference species="M_23dhb_c" stoichiometry="1" constant="true"/>
+          <speciesReference species="M_ser__L_c" stoichiometry="1" constant="true"/>
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+                  <rdf:li rdf:resource="http://identifiers.org/rhea/18367"/>
+                  <rdf:li rdf:resource="http://identifiers.org/sabiork/744"/>
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+          <speciesReference species="M_nad_c" stoichiometry="1" constant="true"/>
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+        <listOfProducts>
+          <speciesReference species="M_co2_c" stoichiometry="1" constant="true"/>
+          <speciesReference species="M_nadh_c" stoichiometry="1" constant="true"/>
+          <speciesReference species="M_pyr_c" stoichiometry="1" constant="true"/>
+        </listOfProducts>
+        <fbc:geneProductAssociation>
+          <fbc:geneProductRef fbc:geneProduct="G_b1800"/>
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+                  <rdf:li rdf:resource="http://identifiers.org/rhea/28487"/>
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+        <listOfProducts>
+          <speciesReference species="M_fe2_p" stoichiometry="1" constant="true"/>
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+            <fbc:geneProductRef fbc:geneProduct="G_b2215"/>
+            <fbc:geneProductRef fbc:geneProduct="G_b0241"/>
+            <fbc:geneProductRef fbc:geneProduct="G_b0929"/>
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+        </fbc:geneProductAssociation>
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+        <listOfProducts>
+          <speciesReference species="M_nmn_p" stoichiometry="1" constant="true"/>
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+            <fbc:geneProductRef fbc:geneProduct="G_b2215"/>
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+        </fbc:geneProductAssociation>
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+                  <rdf:li rdf:resource="http://identifiers.org/rhea/28019"/>
+                  <rdf:li rdf:resource="http://identifiers.org/rhea/28020"/>
+                  <rdf:li rdf:resource="http://identifiers.org/rhea/28018"/>
+                  <rdf:li rdf:resource="http://identifiers.org/seed.reaction/rxn08421"/>
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+        </listOfReactants>
+        <listOfProducts>
+          <speciesReference species="M_23dhbzs_c" stoichiometry="3" constant="true"/>
+          <speciesReference species="M_h_c" stoichiometry="3" constant="true"/>
+        </listOfProducts>
+        <fbc:geneProductAssociation>
+          <fbc:geneProductRef fbc:geneProduct="G_b0585"/>
+        </fbc:geneProductAssociation>
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+                  <rdf:li rdf:resource="http://identifiers.org/rhea/28986"/>
+                  <rdf:li rdf:resource="http://identifiers.org/rhea/28984"/>
+                  <rdf:li rdf:resource="http://identifiers.org/rhea/28985"/>
+                  <rdf:li rdf:resource="http://identifiers.org/seed.reaction/rxn10823"/>
+                  <rdf:li rdf:resource="http://identifiers.org/seed.reaction/rxn08999"/>
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+          <speciesReference species="M_no2_p" stoichiometry="1" constant="true"/>
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+            <fbc:geneProductRef fbc:geneProduct="G_b0929"/>
+            <fbc:geneProductRef fbc:geneProduct="G_b1377"/>
+            <fbc:geneProductRef fbc:geneProduct="G_b2215"/>
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+        </fbc:geneProductAssociation>
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+          <speciesReference species="M_h_c" stoichiometry="1" constant="true"/>
+          <speciesReference species="M_nadh_c" stoichiometry="1" constant="true"/>
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+        <listOfProducts>
+          <speciesReference species="M_glyc__R_c" stoichiometry="1" constant="true"/>
+          <speciesReference species="M_nad_c" stoichiometry="1" constant="true"/>
+        </listOfProducts>
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+            <fbc:geneProductRef fbc:geneProduct="G_b3125"/>
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+        </fbc:geneProductAssociation>
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+                  <rdf:li rdf:resource="http://identifiers.org/rhea/19951"/>
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+          <speciesReference species="M_ppi_c" stoichiometry="1" constant="true"/>
+        </listOfProducts>
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+          <fbc:geneProductRef fbc:geneProduct="G_b3177"/>
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+          <speciesReference species="M_h_p" stoichiometry="1" constant="true"/>
+        </listOfReactants>
+        <listOfProducts>
+          <speciesReference species="M_arbtn_p" stoichiometry="1" constant="true"/>
+          <speciesReference species="M_h_c" stoichiometry="1" constant="true"/>
+        </listOfProducts>
+      </reaction>
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+                  <rdf:li rdf:resource="http://identifiers.org/rhea/23703"/>
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+          <speciesReference species="M_methf_c" stoichiometry="1" constant="true"/>
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+          <speciesReference species="M_h_c" stoichiometry="1" constant="true"/>
+        </listOfProducts>
+        <fbc:geneProductAssociation>
+          <fbc:geneProductRef fbc:geneProduct="G_b0529"/>
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+                  <rdf:li rdf:resource="http://identifiers.org/metanetx.reaction/MNXR95929"/>
+                  <rdf:li rdf:resource="http://identifiers.org/seed.reaction/rxn08148"/>
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+        </sbml:annotation>
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+          <speciesReference species="M_h_p" stoichiometry="1" constant="true"/>
+        </listOfReactants>
+        <listOfProducts>
+          <speciesReference species="M_arbtn_e" stoichiometry="1" constant="true"/>
+          <speciesReference species="M_h_c" stoichiometry="1" constant="true"/>
+        </listOfProducts>
+      </reaction>
+      <reaction id="R_MTHFD" fast="false" reversible="true" name="Methylenetetrahydrofolate dehydrogenase (NADP)" metaid="R_MTHFD" sboTerm="SBO:0000176" fbc:upperFluxBound="cobra_default_ub" fbc:lowerFluxBound="cobra_default_lb">
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+                  <rdf:li rdf:resource="http://identifiers.org/rhea/22814"/>
+                  <rdf:li rdf:resource="http://identifiers.org/rhea/22813"/>
+                  <rdf:li rdf:resource="http://identifiers.org/rhea/22815"/>
+                  <rdf:li rdf:resource="http://identifiers.org/rhea/22812"/>
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+          <speciesReference species="M_nadp_c" stoichiometry="1" constant="true"/>
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+          <speciesReference species="M_methf_c" stoichiometry="1" constant="true"/>
+          <speciesReference species="M_nadph_c" stoichiometry="1" constant="true"/>
+        </listOfProducts>
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+          <fbc:geneProductRef fbc:geneProduct="G_b0529"/>
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+                  <rdf:li rdf:resource="http://identifiers.org/seed.reaction/rxn01394"/>
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+        <listOfProducts>
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+        <fbc:geneProductAssociation>
+          <fbc:geneProductRef fbc:geneProduct="G_b3903"/>
+        </fbc:geneProductAssociation>
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+                  <rdf:li rdf:resource="http://identifiers.org/metanetx.reaction/MNXR96353"/>
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+          <speciesReference species="M_h_p" stoichiometry="1" constant="true"/>
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+        <listOfProducts>
+          <speciesReference species="M_but_c" stoichiometry="1" constant="true"/>
+          <speciesReference species="M_h_c" stoichiometry="1" constant="true"/>
+        </listOfProducts>
+        <fbc:geneProductAssociation>
+          <fbc:geneProductRef fbc:geneProduct="G_b2223"/>
+        </fbc:geneProductAssociation>
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+      <reaction id="R_CADVtpp" fast="false" reversible="false" name="Lysine/Cadaverine antiporter (periplasm)" metaid="R_CADVtpp" sboTerm="SBO:0000185" fbc:upperFluxBound="cobra_default_ub" fbc:lowerFluxBound="cobra_0_bound">
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+          <speciesReference species="M_h_p" stoichiometry="1" constant="true"/>
+          <speciesReference species="M_lys__L_p" stoichiometry="1" constant="true"/>
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+        <listOfProducts>
+          <speciesReference species="M_15dap_p" stoichiometry="1" constant="true"/>
+          <speciesReference species="M_h_c" stoichiometry="1" constant="true"/>
+          <speciesReference species="M_lys__L_c" stoichiometry="1" constant="true"/>
+        </listOfProducts>
+        <fbc:geneProductAssociation>
+          <fbc:geneProductRef fbc:geneProduct="G_b4132"/>
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+                  <rdf:li rdf:resource="http://identifiers.org/biocyc/META:QUINOLINATE-SYNTHA-RXN"/>
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+                  <rdf:li rdf:resource="http://identifiers.org/rhea/25891"/>
+                  <rdf:li rdf:resource="http://identifiers.org/rhea/25890"/>
+                  <rdf:li rdf:resource="http://identifiers.org/rhea/25888"/>
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+          <speciesReference species="M_iasp_c" stoichiometry="1" constant="true"/>
+        </listOfReactants>
+        <listOfProducts>
+          <speciesReference species="M_h2o_c" stoichiometry="2" constant="true"/>
+          <speciesReference species="M_pi_c" stoichiometry="1" constant="true"/>
+          <speciesReference species="M_quln_c" stoichiometry="1" constant="true"/>
+        </listOfProducts>
+        <fbc:geneProductAssociation>
+          <fbc:geneProductRef fbc:geneProduct="G_b0750"/>
+        </fbc:geneProductAssociation>
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+        <sbml:annotation xmlns:sbml="http://www.sbml.org/sbml/level3/version1/core">
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+            <fbc:geneProductRef fbc:geneProduct="G_b1377"/>
+            <fbc:geneProductRef fbc:geneProduct="G_b2215"/>
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+        </fbc:geneProductAssociation>
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+        <listOfProducts>
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+            <fbc:geneProductRef fbc:geneProduct="G_b2215"/>
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+        </fbc:geneProductAssociation>
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+        <listOfProducts>
+          <speciesReference species="M_23cump_p" stoichiometry="1" constant="true"/>
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+        <fbc:geneProductAssociation>
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+            <fbc:geneProductRef fbc:geneProduct="G_b1377"/>
+            <fbc:geneProductRef fbc:geneProduct="G_b2215"/>
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+        </fbc:geneProductAssociation>
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+          <speciesReference species="M_23cgmp_p" stoichiometry="1" constant="true"/>
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+            <fbc:geneProductRef fbc:geneProduct="G_b2215"/>
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+        </fbc:geneProductAssociation>
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+        <listOfProducts>
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+        <fbc:geneProductAssociation>
+          <fbc:or>
+            <fbc:geneProductRef fbc:geneProduct="G_b0241"/>
+            <fbc:geneProductRef fbc:geneProduct="G_b0929"/>
+            <fbc:geneProductRef fbc:geneProduct="G_b1377"/>
+            <fbc:geneProductRef fbc:geneProduct="G_b2215"/>
+          </fbc:or>
+        </fbc:geneProductAssociation>
+      </reaction>
+      <reaction id="R_3CMPtex" fast="false" reversible="true" name="3CMP transport via diffusion (extracellular to periplasm)" metaid="R_3CMPtex" sboTerm="SBO:0000185" fbc:upperFluxBound="cobra_default_ub" fbc:lowerFluxBound="cobra_default_lb">
+        <sbml:annotation xmlns:sbml="http://www.sbml.org/sbml/level3/version1/core">
+          <rdf:RDF xmlns:rdf="http://www.w3.org/1999/02/22-rdf-syntax-ns#">
+            <rdf:Description rdf:about="#R_3CMPtex">
+              <bqbiol:is xmlns:bqbiol="http://biomodels.net/biology-qualifiers/">
+                <rdf:Bag>
+                  <rdf:li rdf:resource="http://identifiers.org/bigg.reaction/3CMPtex"/>
+                  <rdf:li rdf:resource="http://identifiers.org/metanetx.reaction/MNXR94861"/>
+                  <rdf:li rdf:resource="http://identifiers.org/seed.reaction/rxn07974"/>
+                </rdf:Bag>
+              </bqbiol:is>
+            </rdf:Description>
+          </rdf:RDF>
+        </sbml:annotation>
+        <listOfReactants>
+          <speciesReference species="M_3cmp_e" stoichiometry="1" constant="true"/>
+        </listOfReactants>
+        <listOfProducts>
+          <speciesReference species="M_3cmp_p" stoichiometry="1" constant="true"/>
+        </listOfProducts>
+        <fbc:geneProductAssociation>
+          <fbc:or>
+            <fbc:geneProductRef fbc:geneProduct="G_b0241"/>
+            <fbc:geneProductRef fbc:geneProduct="G_b0929"/>
+            <fbc:geneProductRef fbc:geneProduct="G_b1377"/>
+            <fbc:geneProductRef fbc:geneProduct="G_b2215"/>
+          </fbc:or>
+        </fbc:geneProductAssociation>
+      </reaction>
+      <reaction id="R_LADGMDH" fast="false" reversible="false" name="L-alanyl-gamma-D-glutamyl-meso-diaminopimelate hydrolase" metaid="R_LADGMDH" sboTerm="SBO:0000176" fbc:upperFluxBound="cobra_default_ub" fbc:lowerFluxBound="cobra_0_bound">
+        <sbml:annotation xmlns:sbml="http://www.sbml.org/sbml/level3/version1/core">
+          <rdf:RDF xmlns:rdf="http://www.w3.org/1999/02/22-rdf-syntax-ns#">
+            <rdf:Description rdf:about="#R_LADGMDH">
+              <bqbiol:is xmlns:bqbiol="http://biomodels.net/biology-qualifiers/">
+                <rdf:Bag>
+                  <rdf:li rdf:resource="http://identifiers.org/bigg.reaction/LADGMDH"/>
+                  <rdf:li rdf:resource="http://identifiers.org/metanetx.reaction/MNXR101002"/>
+                  <rdf:li rdf:resource="http://identifiers.org/seed.reaction/rxn08773"/>
+                </rdf:Bag>
+              </bqbiol:is>
+            </rdf:Description>
+          </rdf:RDF>
+        </sbml:annotation>
+        <listOfReactants>
+          <speciesReference species="M_LalaDgluMdap_c" stoichiometry="1" constant="true"/>
+          <speciesReference species="M_h2o_c" stoichiometry="1" constant="true"/>
+        </listOfReactants>
+        <listOfProducts>
+          <speciesReference species="M_26dap__M_c" stoichiometry="1" constant="true"/>
+          <speciesReference species="M_LalaDglu_c" stoichiometry="1" constant="true"/>
+        </listOfProducts>
+        <fbc:geneProductAssociation>
+          <fbc:geneProductRef fbc:geneProduct="G_b1326"/>
+        </fbc:geneProductAssociation>
+      </reaction>
+      <reaction id="R_ALKP" fast="false" reversible="false" name="Alkaline phosphatase" metaid="R_ALKP" sboTerm="SBO:0000176" fbc:upperFluxBound="cobra_default_ub" fbc:lowerFluxBound="cobra_0_bound">
+        <sbml:annotation xmlns:sbml="http://www.sbml.org/sbml/level3/version1/core">
+          <rdf:RDF xmlns:rdf="http://www.w3.org/1999/02/22-rdf-syntax-ns#">
+            <rdf:Description rdf:about="#R_ALKP">
+              <bqbiol:is xmlns:bqbiol="http://biomodels.net/biology-qualifiers/">
+                <rdf:Bag>
+                  <rdf:li rdf:resource="http://identifiers.org/bigg.reaction/ALKP"/>
+                  <rdf:li rdf:resource="http://identifiers.org/biocyc/META:RXN0-7249"/>
+                  <rdf:li rdf:resource="http://identifiers.org/ec-code/3.1.3"/>
+                  <rdf:li rdf:resource="http://identifiers.org/ec-code/3.1.3.2"/>
+                  <rdf:li rdf:resource="http://identifiers.org/ec-code/3.1.3.1"/>
+                  <rdf:li rdf:resource="http://identifiers.org/kegg.reaction/R01010"/>
+                  <rdf:li rdf:resource="http://identifiers.org/metanetx.reaction/MNXR95764"/>
+                  <rdf:li rdf:resource="http://identifiers.org/rhea/51731"/>
+                  <rdf:li rdf:resource="http://identifiers.org/rhea/51728"/>
+                  <rdf:li rdf:resource="http://identifiers.org/rhea/51730"/>
+                  <rdf:li rdf:resource="http://identifiers.org/rhea/51729"/>
+                  <rdf:li rdf:resource="http://identifiers.org/seed.reaction/rxn00743"/>
+                </rdf:Bag>
+              </bqbiol:is>
+            </rdf:Description>
+          </rdf:RDF>
+        </sbml:annotation>
+        <listOfReactants>
+          <speciesReference species="M_dhap_c" stoichiometry="1" constant="true"/>
+          <speciesReference species="M_h2o_c" stoichiometry="1" constant="true"/>
+        </listOfReactants>
+        <listOfProducts>
+          <speciesReference species="M_dha_c" stoichiometry="1" constant="true"/>
+          <speciesReference species="M_pi_c" stoichiometry="1" constant="true"/>
+        </listOfProducts>
+        <fbc:geneProductAssociation>
+          <fbc:geneProductRef fbc:geneProduct="G_b2690"/>
+        </fbc:geneProductAssociation>
+      </reaction>
+      <reaction id="R_GDPtex" fast="false" reversible="true" name="GDP transport via diffusion (extracellular to periplasm)" metaid="R_GDPtex" sboTerm="SBO:0000185" fbc:upperFluxBound="cobra_default_ub" fbc:lowerFluxBound="cobra_default_lb">
+        <sbml:annotation xmlns:sbml="http://www.sbml.org/sbml/level3/version1/core">
+          <rdf:RDF xmlns:rdf="http://www.w3.org/1999/02/22-rdf-syntax-ns#">
+            <rdf:Description rdf:about="#R_GDPtex">
+              <bqbiol:is xmlns:bqbiol="http://biomodels.net/biology-qualifiers/">
+                <rdf:Bag>
+                  <rdf:li rdf:resource="http://identifiers.org/bigg.reaction/GDPtex"/>
+                  <rdf:li rdf:resource="http://identifiers.org/metanetx.reaction/MNXR100096"/>
+                  <rdf:li rdf:resource="http://identifiers.org/reactome.reaction/R-HSA-111812"/>
+                  <rdf:li rdf:resource="http://identifiers.org/seed.reaction/rxn08600"/>
+                  <rdf:li rdf:resource="http://identifiers.org/seed.reaction/rxn09815"/>
+                </rdf:Bag>
+              </bqbiol:is>
+            </rdf:Description>
+          </rdf:RDF>
+        </sbml:annotation>
+        <listOfReactants>
+          <speciesReference species="M_gdp_e" stoichiometry="1" constant="true"/>
+        </listOfReactants>
+        <listOfProducts>
+          <speciesReference species="M_gdp_p" stoichiometry="1" constant="true"/>
+        </listOfProducts>
+        <fbc:geneProductAssociation>
+          <fbc:or>
+            <fbc:geneProductRef fbc:geneProduct="G_b0929"/>
+            <fbc:geneProductRef fbc:geneProduct="G_b1377"/>
+            <fbc:geneProductRef fbc:geneProduct="G_b2215"/>
+            <fbc:geneProductRef fbc:geneProduct="G_b0241"/>
+          </fbc:or>
+        </fbc:geneProductAssociation>
+      </reaction>
+      <reaction id="R_EX_cobalt2_e" fast="false" reversible="true" name="Co2+ exchange" metaid="R_EX_cobalt2_e" sboTerm="SBO:0000627" fbc:upperFluxBound="cobra_default_ub" fbc:lowerFluxBound="cobra_default_lb">
+        <sbml:annotation xmlns:sbml="http://www.sbml.org/sbml/level3/version1/core">
+          <rdf:RDF xmlns:rdf="http://www.w3.org/1999/02/22-rdf-syntax-ns#">
+            <rdf:Description rdf:about="#R_EX_cobalt2_e">
+              <bqbiol:is xmlns:bqbiol="http://biomodels.net/biology-qualifiers/">
+                <rdf:Bag>
+                  <rdf:li rdf:resource="http://identifiers.org/bigg.reaction/EX_cobalt2_e"/>
+                  <rdf:li rdf:resource="http://identifiers.org/biocyc/META:TRANS-RXN-141A"/>
+                  <rdf:li rdf:resource="http://identifiers.org/metanetx.reaction/MNXR96821"/>
+                  <rdf:li rdf:resource="http://identifiers.org/rhea/28579"/>
+                  <rdf:li rdf:resource="http://identifiers.org/rhea/28580"/>
+                  <rdf:li rdf:resource="http://identifiers.org/rhea/28581"/>
+                  <rdf:li rdf:resource="http://identifiers.org/rhea/28578"/>
+                  <rdf:li rdf:resource="http://identifiers.org/sabiork/12148"/>
+                  <rdf:li rdf:resource="http://identifiers.org/seed.reaction/rxn08241"/>
+                  <rdf:li rdf:resource="http://identifiers.org/seed.reaction/rxn08242"/>
+                  <rdf:li rdf:resource="http://identifiers.org/seed.reaction/rxn10474"/>
+                </rdf:Bag>
+              </bqbiol:is>
+            </rdf:Description>
+          </rdf:RDF>
+        </sbml:annotation>
+        <listOfReactants>
+          <speciesReference species="M_cobalt2_e" stoichiometry="1" constant="true"/>
+        </listOfReactants>
+      </reaction>
+      <reaction id="R_ALAGLUE" fast="false" reversible="true" name="L-alanyl-gamma-glutamate epimerase" metaid="R_ALAGLUE" sboTerm="SBO:0000176" fbc:upperFluxBound="cobra_default_ub" fbc:lowerFluxBound="cobra_default_lb">
+        <sbml:annotation xmlns:sbml="http://www.sbml.org/sbml/level3/version1/core">
+          <rdf:RDF xmlns:rdf="http://www.w3.org/1999/02/22-rdf-syntax-ns#">
+            <rdf:Description rdf:about="#R_ALAGLUE">
+              <bqbiol:is xmlns:bqbiol="http://biomodels.net/biology-qualifiers/">
+                <rdf:Bag>
+                  <rdf:li rdf:resource="http://identifiers.org/bigg.reaction/ALAGLUE"/>
+                  <rdf:li rdf:resource="http://identifiers.org/biocyc/META:RXN0-5228"/>
+                  <rdf:li rdf:resource="http://identifiers.org/ec-code/5.1.1.20"/>
+                  <rdf:li rdf:resource="http://identifiers.org/kegg.reaction/R10938"/>
+                  <rdf:li rdf:resource="http://identifiers.org/metanetx.reaction/MNXR95690"/>
+                  <rdf:li rdf:resource="http://identifiers.org/rhea/28394"/>
+                  <rdf:li rdf:resource="http://identifiers.org/rhea/28395"/>
+                  <rdf:li rdf:resource="http://identifiers.org/rhea/28396"/>
+                  <rdf:li rdf:resource="http://identifiers.org/rhea/28397"/>
+                  <rdf:li rdf:resource="http://identifiers.org/sabiork/7810"/>
+                  <rdf:li rdf:resource="http://identifiers.org/seed.reaction/rxn08100"/>
+                </rdf:Bag>
+              </bqbiol:is>
+            </rdf:Description>
+          </rdf:RDF>
+        </sbml:annotation>
+        <listOfReactants>
+          <speciesReference species="M_LalaDglu_c" stoichiometry="1" constant="true"/>
+        </listOfReactants>
+        <listOfProducts>
+          <speciesReference species="M_LalaLglu_c" stoichiometry="1" constant="true"/>
+        </listOfProducts>
+        <fbc:geneProductAssociation>
+          <fbc:geneProductRef fbc:geneProduct="G_b1325"/>
+        </fbc:geneProductAssociation>
+      </reaction>
+      <reaction id="R_FEENTERtpp" fast="false" reversible="false" name="Enterochelin transport (secretion)" metaid="R_FEENTERtpp" sboTerm="SBO:0000185" fbc:upperFluxBound="cobra_default_ub" fbc:lowerFluxBound="cobra_0_bound">
+        <sbml:annotation xmlns:sbml="http://www.sbml.org/sbml/level3/version1/core">
+          <rdf:RDF xmlns:rdf="http://www.w3.org/1999/02/22-rdf-syntax-ns#">
+            <rdf:Description rdf:about="#R_FEENTERtpp">
+              <bqbiol:is xmlns:bqbiol="http://biomodels.net/biology-qualifiers/">
+                <rdf:Bag>
+                  <rdf:li rdf:resource="http://identifiers.org/bigg.reaction/FEENTERtpp"/>
+                  <rdf:li rdf:resource="http://identifiers.org/metanetx.reaction/MNXR99550"/>
+                  <rdf:li rdf:resource="http://identifiers.org/rhea/29435"/>
+                  <rdf:li rdf:resource="http://identifiers.org/rhea/29438"/>
+                  <rdf:li rdf:resource="http://identifiers.org/rhea/29437"/>
+                  <rdf:li rdf:resource="http://identifiers.org/rhea/29436"/>
+                  <rdf:li rdf:resource="http://identifiers.org/seed.reaction/rxn08508"/>
+                </rdf:Bag>
+              </bqbiol:is>
+            </rdf:Description>
+          </rdf:RDF>
+        </sbml:annotation>
+        <listOfReactants>
+          <speciesReference species="M_enter_c" stoichiometry="1" constant="true"/>
+          <speciesReference species="M_h_p" stoichiometry="1" constant="true"/>
+        </listOfReactants>
+        <listOfProducts>
+          <speciesReference species="M_enter_p" stoichiometry="1" constant="true"/>
+          <speciesReference species="M_h_c" stoichiometry="1" constant="true"/>
+        </listOfProducts>
+        <fbc:geneProductAssociation>
+          <fbc:geneProductRef fbc:geneProduct="G_b0591"/>
+        </fbc:geneProductAssociation>
+      </reaction>
+      <reaction id="R_TMAtex" fast="false" reversible="true" name="Trimethylamine transport via diffusion (extracellular to periplasm)" metaid="R_TMAtex" sboTerm="SBO:0000185" fbc:upperFluxBound="cobra_default_ub" fbc:lowerFluxBound="cobra_default_lb">
+        <sbml:annotation xmlns:sbml="http://www.sbml.org/sbml/level3/version1/core">
+          <rdf:RDF xmlns:rdf="http://www.w3.org/1999/02/22-rdf-syntax-ns#">
+            <rdf:Description rdf:about="#R_TMAtex">
+              <bqbiol:is xmlns:bqbiol="http://biomodels.net/biology-qualifiers/">
+                <rdf:Bag>
+                  <rdf:li rdf:resource="http://identifiers.org/bigg.reaction/TMAtex"/>
+                  <rdf:li rdf:resource="http://identifiers.org/metanetx.reaction/MNXR104884"/>
+                  <rdf:li rdf:resource="http://identifiers.org/seed.reaction/rxn09318"/>
+                </rdf:Bag>
+              </bqbiol:is>
+            </rdf:Description>
+          </rdf:RDF>
+        </sbml:annotation>
+        <listOfReactants>
+          <speciesReference species="M_tma_e" stoichiometry="1" constant="true"/>
+        </listOfReactants>
+        <listOfProducts>
+          <speciesReference species="M_tma_p" stoichiometry="1" constant="true"/>
+        </listOfProducts>
+        <fbc:geneProductAssociation>
+          <fbc:or>
+            <fbc:geneProductRef fbc:geneProduct="G_b0241"/>
+            <fbc:geneProductRef fbc:geneProduct="G_b0929"/>
+            <fbc:geneProductRef fbc:geneProduct="G_b1377"/>
+            <fbc:geneProductRef fbc:geneProduct="G_b2215"/>
+          </fbc:or>
+        </fbc:geneProductAssociation>
+      </reaction>
+      <reaction id="R_EX_pheme_e" fast="false" reversible="false" name="Protoheme exchange" metaid="R_EX_pheme_e" sboTerm="SBO:0000627" fbc:upperFluxBound="cobra_default_ub" fbc:lowerFluxBound="cobra_0_bound">
+        <sbml:annotation xmlns:sbml="http://www.sbml.org/sbml/level3/version1/core">
+          <rdf:RDF xmlns:rdf="http://www.w3.org/1999/02/22-rdf-syntax-ns#">
+            <rdf:Description rdf:about="#R_EX_pheme_e">
+              <bqbiol:is xmlns:bqbiol="http://biomodels.net/biology-qualifiers/">
+                <rdf:Bag>
+                  <rdf:li rdf:resource="http://identifiers.org/bigg.reaction/EX_pheme_e"/>
+                  <rdf:li rdf:resource="http://identifiers.org/metanetx.reaction/MNXR102625"/>
+                  <rdf:li rdf:resource="http://identifiers.org/reactome.reaction/R-CFA-917892"/>
+                  <rdf:li rdf:resource="http://identifiers.org/reactome.reaction/R-RNO-917892"/>
+                  <rdf:li rdf:resource="http://identifiers.org/reactome.reaction/R-CEL-917892"/>
+                  <rdf:li rdf:resource="http://identifiers.org/reactome.reaction/R-BTA-917892"/>
+                  <rdf:li rdf:resource="http://identifiers.org/reactome.reaction/R-TGU-917892"/>
+                  <rdf:li rdf:resource="http://identifiers.org/reactome.reaction/R-HSA-917892"/>
+                  <rdf:li rdf:resource="http://identifiers.org/reactome.reaction/R-MMU-917892"/>
+                  <rdf:li rdf:resource="http://identifiers.org/reactome.reaction/R-DRE-917892"/>
+                  <rdf:li rdf:resource="http://identifiers.org/reactome.reaction/R-XTR-917892"/>
+                  <rdf:li rdf:resource="http://identifiers.org/reactome.reaction/R-SSC-917892"/>
+                  <rdf:li rdf:resource="http://identifiers.org/reactome.reaction/R-DME-917892"/>
+                  <rdf:li rdf:resource="http://identifiers.org/reactome.reaction/R-GGA-917892"/>
+                </rdf:Bag>
+              </bqbiol:is>
+            </rdf:Description>
+          </rdf:RDF>
+        </sbml:annotation>
+        <listOfReactants>
+          <speciesReference species="M_pheme_e" stoichiometry="1" constant="true"/>
+        </listOfReactants>
+      </reaction>
+      <reaction id="R_TMAOtex" fast="false" reversible="true" name="Trimethylamine N-oxide transport via diffusion (extracellular to periplasm)" metaid="R_TMAOtex" sboTerm="SBO:0000185" fbc:upperFluxBound="cobra_default_ub" fbc:lowerFluxBound="cobra_default_lb">
+        <sbml:annotation xmlns:sbml="http://www.sbml.org/sbml/level3/version1/core">
+          <rdf:RDF xmlns:rdf="http://www.w3.org/1999/02/22-rdf-syntax-ns#">
+            <rdf:Description rdf:about="#R_TMAOtex">
+              <bqbiol:is xmlns:bqbiol="http://biomodels.net/biology-qualifiers/">
+                <rdf:Bag>
+                  <rdf:li rdf:resource="http://identifiers.org/bigg.reaction/TMAOtex"/>
+                  <rdf:li rdf:resource="http://identifiers.org/metanetx.reaction/MNXR104882"/>
+                  <rdf:li rdf:resource="http://identifiers.org/seed.reaction/rxn09317"/>
+                </rdf:Bag>
+              </bqbiol:is>
+            </rdf:Description>
+          </rdf:RDF>
+        </sbml:annotation>
+        <listOfReactants>
+          <speciesReference species="M_tmao_e" stoichiometry="1" constant="true"/>
+        </listOfReactants>
+        <listOfProducts>
+          <speciesReference species="M_tmao_p" stoichiometry="1" constant="true"/>
+        </listOfProducts>
+        <fbc:geneProductAssociation>
+          <fbc:or>
+            <fbc:geneProductRef fbc:geneProduct="G_b0241"/>
+            <fbc:geneProductRef fbc:geneProduct="G_b0929"/>
+            <fbc:geneProductRef fbc:geneProduct="G_b1377"/>
+            <fbc:geneProductRef fbc:geneProduct="G_b2215"/>
+          </fbc:or>
+        </fbc:geneProductAssociation>
+      </reaction>
+      <reaction id="R_TREtex" fast="false" reversible="true" name="Trehalose transport via diffusion (extracellular to periplasm)" metaid="R_TREtex" sboTerm="SBO:0000185" fbc:upperFluxBound="cobra_default_ub" fbc:lowerFluxBound="cobra_default_lb">
+        <sbml:annotation xmlns:sbml="http://www.sbml.org/sbml/level3/version1/core">
+          <rdf:RDF xmlns:rdf="http://www.w3.org/1999/02/22-rdf-syntax-ns#">
+            <rdf:Description rdf:about="#R_TREtex">
+              <bqbiol:is xmlns:bqbiol="http://biomodels.net/biology-qualifiers/">
+                <rdf:Bag>
+                  <rdf:li rdf:resource="http://identifiers.org/bigg.reaction/TREtex"/>
+                  <rdf:li rdf:resource="http://identifiers.org/metanetx.reaction/MNXR104933"/>
+                  <rdf:li rdf:resource="http://identifiers.org/rhea/17631"/>
+                  <rdf:li rdf:resource="http://identifiers.org/rhea/17632"/>
+                  <rdf:li rdf:resource="http://identifiers.org/rhea/17630"/>
+                  <rdf:li rdf:resource="http://identifiers.org/rhea/17629"/>
+                  <rdf:li rdf:resource="http://identifiers.org/seed.reaction/rxn09323"/>
+                </rdf:Bag>
+              </bqbiol:is>
+            </rdf:Description>
+          </rdf:RDF>
+        </sbml:annotation>
+        <listOfReactants>
+          <speciesReference species="M_tre_e" stoichiometry="1" constant="true"/>
+        </listOfReactants>
+        <listOfProducts>
+          <speciesReference species="M_tre_p" stoichiometry="1" constant="true"/>
+        </listOfProducts>
+        <fbc:geneProductAssociation>
+          <fbc:or>
+            <fbc:geneProductRef fbc:geneProduct="G_b0241"/>
+            <fbc:geneProductRef fbc:geneProduct="G_b0929"/>
+            <fbc:geneProductRef fbc:geneProduct="G_b1377"/>
+            <fbc:geneProductRef fbc:geneProduct="G_b2215"/>
+          </fbc:or>
+        </fbc:geneProductAssociation>
+      </reaction>
+      <reaction id="R_L_LACD3" fast="false" reversible="false" name="L-Lactate dehydrogenase (menaquinone)" metaid="R_L_LACD3" sboTerm="SBO:0000176" fbc:upperFluxBound="cobra_default_ub" fbc:lowerFluxBound="cobra_0_bound">
+        <sbml:annotation xmlns:sbml="http://www.sbml.org/sbml/level3/version1/core">
+          <rdf:RDF xmlns:rdf="http://www.w3.org/1999/02/22-rdf-syntax-ns#">
+            <rdf:Description rdf:about="#R_L_LACD3">
+              <bqbiol:is xmlns:bqbiol="http://biomodels.net/biology-qualifiers/">
+                <rdf:Bag>
+                  <rdf:li rdf:resource="http://identifiers.org/bigg.reaction/L_LACD3"/>
+                  <rdf:li rdf:resource="http://identifiers.org/ec-code/1.1.2.3"/>
+                  <rdf:li rdf:resource="http://identifiers.org/metanetx.reaction/MNXR101275"/>
+                  <rdf:li rdf:resource="http://identifiers.org/seed.reaction/rxn08793"/>
+                </rdf:Bag>
+              </bqbiol:is>
+            </rdf:Description>
+          </rdf:RDF>
+        </sbml:annotation>
+        <listOfReactants>
+          <speciesReference species="M_lac__L_c" stoichiometry="1" constant="true"/>
+          <speciesReference species="M_mqn8_c" stoichiometry="1" constant="true"/>
+        </listOfReactants>
+        <listOfProducts>
+          <speciesReference species="M_mql8_c" stoichiometry="1" constant="true"/>
+          <speciesReference species="M_pyr_c" stoichiometry="1" constant="true"/>
+        </listOfProducts>
+        <fbc:geneProductAssociation>
+          <fbc:or>
+            <fbc:and>
+              <fbc:geneProductRef fbc:geneProduct="G_b0306"/>
+              <fbc:geneProductRef fbc:geneProduct="G_b0308"/>
+              <fbc:geneProductRef fbc:geneProduct="G_b0307"/>
+            </fbc:and>
+            <fbc:geneProductRef fbc:geneProduct="G_b3605"/>
+          </fbc:or>
+        </fbc:geneProductAssociation>
+      </reaction>
+      <reaction id="R_FEENTERtex" fast="false" reversible="false" name="Enterochelin transport (secretion periplasm)" metaid="R_FEENTERtex" sboTerm="SBO:0000185" fbc:upperFluxBound="cobra_default_ub" fbc:lowerFluxBound="cobra_0_bound">
+        <sbml:annotation xmlns:sbml="http://www.sbml.org/sbml/level3/version1/core">
+          <rdf:RDF xmlns:rdf="http://www.w3.org/1999/02/22-rdf-syntax-ns#">
+            <rdf:Description rdf:about="#R_FEENTERtex">
+              <bqbiol:is xmlns:bqbiol="http://biomodels.net/biology-qualifiers/">
+                <rdf:Bag>
+                  <rdf:li rdf:resource="http://identifiers.org/bigg.reaction/FEENTERtex"/>
+                  <rdf:li rdf:resource="http://identifiers.org/metanetx.reaction/MNXR99548"/>
+                  <rdf:li rdf:resource="http://identifiers.org/seed.reaction/rxn08506"/>
+                </rdf:Bag>
+              </bqbiol:is>
+            </rdf:Description>
+          </rdf:RDF>
+        </sbml:annotation>
+        <listOfReactants>
+          <speciesReference species="M_enter_p" stoichiometry="1" constant="true"/>
+          <speciesReference species="M_h_p" stoichiometry="1" constant="true"/>
+        </listOfReactants>
+        <listOfProducts>
+          <speciesReference species="M_enter_e" stoichiometry="1" constant="true"/>
+          <speciesReference species="M_h_c" stoichiometry="1" constant="true"/>
+        </listOfProducts>
+        <fbc:geneProductAssociation>
+          <fbc:geneProductRef fbc:geneProduct="G_b3035"/>
+        </fbc:geneProductAssociation>
+      </reaction>
+      <reaction id="R_FE3HOXUtpp" fast="false" reversible="false" name="Fe(III)hydroxamate unloaded secretion (extracellular)" metaid="R_FE3HOXUtpp" sboTerm="SBO:0000185" fbc:upperFluxBound="cobra_default_ub" fbc:lowerFluxBound="cobra_0_bound">
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+            <rdf:Description rdf:about="#R_FE3HOXUtpp">
+              <bqbiol:is xmlns:bqbiol="http://biomodels.net/biology-qualifiers/">
+                <rdf:Bag>
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+                  <rdf:li rdf:resource="http://identifiers.org/metanetx.reaction/MNXR99518"/>
+                  <rdf:li rdf:resource="http://identifiers.org/seed.reaction/rxn08490"/>
+                </rdf:Bag>
+              </bqbiol:is>
+            </rdf:Description>
+          </rdf:RDF>
+        </sbml:annotation>
+        <listOfReactants>
+          <speciesReference species="M_fe3hox_un_p" stoichiometry="1" constant="true"/>
+          <speciesReference species="M_h_p" stoichiometry="1" constant="true"/>
+        </listOfReactants>
+        <listOfProducts>
+          <speciesReference species="M_fe3hox_un_e" stoichiometry="1" constant="true"/>
+          <speciesReference species="M_h_c" stoichiometry="1" constant="true"/>
+        </listOfProducts>
+      </reaction>
+      <reaction id="R_FEOXAMUtpp" fast="false" reversible="false" name="Ferroxamine (minus Fe3) secretion (to periplasm)" metaid="R_FEOXAMUtpp" sboTerm="SBO:0000185" fbc:upperFluxBound="cobra_default_ub" fbc:lowerFluxBound="cobra_0_bound">
+        <sbml:annotation xmlns:sbml="http://www.sbml.org/sbml/level3/version1/core">
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+            <rdf:Description rdf:about="#R_FEOXAMUtpp">
+              <bqbiol:is xmlns:bqbiol="http://biomodels.net/biology-qualifiers/">
+                <rdf:Bag>
+                  <rdf:li rdf:resource="http://identifiers.org/bigg.reaction/FEOXAMUtpp"/>
+                  <rdf:li rdf:resource="http://identifiers.org/metanetx.reaction/MNXR99555"/>
+                  <rdf:li rdf:resource="http://identifiers.org/seed.reaction/rxn08516"/>
+                </rdf:Bag>
+              </bqbiol:is>
+            </rdf:Description>
+          </rdf:RDF>
+        </sbml:annotation>
+        <listOfReactants>
+          <speciesReference species="M_feoxam_un_c" stoichiometry="1" constant="true"/>
+          <speciesReference species="M_h_p" stoichiometry="1" constant="true"/>
+        </listOfReactants>
+        <listOfProducts>
+          <speciesReference species="M_feoxam_un_p" stoichiometry="1" constant="true"/>
+          <speciesReference species="M_h_c" stoichiometry="1" constant="true"/>
+        </listOfProducts>
+      </reaction>
+      <reaction id="R_FECRMUtpp" fast="false" reversible="false" name="Ferrichrome (minus Fe) secretion (to periplasm)" metaid="R_FECRMUtpp" sboTerm="SBO:0000185" fbc:upperFluxBound="cobra_default_ub" fbc:lowerFluxBound="cobra_0_bound">
+        <sbml:annotation xmlns:sbml="http://www.sbml.org/sbml/level3/version1/core">
+          <rdf:RDF xmlns:rdf="http://www.w3.org/1999/02/22-rdf-syntax-ns#">
+            <rdf:Description rdf:about="#R_FECRMUtpp">
+              <bqbiol:is xmlns:bqbiol="http://biomodels.net/biology-qualifiers/">
+                <rdf:Bag>
+                  <rdf:li rdf:resource="http://identifiers.org/bigg.reaction/FECRMUtpp"/>
+                  <rdf:li rdf:resource="http://identifiers.org/metanetx.reaction/MNXR99534"/>
+                  <rdf:li rdf:resource="http://identifiers.org/seed.reaction/rxn08500"/>
+                </rdf:Bag>
+              </bqbiol:is>
+            </rdf:Description>
+          </rdf:RDF>
+        </sbml:annotation>
+        <listOfReactants>
+          <speciesReference species="M_fecrm_un_c" stoichiometry="1" constant="true"/>
+          <speciesReference species="M_h_p" stoichiometry="1" constant="true"/>
+        </listOfReactants>
+        <listOfProducts>
+          <speciesReference species="M_fecrm_un_p" stoichiometry="1" constant="true"/>
+          <speciesReference species="M_h_c" stoichiometry="1" constant="true"/>
+        </listOfProducts>
+      </reaction>
+      <reaction id="R_FE3HOXR2" fast="false" reversible="false" name="Fe(III)hydroxamate reductase" metaid="R_FE3HOXR2" sboTerm="SBO:0000176" fbc:upperFluxBound="cobra_default_ub" fbc:lowerFluxBound="cobra_0_bound">
+        <sbml:annotation xmlns:sbml="http://www.sbml.org/sbml/level3/version1/core">
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+            <rdf:Description rdf:about="#R_FE3HOXR2">
+              <bqbiol:is xmlns:bqbiol="http://biomodels.net/biology-qualifiers/">
+                <rdf:Bag>
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+                  <rdf:li rdf:resource="http://identifiers.org/metanetx.reaction/MNXR99515"/>
+                  <rdf:li rdf:resource="http://identifiers.org/seed.reaction/rxn08486"/>
+                </rdf:Bag>
+              </bqbiol:is>
+            </rdf:Description>
+          </rdf:RDF>
+        </sbml:annotation>
+        <listOfReactants>
+          <speciesReference species="M_fe3hox_c" stoichiometry="2" constant="true"/>
+          <speciesReference species="M_fmnh2_c" stoichiometry="1" constant="true"/>
+        </listOfReactants>
+        <listOfProducts>
+          <speciesReference species="M_fe2_c" stoichiometry="2" constant="true"/>
+          <speciesReference species="M_fe3hox_un_c" stoichiometry="2" constant="true"/>
+          <speciesReference species="M_fmn_c" stoichiometry="1" constant="true"/>
+          <speciesReference species="M_h_c" stoichiometry="2" constant="true"/>
+        </listOfProducts>
+      </reaction>
+      <reaction id="R_L_LACD2" fast="false" reversible="false" name="L-Lactate dehydrogenase (ubiquinone)" metaid="R_L_LACD2" sboTerm="SBO:0000176" fbc:upperFluxBound="cobra_default_ub" fbc:lowerFluxBound="cobra_0_bound">
+        <sbml:annotation xmlns:sbml="http://www.sbml.org/sbml/level3/version1/core">
+          <rdf:RDF xmlns:rdf="http://www.w3.org/1999/02/22-rdf-syntax-ns#">
+            <rdf:Description rdf:about="#R_L_LACD2">
+              <bqbiol:is xmlns:bqbiol="http://biomodels.net/biology-qualifiers/">
+                <rdf:Bag>
+                  <rdf:li rdf:resource="http://identifiers.org/bigg.reaction/L_LACD2"/>
+                  <rdf:li rdf:resource="http://identifiers.org/ec-code/1.1.2.3"/>
+                  <rdf:li rdf:resource="http://identifiers.org/metanetx.reaction/MNXR101273"/>
+                  <rdf:li rdf:resource="http://identifiers.org/seed.reaction/rxn08792"/>
+                </rdf:Bag>
+              </bqbiol:is>
+            </rdf:Description>
+          </rdf:RDF>
+        </sbml:annotation>
+        <listOfReactants>
+          <speciesReference species="M_lac__L_c" stoichiometry="1" constant="true"/>
+          <speciesReference species="M_q8_c" stoichiometry="1" constant="true"/>
+        </listOfReactants>
+        <listOfProducts>
+          <speciesReference species="M_pyr_c" stoichiometry="1" constant="true"/>
+          <speciesReference species="M_q8h2_c" stoichiometry="1" constant="true"/>
+        </listOfProducts>
+        <fbc:geneProductAssociation>
+          <fbc:or>
+            <fbc:and>
+              <fbc:geneProductRef fbc:geneProduct="G_b0308"/>
+              <fbc:geneProductRef fbc:geneProduct="G_b0306"/>
+              <fbc:geneProductRef fbc:geneProduct="G_b0307"/>
+            </fbc:and>
+            <fbc:geneProductRef fbc:geneProduct="G_b3605"/>
+          </fbc:or>
+        </fbc:geneProductAssociation>
+      </reaction>
+      <reaction id="R_ACACT6r" fast="false" reversible="true" name="Acetyl-CoA C-acyltransferase (dodecanoyl-CoA) (r)" metaid="R_ACACT6r" sboTerm="SBO:0000176" fbc:upperFluxBound="cobra_default_ub" fbc:lowerFluxBound="cobra_default_lb">
+        <sbml:annotation xmlns:sbml="http://www.sbml.org/sbml/level3/version1/core">
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+            <rdf:Description rdf:about="#R_ACACT6r">
+              <bqbiol:is xmlns:bqbiol="http://biomodels.net/biology-qualifiers/">
+                <rdf:Bag>
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+                  <rdf:li rdf:resource="http://identifiers.org/biocyc/META:RXN-14268"/>
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+                  <rdf:li rdf:resource="http://identifiers.org/kegg.reaction/R03858"/>
+                  <rdf:li rdf:resource="http://identifiers.org/metanetx.reaction/MNXR95201"/>
+                  <rdf:li rdf:resource="http://identifiers.org/reactome.reaction/R-MMU-77271"/>
+                  <rdf:li rdf:resource="http://identifiers.org/reactome.reaction/R-GGA-77271"/>
+                  <rdf:li rdf:resource="http://identifiers.org/reactome.reaction/R-BTA-77271"/>
+                  <rdf:li rdf:resource="http://identifiers.org/reactome.reaction/R-SSC-77271"/>
+                  <rdf:li rdf:resource="http://identifiers.org/reactome.reaction/R-CFA-77271"/>
+                  <rdf:li rdf:resource="http://identifiers.org/reactome.reaction/R-XTR-77271"/>
+                  <rdf:li rdf:resource="http://identifiers.org/reactome.reaction/R-RNO-77271"/>
+                  <rdf:li rdf:resource="http://identifiers.org/reactome.reaction/R-DME-77271"/>
+                  <rdf:li rdf:resource="http://identifiers.org/reactome.reaction/R-TGU-77271"/>
+                  <rdf:li rdf:resource="http://identifiers.org/reactome.reaction/R-CEL-77271"/>
+                  <rdf:li rdf:resource="http://identifiers.org/reactome.reaction/R-HSA-77271"/>
+                  <rdf:li rdf:resource="http://identifiers.org/rhea/31093"/>
+                  <rdf:li rdf:resource="http://identifiers.org/rhea/31094"/>
+                  <rdf:li rdf:resource="http://identifiers.org/rhea/31092"/>
+                  <rdf:li rdf:resource="http://identifiers.org/rhea/31091"/>
+                  <rdf:li rdf:resource="http://identifiers.org/seed.reaction/rxn06510"/>
+                </rdf:Bag>
+              </bqbiol:is>
+            </rdf:Description>
+          </rdf:RDF>
+        </sbml:annotation>
+        <listOfReactants>
+          <speciesReference species="M_accoa_c" stoichiometry="1" constant="true"/>
+          <speciesReference species="M_ddcacoa_c" stoichiometry="1" constant="true"/>
+        </listOfReactants>
+        <listOfProducts>
+          <speciesReference species="M_3otdcoa_c" stoichiometry="1" constant="true"/>
+          <speciesReference species="M_coa_c" stoichiometry="1" constant="true"/>
+        </listOfProducts>
+        <fbc:geneProductAssociation>
+          <fbc:or>
+            <fbc:geneProductRef fbc:geneProduct="G_b2342"/>
+            <fbc:geneProductRef fbc:geneProduct="G_b3845"/>
+          </fbc:or>
+        </fbc:geneProductAssociation>
+      </reaction>
+      <reaction id="R_TRPtex" fast="false" reversible="true" name="L-tryptophan transport via diffusion (extracellular to periplasm)" metaid="R_TRPtex" sboTerm="SBO:0000185" fbc:upperFluxBound="cobra_default_ub" fbc:lowerFluxBound="cobra_default_lb">
+        <sbml:annotation xmlns:sbml="http://www.sbml.org/sbml/level3/version1/core">
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+            <rdf:Description rdf:about="#R_TRPtex">
+              <bqbiol:is xmlns:bqbiol="http://biomodels.net/biology-qualifiers/">
+                <rdf:Bag>
+                  <rdf:li rdf:resource="http://identifiers.org/bigg.reaction/TRPtex"/>
+                  <rdf:li rdf:resource="http://identifiers.org/biocyc/META:RXN66-449"/>
+                  <rdf:li rdf:resource="http://identifiers.org/metanetx.reaction/MNXR104949"/>
+                  <rdf:li rdf:resource="http://identifiers.org/sabiork/14017"/>
+                  <rdf:li rdf:resource="http://identifiers.org/sabiork/13425"/>
+                  <rdf:li rdf:resource="http://identifiers.org/seed.reaction/rxn09327"/>
+                  <rdf:li rdf:resource="http://identifiers.org/seed.reaction/rxn05222"/>
+                </rdf:Bag>
+              </bqbiol:is>
+            </rdf:Description>
+          </rdf:RDF>
+        </sbml:annotation>
+        <listOfReactants>
+          <speciesReference species="M_trp__L_e" stoichiometry="1" constant="true"/>
+        </listOfReactants>
+        <listOfProducts>
+          <speciesReference species="M_trp__L_p" stoichiometry="1" constant="true"/>
+        </listOfProducts>
+        <fbc:geneProductAssociation>
+          <fbc:or>
+            <fbc:geneProductRef fbc:geneProduct="G_b0241"/>
+            <fbc:geneProductRef fbc:geneProduct="G_b0929"/>
+            <fbc:geneProductRef fbc:geneProduct="G_b1377"/>
+            <fbc:geneProductRef fbc:geneProduct="G_b2215"/>
+          </fbc:or>
+        </fbc:geneProductAssociation>
+      </reaction>
+      <reaction id="R_PTRCt2pp" fast="false" reversible="false" name="Putrescine transport in via proton symport" metaid="R_PTRCt2pp" sboTerm="SBO:0000185" fbc:upperFluxBound="cobra_default_ub" fbc:lowerFluxBound="cobra_0_bound">
+        <sbml:annotation xmlns:sbml="http://www.sbml.org/sbml/level3/version1/core">
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+            <rdf:Description rdf:about="#R_PTRCt2pp">
+              <bqbiol:is xmlns:bqbiol="http://biomodels.net/biology-qualifiers/">
+                <rdf:Bag>
+                  <rdf:li rdf:resource="http://identifiers.org/bigg.reaction/PTRCt2pp"/>
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+                  <rdf:li rdf:resource="http://identifiers.org/metanetx.reaction/MNXR103340"/>
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+                  <rdf:li rdf:resource="http://identifiers.org/rhea/28892"/>
+                  <rdf:li rdf:resource="http://identifiers.org/rhea/28894"/>
+                  <rdf:li rdf:resource="http://identifiers.org/rhea/28893"/>
+                  <rdf:li rdf:resource="http://identifiers.org/seed.reaction/rxn05687"/>
+                  <rdf:li rdf:resource="http://identifiers.org/seed.reaction/rxn09215"/>
+                </rdf:Bag>
+              </bqbiol:is>
+            </rdf:Description>
+          </rdf:RDF>
+        </sbml:annotation>
+        <listOfReactants>
+          <speciesReference species="M_h_p" stoichiometry="1" constant="true"/>
+          <speciesReference species="M_ptrc_p" stoichiometry="1" constant="true"/>
+        </listOfReactants>
+        <listOfProducts>
+          <speciesReference species="M_h_c" stoichiometry="1" constant="true"/>
+          <speciesReference species="M_ptrc_c" stoichiometry="1" constant="true"/>
+        </listOfProducts>
+        <fbc:geneProductAssociation>
+          <fbc:or>
+            <fbc:geneProductRef fbc:geneProduct="G_b0692"/>
+            <fbc:geneProductRef fbc:geneProduct="G_b1296"/>
+            <fbc:geneProductRef fbc:geneProduct="G_b2014"/>
+          </fbc:or>
+        </fbc:geneProductAssociation>
+      </reaction>
+      <reaction id="R_GGGABAH" fast="false" reversible="false" name="Gamma-glutamyl-gamma-aminobutyric acid hydrolase" metaid="R_GGGABAH" sboTerm="SBO:0000176" fbc:upperFluxBound="cobra_default_ub" fbc:lowerFluxBound="cobra_0_bound">
+        <sbml:annotation xmlns:sbml="http://www.sbml.org/sbml/level3/version1/core">
+          <rdf:RDF xmlns:rdf="http://www.w3.org/1999/02/22-rdf-syntax-ns#">
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+              <bqbiol:is xmlns:bqbiol="http://biomodels.net/biology-qualifiers/">
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+                  <rdf:li rdf:resource="http://identifiers.org/metanetx.reaction/MNXR100114"/>
+                  <rdf:li rdf:resource="http://identifiers.org/rhea/19740"/>
+                  <rdf:li rdf:resource="http://identifiers.org/rhea/19739"/>
+                  <rdf:li rdf:resource="http://identifiers.org/rhea/19738"/>
+                  <rdf:li rdf:resource="http://identifiers.org/rhea/19737"/>
+                  <rdf:li rdf:resource="http://identifiers.org/seed.reaction/rxn05128"/>
+                </rdf:Bag>
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+            </rdf:Description>
+          </rdf:RDF>
+        </sbml:annotation>
+        <listOfReactants>
+          <speciesReference species="M_gg4abut_c" stoichiometry="1" constant="true"/>
+          <speciesReference species="M_h2o_c" stoichiometry="1" constant="true"/>
+        </listOfReactants>
+        <listOfProducts>
+          <speciesReference species="M_4abut_c" stoichiometry="1" constant="true"/>
+          <speciesReference species="M_glu__L_c" stoichiometry="1" constant="true"/>
+        </listOfProducts>
+        <fbc:geneProductAssociation>
+          <fbc:geneProductRef fbc:geneProduct="G_b1298"/>
+        </fbc:geneProductAssociation>
+      </reaction>
+      <reaction id="R_PNTOtex" fast="false" reversible="true" name="Pantothenate transport via diffusion (extracellular to periplasm)" metaid="R_PNTOtex" sboTerm="SBO:0000185" fbc:upperFluxBound="cobra_default_ub" fbc:lowerFluxBound="cobra_default_lb">
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+                  <rdf:li rdf:resource="http://identifiers.org/rhea/34975"/>
+                  <rdf:li rdf:resource="http://identifiers.org/rhea/34976"/>
+                  <rdf:li rdf:resource="http://identifiers.org/rhea/34977"/>
+                  <rdf:li rdf:resource="http://identifiers.org/seed.reaction/rxn09166"/>
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+        </sbml:annotation>
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+          <speciesReference species="M_pnto__R_e" stoichiometry="1" constant="true"/>
+        </listOfReactants>
+        <listOfProducts>
+          <speciesReference species="M_pnto__R_p" stoichiometry="1" constant="true"/>
+        </listOfProducts>
+        <fbc:geneProductAssociation>
+          <fbc:or>
+            <fbc:geneProductRef fbc:geneProduct="G_b0241"/>
+            <fbc:geneProductRef fbc:geneProduct="G_b0929"/>
+            <fbc:geneProductRef fbc:geneProduct="G_b1377"/>
+            <fbc:geneProductRef fbc:geneProduct="G_b2215"/>
+          </fbc:or>
+        </fbc:geneProductAssociation>
+      </reaction>
+      <reaction id="R_FRULYSK" fast="false" reversible="false" name="Fructoselysine Kinase" metaid="R_FRULYSK" sboTerm="SBO:0000176" fbc:upperFluxBound="cobra_default_ub" fbc:lowerFluxBound="cobra_0_bound">
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+                  <rdf:li rdf:resource="http://identifiers.org/seed.reaction/rxn08532"/>
+                </rdf:Bag>
+              </bqbiol:is>
+            </rdf:Description>
+          </rdf:RDF>
+        </sbml:annotation>
+        <listOfReactants>
+          <speciesReference species="M_atp_c" stoichiometry="1" constant="true"/>
+          <speciesReference species="M_frulys_c" stoichiometry="1" constant="true"/>
+        </listOfReactants>
+        <listOfProducts>
+          <speciesReference species="M_adp_c" stoichiometry="1" constant="true"/>
+          <speciesReference species="M_frulysp_c" stoichiometry="1" constant="true"/>
+          <speciesReference species="M_h_c" stoichiometry="1" constant="true"/>
+        </listOfProducts>
+        <fbc:geneProductAssociation>
+          <fbc:geneProductRef fbc:geneProduct="G_b3374"/>
+        </fbc:geneProductAssociation>
+      </reaction>
+      <reaction id="R_FDMO6" fast="false" reversible="false" name="FMNH2-dependent monooxygenase (sulfoacetate)" metaid="R_FDMO6" sboTerm="SBO:0000176" fbc:upperFluxBound="cobra_default_ub" fbc:lowerFluxBound="cobra_0_bound">
+        <sbml:annotation xmlns:sbml="http://www.sbml.org/sbml/level3/version1/core">
+          <rdf:RDF xmlns:rdf="http://www.w3.org/1999/02/22-rdf-syntax-ns#">
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+                  <rdf:li rdf:resource="http://identifiers.org/metanetx.reaction/MNXR99495"/>
+                  <rdf:li rdf:resource="http://identifiers.org/rhea/29312"/>
+                  <rdf:li rdf:resource="http://identifiers.org/rhea/29311"/>
+                  <rdf:li rdf:resource="http://identifiers.org/rhea/29314"/>
+                  <rdf:li rdf:resource="http://identifiers.org/rhea/29313"/>
+                  <rdf:li rdf:resource="http://identifiers.org/seed.reaction/rxn08471"/>
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+          </rdf:RDF>
+        </sbml:annotation>
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+          <speciesReference species="M_fmnh2_c" stoichiometry="1" constant="true"/>
+          <speciesReference species="M_o2_c" stoichiometry="1" constant="true"/>
+          <speciesReference species="M_sulfac_c" stoichiometry="1" constant="true"/>
+        </listOfReactants>
+        <listOfProducts>
+          <speciesReference species="M_fmn_c" stoichiometry="1" constant="true"/>
+          <speciesReference species="M_glx_c" stoichiometry="1" constant="true"/>
+          <speciesReference species="M_h2o_c" stoichiometry="1" constant="true"/>
+          <speciesReference species="M_h_c" stoichiometry="1" constant="true"/>
+          <speciesReference species="M_so3_c" stoichiometry="1" constant="true"/>
+        </listOfProducts>
+        <fbc:geneProductAssociation>
+          <fbc:geneProductRef fbc:geneProduct="G_b0935"/>
+        </fbc:geneProductAssociation>
+      </reaction>
+      <reaction id="R_TSULtex" fast="false" reversible="true" name="Thiosulfate transport via diffusion (extracellular to periplasm)" metaid="R_TSULtex" sboTerm="SBO:0000185" fbc:upperFluxBound="cobra_default_ub" fbc:lowerFluxBound="cobra_default_lb">
+        <sbml:annotation xmlns:sbml="http://www.sbml.org/sbml/level3/version1/core">
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+              <bqbiol:is xmlns:bqbiol="http://biomodels.net/biology-qualifiers/">
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+                  <rdf:li rdf:resource="http://identifiers.org/rhea/32808"/>
+                  <rdf:li rdf:resource="http://identifiers.org/rhea/32810"/>
+                  <rdf:li rdf:resource="http://identifiers.org/rhea/32807"/>
+                  <rdf:li rdf:resource="http://identifiers.org/rhea/32809"/>
+                  <rdf:li rdf:resource="http://identifiers.org/seed.reaction/rxn09330"/>
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+        </sbml:annotation>
+        <listOfReactants>
+          <speciesReference species="M_tsul_e" stoichiometry="1" constant="true"/>
+        </listOfReactants>
+        <listOfProducts>
+          <speciesReference species="M_tsul_p" stoichiometry="1" constant="true"/>
+        </listOfProducts>
+        <fbc:geneProductAssociation>
+          <fbc:or>
+            <fbc:geneProductRef fbc:geneProduct="G_b0241"/>
+            <fbc:geneProductRef fbc:geneProduct="G_b0929"/>
+            <fbc:geneProductRef fbc:geneProduct="G_b1377"/>
+            <fbc:geneProductRef fbc:geneProduct="G_b2215"/>
+          </fbc:or>
+        </fbc:geneProductAssociation>
+      </reaction>
+      <reaction id="R_TYRtex" fast="false" reversible="true" name="L-tyrosine transport via diffusion (extracellular to periplasm)" metaid="R_TYRtex" sboTerm="SBO:0000185" fbc:upperFluxBound="cobra_default_ub" fbc:lowerFluxBound="cobra_default_lb">
+        <sbml:annotation xmlns:sbml="http://www.sbml.org/sbml/level3/version1/core">
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+              <bqbiol:is xmlns:bqbiol="http://biomodels.net/biology-qualifiers/">
+                <rdf:Bag>
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+                  <rdf:li rdf:resource="http://identifiers.org/biocyc/META:RXN66-446"/>
+                  <rdf:li rdf:resource="http://identifiers.org/metanetx.reaction/MNXR105002"/>
+                  <rdf:li rdf:resource="http://identifiers.org/sabiork/13471"/>
+                  <rdf:li rdf:resource="http://identifiers.org/seed.reaction/rxn09339"/>
+                  <rdf:li rdf:resource="http://identifiers.org/seed.reaction/rxn10974"/>
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+        </sbml:annotation>
+        <listOfReactants>
+          <speciesReference species="M_tyr__L_e" stoichiometry="1" constant="true"/>
+        </listOfReactants>
+        <listOfProducts>
+          <speciesReference species="M_tyr__L_p" stoichiometry="1" constant="true"/>
+        </listOfProducts>
+        <fbc:geneProductAssociation>
+          <fbc:or>
+            <fbc:geneProductRef fbc:geneProduct="G_b0241"/>
+            <fbc:geneProductRef fbc:geneProduct="G_b0929"/>
+            <fbc:geneProductRef fbc:geneProduct="G_b1377"/>
+            <fbc:geneProductRef fbc:geneProduct="G_b2215"/>
+          </fbc:or>
+        </fbc:geneProductAssociation>
+      </reaction>
+      <reaction id="R_URAtex" fast="false" reversible="true" name="Uracil transport via diffusion (extracellular to periplasm)" metaid="R_URAtex" sboTerm="SBO:0000185" fbc:upperFluxBound="cobra_default_ub" fbc:lowerFluxBound="cobra_default_lb">
+        <sbml:annotation xmlns:sbml="http://www.sbml.org/sbml/level3/version1/core">
+          <rdf:RDF xmlns:rdf="http://www.w3.org/1999/02/22-rdf-syntax-ns#">
+            <rdf:Description rdf:about="#R_URAtex">
+              <bqbiol:is xmlns:bqbiol="http://biomodels.net/biology-qualifiers/">
+                <rdf:Bag>
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+                  <rdf:li rdf:resource="http://identifiers.org/biocyc/META:TRANS-RXN0-560"/>
+                  <rdf:li rdf:resource="http://identifiers.org/metanetx.reaction/MNXR105147"/>
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+                  <rdf:li rdf:resource="http://identifiers.org/rhea/28622"/>
+                  <rdf:li rdf:resource="http://identifiers.org/rhea/27319"/>
+                  <rdf:li rdf:resource="http://identifiers.org/rhea/27318"/>
+                  <rdf:li rdf:resource="http://identifiers.org/sabiork/12300"/>
+                  <rdf:li rdf:resource="http://identifiers.org/seed.reaction/rxn10993"/>
+                  <rdf:li rdf:resource="http://identifiers.org/seed.reaction/rxn09366"/>
+                </rdf:Bag>
+              </bqbiol:is>
+            </rdf:Description>
+          </rdf:RDF>
+        </sbml:annotation>
+        <listOfReactants>
+          <speciesReference species="M_ura_e" stoichiometry="1" constant="true"/>
+        </listOfReactants>
+        <listOfProducts>
+          <speciesReference species="M_ura_p" stoichiometry="1" constant="true"/>
+        </listOfProducts>
+        <fbc:geneProductAssociation>
+          <fbc:or>
+            <fbc:geneProductRef fbc:geneProduct="G_b0241"/>
+            <fbc:geneProductRef fbc:geneProduct="G_b0929"/>
+            <fbc:geneProductRef fbc:geneProduct="G_b1377"/>
+            <fbc:geneProductRef fbc:geneProduct="G_b2215"/>
+          </fbc:or>
+        </fbc:geneProductAssociation>
+      </reaction>
+      <reaction id="R_UREAtex" fast="false" reversible="true" name="Urea transport via diffusion (extracellular to periplasm)" metaid="R_UREAtex" sboTerm="SBO:0000185" fbc:upperFluxBound="cobra_default_ub" fbc:lowerFluxBound="cobra_default_lb">
+        <sbml:annotation xmlns:sbml="http://www.sbml.org/sbml/level3/version1/core">
+          <rdf:RDF xmlns:rdf="http://www.w3.org/1999/02/22-rdf-syntax-ns#">
+            <rdf:Description rdf:about="#R_UREAtex">
+              <bqbiol:is xmlns:bqbiol="http://biomodels.net/biology-qualifiers/">
+                <rdf:Bag>
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+                  <rdf:li rdf:resource="http://identifiers.org/reactome.reaction/R-SCE-507875"/>
+                  <rdf:li rdf:resource="http://identifiers.org/reactome.reaction/R-TGU-507875"/>
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+                  <rdf:li rdf:resource="http://identifiers.org/reactome.reaction/R-HSA-507873"/>
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+                  <rdf:li rdf:resource="http://identifiers.org/rhea/32799"/>
+                  <rdf:li rdf:resource="http://identifiers.org/rhea/32801"/>
+                  <rdf:li rdf:resource="http://identifiers.org/rhea/32800"/>
+                  <rdf:li rdf:resource="http://identifiers.org/seed.reaction/rxn09369"/>
+                  <rdf:li rdf:resource="http://identifiers.org/seed.reaction/rxn05667"/>
+                  <rdf:li rdf:resource="http://identifiers.org/seed.reaction/rxn09368"/>
+                </rdf:Bag>
+              </bqbiol:is>
+            </rdf:Description>
+          </rdf:RDF>
+        </sbml:annotation>
+        <listOfReactants>
+          <speciesReference species="M_urea_e" stoichiometry="1" constant="true"/>
+        </listOfReactants>
+        <listOfProducts>
+          <speciesReference species="M_urea_p" stoichiometry="1" constant="true"/>
+        </listOfProducts>
+        <fbc:geneProductAssociation>
+          <fbc:or>
+            <fbc:geneProductRef fbc:geneProduct="G_b0241"/>
+            <fbc:geneProductRef fbc:geneProduct="G_b0929"/>
+            <fbc:geneProductRef fbc:geneProduct="G_b1377"/>
+            <fbc:geneProductRef fbc:geneProduct="G_b2215"/>
+          </fbc:or>
+        </fbc:geneProductAssociation>
+      </reaction>
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+        <sbml:annotation xmlns:sbml="http://www.sbml.org/sbml/level3/version1/core">
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+            <rdf:Description rdf:about="#R_URItex">
+              <bqbiol:is xmlns:bqbiol="http://biomodels.net/biology-qualifiers/">
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+                  <rdf:li rdf:resource="http://identifiers.org/metanetx.reaction/MNXR105165"/>
+                  <rdf:li rdf:resource="http://identifiers.org/seed.reaction/rxn10987"/>
+                  <rdf:li rdf:resource="http://identifiers.org/seed.reaction/rxn09372"/>
+                </rdf:Bag>
+              </bqbiol:is>
+            </rdf:Description>
+          </rdf:RDF>
+        </sbml:annotation>
+        <listOfReactants>
+          <speciesReference species="M_uri_e" stoichiometry="1" constant="true"/>
+        </listOfReactants>
+        <listOfProducts>
+          <speciesReference species="M_uri_p" stoichiometry="1" constant="true"/>
+        </listOfProducts>
+        <fbc:geneProductAssociation>
+          <fbc:geneProductRef fbc:geneProduct="G_b0411"/>
+        </fbc:geneProductAssociation>
+      </reaction>
+      <reaction id="R_SULFACabcpp" fast="false" reversible="false" name="Sulfoacetate transport via ABC system (periplasm)" metaid="R_SULFACabcpp" sboTerm="SBO:0000185" fbc:upperFluxBound="cobra_default_ub" fbc:lowerFluxBound="cobra_0_bound">
+        <sbml:annotation xmlns:sbml="http://www.sbml.org/sbml/level3/version1/core">
+          <rdf:RDF xmlns:rdf="http://www.w3.org/1999/02/22-rdf-syntax-ns#">
+            <rdf:Description rdf:about="#R_SULFACabcpp">
+              <bqbiol:is xmlns:bqbiol="http://biomodels.net/biology-qualifiers/">
+                <rdf:Bag>
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+                  <rdf:li rdf:resource="http://identifiers.org/metanetx.reaction/MNXR104645"/>
+                  <rdf:li rdf:resource="http://identifiers.org/seed.reaction/rxn05656"/>
+                  <rdf:li rdf:resource="http://identifiers.org/seed.reaction/rxn09277"/>
+                </rdf:Bag>
+              </bqbiol:is>
+            </rdf:Description>
+          </rdf:RDF>
+        </sbml:annotation>
+        <listOfReactants>
+          <speciesReference species="M_atp_c" stoichiometry="1" constant="true"/>
+          <speciesReference species="M_h2o_c" stoichiometry="1" constant="true"/>
+          <speciesReference species="M_sulfac_p" stoichiometry="1" constant="true"/>
+        </listOfReactants>
+        <listOfProducts>
+          <speciesReference species="M_adp_c" stoichiometry="1" constant="true"/>
+          <speciesReference species="M_h_c" stoichiometry="1" constant="true"/>
+          <speciesReference species="M_pi_c" stoichiometry="1" constant="true"/>
+          <speciesReference species="M_sulfac_c" stoichiometry="1" constant="true"/>
+        </listOfProducts>
+        <fbc:geneProductAssociation>
+          <fbc:and>
+            <fbc:geneProductRef fbc:geneProduct="G_b0934"/>
+            <fbc:geneProductRef fbc:geneProduct="G_b0933"/>
+            <fbc:geneProductRef fbc:geneProduct="G_b0936"/>
+          </fbc:and>
+        </fbc:geneProductAssociation>
+      </reaction>
+      <reaction id="R_ETHSO3tex" fast="false" reversible="true" name="Ethanesulfonate transport via diffusion (extracellular to periplasm)" metaid="R_ETHSO3tex" sboTerm="SBO:0000185" fbc:upperFluxBound="cobra_default_ub" fbc:lowerFluxBound="cobra_default_lb">
+        <sbml:annotation xmlns:sbml="http://www.sbml.org/sbml/level3/version1/core">
+          <rdf:RDF xmlns:rdf="http://www.w3.org/1999/02/22-rdf-syntax-ns#">
+            <rdf:Description rdf:about="#R_ETHSO3tex">
+              <bqbiol:is xmlns:bqbiol="http://biomodels.net/biology-qualifiers/">
+                <rdf:Bag>
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+                  <rdf:li rdf:resource="http://identifiers.org/metanetx.reaction/MNXR97978"/>
+                  <rdf:li rdf:resource="http://identifiers.org/seed.reaction/rxn08426"/>
+                </rdf:Bag>
+              </bqbiol:is>
+            </rdf:Description>
+          </rdf:RDF>
+        </sbml:annotation>
+        <listOfReactants>
+          <speciesReference species="M_ethso3_e" stoichiometry="1" constant="true"/>
+        </listOfReactants>
+        <listOfProducts>
+          <speciesReference species="M_ethso3_p" stoichiometry="1" constant="true"/>
+        </listOfProducts>
+        <fbc:geneProductAssociation>
+          <fbc:or>
+            <fbc:geneProductRef fbc:geneProduct="G_b0241"/>
+            <fbc:geneProductRef fbc:geneProduct="G_b0929"/>
+            <fbc:geneProductRef fbc:geneProduct="G_b1377"/>
+            <fbc:geneProductRef fbc:geneProduct="G_b2215"/>
+          </fbc:or>
+        </fbc:geneProductAssociation>
+      </reaction>
+      <reaction id="R_BUTSO3tex" fast="false" reversible="true" name="Butanesulfonate transport via diffusion (extracellular to periplasm)" metaid="R_BUTSO3tex" sboTerm="SBO:0000185" fbc:upperFluxBound="cobra_default_ub" fbc:lowerFluxBound="cobra_default_lb">
+        <sbml:annotation xmlns:sbml="http://www.sbml.org/sbml/level3/version1/core">
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+              <bqbiol:is xmlns:bqbiol="http://biomodels.net/biology-qualifiers/">
+                <rdf:Bag>
+                  <rdf:li rdf:resource="http://identifiers.org/bigg.reaction/BUTSO3tex"/>
+                  <rdf:li rdf:resource="http://identifiers.org/metanetx.reaction/MNXR96351"/>
+                  <rdf:li rdf:resource="http://identifiers.org/seed.reaction/rxn08182"/>
+                </rdf:Bag>
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+            </rdf:Description>
+          </rdf:RDF>
+        </sbml:annotation>
+        <listOfReactants>
+          <speciesReference species="M_butso3_e" stoichiometry="1" constant="true"/>
+        </listOfReactants>
+        <listOfProducts>
+          <speciesReference species="M_butso3_p" stoichiometry="1" constant="true"/>
+        </listOfProducts>
+        <fbc:geneProductAssociation>
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+            <fbc:geneProductRef fbc:geneProduct="G_b0241"/>
+            <fbc:geneProductRef fbc:geneProduct="G_b0929"/>
+            <fbc:geneProductRef fbc:geneProduct="G_b1377"/>
+            <fbc:geneProductRef fbc:geneProduct="G_b2215"/>
+          </fbc:or>
+        </fbc:geneProductAssociation>
+      </reaction>
+      <reaction id="R_LIPOtex" fast="false" reversible="true" name="Lipoate transport via diffusion (extracellular to periplasm)" metaid="R_LIPOtex" sboTerm="SBO:0000185" fbc:upperFluxBound="cobra_default_ub" fbc:lowerFluxBound="cobra_default_lb">
+        <sbml:annotation xmlns:sbml="http://www.sbml.org/sbml/level3/version1/core">
+          <rdf:RDF xmlns:rdf="http://www.w3.org/1999/02/22-rdf-syntax-ns#">
+            <rdf:Description rdf:about="#R_LIPOtex">
+              <bqbiol:is xmlns:bqbiol="http://biomodels.net/biology-qualifiers/">
+                <rdf:Bag>
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+                  <rdf:li rdf:resource="http://identifiers.org/metanetx.reaction/MNXR101092"/>
+                  <rdf:li rdf:resource="http://identifiers.org/rhea/29755"/>
+                  <rdf:li rdf:resource="http://identifiers.org/rhea/29758"/>
+                  <rdf:li rdf:resource="http://identifiers.org/rhea/29756"/>
+                  <rdf:li rdf:resource="http://identifiers.org/rhea/29757"/>
+                </rdf:Bag>
+              </bqbiol:is>
+            </rdf:Description>
+          </rdf:RDF>
+        </sbml:annotation>
+        <listOfReactants>
+          <speciesReference species="M_lipoate_e" stoichiometry="1" constant="true"/>
+        </listOfReactants>
+        <listOfProducts>
+          <speciesReference species="M_lipoate_p" stoichiometry="1" constant="true"/>
+        </listOfProducts>
+        <fbc:geneProductAssociation>
+          <fbc:or>
+            <fbc:geneProductRef fbc:geneProduct="G_b1377"/>
+            <fbc:geneProductRef fbc:geneProduct="G_b2215"/>
+            <fbc:geneProductRef fbc:geneProduct="G_b0929"/>
+            <fbc:geneProductRef fbc:geneProduct="G_b0241"/>
+          </fbc:or>
+        </fbc:geneProductAssociation>
+      </reaction>
+      <reaction id="R_CYANSTpp" fast="false" reversible="false" name="Cyanide sulfurtransferase (periplasmic)" metaid="R_CYANSTpp" sboTerm="SBO:0000176" fbc:upperFluxBound="cobra_default_ub" fbc:lowerFluxBound="cobra_0_bound">
+        <sbml:annotation xmlns:sbml="http://www.sbml.org/sbml/level3/version1/core">
+          <rdf:RDF xmlns:rdf="http://www.w3.org/1999/02/22-rdf-syntax-ns#">
+            <rdf:Description rdf:about="#R_CYANSTpp">
+              <bqbiol:is xmlns:bqbiol="http://biomodels.net/biology-qualifiers/">
+                <rdf:Bag>
+                  <rdf:li rdf:resource="http://identifiers.org/bigg.reaction/CYANSTpp"/>
+                  <rdf:li rdf:resource="http://identifiers.org/biocyc/META:THIOSULFATE-SULFURTRANSFERASE-RXN"/>
+                  <rdf:li rdf:resource="http://identifiers.org/ec-code/2.8.1.1"/>
+                  <rdf:li rdf:resource="http://identifiers.org/kegg.reaction/R01931"/>
+                  <rdf:li rdf:resource="http://identifiers.org/metanetx.reaction/MNXR138187"/>
+                  <rdf:li rdf:resource="http://identifiers.org/rhea/16883"/>
+                  <rdf:li rdf:resource="http://identifiers.org/rhea/16884"/>
+                  <rdf:li rdf:resource="http://identifiers.org/rhea/16882"/>
+                  <rdf:li rdf:resource="http://identifiers.org/rhea/16881"/>
+                  <rdf:li rdf:resource="http://identifiers.org/sabiork/7692"/>
+                  <rdf:li rdf:resource="http://identifiers.org/seed.reaction/rxn01416"/>
+                </rdf:Bag>
+              </bqbiol:is>
+            </rdf:Description>
+          </rdf:RDF>
+        </sbml:annotation>
+        <listOfReactants>
+          <speciesReference species="M_cyan_p" stoichiometry="1" constant="true"/>
+          <speciesReference species="M_tsul_p" stoichiometry="1" constant="true"/>
+        </listOfReactants>
+        <listOfProducts>
+          <speciesReference species="M_h_p" stoichiometry="1" constant="true"/>
+          <speciesReference species="M_so3_p" stoichiometry="1" constant="true"/>
+          <speciesReference species="M_tcynt_p" stoichiometry="1" constant="true"/>
+        </listOfProducts>
+        <fbc:geneProductAssociation>
+          <fbc:geneProductRef fbc:geneProduct="G_b1308"/>
+        </fbc:geneProductAssociation>
+      </reaction>
+      <reaction id="R_VALtex" fast="false" reversible="true" name="L-valine transport via diffusion (extracellular to periplasm)" metaid="R_VALtex" sboTerm="SBO:0000185" fbc:upperFluxBound="cobra_default_ub" fbc:lowerFluxBound="cobra_default_lb">
+        <sbml:annotation xmlns:sbml="http://www.sbml.org/sbml/level3/version1/core">
+          <rdf:RDF xmlns:rdf="http://www.w3.org/1999/02/22-rdf-syntax-ns#">
+            <rdf:Description rdf:about="#R_VALtex">
+              <bqbiol:is xmlns:bqbiol="http://biomodels.net/biology-qualifiers/">
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+                  <rdf:li rdf:resource="http://identifiers.org/biocyc/META:TRANS-RXN0-269"/>
+                  <rdf:li rdf:resource="http://identifiers.org/metanetx.reaction/MNXR105190"/>
+                  <rdf:li rdf:resource="http://identifiers.org/rhea/29706"/>
+                  <rdf:li rdf:resource="http://identifiers.org/rhea/29703"/>
+                  <rdf:li rdf:resource="http://identifiers.org/rhea/29705"/>
+                  <rdf:li rdf:resource="http://identifiers.org/rhea/29704"/>
+                  <rdf:li rdf:resource="http://identifiers.org/sabiork/13468"/>
+                  <rdf:li rdf:resource="http://identifiers.org/seed.reaction/rxn05245"/>
+                  <rdf:li rdf:resource="http://identifiers.org/seed.reaction/rxn09375"/>
+                </rdf:Bag>
+              </bqbiol:is>
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+        </sbml:annotation>
+        <listOfReactants>
+          <speciesReference species="M_val__L_e" stoichiometry="1" constant="true"/>
+        </listOfReactants>
+        <listOfProducts>
+          <speciesReference species="M_val__L_p" stoichiometry="1" constant="true"/>
+        </listOfProducts>
+        <fbc:geneProductAssociation>
+          <fbc:or>
+            <fbc:geneProductRef fbc:geneProduct="G_b0241"/>
+            <fbc:geneProductRef fbc:geneProduct="G_b0929"/>
+            <fbc:geneProductRef fbc:geneProduct="G_b1377"/>
+            <fbc:geneProductRef fbc:geneProduct="G_b2215"/>
+          </fbc:or>
+        </fbc:geneProductAssociation>
+      </reaction>
+      <reaction id="R_XANtex" fast="false" reversible="true" name="Xanthine transport via diffusion (extracellular to periplasm)" metaid="R_XANtex" sboTerm="SBO:0000185" fbc:upperFluxBound="cobra_default_ub" fbc:lowerFluxBound="cobra_default_lb">
+        <sbml:annotation xmlns:sbml="http://www.sbml.org/sbml/level3/version1/core">
+          <rdf:RDF xmlns:rdf="http://www.w3.org/1999/02/22-rdf-syntax-ns#">
+            <rdf:Description rdf:about="#R_XANtex">
+              <bqbiol:is xmlns:bqbiol="http://biomodels.net/biology-qualifiers/">
+                <rdf:Bag>
+                  <rdf:li rdf:resource="http://identifiers.org/bigg.reaction/XANtex"/>
+                  <rdf:li rdf:resource="http://identifiers.org/biocyc/META:TRANS-RXN0-561"/>
+                  <rdf:li rdf:resource="http://identifiers.org/metanetx.reaction/MNXR105226"/>
+                  <rdf:li rdf:resource="http://identifiers.org/seed.reaction/rxn09379"/>
+                  <rdf:li rdf:resource="http://identifiers.org/seed.reaction/rxn09652"/>
+                  <rdf:li rdf:resource="http://identifiers.org/seed.reaction/rxn09378"/>
+                </rdf:Bag>
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+            </rdf:Description>
+          </rdf:RDF>
+        </sbml:annotation>
+        <listOfReactants>
+          <speciesReference species="M_xan_e" stoichiometry="1" constant="true"/>
+        </listOfReactants>
+        <listOfProducts>
+          <speciesReference species="M_xan_p" stoichiometry="1" constant="true"/>
+        </listOfProducts>
+        <fbc:geneProductAssociation>
+          <fbc:or>
+            <fbc:geneProductRef fbc:geneProduct="G_b0241"/>
+            <fbc:geneProductRef fbc:geneProduct="G_b0929"/>
+            <fbc:geneProductRef fbc:geneProduct="G_b1377"/>
+            <fbc:geneProductRef fbc:geneProduct="G_b2215"/>
+          </fbc:or>
+        </fbc:geneProductAssociation>
+      </reaction>
+      <reaction id="R_MCPST" fast="false" reversible="false" name="3-mercaptopyruvate sulfurtransferase" metaid="R_MCPST" sboTerm="SBO:0000176" fbc:upperFluxBound="cobra_default_ub" fbc:lowerFluxBound="cobra_0_bound">
+        <sbml:annotation xmlns:sbml="http://www.sbml.org/sbml/level3/version1/core">
+          <rdf:RDF xmlns:rdf="http://www.w3.org/1999/02/22-rdf-syntax-ns#">
+            <rdf:Description rdf:about="#R_MCPST">
+              <bqbiol:is xmlns:bqbiol="http://biomodels.net/biology-qualifiers/">
+                <rdf:Bag>
+                  <rdf:li rdf:resource="http://identifiers.org/bigg.reaction/MCPST"/>
+                  <rdf:li rdf:resource="http://identifiers.org/biocyc/META:MERCAPYSTRANS-RXN"/>
+                  <rdf:li rdf:resource="http://identifiers.org/ec-code/2.8.1.2"/>
+                  <rdf:li rdf:resource="http://identifiers.org/kegg.reaction/R03106"/>
+                  <rdf:li rdf:resource="http://identifiers.org/metanetx.reaction/MNXR138585"/>
+                  <rdf:li rdf:resource="http://identifiers.org/rhea/21741"/>
+                  <rdf:li rdf:resource="http://identifiers.org/rhea/21740"/>
+                  <rdf:li rdf:resource="http://identifiers.org/rhea/21743"/>
+                  <rdf:li rdf:resource="http://identifiers.org/rhea/21742"/>
+                  <rdf:li rdf:resource="http://identifiers.org/sabiork/2944"/>
+                  <rdf:li rdf:resource="http://identifiers.org/seed.reaction/rxn02230"/>
+                </rdf:Bag>
+              </bqbiol:is>
+            </rdf:Description>
+          </rdf:RDF>
+        </sbml:annotation>
+        <listOfReactants>
+          <speciesReference species="M_cyan_c" stoichiometry="1" constant="true"/>
+          <speciesReference species="M_mercppyr_c" stoichiometry="1" constant="true"/>
+        </listOfReactants>
+        <listOfProducts>
+          <speciesReference species="M_h_c" stoichiometry="1" constant="true"/>
+          <speciesReference species="M_pyr_c" stoichiometry="1" constant="true"/>
+          <speciesReference species="M_tcynt_c" stoichiometry="1" constant="true"/>
+        </listOfProducts>
+        <fbc:geneProductAssociation>
+          <fbc:geneProductRef fbc:geneProduct="G_b2521"/>
+        </fbc:geneProductAssociation>
+      </reaction>
+      <reaction id="R_XYLtex" fast="false" reversible="true" name="D-xylose transport via diffusion (extracellular to periplasm)" metaid="R_XYLtex" sboTerm="SBO:0000185" fbc:upperFluxBound="cobra_default_ub" fbc:lowerFluxBound="cobra_default_lb">
+        <sbml:annotation xmlns:sbml="http://www.sbml.org/sbml/level3/version1/core">
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+            <rdf:Description rdf:about="#R_XYLtex">
+              <bqbiol:is xmlns:bqbiol="http://biomodels.net/biology-qualifiers/">
+                <rdf:Bag>
+                  <rdf:li rdf:resource="http://identifiers.org/bigg.reaction/XYLtex"/>
+                  <rdf:li rdf:resource="http://identifiers.org/metanetx.reaction/MNXR105270"/>
+                  <rdf:li rdf:resource="http://identifiers.org/seed.reaction/rxn09385"/>
+                  <rdf:li rdf:resource="http://identifiers.org/seed.reaction/rxn09650"/>
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+        </sbml:annotation>
+        <listOfReactants>
+          <speciesReference species="M_xyl__D_e" stoichiometry="1" constant="true"/>
+        </listOfReactants>
+        <listOfProducts>
+          <speciesReference species="M_xyl__D_p" stoichiometry="1" constant="true"/>
+        </listOfProducts>
+        <fbc:geneProductAssociation>
+          <fbc:or>
+            <fbc:geneProductRef fbc:geneProduct="G_b0241"/>
+            <fbc:geneProductRef fbc:geneProduct="G_b0929"/>
+            <fbc:geneProductRef fbc:geneProduct="G_b1377"/>
+            <fbc:geneProductRef fbc:geneProduct="G_b2215"/>
+          </fbc:or>
+        </fbc:geneProductAssociation>
+      </reaction>
+      <reaction id="R_PPPNtex" fast="false" reversible="true" name="3-phenylpropionate transport via diffusion (extracellular to periplasm)" metaid="R_PPPNtex" sboTerm="SBO:0000185" fbc:upperFluxBound="cobra_default_ub" fbc:lowerFluxBound="cobra_default_lb">
+        <sbml:annotation xmlns:sbml="http://www.sbml.org/sbml/level3/version1/core">
+          <rdf:RDF xmlns:rdf="http://www.w3.org/1999/02/22-rdf-syntax-ns#">
+            <rdf:Description rdf:about="#R_PPPNtex">
+              <bqbiol:is xmlns:bqbiol="http://biomodels.net/biology-qualifiers/">
+                <rdf:Bag>
+                  <rdf:li rdf:resource="http://identifiers.org/bigg.reaction/PPPNtex"/>
+                  <rdf:li rdf:resource="http://identifiers.org/biocyc/META:TRANS-RXN0-282"/>
+                  <rdf:li rdf:resource="http://identifiers.org/metanetx.reaction/MNXR103136"/>
+                  <rdf:li rdf:resource="http://identifiers.org/rhea/29748"/>
+                  <rdf:li rdf:resource="http://identifiers.org/rhea/29750"/>
+                  <rdf:li rdf:resource="http://identifiers.org/rhea/29749"/>
+                  <rdf:li rdf:resource="http://identifiers.org/rhea/29747"/>
+                  <rdf:li rdf:resource="http://identifiers.org/seed.reaction/rxn09183"/>
+                </rdf:Bag>
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+            </rdf:Description>
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+        </sbml:annotation>
+        <listOfReactants>
+          <speciesReference species="M_pppn_e" stoichiometry="1" constant="true"/>
+        </listOfReactants>
+        <listOfProducts>
+          <speciesReference species="M_pppn_p" stoichiometry="1" constant="true"/>
+        </listOfProducts>
+        <fbc:geneProductAssociation>
+          <fbc:or>
+            <fbc:geneProductRef fbc:geneProduct="G_b0241"/>
+            <fbc:geneProductRef fbc:geneProduct="G_b0929"/>
+            <fbc:geneProductRef fbc:geneProduct="G_b1377"/>
+            <fbc:geneProductRef fbc:geneProduct="G_b2215"/>
+          </fbc:or>
+        </fbc:geneProductAssociation>
+      </reaction>
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+        <sbml:annotation xmlns:sbml="http://www.sbml.org/sbml/level3/version1/core">
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+            <rdf:Description rdf:about="#R_ABUTtex">
+              <bqbiol:is xmlns:bqbiol="http://biomodels.net/biology-qualifiers/">
+                <rdf:Bag>
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+                  <rdf:li rdf:resource="http://identifiers.org/metanetx.reaction/MNXR94993"/>
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+                  <rdf:li rdf:resource="http://identifiers.org/reactome.reaction/R-DRE-888592"/>
+                  <rdf:li rdf:resource="http://identifiers.org/reactome.reaction/R-OSA-888592"/>
+                  <rdf:li rdf:resource="http://identifiers.org/reactome.reaction/R-GGA-888592"/>
+                  <rdf:li rdf:resource="http://identifiers.org/reactome.reaction/R-SSC-888592"/>
+                  <rdf:li rdf:resource="http://identifiers.org/reactome.reaction/R-DME-888592"/>
+                  <rdf:li rdf:resource="http://identifiers.org/reactome.reaction/R-CFA-888592"/>
+                  <rdf:li rdf:resource="http://identifiers.org/reactome.reaction/R-BTA-888592"/>
+                  <rdf:li rdf:resource="http://identifiers.org/reactome.reaction/R-RNO-888592"/>
+                  <rdf:li rdf:resource="http://identifiers.org/reactome.reaction/R-SCE-888592"/>
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+                  <rdf:li rdf:resource="http://identifiers.org/reactome.reaction/R-ATH-888592"/>
+                  <rdf:li rdf:resource="http://identifiers.org/reactome.reaction/R-MMU-888592"/>
+                  <rdf:li rdf:resource="http://identifiers.org/reactome.reaction/R-HSA-888592"/>
+                  <rdf:li rdf:resource="http://identifiers.org/reactome.reaction/R-CEL-888592"/>
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+                  <rdf:li rdf:resource="http://identifiers.org/rhea/35036"/>
+                  <rdf:li rdf:resource="http://identifiers.org/rhea/35037"/>
+                  <rdf:li rdf:resource="http://identifiers.org/rhea/35038"/>
+                  <rdf:li rdf:resource="http://identifiers.org/sabiork/13098"/>
+                  <rdf:li rdf:resource="http://identifiers.org/seed.reaction/rxn08028"/>
+                  <rdf:li rdf:resource="http://identifiers.org/seed.reaction/rxn11326"/>
+                  <rdf:li rdf:resource="http://identifiers.org/seed.reaction/rxn09795"/>
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+            </rdf:Description>
+          </rdf:RDF>
+        </sbml:annotation>
+        <listOfReactants>
+          <speciesReference species="M_4abut_e" stoichiometry="1" constant="true"/>
+        </listOfReactants>
+        <listOfProducts>
+          <speciesReference species="M_4abut_p" stoichiometry="1" constant="true"/>
+        </listOfProducts>
+        <fbc:geneProductAssociation>
+          <fbc:or>
+            <fbc:geneProductRef fbc:geneProduct="G_b0241"/>
+            <fbc:geneProductRef fbc:geneProduct="G_b0929"/>
+            <fbc:geneProductRef fbc:geneProduct="G_b1377"/>
+            <fbc:geneProductRef fbc:geneProduct="G_b2215"/>
+          </fbc:or>
+        </fbc:geneProductAssociation>
+      </reaction>
+      <reaction id="R_FORtppi" fast="false" reversible="false" name="Formate transport via diffusion (cytoplasm to periplasm)" metaid="R_FORtppi" sboTerm="SBO:0000185" fbc:upperFluxBound="cobra_default_ub" fbc:lowerFluxBound="cobra_0_bound">
+        <sbml:annotation xmlns:sbml="http://www.sbml.org/sbml/level3/version1/core">
+          <rdf:RDF xmlns:rdf="http://www.w3.org/1999/02/22-rdf-syntax-ns#">
+            <rdf:Description rdf:about="#R_FORtppi">
+              <bqbiol:is xmlns:bqbiol="http://biomodels.net/biology-qualifiers/">
+                <rdf:Bag>
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+                  <rdf:li rdf:resource="http://identifiers.org/biocyc/META:TRANS-RXN-1"/>
+                  <rdf:li rdf:resource="http://identifiers.org/metanetx.reaction/MNXR99620"/>
+                  <rdf:li rdf:resource="http://identifiers.org/reactome.reaction/R-HSA-6803255"/>
+                  <rdf:li rdf:resource="http://identifiers.org/rhea/29681"/>
+                  <rdf:li rdf:resource="http://identifiers.org/rhea/29680"/>
+                  <rdf:li rdf:resource="http://identifiers.org/rhea/29682"/>
+                  <rdf:li rdf:resource="http://identifiers.org/rhea/29679"/>
+                  <rdf:li rdf:resource="http://identifiers.org/sabiork/12483"/>
+                  <rdf:li rdf:resource="http://identifiers.org/seed.reaction/rxn09754"/>
+                  <rdf:li rdf:resource="http://identifiers.org/seed.reaction/rxn08525"/>
+                  <rdf:li rdf:resource="http://identifiers.org/seed.reaction/rxn09682"/>
+                  <rdf:li rdf:resource="http://identifiers.org/seed.reaction/rxn08526"/>
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+            </rdf:Description>
+          </rdf:RDF>
+        </sbml:annotation>
+        <listOfReactants>
+          <speciesReference species="M_for_c" stoichiometry="1" constant="true"/>
+        </listOfReactants>
+        <listOfProducts>
+          <speciesReference species="M_for_p" stoichiometry="1" constant="true"/>
+        </listOfProducts>
+        <fbc:geneProductAssociation>
+          <fbc:or>
+            <fbc:geneProductRef fbc:geneProduct="G_b0904"/>
+            <fbc:geneProductRef fbc:geneProduct="G_b2492"/>
+          </fbc:or>
+        </fbc:geneProductAssociation>
+      </reaction>
+      <reaction id="R_PHEMEabcpp" fast="false" reversible="false" name="Protoheme transport via ABC system (periplasm)" metaid="R_PHEMEabcpp" sboTerm="SBO:0000185" fbc:upperFluxBound="cobra_default_ub" fbc:lowerFluxBound="cobra_0_bound">
+        <sbml:annotation xmlns:sbml="http://www.sbml.org/sbml/level3/version1/core">
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+            <rdf:Description rdf:about="#R_PHEMEabcpp">
+              <bqbiol:is xmlns:bqbiol="http://biomodels.net/biology-qualifiers/">
+                <rdf:Bag>
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+                  <rdf:li rdf:resource="http://identifiers.org/ec-code/3.6.3.41"/>
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+                  <rdf:li rdf:resource="http://identifiers.org/reactome.reaction/R-DDI-382560"/>
+                  <rdf:li rdf:resource="http://identifiers.org/reactome.reaction/R-CEL-382560"/>
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+                  <rdf:li rdf:resource="http://identifiers.org/reactome.reaction/R-MMU-382560"/>
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+                  <rdf:li rdf:resource="http://identifiers.org/reactome.reaction/R-TGU-382560"/>
+                  <rdf:li rdf:resource="http://identifiers.org/reactome.reaction/R-ATH-917979"/>
+                  <rdf:li rdf:resource="http://identifiers.org/reactome.reaction/R-BTA-917979"/>
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+                  <rdf:li rdf:resource="http://identifiers.org/rhea/19262#1"/>
+                  <rdf:li rdf:resource="http://identifiers.org/rhea/19264#1"/>
+                  <rdf:li rdf:resource="http://identifiers.org/rhea/19263#1"/>
+                </rdf:Bag>
+              </bqbiol:is>
+            </rdf:Description>
+          </rdf:RDF>
+        </sbml:annotation>
+        <listOfReactants>
+          <speciesReference species="M_atp_c" stoichiometry="1" constant="true"/>
+          <speciesReference species="M_h2o_c" stoichiometry="1" constant="true"/>
+          <speciesReference species="M_pheme_c" stoichiometry="1" constant="true"/>
+        </listOfReactants>
+        <listOfProducts>
+          <speciesReference species="M_adp_c" stoichiometry="1" constant="true"/>
+          <speciesReference species="M_h_c" stoichiometry="1" constant="true"/>
+          <speciesReference species="M_pheme_p" stoichiometry="1" constant="true"/>
+          <speciesReference species="M_pi_c" stoichiometry="1" constant="true"/>
+        </listOfProducts>
+        <fbc:geneProductAssociation>
+          <fbc:and>
+            <fbc:geneProductRef fbc:geneProduct="G_b2198"/>
+            <fbc:geneProductRef fbc:geneProduct="G_b2199"/>
+            <fbc:geneProductRef fbc:geneProduct="G_b2197"/>
+            <fbc:geneProductRef fbc:geneProduct="G_b2200"/>
+            <fbc:geneProductRef fbc:geneProduct="G_b2201"/>
+          </fbc:and>
+        </fbc:geneProductAssociation>
+      </reaction>
+      <reaction id="R_METSOX1abcpp" fast="false" reversible="false" name="L-methionine S-oxide transport via ABC system (periplasm)" metaid="R_METSOX1abcpp" sboTerm="SBO:0000185" fbc:upperFluxBound="cobra_default_ub" fbc:lowerFluxBound="cobra_0_bound">
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+              <bqbiol:is xmlns:bqbiol="http://biomodels.net/biology-qualifiers/">
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+                  <rdf:li rdf:resource="http://identifiers.org/biocyc/META:TRANS-RXN0-511"/>
+                  <rdf:li rdf:resource="http://identifiers.org/metanetx.reaction/MNXR101482"/>
+                  <rdf:li rdf:resource="http://identifiers.org/seed.reaction/rxn08914"/>
+                  <rdf:li rdf:resource="http://identifiers.org/seed.reaction/rxn05613"/>
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+        </sbml:annotation>
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+          <speciesReference species="M_h2o_c" stoichiometry="1" constant="true"/>
+          <speciesReference species="M_metsox_S__L_p" stoichiometry="1" constant="true"/>
+        </listOfReactants>
+        <listOfProducts>
+          <speciesReference species="M_adp_c" stoichiometry="1" constant="true"/>
+          <speciesReference species="M_h_c" stoichiometry="1" constant="true"/>
+          <speciesReference species="M_metsox_S__L_c" stoichiometry="1" constant="true"/>
+          <speciesReference species="M_pi_c" stoichiometry="1" constant="true"/>
+        </listOfProducts>
+      </reaction>
+      <reaction id="R_PPTtex" fast="false" reversible="true" name="Phosphonate transport via diffusion (extracellular to periplasm)" metaid="R_PPTtex" sboTerm="SBO:0000185" fbc:upperFluxBound="cobra_default_ub" fbc:lowerFluxBound="cobra_default_lb">
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+              <bqbiol:is xmlns:bqbiol="http://biomodels.net/biology-qualifiers/">
+                <rdf:Bag>
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+                  <rdf:li rdf:resource="http://identifiers.org/metanetx.reaction/MNXR103151"/>
+                  <rdf:li rdf:resource="http://identifiers.org/seed.reaction/rxn09185"/>
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+              </bqbiol:is>
+            </rdf:Description>
+          </rdf:RDF>
+        </sbml:annotation>
+        <listOfReactants>
+          <speciesReference species="M_ppt_e" stoichiometry="1" constant="true"/>
+        </listOfReactants>
+        <listOfProducts>
+          <speciesReference species="M_ppt_p" stoichiometry="1" constant="true"/>
+        </listOfProducts>
+        <fbc:geneProductAssociation>
+          <fbc:or>
+            <fbc:geneProductRef fbc:geneProduct="G_b0241"/>
+            <fbc:geneProductRef fbc:geneProduct="G_b0929"/>
+            <fbc:geneProductRef fbc:geneProduct="G_b1377"/>
+            <fbc:geneProductRef fbc:geneProduct="G_b2215"/>
+          </fbc:or>
+        </fbc:geneProductAssociation>
+      </reaction>
+      <reaction id="R_GALBDtex" fast="false" reversible="true" name="Beta D-galactose transport via diffusion (extracellular to periplasm)" metaid="R_GALBDtex" sboTerm="SBO:0000185" fbc:upperFluxBound="cobra_default_ub" fbc:lowerFluxBound="cobra_default_lb">
+        <sbml:annotation xmlns:sbml="http://www.sbml.org/sbml/level3/version1/core">
+          <rdf:RDF xmlns:rdf="http://www.w3.org/1999/02/22-rdf-syntax-ns#">
+            <rdf:Description rdf:about="#R_GALBDtex">
+              <bqbiol:is xmlns:bqbiol="http://biomodels.net/biology-qualifiers/">
+                <rdf:Bag>
+                  <rdf:li rdf:resource="http://identifiers.org/bigg.reaction/GALBDtex"/>
+                  <rdf:li rdf:resource="http://identifiers.org/metanetx.reaction/MNXR99953"/>
+                  <rdf:li rdf:resource="http://identifiers.org/seed.reaction/rxn08574"/>
+                </rdf:Bag>
+              </bqbiol:is>
+            </rdf:Description>
+          </rdf:RDF>
+        </sbml:annotation>
+        <listOfReactants>
+          <speciesReference species="M_gal_bD_e" stoichiometry="1" constant="true"/>
+        </listOfReactants>
+        <listOfProducts>
+          <speciesReference species="M_gal_bD_p" stoichiometry="1" constant="true"/>
+        </listOfProducts>
+        <fbc:geneProductAssociation>
+          <fbc:or>
+            <fbc:geneProductRef fbc:geneProduct="G_b2215"/>
+            <fbc:geneProductRef fbc:geneProduct="G_b0241"/>
+            <fbc:geneProductRef fbc:geneProduct="G_b0929"/>
+            <fbc:geneProductRef fbc:geneProduct="G_b1377"/>
+          </fbc:or>
+        </fbc:geneProductAssociation>
+      </reaction>
+      <reaction id="R_LIPAHT2ex" fast="false" reversible="false" name="Core oligosaccharide lipid A:hexadecanoate transferase (n-C16:0) (extracellular membrane)" metaid="R_LIPAHT2ex" sboTerm="SBO:0000176" fbc:upperFluxBound="cobra_default_ub" fbc:lowerFluxBound="cobra_0_bound">
+        <sbml:annotation xmlns:sbml="http://www.sbml.org/sbml/level3/version1/core">
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+            <rdf:Description rdf:about="#R_LIPAHT2ex">
+              <bqbiol:is xmlns:bqbiol="http://biomodels.net/biology-qualifiers/">
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+                  <rdf:li rdf:resource="http://identifiers.org/metanetx.reaction/MNXR101078"/>
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+              </bqbiol:is>
+            </rdf:Description>
+          </rdf:RDF>
+        </sbml:annotation>
+        <listOfReactants>
+          <speciesReference species="M_colipa_e" stoichiometry="1" constant="true"/>
+          <speciesReference species="M_h_e" stoichiometry="1" constant="true"/>
+          <speciesReference species="M_hdca_e" stoichiometry="1" constant="true"/>
+        </listOfReactants>
+        <listOfProducts>
+          <speciesReference species="M_h2o_e" stoichiometry="1" constant="true"/>
+          <speciesReference species="M_hacolipa_e" stoichiometry="1" constant="true"/>
+        </listOfProducts>
+        <fbc:geneProductAssociation>
+          <fbc:geneProductRef fbc:geneProduct="G_b0622"/>
+        </fbc:geneProductAssociation>
+      </reaction>
+      <reaction id="R_DATPHs" fast="false" reversible="false" name="DATP amine hydrolysis (spontaneous)" metaid="R_DATPHs" sboTerm="SBO:0000176" fbc:upperFluxBound="cobra_default_ub" fbc:lowerFluxBound="cobra_0_bound">
+        <sbml:annotation xmlns:sbml="http://www.sbml.org/sbml/level3/version1/core">
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+            <rdf:Description rdf:about="#R_DATPHs">
+              <bqbiol:is xmlns:bqbiol="http://biomodels.net/biology-qualifiers/">
+                <rdf:Bag>
+                  <rdf:li rdf:resource="http://identifiers.org/bigg.reaction/DATPHs"/>
+                  <rdf:li rdf:resource="http://identifiers.org/metanetx.reaction/MNXR97174"/>
+                  <rdf:li rdf:resource="http://identifiers.org/seed.reaction/rxn08313"/>
+                </rdf:Bag>
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+          </rdf:RDF>
+        </sbml:annotation>
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+          <speciesReference species="M_datp_c" stoichiometry="1" constant="true"/>
+          <speciesReference species="M_h2o_c" stoichiometry="1" constant="true"/>
+          <speciesReference species="M_h_c" stoichiometry="1" constant="true"/>
+        </listOfReactants>
+        <listOfProducts>
+          <speciesReference species="M_ditp_c" stoichiometry="1" constant="true"/>
+          <speciesReference species="M_nh4_c" stoichiometry="1" constant="true"/>
+        </listOfProducts>
+        <fbc:geneProductAssociation>
+          <fbc:geneProductRef fbc:geneProduct="G_s0001"/>
+        </fbc:geneProductAssociation>
+      </reaction>
+      <reaction id="R_GLCTR1" fast="false" reversible="false" name="Glucosyltransferase I (LPS core synthesis)" metaid="R_GLCTR1" sboTerm="SBO:0000176" fbc:upperFluxBound="cobra_default_ub" fbc:lowerFluxBound="cobra_0_bound">
+        <sbml:annotation xmlns:sbml="http://www.sbml.org/sbml/level3/version1/core">
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+            <rdf:Description rdf:about="#R_GLCTR1">
+              <bqbiol:is xmlns:bqbiol="http://biomodels.net/biology-qualifiers/">
+                <rdf:Bag>
+                  <rdf:li rdf:resource="http://identifiers.org/bigg.reaction/GLCTR1"/>
+                  <rdf:li rdf:resource="http://identifiers.org/metanetx.reaction/MNXR143137"/>
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+              </bqbiol:is>
+            </rdf:Description>
+          </rdf:RDF>
+        </sbml:annotation>
+        <listOfReactants>
+          <speciesReference species="M_icolipa_c" stoichiometry="1" constant="true"/>
+          <speciesReference species="M_udpg_c" stoichiometry="1" constant="true"/>
+        </listOfReactants>
+        <listOfProducts>
+          <speciesReference species="M_gicolipa_c" stoichiometry="1" constant="true"/>
+          <speciesReference species="M_h_c" stoichiometry="1" constant="true"/>
+          <speciesReference species="M_udp_c" stoichiometry="1" constant="true"/>
+        </listOfProducts>
+        <fbc:geneProductAssociation>
+          <fbc:geneProductRef fbc:geneProduct="G_b3631"/>
+        </fbc:geneProductAssociation>
+      </reaction>
+      <reaction id="R_LIPAabcpp" fast="false" reversible="false" name="Lipid A transport via ABC system (periplasm)" metaid="R_LIPAabcpp" sboTerm="SBO:0000185" fbc:upperFluxBound="cobra_default_ub" fbc:lowerFluxBound="cobra_0_bound">
+        <sbml:annotation xmlns:sbml="http://www.sbml.org/sbml/level3/version1/core">
+          <rdf:RDF xmlns:rdf="http://www.w3.org/1999/02/22-rdf-syntax-ns#">
+            <rdf:Description rdf:about="#R_LIPAabcpp">
+              <bqbiol:is xmlns:bqbiol="http://biomodels.net/biology-qualifiers/">
+                <rdf:Bag>
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+                  <rdf:li rdf:resource="http://identifiers.org/metanetx.reaction/MNXR101082"/>
+                  <rdf:li rdf:resource="http://identifiers.org/rhea/35251#1"/>
+                  <rdf:li rdf:resource="http://identifiers.org/rhea/35254#1"/>
+                  <rdf:li rdf:resource="http://identifiers.org/rhea/35253#1"/>
+                  <rdf:li rdf:resource="http://identifiers.org/rhea/35252#1"/>
+                  <rdf:li rdf:resource="http://identifiers.org/seed.reaction/rxn08787"/>
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+            </rdf:Description>
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+        </sbml:annotation>
+        <listOfReactants>
+          <speciesReference species="M_atp_c" stoichiometry="1" constant="true"/>
+          <speciesReference species="M_h2o_c" stoichiometry="1" constant="true"/>
+          <speciesReference species="M_lipa_c" stoichiometry="1" constant="true"/>
+        </listOfReactants>
+        <listOfProducts>
+          <speciesReference species="M_adp_c" stoichiometry="1" constant="true"/>
+          <speciesReference species="M_h_c" stoichiometry="1" constant="true"/>
+          <speciesReference species="M_lipa_p" stoichiometry="1" constant="true"/>
+          <speciesReference species="M_pi_c" stoichiometry="1" constant="true"/>
+        </listOfProducts>
+        <fbc:geneProductAssociation>
+          <fbc:geneProductRef fbc:geneProduct="G_b0914"/>
+        </fbc:geneProductAssociation>
+      </reaction>
+      <reaction id="R_LIPAHTex" fast="false" reversible="false" name="Lipid A:hexadecanoate transferase (n-C16:0) (extracellular membrane)" metaid="R_LIPAHTex" sboTerm="SBO:0000176" fbc:upperFluxBound="cobra_default_ub" fbc:lowerFluxBound="cobra_0_bound">
+        <sbml:annotation xmlns:sbml="http://www.sbml.org/sbml/level3/version1/core">
+          <rdf:RDF xmlns:rdf="http://www.w3.org/1999/02/22-rdf-syntax-ns#">
+            <rdf:Description rdf:about="#R_LIPAHTex">
+              <bqbiol:is xmlns:bqbiol="http://biomodels.net/biology-qualifiers/">
+                <rdf:Bag>
+                  <rdf:li rdf:resource="http://identifiers.org/bigg.reaction/LIPAHTex"/>
+                  <rdf:li rdf:resource="http://identifiers.org/metanetx.reaction/MNXR101079"/>
+                  <rdf:li rdf:resource="http://identifiers.org/seed.reaction/rxn08790"/>
+                </rdf:Bag>
+              </bqbiol:is>
+            </rdf:Description>
+          </rdf:RDF>
+        </sbml:annotation>
+        <listOfReactants>
+          <speciesReference species="M_h_e" stoichiometry="1" constant="true"/>
+          <speciesReference species="M_hdca_e" stoichiometry="1" constant="true"/>
+          <speciesReference species="M_lipa_e" stoichiometry="1" constant="true"/>
+        </listOfReactants>
+        <listOfProducts>
+          <speciesReference species="M_h2o_e" stoichiometry="1" constant="true"/>
+          <speciesReference species="M_halipa_e" stoichiometry="1" constant="true"/>
+        </listOfProducts>
+        <fbc:geneProductAssociation>
+          <fbc:geneProductRef fbc:geneProduct="G_b0622"/>
+        </fbc:geneProductAssociation>
+      </reaction>
+      <reaction id="R_LIPACabcpp" fast="false" reversible="false" name="Lipid (cold) A transport via ABC system (periplasm)" metaid="R_LIPACabcpp" sboTerm="SBO:0000185" fbc:upperFluxBound="cobra_default_ub" fbc:lowerFluxBound="cobra_0_bound">
+        <sbml:annotation xmlns:sbml="http://www.sbml.org/sbml/level3/version1/core">
+          <rdf:RDF xmlns:rdf="http://www.w3.org/1999/02/22-rdf-syntax-ns#">
+            <rdf:Description rdf:about="#R_LIPACabcpp">
+              <bqbiol:is xmlns:bqbiol="http://biomodels.net/biology-qualifiers/">
+                <rdf:Bag>
+                  <rdf:li rdf:resource="http://identifiers.org/bigg.reaction/LIPACabcpp"/>
+                  <rdf:li rdf:resource="http://identifiers.org/metanetx.reaction/MNXR101077"/>
+                  <rdf:li rdf:resource="http://identifiers.org/seed.reaction/rxn08788"/>
+                </rdf:Bag>
+              </bqbiol:is>
+            </rdf:Description>
+          </rdf:RDF>
+        </sbml:annotation>
+        <listOfReactants>
+          <speciesReference species="M_atp_c" stoichiometry="1" constant="true"/>
+          <speciesReference species="M_h2o_c" stoichiometry="1" constant="true"/>
+          <speciesReference species="M_lipa_cold_c" stoichiometry="1" constant="true"/>
+        </listOfReactants>
+        <listOfProducts>
+          <speciesReference species="M_adp_c" stoichiometry="1" constant="true"/>
+          <speciesReference species="M_h_c" stoichiometry="1" constant="true"/>
+          <speciesReference species="M_lipa_cold_p" stoichiometry="1" constant="true"/>
+          <speciesReference species="M_pi_c" stoichiometry="1" constant="true"/>
+        </listOfProducts>
+        <fbc:geneProductAssociation>
+          <fbc:geneProductRef fbc:geneProduct="G_b0914"/>
+        </fbc:geneProductAssociation>
+      </reaction>
+      <reaction id="R_ECAP1pp" fast="false" reversible="false" name="Enterobacterial common antigen polymerase (periplasm)" metaid="R_ECAP1pp" sboTerm="SBO:0000176" fbc:upperFluxBound="cobra_default_ub" fbc:lowerFluxBound="cobra_0_bound">
+        <sbml:annotation xmlns:sbml="http://www.sbml.org/sbml/level3/version1/core">
+          <rdf:RDF xmlns:rdf="http://www.w3.org/1999/02/22-rdf-syntax-ns#">
+            <rdf:Description rdf:about="#R_ECAP1pp">
+              <bqbiol:is xmlns:bqbiol="http://biomodels.net/biology-qualifiers/">
+                <rdf:Bag>
+                  <rdf:li rdf:resource="http://identifiers.org/bigg.reaction/ECAP1pp"/>
+                  <rdf:li rdf:resource="http://identifiers.org/metanetx.reaction/MNXR97874"/>
+                </rdf:Bag>
+              </bqbiol:is>
+            </rdf:Description>
+          </rdf:RDF>
+        </sbml:annotation>
+        <listOfReactants>
+          <speciesReference species="M_unagamuf_p" stoichiometry="2" constant="true"/>
+        </listOfReactants>
+        <listOfProducts>
+          <speciesReference species="M_eca2und_p" stoichiometry="1" constant="true"/>
+          <speciesReference species="M_h_p" stoichiometry="1" constant="true"/>
+          <speciesReference species="M_udcpdp_p" stoichiometry="1" constant="true"/>
+        </listOfProducts>
+        <fbc:geneProductAssociation>
+          <fbc:and>
+            <fbc:geneProductRef fbc:geneProduct="G_b3785"/>
+            <fbc:geneProductRef fbc:geneProduct="G_b3793"/>
+          </fbc:and>
+        </fbc:geneProductAssociation>
+      </reaction>
+      <reaction id="R_PTRCtex" fast="false" reversible="true" name="Putrescine transport via diffusion (extracellular to periplasm)" metaid="R_PTRCtex" sboTerm="SBO:0000185" fbc:upperFluxBound="cobra_default_ub" fbc:lowerFluxBound="cobra_default_lb">
+        <sbml:annotation xmlns:sbml="http://www.sbml.org/sbml/level3/version1/core">
+          <rdf:RDF xmlns:rdf="http://www.w3.org/1999/02/22-rdf-syntax-ns#">
+            <rdf:Description rdf:about="#R_PTRCtex">
+              <bqbiol:is xmlns:bqbiol="http://biomodels.net/biology-qualifiers/">
+                <rdf:Bag>
+                  <rdf:li rdf:resource="http://identifiers.org/bigg.reaction/PTRCtex"/>
+                  <rdf:li rdf:resource="http://identifiers.org/metanetx.reaction/MNXR103339"/>
+                  <rdf:li rdf:resource="http://identifiers.org/seed.reaction/rxn09216"/>
+                  <rdf:li rdf:resource="http://identifiers.org/seed.reaction/rxn13393"/>
+                </rdf:Bag>
+              </bqbiol:is>
+            </rdf:Description>
+          </rdf:RDF>
+        </sbml:annotation>
+        <listOfReactants>
+          <speciesReference species="M_ptrc_e" stoichiometry="1" constant="true"/>
+        </listOfReactants>
+        <listOfProducts>
+          <speciesReference species="M_ptrc_p" stoichiometry="1" constant="true"/>
+        </listOfProducts>
+        <fbc:geneProductAssociation>
+          <fbc:or>
+            <fbc:geneProductRef fbc:geneProduct="G_b0241"/>
+            <fbc:geneProductRef fbc:geneProduct="G_b0929"/>
+            <fbc:geneProductRef fbc:geneProduct="G_b1377"/>
+            <fbc:geneProductRef fbc:geneProduct="G_b2215"/>
+          </fbc:or>
+        </fbc:geneProductAssociation>
+      </reaction>
+      <reaction id="R_UDCPDPpp" fast="false" reversible="false" name="Undecaprenyl-diphosphatase (periplasm)" metaid="R_UDCPDPpp" sboTerm="SBO:0000176" fbc:upperFluxBound="cobra_default_ub" fbc:lowerFluxBound="cobra_0_bound">
+        <sbml:annotation xmlns:sbml="http://www.sbml.org/sbml/level3/version1/core">
+          <rdf:RDF xmlns:rdf="http://www.w3.org/1999/02/22-rdf-syntax-ns#">
+            <rdf:Description rdf:about="#R_UDCPDPpp">
+              <bqbiol:is xmlns:bqbiol="http://biomodels.net/biology-qualifiers/">
+                <rdf:Bag>
+                  <rdf:li rdf:resource="http://identifiers.org/bigg.reaction/UDCPDPpp"/>
+                  <rdf:li rdf:resource="http://identifiers.org/metanetx.reaction/MNXR105042"/>
+                  <rdf:li rdf:resource="http://identifiers.org/rhea/17069"/>
+                  <rdf:li rdf:resource="http://identifiers.org/rhea/17070"/>
+                  <rdf:li rdf:resource="http://identifiers.org/rhea/17072"/>
+                  <rdf:li rdf:resource="http://identifiers.org/rhea/17071"/>
+                  <rdf:li rdf:resource="http://identifiers.org/sabiork/5225"/>
+                </rdf:Bag>
+              </bqbiol:is>
+            </rdf:Description>
+          </rdf:RDF>
+        </sbml:annotation>
+        <listOfReactants>
+          <speciesReference species="M_h2o_p" stoichiometry="1" constant="true"/>
+          <speciesReference species="M_udcpdp_p" stoichiometry="1" constant="true"/>
+        </listOfReactants>
+        <listOfProducts>
+          <speciesReference species="M_h_p" stoichiometry="1" constant="true"/>
+          <speciesReference species="M_pi_p" stoichiometry="1" constant="true"/>
+          <speciesReference species="M_udcpp_p" stoichiometry="1" constant="true"/>
+        </listOfProducts>
+        <fbc:geneProductAssociation>
+          <fbc:or>
+            <fbc:geneProductRef fbc:geneProduct="G_b1278"/>
+            <fbc:geneProductRef fbc:geneProduct="G_b3057"/>
+            <fbc:geneProductRef fbc:geneProduct="G_b0841"/>
+          </fbc:or>
+        </fbc:geneProductAssociation>
+      </reaction>
+      <reaction id="R_GGGABADr" fast="false" reversible="true" name="Gamma-glutamyl-gamma aminobutyric acid dehydrogenase" metaid="R_GGGABADr" sboTerm="SBO:0000176" fbc:upperFluxBound="cobra_default_ub" fbc:lowerFluxBound="cobra_default_lb">
+        <sbml:annotation xmlns:sbml="http://www.sbml.org/sbml/level3/version1/core">
+          <rdf:RDF xmlns:rdf="http://www.w3.org/1999/02/22-rdf-syntax-ns#">
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+              <bqbiol:is xmlns:bqbiol="http://biomodels.net/biology-qualifiers/">
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+                  <rdf:li rdf:resource="http://identifiers.org/ec-code/1.2.1.-"/>
+                  <rdf:li rdf:resource="http://identifiers.org/kegg.reaction/R07418"/>
+                  <rdf:li rdf:resource="http://identifiers.org/metanetx.reaction/MNXR100113"/>
+                  <rdf:li rdf:resource="http://identifiers.org/rhea/28410"/>
+                  <rdf:li rdf:resource="http://identifiers.org/rhea/28412"/>
+                  <rdf:li rdf:resource="http://identifiers.org/rhea/28411"/>
+                  <rdf:li rdf:resource="http://identifiers.org/rhea/28413"/>
+                  <rdf:li rdf:resource="http://identifiers.org/seed.reaction/rxn05127"/>
+                </rdf:Bag>
+              </bqbiol:is>
+            </rdf:Description>
+          </rdf:RDF>
+        </sbml:annotation>
+        <listOfReactants>
+          <speciesReference species="M_ggbutal_c" stoichiometry="1" constant="true"/>
+          <speciesReference species="M_h2o_c" stoichiometry="1" constant="true"/>
+          <speciesReference species="M_nadp_c" stoichiometry="1" constant="true"/>
+        </listOfReactants>
+        <listOfProducts>
+          <speciesReference species="M_gg4abut_c" stoichiometry="1" constant="true"/>
+          <speciesReference species="M_h_c" stoichiometry="2" constant="true"/>
+          <speciesReference species="M_nadph_c" stoichiometry="1" constant="true"/>
+        </listOfProducts>
+        <fbc:geneProductAssociation>
+          <fbc:geneProductRef fbc:geneProduct="G_b1300"/>
+        </fbc:geneProductAssociation>
+      </reaction>
+      <reaction id="R_EX_mso3_e" fast="false" reversible="false" name="Methanesulfonate exchange" metaid="R_EX_mso3_e" sboTerm="SBO:0000627" fbc:upperFluxBound="cobra_default_ub" fbc:lowerFluxBound="cobra_0_bound">
+        <sbml:annotation xmlns:sbml="http://www.sbml.org/sbml/level3/version1/core">
+          <rdf:RDF xmlns:rdf="http://www.w3.org/1999/02/22-rdf-syntax-ns#">
+            <rdf:Description rdf:about="#R_EX_mso3_e">
+              <bqbiol:is xmlns:bqbiol="http://biomodels.net/biology-qualifiers/">
+                <rdf:Bag>
+                  <rdf:li rdf:resource="http://identifiers.org/bigg.reaction/EX_mso3_e"/>
+                  <rdf:li rdf:resource="http://identifiers.org/metanetx.reaction/MNXR101742"/>
+                  <rdf:li rdf:resource="http://identifiers.org/seed.reaction/rxn08960"/>
+                </rdf:Bag>
+              </bqbiol:is>
+            </rdf:Description>
+          </rdf:RDF>
+        </sbml:annotation>
+        <listOfReactants>
+          <speciesReference species="M_mso3_e" stoichiometry="1" constant="true"/>
+        </listOfReactants>
+      </reaction>
+      <reaction id="R_EX_23camp_e" fast="false" reversible="false" name="2',3'-Cyclic AMP exchange" metaid="R_EX_23camp_e" sboTerm="SBO:0000627" fbc:upperFluxBound="cobra_default_ub" fbc:lowerFluxBound="cobra_0_bound">
+        <sbml:annotation xmlns:sbml="http://www.sbml.org/sbml/level3/version1/core">
+          <rdf:RDF xmlns:rdf="http://www.w3.org/1999/02/22-rdf-syntax-ns#">
+            <rdf:Description rdf:about="#R_EX_23camp_e">
+              <bqbiol:is xmlns:bqbiol="http://biomodels.net/biology-qualifiers/">
+                <rdf:Bag>
+                  <rdf:li rdf:resource="http://identifiers.org/bigg.reaction/EX_23camp_e"/>
+                  <rdf:li rdf:resource="http://identifiers.org/metanetx.reaction/MNXR94718"/>
+                  <rdf:li rdf:resource="http://identifiers.org/seed.reaction/rxn07925"/>
+                </rdf:Bag>
+              </bqbiol:is>
+            </rdf:Description>
+          </rdf:RDF>
+        </sbml:annotation>
+        <listOfReactants>
+          <speciesReference species="M_23camp_e" stoichiometry="1" constant="true"/>
+        </listOfReactants>
+      </reaction>
+      <reaction id="R_EX_23cgmp_e" fast="false" reversible="false" name="2',3'-Cyclic GMP exchange" metaid="R_EX_23cgmp_e" sboTerm="SBO:0000627" fbc:upperFluxBound="cobra_default_ub" fbc:lowerFluxBound="cobra_0_bound">
+        <sbml:annotation xmlns:sbml="http://www.sbml.org/sbml/level3/version1/core">
+          <rdf:RDF xmlns:rdf="http://www.w3.org/1999/02/22-rdf-syntax-ns#">
+            <rdf:Description rdf:about="#R_EX_23cgmp_e">
+              <bqbiol:is xmlns:bqbiol="http://biomodels.net/biology-qualifiers/">
+                <rdf:Bag>
+                  <rdf:li rdf:resource="http://identifiers.org/bigg.reaction/EX_23cgmp_e"/>
+                  <rdf:li rdf:resource="http://identifiers.org/metanetx.reaction/MNXR94721"/>
+                  <rdf:li rdf:resource="http://identifiers.org/seed.reaction/rxn07927"/>
+                </rdf:Bag>
+              </bqbiol:is>
+            </rdf:Description>
+          </rdf:RDF>
+        </sbml:annotation>
+        <listOfReactants>
+          <speciesReference species="M_23cgmp_e" stoichiometry="1" constant="true"/>
+        </listOfReactants>
+      </reaction>
+      <reaction id="R_EX_23cump_e" fast="false" reversible="false" name="2',3'-Cyclic UMP exchange" metaid="R_EX_23cump_e" sboTerm="SBO:0000627" fbc:upperFluxBound="cobra_default_ub" fbc:lowerFluxBound="cobra_0_bound">
+        <sbml:annotation xmlns:sbml="http://www.sbml.org/sbml/level3/version1/core">
+          <rdf:RDF xmlns:rdf="http://www.w3.org/1999/02/22-rdf-syntax-ns#">
+            <rdf:Description rdf:about="#R_EX_23cump_e">
+              <bqbiol:is xmlns:bqbiol="http://biomodels.net/biology-qualifiers/">
+                <rdf:Bag>
+                  <rdf:li rdf:resource="http://identifiers.org/bigg.reaction/EX_23cump_e"/>
+                  <rdf:li rdf:resource="http://identifiers.org/metanetx.reaction/MNXR94726"/>
+                  <rdf:li rdf:resource="http://identifiers.org/seed.reaction/rxn07928"/>
+                </rdf:Bag>
+              </bqbiol:is>
+            </rdf:Description>
+          </rdf:RDF>
+        </sbml:annotation>
+        <listOfReactants>
+          <speciesReference species="M_23cump_e" stoichiometry="1" constant="true"/>
+        </listOfReactants>
+      </reaction>
+      <reaction id="R_ECAP2pp" fast="false" reversible="false" name="Enterobacterial common antigen polymerase (periplasm)" metaid="R_ECAP2pp" sboTerm="SBO:0000176" fbc:upperFluxBound="cobra_default_ub" fbc:lowerFluxBound="cobra_0_bound">
+        <sbml:annotation xmlns:sbml="http://www.sbml.org/sbml/level3/version1/core">
+          <rdf:RDF xmlns:rdf="http://www.w3.org/1999/02/22-rdf-syntax-ns#">
+            <rdf:Description rdf:about="#R_ECAP2pp">
+              <bqbiol:is xmlns:bqbiol="http://biomodels.net/biology-qualifiers/">
+                <rdf:Bag>
+                  <rdf:li rdf:resource="http://identifiers.org/bigg.reaction/ECAP2pp"/>
+                  <rdf:li rdf:resource="http://identifiers.org/metanetx.reaction/MNXR142826"/>
+                </rdf:Bag>
+              </bqbiol:is>
+            </rdf:Description>
+          </rdf:RDF>
+        </sbml:annotation>
+        <listOfReactants>
+          <speciesReference species="M_eca2und_p" stoichiometry="1" constant="true"/>
+          <speciesReference species="M_unagamuf_p" stoichiometry="1" constant="true"/>
+        </listOfReactants>
+        <listOfProducts>
+          <speciesReference species="M_eca3und_p" stoichiometry="1" constant="true"/>
+          <speciesReference species="M_h_p" stoichiometry="1" constant="true"/>
+          <speciesReference species="M_udcpdp_p" stoichiometry="1" constant="true"/>
+        </listOfProducts>
+        <fbc:geneProductAssociation>
+          <fbc:and>
+            <fbc:geneProductRef fbc:geneProduct="G_b3785"/>
+            <fbc:geneProductRef fbc:geneProduct="G_b3793"/>
+          </fbc:and>
+        </fbc:geneProductAssociation>
+      </reaction>
+      <reaction id="R_ECA4OALpp" fast="false" reversible="false" name="Enterobacterial common antigen (x4) O-antigen ligase (periplasm)" metaid="R_ECA4OALpp" sboTerm="SBO:0000176" fbc:upperFluxBound="cobra_default_ub" fbc:lowerFluxBound="cobra_0_bound">
+        <sbml:annotation xmlns:sbml="http://www.sbml.org/sbml/level3/version1/core">
+          <rdf:RDF xmlns:rdf="http://www.w3.org/1999/02/22-rdf-syntax-ns#">
+            <rdf:Description rdf:about="#R_ECA4OALpp">
+              <bqbiol:is xmlns:bqbiol="http://biomodels.net/biology-qualifiers/">
+                <rdf:Bag>
+                  <rdf:li rdf:resource="http://identifiers.org/bigg.reaction/ECA4OALpp"/>
+                  <rdf:li rdf:resource="http://identifiers.org/metanetx.reaction/MNXR142825"/>
+                </rdf:Bag>
+              </bqbiol:is>
+            </rdf:Description>
+          </rdf:RDF>
+        </sbml:annotation>
+        <listOfReactants>
+          <speciesReference species="M_colipa_p" stoichiometry="1" constant="true"/>
+          <speciesReference species="M_eca4und_p" stoichiometry="1" constant="true"/>
+        </listOfReactants>
+        <listOfProducts>
+          <speciesReference species="M_eca4colipa_p" stoichiometry="1" constant="true"/>
+          <speciesReference species="M_h_p" stoichiometry="1" constant="true"/>
+          <speciesReference species="M_udcpdp_p" stoichiometry="1" constant="true"/>
+        </listOfProducts>
+        <fbc:geneProductAssociation>
+          <fbc:geneProductRef fbc:geneProduct="G_b3622"/>
+        </fbc:geneProductAssociation>
+      </reaction>
+      <reaction id="R_FE3Ri" fast="false" reversible="false" name="Fe(III) reduction" metaid="R_FE3Ri" sboTerm="SBO:0000176" fbc:upperFluxBound="cobra_default_ub" fbc:lowerFluxBound="cobra_0_bound">
+        <sbml:annotation xmlns:sbml="http://www.sbml.org/sbml/level3/version1/core">
+          <rdf:RDF xmlns:rdf="http://www.w3.org/1999/02/22-rdf-syntax-ns#">
+            <rdf:Description rdf:about="#R_FE3Ri">
+              <bqbiol:is xmlns:bqbiol="http://biomodels.net/biology-qualifiers/">
+                <rdf:Bag>
+                  <rdf:li rdf:resource="http://identifiers.org/bigg.reaction/FE3Ri"/>
+                  <rdf:li rdf:resource="http://identifiers.org/metanetx.reaction/MNXR99524"/>
+                  <rdf:li rdf:resource="http://identifiers.org/rhea/30155"/>
+                  <rdf:li rdf:resource="http://identifiers.org/rhea/30157"/>
+                  <rdf:li rdf:resource="http://identifiers.org/rhea/30158"/>
+                  <rdf:li rdf:resource="http://identifiers.org/rhea/30156"/>
+                  <rdf:li rdf:resource="http://identifiers.org/seed.reaction/rxn08491"/>
+                </rdf:Bag>
+              </bqbiol:is>
+            </rdf:Description>
+          </rdf:RDF>
+        </sbml:annotation>
+        <listOfReactants>
+          <speciesReference species="M_fadh2_c" stoichiometry="1" constant="true"/>
+          <speciesReference species="M_fe3_c" stoichiometry="2" constant="true"/>
+        </listOfReactants>
+        <listOfProducts>
+          <speciesReference species="M_fad_c" stoichiometry="1" constant="true"/>
+          <speciesReference species="M_fe2_c" stoichiometry="2" constant="true"/>
+          <speciesReference species="M_h_c" stoichiometry="2" constant="true"/>
+        </listOfProducts>
+        <fbc:geneProductAssociation>
+          <fbc:geneProductRef fbc:geneProduct="G_b3844"/>
+        </fbc:geneProductAssociation>
+      </reaction>
+      <reaction id="R_FE3HOXR3" fast="false" reversible="false" name="Fe(III)hydroxamate reductase" metaid="R_FE3HOXR3" sboTerm="SBO:0000176" fbc:upperFluxBound="cobra_default_ub" fbc:lowerFluxBound="cobra_0_bound">
+        <sbml:annotation xmlns:sbml="http://www.sbml.org/sbml/level3/version1/core">
+          <rdf:RDF xmlns:rdf="http://www.w3.org/1999/02/22-rdf-syntax-ns#">
+            <rdf:Description rdf:about="#R_FE3HOXR3">
+              <bqbiol:is xmlns:bqbiol="http://biomodels.net/biology-qualifiers/">
+                <rdf:Bag>
+                  <rdf:li rdf:resource="http://identifiers.org/bigg.reaction/FE3HOXR3"/>
+                  <rdf:li rdf:resource="http://identifiers.org/metanetx.reaction/MNXR99516"/>
+                  <rdf:li rdf:resource="http://identifiers.org/seed.reaction/rxn08487"/>
+                </rdf:Bag>
+              </bqbiol:is>
+            </rdf:Description>
+          </rdf:RDF>
+        </sbml:annotation>
+        <listOfReactants>
+          <speciesReference species="M_fe3hox_c" stoichiometry="2" constant="true"/>
+          <speciesReference species="M_rbflvrd_c" stoichiometry="1" constant="true"/>
+        </listOfReactants>
+        <listOfProducts>
+          <speciesReference species="M_fe2_c" stoichiometry="2" constant="true"/>
+          <speciesReference species="M_fe3hox_un_c" stoichiometry="2" constant="true"/>
+          <speciesReference species="M_h_c" stoichiometry="2" constant="true"/>
+          <speciesReference species="M_ribflv_c" stoichiometry="1" constant="true"/>
+        </listOfProducts>
+      </reaction>
+      <reaction id="R_FEENTERR1" fast="false" reversible="false" name="Fe-enterobactin reduction (Fe(III)-unloading)" metaid="R_FEENTERR1" sboTerm="SBO:0000176" fbc:upperFluxBound="cobra_default_ub" fbc:lowerFluxBound="cobra_0_bound">
+        <sbml:annotation xmlns:sbml="http://www.sbml.org/sbml/level3/version1/core">
+          <rdf:RDF xmlns:rdf="http://www.w3.org/1999/02/22-rdf-syntax-ns#">
+            <rdf:Description rdf:about="#R_FEENTERR1">
+              <bqbiol:is xmlns:bqbiol="http://biomodels.net/biology-qualifiers/">
+                <rdf:Bag>
+                  <rdf:li rdf:resource="http://identifiers.org/bigg.reaction/FEENTERR1"/>
+                  <rdf:li rdf:resource="http://identifiers.org/metanetx.reaction/MNXR99543"/>
+                </rdf:Bag>
+              </bqbiol:is>
+            </rdf:Description>
+          </rdf:RDF>
+        </sbml:annotation>
+        <listOfReactants>
+          <speciesReference species="M_fadh2_c" stoichiometry="1" constant="true"/>
+          <speciesReference species="M_feenter_c" stoichiometry="2" constant="true"/>
+        </listOfReactants>
+        <listOfProducts>
+          <speciesReference species="M_enter_c" stoichiometry="2" constant="true"/>
+          <speciesReference species="M_fad_c" stoichiometry="1" constant="true"/>
+          <speciesReference species="M_fe2_c" stoichiometry="2" constant="true"/>
+          <speciesReference species="M_h_c" stoichiometry="2" constant="true"/>
+        </listOfProducts>
+      </reaction>
+      <reaction id="R_NODOy" fast="false" reversible="false" name="Nitric oxide dioxygenase" metaid="R_NODOy" sboTerm="SBO:0000176" fbc:upperFluxBound="cobra_default_ub" fbc:lowerFluxBound="cobra_0_bound">
+        <sbml:annotation xmlns:sbml="http://www.sbml.org/sbml/level3/version1/core">
+          <rdf:RDF xmlns:rdf="http://www.w3.org/1999/02/22-rdf-syntax-ns#">
+            <rdf:Description rdf:about="#R_NODOy">
+              <bqbiol:is xmlns:bqbiol="http://biomodels.net/biology-qualifiers/">
+                <rdf:Bag>
+                  <rdf:li rdf:resource="http://identifiers.org/bigg.reaction/NODOy"/>
+                  <rdf:li rdf:resource="http://identifiers.org/ec-code/1.14.12.17"/>
+                  <rdf:li rdf:resource="http://identifiers.org/kegg.reaction/R05725"/>
+                  <rdf:li rdf:resource="http://identifiers.org/metanetx.reaction/MNXR101997"/>
+                  <rdf:li rdf:resource="http://identifiers.org/rhea/19465"/>
+                  <rdf:li rdf:resource="http://identifiers.org/rhea/19467"/>
+                  <rdf:li rdf:resource="http://identifiers.org/rhea/19466"/>
+                  <rdf:li rdf:resource="http://identifiers.org/rhea/19468"/>
+                </rdf:Bag>
+              </bqbiol:is>
+            </rdf:Description>
+          </rdf:RDF>
+        </sbml:annotation>
+        <listOfReactants>
+          <speciesReference species="M_nadph_c" stoichiometry="1" constant="true"/>
+          <speciesReference species="M_no_c" stoichiometry="2" constant="true"/>
+          <speciesReference species="M_o2_c" stoichiometry="2" constant="true"/>
+        </listOfReactants>
+        <listOfProducts>
+          <speciesReference species="M_h_c" stoichiometry="1" constant="true"/>
+          <speciesReference species="M_nadp_c" stoichiometry="1" constant="true"/>
+          <speciesReference species="M_no3_c" stoichiometry="2" constant="true"/>
+        </listOfProducts>
+        <fbc:geneProductAssociation>
+          <fbc:geneProductRef fbc:geneProduct="G_b2552"/>
+        </fbc:geneProductAssociation>
+      </reaction>
+      <reaction id="R_PYRtex" fast="false" reversible="true" name="Pyruvate transport via diffusion (extracellular to periplasm)" metaid="R_PYRtex" sboTerm="SBO:0000185" fbc:upperFluxBound="cobra_default_ub" fbc:lowerFluxBound="cobra_default_lb">
+        <sbml:annotation xmlns:sbml="http://www.sbml.org/sbml/level3/version1/core">
+          <rdf:RDF xmlns:rdf="http://www.w3.org/1999/02/22-rdf-syntax-ns#">
+            <rdf:Description rdf:about="#R_PYRtex">
+              <bqbiol:is xmlns:bqbiol="http://biomodels.net/biology-qualifiers/">
+                <rdf:Bag>
+                  <rdf:li rdf:resource="http://identifiers.org/bigg.reaction/PYRtex"/>
+                  <rdf:li rdf:resource="http://identifiers.org/biocyc/META:TRANS-RXN0-506"/>
+                  <rdf:li rdf:resource="http://identifiers.org/biocyc/META:TRANS-RXN0-570"/>
+                  <rdf:li rdf:resource="http://identifiers.org/metanetx.reaction/MNXR103384"/>
+                  <rdf:li rdf:resource="http://identifiers.org/sabiork/12168"/>
+                  <rdf:li rdf:resource="http://identifiers.org/seed.reaction/rxn10929"/>
+                  <rdf:li rdf:resource="http://identifiers.org/seed.reaction/rxn09218"/>
+                </rdf:Bag>
+              </bqbiol:is>
+            </rdf:Description>
+          </rdf:RDF>
+        </sbml:annotation>
+        <listOfReactants>
+          <speciesReference species="M_pyr_e" stoichiometry="1" constant="true"/>
+        </listOfReactants>
+        <listOfProducts>
+          <speciesReference species="M_pyr_p" stoichiometry="1" constant="true"/>
+        </listOfProducts>
+        <fbc:geneProductAssociation>
+          <fbc:or>
+            <fbc:geneProductRef fbc:geneProduct="G_b0241"/>
+            <fbc:geneProductRef fbc:geneProduct="G_b0929"/>
+            <fbc:geneProductRef fbc:geneProduct="G_b1377"/>
+            <fbc:geneProductRef fbc:geneProduct="G_b2215"/>
+          </fbc:or>
+        </fbc:geneProductAssociation>
+      </reaction>
+      <reaction id="R_GALM2pp" fast="false" reversible="false" name="Aldose-1-epimerase" metaid="R_GALM2pp" sboTerm="SBO:0000176" fbc:upperFluxBound="cobra_default_ub" fbc:lowerFluxBound="cobra_0_bound">
+        <sbml:annotation xmlns:sbml="http://www.sbml.org/sbml/level3/version1/core">
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+            <rdf:Description rdf:about="#R_GALM2pp">
+              <bqbiol:is xmlns:bqbiol="http://biomodels.net/biology-qualifiers/">
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+                  <rdf:li rdf:resource="http://identifiers.org/rhea/25793#1"/>
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+          <speciesReference species="M_h2o_c" stoichiometry="1" constant="true"/>
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+        <listOfProducts>
+          <speciesReference species="M_adp_c" stoichiometry="1" constant="true"/>
+          <speciesReference species="M_cu_p" stoichiometry="1" constant="true"/>
+          <speciesReference species="M_h_c" stoichiometry="1" constant="true"/>
+          <speciesReference species="M_pi_c" stoichiometry="1" constant="true"/>
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+          <speciesReference species="M_pi_c" stoichiometry="1" constant="true"/>
+        </listOfProducts>
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+          <fbc:geneProductRef fbc:geneProduct="G_b3469"/>
+        </fbc:geneProductAssociation>
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+          <speciesReference species="M_rbflvrd_c" stoichiometry="1" constant="true"/>
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+        <listOfProducts>
+          <speciesReference species="M_enter_c" stoichiometry="2" constant="true"/>
+          <speciesReference species="M_fe2_c" stoichiometry="2" constant="true"/>
+          <speciesReference species="M_h_c" stoichiometry="2" constant="true"/>
+          <speciesReference species="M_ribflv_c" stoichiometry="1" constant="true"/>
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+        <listOfProducts>
+          <speciesReference species="M_sulfac_p" stoichiometry="1" constant="true"/>
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+          <fbc:or>
+            <fbc:geneProductRef fbc:geneProduct="G_b1377"/>
+            <fbc:geneProductRef fbc:geneProduct="G_b2215"/>
+            <fbc:geneProductRef fbc:geneProduct="G_b0241"/>
+            <fbc:geneProductRef fbc:geneProduct="G_b0929"/>
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+        </fbc:geneProductAssociation>
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+          <speciesReference species="M_udpg_c" stoichiometry="1" constant="true"/>
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+        <listOfProducts>
+          <speciesReference species="M_gggagicolipa_c" stoichiometry="1" constant="true"/>
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+          <speciesReference species="M_udp_c" stoichiometry="1" constant="true"/>
+        </listOfProducts>
+        <fbc:geneProductAssociation>
+          <fbc:geneProductRef fbc:geneProduct="G_b3626"/>
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+          <speciesReference species="M_gggagicolipa_c" stoichiometry="1" constant="true"/>
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+          <speciesReference species="M_colipa_c" stoichiometry="1" constant="true"/>
+          <speciesReference species="M_h_c" stoichiometry="1" constant="true"/>
+        </listOfProducts>
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+          <fbc:geneProductRef fbc:geneProduct="G_b3623"/>
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+                  <rdf:li rdf:resource="http://identifiers.org/rhea/29456"/>
+                  <rdf:li rdf:resource="http://identifiers.org/rhea/29455"/>
+                  <rdf:li rdf:resource="http://identifiers.org/rhea/29458"/>
+                  <rdf:li rdf:resource="http://identifiers.org/seed.reaction/rxn08373"/>
+                  <rdf:li rdf:resource="http://identifiers.org/seed.reaction/rxn10965"/>
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+          <speciesReference species="M_ser__D_p" stoichiometry="1" constant="true"/>
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+            <fbc:geneProductRef fbc:geneProduct="G_b0929"/>
+            <fbc:geneProductRef fbc:geneProduct="G_b1377"/>
+            <fbc:geneProductRef fbc:geneProduct="G_b2215"/>
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+        </fbc:geneProductAssociation>
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+          <speciesReference species="M_udcpp_p" stoichiometry="1" constant="true"/>
+        </listOfProducts>
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+          <fbc:geneProductRef fbc:geneProduct="G_b2257"/>
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+          <speciesReference species="M_o2_c" stoichiometry="2" constant="true"/>
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+          <speciesReference species="M_h_c" stoichiometry="1" constant="true"/>
+          <speciesReference species="M_nad_c" stoichiometry="1" constant="true"/>
+          <speciesReference species="M_no3_c" stoichiometry="2" constant="true"/>
+        </listOfProducts>
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+          <fbc:geneProductRef fbc:geneProduct="G_b2552"/>
+        </fbc:geneProductAssociation>
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+                  <rdf:li rdf:resource="http://identifiers.org/reactome.reaction/R-CFA-8932980"/>
+                  <rdf:li rdf:resource="http://identifiers.org/reactome.reaction/R-SSC-8932980"/>
+                  <rdf:li rdf:resource="http://identifiers.org/reactome.reaction/R-MMU-8932980"/>
+                  <rdf:li rdf:resource="http://identifiers.org/reactome.reaction/R-RNO-8932980"/>
+                  <rdf:li rdf:resource="http://identifiers.org/reactome.reaction/R-BTA-8932980"/>
+                  <rdf:li rdf:resource="http://identifiers.org/reactome.reaction/R-DME-8932980"/>
+                  <rdf:li rdf:resource="http://identifiers.org/reactome.reaction/R-SPO-8932980"/>
+                  <rdf:li rdf:resource="http://identifiers.org/reactome.reaction/R-TGU-8932980"/>
+                  <rdf:li rdf:resource="http://identifiers.org/reactome.reaction/R-GGA-8932980"/>
+                  <rdf:li rdf:resource="http://identifiers.org/reactome.reaction/R-OSA-8932980"/>
+                  <rdf:li rdf:resource="http://identifiers.org/reactome.reaction/R-XTR-8932980"/>
+                  <rdf:li rdf:resource="http://identifiers.org/reactome.reaction/R-DDI-8932980"/>
+                  <rdf:li rdf:resource="http://identifiers.org/reactome.reaction/R-SCE-8932980"/>
+                  <rdf:li rdf:resource="http://identifiers.org/reactome.reaction/R-HSA-8932980"/>
+                  <rdf:li rdf:resource="http://identifiers.org/reactome.reaction/R-CEL-8932980"/>
+                  <rdf:li rdf:resource="http://identifiers.org/reactome.reaction/R-ATH-8932980"/>
+                  <rdf:li rdf:resource="http://identifiers.org/rhea/35033"/>
+                  <rdf:li rdf:resource="http://identifiers.org/rhea/35034"/>
+                  <rdf:li rdf:resource="http://identifiers.org/rhea/35032"/>
+                  <rdf:li rdf:resource="http://identifiers.org/rhea/35031"/>
+                  <rdf:li rdf:resource="http://identifiers.org/sabiork/13463"/>
+                  <rdf:li rdf:resource="http://identifiers.org/sabiork/13973"/>
+                  <rdf:li rdf:resource="http://identifiers.org/seed.reaction/rxn09248"/>
+                  <rdf:li rdf:resource="http://identifiers.org/seed.reaction/rxn10999"/>
+                  <rdf:li rdf:resource="http://identifiers.org/seed.reaction/rxn13110"/>
+                </rdf:Bag>
+              </bqbiol:is>
+            </rdf:Description>
+          </rdf:RDF>
+        </sbml:annotation>
+        <listOfReactants>
+          <speciesReference species="M_ser__L_e" stoichiometry="1" constant="true"/>
+        </listOfReactants>
+        <listOfProducts>
+          <speciesReference species="M_ser__L_p" stoichiometry="1" constant="true"/>
+        </listOfProducts>
+        <fbc:geneProductAssociation>
+          <fbc:or>
+            <fbc:geneProductRef fbc:geneProduct="G_b0241"/>
+            <fbc:geneProductRef fbc:geneProduct="G_b0929"/>
+            <fbc:geneProductRef fbc:geneProduct="G_b1377"/>
+            <fbc:geneProductRef fbc:geneProduct="G_b2215"/>
+          </fbc:or>
+        </fbc:geneProductAssociation>
+      </reaction>
+      <reaction id="R_NOtex" fast="false" reversible="true" name="Nitric oxide transport via diffusion (extracellular to periplasm)" metaid="R_NOtex" sboTerm="SBO:0000185" fbc:upperFluxBound="cobra_default_ub" fbc:lowerFluxBound="cobra_default_lb">
+        <sbml:annotation xmlns:sbml="http://www.sbml.org/sbml/level3/version1/core">
+          <rdf:RDF xmlns:rdf="http://www.w3.org/1999/02/22-rdf-syntax-ns#">
+            <rdf:Description rdf:about="#R_NOtex">
+              <bqbiol:is xmlns:bqbiol="http://biomodels.net/biology-qualifiers/">
+                <rdf:Bag>
+                  <rdf:li rdf:resource="http://identifiers.org/bigg.reaction/NOtex"/>
+                  <rdf:li rdf:resource="http://identifiers.org/metanetx.reaction/MNXR101998"/>
+                </rdf:Bag>
+              </bqbiol:is>
+            </rdf:Description>
+          </rdf:RDF>
+        </sbml:annotation>
+        <listOfReactants>
+          <speciesReference species="M_no_e" stoichiometry="1" constant="true"/>
+        </listOfReactants>
+        <listOfProducts>
+          <speciesReference species="M_no_p" stoichiometry="1" constant="true"/>
+        </listOfProducts>
+        <fbc:geneProductAssociation>
+          <fbc:or>
+            <fbc:geneProductRef fbc:geneProduct="G_b0241"/>
+            <fbc:geneProductRef fbc:geneProduct="G_b0929"/>
+            <fbc:geneProductRef fbc:geneProduct="G_b1377"/>
+            <fbc:geneProductRef fbc:geneProduct="G_b2215"/>
+          </fbc:or>
+        </fbc:geneProductAssociation>
+      </reaction>
+      <reaction id="R_NOtpp" fast="false" reversible="true" name="NO transport (diffusion)" metaid="R_NOtpp" sboTerm="SBO:0000185" fbc:upperFluxBound="cobra_default_ub" fbc:lowerFluxBound="cobra_default_lb">
+        <sbml:annotation xmlns:sbml="http://www.sbml.org/sbml/level3/version1/core">
+          <rdf:RDF xmlns:rdf="http://www.w3.org/1999/02/22-rdf-syntax-ns#">
+            <rdf:Description rdf:about="#R_NOtpp">
+              <bqbiol:is xmlns:bqbiol="http://biomodels.net/biology-qualifiers/">
+                <rdf:Bag>
+                  <rdf:li rdf:resource="http://identifiers.org/bigg.reaction/NOtpp"/>
+                  <rdf:li rdf:resource="http://identifiers.org/metanetx.reaction/MNXR101998"/>
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+              </bqbiol:is>
+            </rdf:Description>
+          </rdf:RDF>
+        </sbml:annotation>
+        <listOfReactants>
+          <speciesReference species="M_no_p" stoichiometry="1" constant="true"/>
+        </listOfReactants>
+        <listOfProducts>
+          <speciesReference species="M_no_c" stoichiometry="1" constant="true"/>
+        </listOfProducts>
+        <fbc:geneProductAssociation>
+          <fbc:geneProductRef fbc:geneProduct="G_s0001"/>
+        </fbc:geneProductAssociation>
+      </reaction>
+      <reaction id="R_NHFRBO" fast="false" reversible="false" name="NADH:flavorubredoxin oxidoreductase" metaid="R_NHFRBO" sboTerm="SBO:0000176" fbc:upperFluxBound="cobra_default_ub" fbc:lowerFluxBound="cobra_0_bound">
+        <sbml:annotation xmlns:sbml="http://www.sbml.org/sbml/level3/version1/core">
+          <rdf:RDF xmlns:rdf="http://www.w3.org/1999/02/22-rdf-syntax-ns#">
+            <rdf:Description rdf:about="#R_NHFRBO">
+              <bqbiol:is xmlns:bqbiol="http://biomodels.net/biology-qualifiers/">
+                <rdf:Bag>
+                  <rdf:li rdf:resource="http://identifiers.org/bigg.reaction/NHFRBO"/>
+                  <rdf:li rdf:resource="http://identifiers.org/biocyc/META:RXN-14138"/>
+                  <rdf:li rdf:resource="http://identifiers.org/ec-code/1.7.1.14"/>
+                  <rdf:li rdf:resource="http://identifiers.org/kegg.reaction/R02492"/>
+                  <rdf:li rdf:resource="http://identifiers.org/metanetx.reaction/MNXR101954"/>
+                  <rdf:li rdf:resource="http://identifiers.org/rhea/29610"/>
+                  <rdf:li rdf:resource="http://identifiers.org/rhea/29609"/>
+                  <rdf:li rdf:resource="http://identifiers.org/rhea/29607"/>
+                  <rdf:li rdf:resource="http://identifiers.org/rhea/29608"/>
+                </rdf:Bag>
+              </bqbiol:is>
+            </rdf:Description>
+          </rdf:RDF>
+        </sbml:annotation>
+        <listOfReactants>
+          <speciesReference species="M_h_c" stoichiometry="1" constant="true"/>
+          <speciesReference species="M_nadh_c" stoichiometry="1" constant="true"/>
+          <speciesReference species="M_no_c" stoichiometry="2" constant="true"/>
+        </listOfReactants>
+        <listOfProducts>
+          <speciesReference species="M_h2o_c" stoichiometry="1" constant="true"/>
+          <speciesReference species="M_n2o_c" stoichiometry="1" constant="true"/>
+          <speciesReference species="M_nad_c" stoichiometry="1" constant="true"/>
+        </listOfProducts>
+        <fbc:geneProductAssociation>
+          <fbc:and>
+            <fbc:geneProductRef fbc:geneProduct="G_b2711"/>
+            <fbc:geneProductRef fbc:geneProduct="G_b2710"/>
+          </fbc:and>
+        </fbc:geneProductAssociation>
+      </reaction>
+      <reaction id="R_N2Otpp" fast="false" reversible="true" name="Nitrious oxide transport (diffusion)" metaid="R_N2Otpp" sboTerm="SBO:0000185" fbc:upperFluxBound="cobra_default_ub" fbc:lowerFluxBound="cobra_default_lb">
+        <sbml:annotation xmlns:sbml="http://www.sbml.org/sbml/level3/version1/core">
+          <rdf:RDF xmlns:rdf="http://www.w3.org/1999/02/22-rdf-syntax-ns#">
+            <rdf:Description rdf:about="#R_N2Otpp">
+              <bqbiol:is xmlns:bqbiol="http://biomodels.net/biology-qualifiers/">
+                <rdf:Bag>
+                  <rdf:li rdf:resource="http://identifiers.org/bigg.reaction/N2Otpp"/>
+                  <rdf:li rdf:resource="http://identifiers.org/metanetx.reaction/MNXR101797"/>
+                  <rdf:li rdf:resource="http://identifiers.org/seed.reaction/rxn08966"/>
+                  <rdf:li rdf:resource="http://identifiers.org/seed.reaction/rxn08967"/>
+                </rdf:Bag>
+              </bqbiol:is>
+            </rdf:Description>
+          </rdf:RDF>
+        </sbml:annotation>
+        <listOfReactants>
+          <speciesReference species="M_n2o_p" stoichiometry="1" constant="true"/>
+        </listOfReactants>
+        <listOfProducts>
+          <speciesReference species="M_n2o_c" stoichiometry="1" constant="true"/>
+        </listOfProducts>
+        <fbc:geneProductAssociation>
+          <fbc:geneProductRef fbc:geneProduct="G_s0001"/>
+        </fbc:geneProductAssociation>
+      </reaction>
+      <reaction id="R_N2Otex" fast="false" reversible="true" name="Nitrious oxide transport via diffusion (extracellular to periplasm)" metaid="R_N2Otex" sboTerm="SBO:0000185" fbc:upperFluxBound="cobra_default_ub" fbc:lowerFluxBound="cobra_default_lb">
+        <sbml:annotation xmlns:sbml="http://www.sbml.org/sbml/level3/version1/core">
+          <rdf:RDF xmlns:rdf="http://www.w3.org/1999/02/22-rdf-syntax-ns#">
+            <rdf:Description rdf:about="#R_N2Otex">
+              <bqbiol:is xmlns:bqbiol="http://biomodels.net/biology-qualifiers/">
+                <rdf:Bag>
+                  <rdf:li rdf:resource="http://identifiers.org/bigg.reaction/N2Otex"/>
+                  <rdf:li rdf:resource="http://identifiers.org/metanetx.reaction/MNXR101797"/>
+                  <rdf:li rdf:resource="http://identifiers.org/seed.reaction/rxn08966"/>
+                  <rdf:li rdf:resource="http://identifiers.org/seed.reaction/rxn08967"/>
+                </rdf:Bag>
+              </bqbiol:is>
+            </rdf:Description>
+          </rdf:RDF>
+        </sbml:annotation>
+        <listOfReactants>
+          <speciesReference species="M_n2o_e" stoichiometry="1" constant="true"/>
+        </listOfReactants>
+        <listOfProducts>
+          <speciesReference species="M_n2o_p" stoichiometry="1" constant="true"/>
+        </listOfProducts>
+        <fbc:geneProductAssociation>
+          <fbc:or>
+            <fbc:geneProductRef fbc:geneProduct="G_b0241"/>
+            <fbc:geneProductRef fbc:geneProduct="G_b0929"/>
+            <fbc:geneProductRef fbc:geneProduct="G_b1377"/>
+            <fbc:geneProductRef fbc:geneProduct="G_b2215"/>
+          </fbc:or>
+        </fbc:geneProductAssociation>
+      </reaction>
+      <reaction id="R_CRNt8pp" fast="false" reversible="false" name="L-carnitine/D-carnitine antiporter (periplasm)" metaid="R_CRNt8pp" sboTerm="SBO:0000185" fbc:upperFluxBound="cobra_default_ub" fbc:lowerFluxBound="cobra_0_bound">
+        <sbml:annotation xmlns:sbml="http://www.sbml.org/sbml/level3/version1/core">
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+              <bqbiol:is xmlns:bqbiol="http://biomodels.net/biology-qualifiers/">
+                <rdf:Bag>
+                  <rdf:li rdf:resource="http://identifiers.org/bigg.reaction/CRNt8pp"/>
+                  <rdf:li rdf:resource="http://identifiers.org/metanetx.reaction/MNXR96909"/>
+                  <rdf:li rdf:resource="http://identifiers.org/seed.reaction/rxn08264"/>
+                </rdf:Bag>
+              </bqbiol:is>
+            </rdf:Description>
+          </rdf:RDF>
+        </sbml:annotation>
+        <listOfReactants>
+          <speciesReference species="M_crn__D_c" stoichiometry="1" constant="true"/>
+          <speciesReference species="M_crn_p" stoichiometry="1" constant="true"/>
+        </listOfReactants>
+        <listOfProducts>
+          <speciesReference species="M_crn__D_p" stoichiometry="1" constant="true"/>
+          <speciesReference species="M_crn_c" stoichiometry="1" constant="true"/>
+        </listOfProducts>
+        <fbc:geneProductAssociation>
+          <fbc:geneProductRef fbc:geneProduct="G_b0040"/>
+        </fbc:geneProductAssociation>
+      </reaction>
+      <reaction id="R_CRNt2rpp" fast="false" reversible="true" name="L-carnitine outward transport (H+ antiport)" metaid="R_CRNt2rpp" sboTerm="SBO:0000185" fbc:upperFluxBound="cobra_default_ub" fbc:lowerFluxBound="cobra_default_lb">
+        <sbml:annotation xmlns:sbml="http://www.sbml.org/sbml/level3/version1/core">
+          <rdf:RDF xmlns:rdf="http://www.w3.org/1999/02/22-rdf-syntax-ns#">
+            <rdf:Description rdf:about="#R_CRNt2rpp">
+              <bqbiol:is xmlns:bqbiol="http://biomodels.net/biology-qualifiers/">
+                <rdf:Bag>
+                  <rdf:li rdf:resource="http://identifiers.org/bigg.reaction/CRNt2rpp"/>
+                  <rdf:li rdf:resource="http://identifiers.org/metanetx.reaction/MNXR96907"/>
+                  <rdf:li rdf:resource="http://identifiers.org/seed.reaction/rxn08262"/>
+                  <rdf:li rdf:resource="http://identifiers.org/seed.reaction/rxn12605"/>
+                </rdf:Bag>
+              </bqbiol:is>
+            </rdf:Description>
+          </rdf:RDF>
+        </sbml:annotation>
+        <listOfReactants>
+          <speciesReference species="M_crn_p" stoichiometry="1" constant="true"/>
+          <speciesReference species="M_h_p" stoichiometry="1" constant="true"/>
+        </listOfReactants>
+        <listOfProducts>
+          <speciesReference species="M_crn_c" stoichiometry="1" constant="true"/>
+          <speciesReference species="M_h_c" stoichiometry="1" constant="true"/>
+        </listOfProducts>
+        <fbc:geneProductAssociation>
+          <fbc:geneProductRef fbc:geneProduct="G_b4111"/>
+        </fbc:geneProductAssociation>
+      </reaction>
+      <reaction id="R_CRNDt2rpp" fast="false" reversible="true" name="D-carnitine outward transport (H+ antiport)" metaid="R_CRNDt2rpp" sboTerm="SBO:0000185" fbc:upperFluxBound="cobra_default_ub" fbc:lowerFluxBound="cobra_default_lb">
+        <sbml:annotation xmlns:sbml="http://www.sbml.org/sbml/level3/version1/core">
+          <rdf:RDF xmlns:rdf="http://www.w3.org/1999/02/22-rdf-syntax-ns#">
+            <rdf:Description rdf:about="#R_CRNDt2rpp">
+              <bqbiol:is xmlns:bqbiol="http://biomodels.net/biology-qualifiers/">
+                <rdf:Bag>
+                  <rdf:li rdf:resource="http://identifiers.org/bigg.reaction/CRNDt2rpp"/>
+                  <rdf:li rdf:resource="http://identifiers.org/metanetx.reaction/MNXR96903"/>
+                  <rdf:li rdf:resource="http://identifiers.org/seed.reaction/rxn08261"/>
+                </rdf:Bag>
+              </bqbiol:is>
+            </rdf:Description>
+          </rdf:RDF>
+        </sbml:annotation>
+        <listOfReactants>
+          <speciesReference species="M_crn__D_p" stoichiometry="1" constant="true"/>
+          <speciesReference species="M_h_p" stoichiometry="1" constant="true"/>
+        </listOfReactants>
+        <listOfProducts>
+          <speciesReference species="M_crn__D_c" stoichiometry="1" constant="true"/>
+          <speciesReference species="M_h_c" stoichiometry="1" constant="true"/>
+        </listOfProducts>
+        <fbc:geneProductAssociation>
+          <fbc:geneProductRef fbc:geneProduct="G_b4111"/>
+        </fbc:geneProductAssociation>
+      </reaction>
+      <reaction id="R_CTBTt2rpp" fast="false" reversible="true" name="Cronobetaine outward transport (H+ antiport)" metaid="R_CTBTt2rpp" sboTerm="SBO:0000185" fbc:upperFluxBound="cobra_default_ub" fbc:lowerFluxBound="cobra_default_lb">
+        <sbml:annotation xmlns:sbml="http://www.sbml.org/sbml/level3/version1/core">
+          <rdf:RDF xmlns:rdf="http://www.w3.org/1999/02/22-rdf-syntax-ns#">
+            <rdf:Description rdf:about="#R_CTBTt2rpp">
+              <bqbiol:is xmlns:bqbiol="http://biomodels.net/biology-qualifiers/">
+                <rdf:Bag>
+                  <rdf:li rdf:resource="http://identifiers.org/bigg.reaction/CTBTt2rpp"/>
+                  <rdf:li rdf:resource="http://identifiers.org/metanetx.reaction/MNXR96939"/>
+                </rdf:Bag>
+              </bqbiol:is>
+            </rdf:Description>
+          </rdf:RDF>
+        </sbml:annotation>
+        <listOfReactants>
+          <speciesReference species="M_ctbt_p" stoichiometry="1" constant="true"/>
+          <speciesReference species="M_h_p" stoichiometry="1" constant="true"/>
+        </listOfReactants>
+        <listOfProducts>
+          <speciesReference species="M_ctbt_c" stoichiometry="1" constant="true"/>
+          <speciesReference species="M_h_c" stoichiometry="1" constant="true"/>
+        </listOfProducts>
+        <fbc:geneProductAssociation>
+          <fbc:geneProductRef fbc:geneProduct="G_b4111"/>
+        </fbc:geneProductAssociation>
+      </reaction>
+      <reaction id="R_42A12BOOXpp" fast="false" reversible="false" name="4-(2-Aminoethyl)-1,2-benzenediol:oxygen oxidoreductase(deaminating)(flavin-containing)" metaid="R_42A12BOOXpp" sboTerm="SBO:0000176" fbc:upperFluxBound="cobra_default_ub" fbc:lowerFluxBound="cobra_0_bound">
+        <sbml:annotation xmlns:sbml="http://www.sbml.org/sbml/level3/version1/core">
+          <rdf:RDF xmlns:rdf="http://www.w3.org/1999/02/22-rdf-syntax-ns#">
+            <rdf:Description rdf:about="#R_42A12BOOXpp">
+              <bqbiol:is xmlns:bqbiol="http://biomodels.net/biology-qualifiers/">
+                <rdf:Bag>
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+                  <rdf:li rdf:resource="http://identifiers.org/biocyc/META:RXN6666-4"/>
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+                  <rdf:li rdf:resource="http://identifiers.org/ec-code/1.4.9.2"/>
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+                  <rdf:li rdf:resource="http://identifiers.org/ec-code/1.4.99.4"/>
+                  <rdf:li rdf:resource="http://identifiers.org/kegg.reaction/R04300"/>
+                  <rdf:li rdf:resource="http://identifiers.org/metanetx.reaction/MNXR94989"/>
+                  <rdf:li rdf:resource="http://identifiers.org/rhea/27949"/>
+                  <rdf:li rdf:resource="http://identifiers.org/rhea/27947"/>
+                  <rdf:li rdf:resource="http://identifiers.org/rhea/27946"/>
+                  <rdf:li rdf:resource="http://identifiers.org/rhea/27948"/>
+                  <rdf:li rdf:resource="http://identifiers.org/sabiork/4000"/>
+                  <rdf:li rdf:resource="http://identifiers.org/seed.reaction/rxn02993"/>
+                </rdf:Bag>
+              </bqbiol:is>
+            </rdf:Description>
+          </rdf:RDF>
+        </sbml:annotation>
+        <listOfReactants>
+          <speciesReference species="M_dopa_p" stoichiometry="1" constant="true"/>
+          <speciesReference species="M_h2o_p" stoichiometry="1" constant="true"/>
+          <speciesReference species="M_o2_p" stoichiometry="1" constant="true"/>
+        </listOfReactants>
+        <listOfProducts>
+          <speciesReference species="M_34dhpac_p" stoichiometry="1" constant="true"/>
+          <speciesReference species="M_h2o2_p" stoichiometry="1" constant="true"/>
+          <speciesReference species="M_nh4_p" stoichiometry="1" constant="true"/>
+        </listOfProducts>
+        <fbc:geneProductAssociation>
+          <fbc:geneProductRef fbc:geneProduct="G_b1386"/>
+        </fbc:geneProductAssociation>
+      </reaction>
+      <reaction id="R_TYROXDApp" fast="false" reversible="false" name="Tyramine:oxygen oxidoreductase(deaminating)(flavin-containing) (periplasm)" metaid="R_TYROXDApp" sboTerm="SBO:0000176" fbc:upperFluxBound="cobra_default_ub" fbc:lowerFluxBound="cobra_0_bound">
+        <sbml:annotation xmlns:sbml="http://www.sbml.org/sbml/level3/version1/core">
+          <rdf:RDF xmlns:rdf="http://www.w3.org/1999/02/22-rdf-syntax-ns#">
+            <rdf:Description rdf:about="#R_TYROXDApp">
+              <bqbiol:is xmlns:bqbiol="http://biomodels.net/biology-qualifiers/">
+                <rdf:Bag>
+                  <rdf:li rdf:resource="http://identifiers.org/bigg.reaction/TYROXDApp"/>
+                  <rdf:li rdf:resource="http://identifiers.org/biocyc/META:RXN-5821"/>
+                  <rdf:li rdf:resource="http://identifiers.org/ec-code/1.4.3.4"/>
+                  <rdf:li rdf:resource="http://identifiers.org/ec-code/1.4.3.22"/>
+                  <rdf:li rdf:resource="http://identifiers.org/ec-code/1.4.9.2"/>
+                  <rdf:li rdf:resource="http://identifiers.org/ec-code/1.4.3.21"/>
+                  <rdf:li rdf:resource="http://identifiers.org/ec-code/1.4.99.4"/>
+                  <rdf:li rdf:resource="http://identifiers.org/kegg.reaction/R02382"/>
+                  <rdf:li rdf:resource="http://identifiers.org/metanetx.reaction/MNXR104996"/>
+                  <rdf:li rdf:resource="http://identifiers.org/reactome.reaction/R-SSC-5696146"/>
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+                  <rdf:li rdf:resource="http://identifiers.org/rhea/30592"/>
+                  <rdf:li rdf:resource="http://identifiers.org/rhea/30591"/>
+                  <rdf:li rdf:resource="http://identifiers.org/sabiork/2326"/>
+                  <rdf:li rdf:resource="http://identifiers.org/seed.reaction/rxn01715"/>
+                </rdf:Bag>
+              </bqbiol:is>
+            </rdf:Description>
+          </rdf:RDF>
+        </sbml:annotation>
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+          <speciesReference species="M_h2o_p" stoichiometry="1" constant="true"/>
+          <speciesReference species="M_o2_p" stoichiometry="1" constant="true"/>
+          <speciesReference species="M_tym_p" stoichiometry="1" constant="true"/>
+        </listOfReactants>
+        <listOfProducts>
+          <speciesReference species="M_4hoxpacd_p" stoichiometry="1" constant="true"/>
+          <speciesReference species="M_h2o2_p" stoichiometry="1" constant="true"/>
+          <speciesReference species="M_nh4_p" stoichiometry="1" constant="true"/>
+        </listOfProducts>
+        <fbc:geneProductAssociation>
+          <fbc:geneProductRef fbc:geneProduct="G_b1386"/>
+        </fbc:geneProductAssociation>
+      </reaction>
+      <reaction id="R_PACALDt2rpp" fast="false" reversible="true" name="Phenylacetaldehyde reversible transport via proton symport (periplasm)" metaid="R_PACALDt2rpp" sboTerm="SBO:0000185" fbc:upperFluxBound="cobra_default_ub" fbc:lowerFluxBound="cobra_default_lb">
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+                  <rdf:li rdf:resource="http://identifiers.org/seed.reaction/rxn09060"/>
+                  <rdf:li rdf:resource="http://identifiers.org/seed.reaction/rxn11408"/>
+                </rdf:Bag>
+              </bqbiol:is>
+            </rdf:Description>
+          </rdf:RDF>
+        </sbml:annotation>
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+          <speciesReference species="M_h_p" stoichiometry="1" constant="true"/>
+          <speciesReference species="M_pacald_p" stoichiometry="1" constant="true"/>
+        </listOfReactants>
+        <listOfProducts>
+          <speciesReference species="M_h_c" stoichiometry="1" constant="true"/>
+          <speciesReference species="M_pacald_c" stoichiometry="1" constant="true"/>
+        </listOfProducts>
+      </reaction>
+      <reaction id="R_PEAMNtex" fast="false" reversible="true" name="Phenethylamine transport via diffusion (extracellular to periplasm)" metaid="R_PEAMNtex" sboTerm="SBO:0000185" fbc:upperFluxBound="cobra_default_ub" fbc:lowerFluxBound="cobra_default_lb">
+        <sbml:annotation xmlns:sbml="http://www.sbml.org/sbml/level3/version1/core">
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+                  <rdf:li rdf:resource="http://identifiers.org/metanetx.reaction/MNXR102462"/>
+                  <rdf:li rdf:resource="http://identifiers.org/rhea/29745"/>
+                  <rdf:li rdf:resource="http://identifiers.org/rhea/29744"/>
+                  <rdf:li rdf:resource="http://identifiers.org/rhea/29746"/>
+                  <rdf:li rdf:resource="http://identifiers.org/rhea/29743"/>
+                  <rdf:li rdf:resource="http://identifiers.org/seed.reaction/rxn11405"/>
+                  <rdf:li rdf:resource="http://identifiers.org/seed.reaction/rxn09080"/>
+                </rdf:Bag>
+              </bqbiol:is>
+            </rdf:Description>
+          </rdf:RDF>
+        </sbml:annotation>
+        <listOfReactants>
+          <speciesReference species="M_peamn_e" stoichiometry="1" constant="true"/>
+        </listOfReactants>
+        <listOfProducts>
+          <speciesReference species="M_peamn_p" stoichiometry="1" constant="true"/>
+        </listOfProducts>
+        <fbc:geneProductAssociation>
+          <fbc:or>
+            <fbc:geneProductRef fbc:geneProduct="G_b0241"/>
+            <fbc:geneProductRef fbc:geneProduct="G_b0929"/>
+            <fbc:geneProductRef fbc:geneProduct="G_b1377"/>
+            <fbc:geneProductRef fbc:geneProduct="G_b2215"/>
+          </fbc:or>
+        </fbc:geneProductAssociation>
+      </reaction>
+      <reaction id="R_PACALDtex" fast="false" reversible="true" name="Phenethylacetaldehyde transport via diffusion (extracellular to periplasm)" metaid="R_PACALDtex" sboTerm="SBO:0000185" fbc:upperFluxBound="cobra_default_ub" fbc:lowerFluxBound="cobra_default_lb">
+        <sbml:annotation xmlns:sbml="http://www.sbml.org/sbml/level3/version1/core">
+          <rdf:RDF xmlns:rdf="http://www.w3.org/1999/02/22-rdf-syntax-ns#">
+            <rdf:Description rdf:about="#R_PACALDtex">
+              <bqbiol:is xmlns:bqbiol="http://biomodels.net/biology-qualifiers/">
+                <rdf:Bag>
+                  <rdf:li rdf:resource="http://identifiers.org/bigg.reaction/PACALDtex"/>
+                  <rdf:li rdf:resource="http://identifiers.org/biocyc/META:TRANS-RXN0-284"/>
+                  <rdf:li rdf:resource="http://identifiers.org/metanetx.reaction/MNXR102312"/>
+                  <rdf:li rdf:resource="http://identifiers.org/seed.reaction/rxn09061"/>
+                  <rdf:li rdf:resource="http://identifiers.org/seed.reaction/rxn13374"/>
+                  <rdf:li rdf:resource="http://identifiers.org/seed.reaction/rxn13373"/>
+                </rdf:Bag>
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+          </rdf:RDF>
+        </sbml:annotation>
+        <listOfReactants>
+          <speciesReference species="M_pacald_e" stoichiometry="1" constant="true"/>
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+        <listOfProducts>
+          <speciesReference species="M_pacald_p" stoichiometry="1" constant="true"/>
+        </listOfProducts>
+        <fbc:geneProductAssociation>
+          <fbc:or>
+            <fbc:geneProductRef fbc:geneProduct="G_b0241"/>
+            <fbc:geneProductRef fbc:geneProduct="G_b0929"/>
+            <fbc:geneProductRef fbc:geneProduct="G_b1377"/>
+            <fbc:geneProductRef fbc:geneProduct="G_b2215"/>
+          </fbc:or>
+        </fbc:geneProductAssociation>
+      </reaction>
+      <reaction id="R_LIPOt2pp" fast="false" reversible="false" name="Lipoate transport via proton symport (periplasm)" metaid="R_LIPOt2pp" sboTerm="SBO:0000185" fbc:upperFluxBound="cobra_default_ub" fbc:lowerFluxBound="cobra_0_bound">
+        <sbml:annotation xmlns:sbml="http://www.sbml.org/sbml/level3/version1/core">
+          <rdf:RDF xmlns:rdf="http://www.w3.org/1999/02/22-rdf-syntax-ns#">
+            <rdf:Description rdf:about="#R_LIPOt2pp">
+              <bqbiol:is xmlns:bqbiol="http://biomodels.net/biology-qualifiers/">
+                <rdf:Bag>
+                  <rdf:li rdf:resource="http://identifiers.org/bigg.reaction/LIPOt2pp"/>
+                  <rdf:li rdf:resource="http://identifiers.org/metanetx.reaction/MNXR101091"/>
+                </rdf:Bag>
+              </bqbiol:is>
+            </rdf:Description>
+          </rdf:RDF>
+        </sbml:annotation>
+        <listOfReactants>
+          <speciesReference species="M_h_p" stoichiometry="1" constant="true"/>
+          <speciesReference species="M_lipoate_p" stoichiometry="1" constant="true"/>
+        </listOfReactants>
+        <listOfProducts>
+          <speciesReference species="M_h_c" stoichiometry="1" constant="true"/>
+          <speciesReference species="M_lipoate_c" stoichiometry="1" constant="true"/>
+        </listOfProducts>
+      </reaction>
+      <reaction id="R_AGM4PA" fast="false" reversible="false" name="N-Acetyl-D-glucosamine(anhydrous)N-Acetylmuramyl-tetrapeptide amidase" metaid="R_AGM4PA" sboTerm="SBO:0000176" fbc:upperFluxBound="cobra_default_ub" fbc:lowerFluxBound="cobra_0_bound">
+        <sbml:annotation xmlns:sbml="http://www.sbml.org/sbml/level3/version1/core">
+          <rdf:RDF xmlns:rdf="http://www.w3.org/1999/02/22-rdf-syntax-ns#">
+            <rdf:Description rdf:about="#R_AGM4PA">
+              <bqbiol:is xmlns:bqbiol="http://biomodels.net/biology-qualifiers/">
+                <rdf:Bag>
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+                  <rdf:li rdf:resource="http://identifiers.org/metanetx.reaction/MNXR95546"/>
+                  <rdf:li rdf:resource="http://identifiers.org/seed.reaction/rxn08076"/>
+                </rdf:Bag>
+              </bqbiol:is>
+            </rdf:Description>
+          </rdf:RDF>
+        </sbml:annotation>
+        <listOfReactants>
+          <speciesReference species="M_anhgm4p_c" stoichiometry="1" constant="true"/>
+          <speciesReference species="M_h2o_c" stoichiometry="1" constant="true"/>
+        </listOfReactants>
+        <listOfProducts>
+          <speciesReference species="M_LalaDgluMdapDala_c" stoichiometry="1" constant="true"/>
+          <speciesReference species="M_anhgm_c" stoichiometry="1" constant="true"/>
+        </listOfProducts>
+        <fbc:geneProductAssociation>
+          <fbc:geneProductRef fbc:geneProduct="G_b0110"/>
+        </fbc:geneProductAssociation>
+      </reaction>
+      <reaction id="R_RNDR3b" fast="false" reversible="false" name="Ribonucleoside-diphosphate reductase (CDP) (glutaredoxin)" metaid="R_RNDR3b" sboTerm="SBO:0000176" fbc:upperFluxBound="cobra_default_ub" fbc:lowerFluxBound="cobra_0_bound">
+        <sbml:annotation xmlns:sbml="http://www.sbml.org/sbml/level3/version1/core">
+          <rdf:RDF xmlns:rdf="http://www.w3.org/1999/02/22-rdf-syntax-ns#">
+            <rdf:Description rdf:about="#R_RNDR3b">
+              <bqbiol:is xmlns:bqbiol="http://biomodels.net/biology-qualifiers/">
+                <rdf:Bag>
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+                  <rdf:li rdf:resource="http://identifiers.org/metanetx.reaction/MNXR104065"/>
+                  <rdf:li rdf:resource="http://identifiers.org/seed.reaction/rxn09233"/>
+                </rdf:Bag>
+              </bqbiol:is>
+            </rdf:Description>
+          </rdf:RDF>
+        </sbml:annotation>
+        <listOfReactants>
+          <speciesReference species="M_cdp_c" stoichiometry="1" constant="true"/>
+          <speciesReference species="M_grxrd_c" stoichiometry="1" constant="true"/>
+        </listOfReactants>
+        <listOfProducts>
+          <speciesReference species="M_dcdp_c" stoichiometry="1" constant="true"/>
+          <speciesReference species="M_grxox_c" stoichiometry="1" constant="true"/>
+          <speciesReference species="M_h2o_c" stoichiometry="1" constant="true"/>
+        </listOfProducts>
+        <fbc:geneProductAssociation>
+          <fbc:or>
+            <fbc:and>
+              <fbc:geneProductRef fbc:geneProduct="G_b0849"/>
+              <fbc:and>
+                <fbc:geneProductRef fbc:geneProduct="G_b2675"/>
+                <fbc:geneProductRef fbc:geneProduct="G_b2676"/>
+              </fbc:and>
+            </fbc:and>
+            <fbc:and>
+              <fbc:and>
+                <fbc:geneProductRef fbc:geneProduct="G_b2675"/>
+                <fbc:geneProductRef fbc:geneProduct="G_b2676"/>
+              </fbc:and>
+              <fbc:geneProductRef fbc:geneProduct="G_b3610"/>
+            </fbc:and>
+            <fbc:and>
+              <fbc:and>
+                <fbc:geneProductRef fbc:geneProduct="G_b2675"/>
+                <fbc:geneProductRef fbc:geneProduct="G_b2676"/>
+              </fbc:and>
+              <fbc:geneProductRef fbc:geneProduct="G_b1064"/>
+            </fbc:and>
+            <fbc:and>
+              <fbc:and>
+                <fbc:geneProductRef fbc:geneProduct="G_b2675"/>
+                <fbc:geneProductRef fbc:geneProduct="G_b2676"/>
+              </fbc:and>
+              <fbc:geneProductRef fbc:geneProduct="G_b1654"/>
+            </fbc:and>
+          </fbc:or>
+        </fbc:geneProductAssociation>
+      </reaction>
+      <reaction id="R_RNDR4b" fast="false" reversible="false" name="Ribonucleoside-diphosphate reductase (UDP) (glutaredoxin)" metaid="R_RNDR4b" sboTerm="SBO:0000176" fbc:upperFluxBound="cobra_default_ub" fbc:lowerFluxBound="cobra_0_bound">
+        <sbml:annotation xmlns:sbml="http://www.sbml.org/sbml/level3/version1/core">
+          <rdf:RDF xmlns:rdf="http://www.w3.org/1999/02/22-rdf-syntax-ns#">
+            <rdf:Description rdf:about="#R_RNDR4b">
+              <bqbiol:is xmlns:bqbiol="http://biomodels.net/biology-qualifiers/">
+                <rdf:Bag>
+                  <rdf:li rdf:resource="http://identifiers.org/bigg.reaction/RNDR4b"/>
+                  <rdf:li rdf:resource="http://identifiers.org/metanetx.reaction/MNXR104067"/>
+                  <rdf:li rdf:resource="http://identifiers.org/seed.reaction/rxn09234"/>
+                </rdf:Bag>
+              </bqbiol:is>
+            </rdf:Description>
+          </rdf:RDF>
+        </sbml:annotation>
+        <listOfReactants>
+          <speciesReference species="M_grxrd_c" stoichiometry="1" constant="true"/>
+          <speciesReference species="M_udp_c" stoichiometry="1" constant="true"/>
+        </listOfReactants>
+        <listOfProducts>
+          <speciesReference species="M_dudp_c" stoichiometry="1" constant="true"/>
+          <speciesReference species="M_grxox_c" stoichiometry="1" constant="true"/>
+          <speciesReference species="M_h2o_c" stoichiometry="1" constant="true"/>
+        </listOfProducts>
+        <fbc:geneProductAssociation>
+          <fbc:or>
+            <fbc:and>
+              <fbc:geneProductRef fbc:geneProduct="G_b0849"/>
+              <fbc:and>
+                <fbc:geneProductRef fbc:geneProduct="G_b2675"/>
+                <fbc:geneProductRef fbc:geneProduct="G_b2676"/>
+              </fbc:and>
+            </fbc:and>
+            <fbc:and>
+              <fbc:and>
+                <fbc:geneProductRef fbc:geneProduct="G_b2675"/>
+                <fbc:geneProductRef fbc:geneProduct="G_b2676"/>
+              </fbc:and>
+              <fbc:geneProductRef fbc:geneProduct="G_b3610"/>
+            </fbc:and>
+            <fbc:and>
+              <fbc:and>
+                <fbc:geneProductRef fbc:geneProduct="G_b2675"/>
+                <fbc:geneProductRef fbc:geneProduct="G_b2676"/>
+              </fbc:and>
+              <fbc:geneProductRef fbc:geneProduct="G_b1654"/>
+            </fbc:and>
+            <fbc:and>
+              <fbc:and>
+                <fbc:geneProductRef fbc:geneProduct="G_b2675"/>
+                <fbc:geneProductRef fbc:geneProduct="G_b2676"/>
+              </fbc:and>
+              <fbc:geneProductRef fbc:geneProduct="G_b1064"/>
+            </fbc:and>
+          </fbc:or>
+        </fbc:geneProductAssociation>
+      </reaction>
+      <reaction id="R_ACGAL1Ptex" fast="false" reversible="true" name="N-acetyl-D-galactosamine 1-phosphate transport via diffusion (extracellular to periplasm)" metaid="R_ACGAL1Ptex" sboTerm="SBO:0000185" fbc:upperFluxBound="cobra_default_ub" fbc:lowerFluxBound="cobra_default_lb">
+        <sbml:annotation xmlns:sbml="http://www.sbml.org/sbml/level3/version1/core">
+          <rdf:RDF xmlns:rdf="http://www.w3.org/1999/02/22-rdf-syntax-ns#">
+            <rdf:Description rdf:about="#R_ACGAL1Ptex">
+              <bqbiol:is xmlns:bqbiol="http://biomodels.net/biology-qualifiers/">
+                <rdf:Bag>
+                  <rdf:li rdf:resource="http://identifiers.org/bigg.reaction/ACGAL1Ptex"/>
+                  <rdf:li rdf:resource="http://identifiers.org/metanetx.reaction/MNXR95234"/>
+                  <rdf:li rdf:resource="http://identifiers.org/seed.reaction/rxn08036"/>
+                </rdf:Bag>
+              </bqbiol:is>
+            </rdf:Description>
+          </rdf:RDF>
+        </sbml:annotation>
+        <listOfReactants>
+          <speciesReference species="M_acgal1p_e" stoichiometry="1" constant="true"/>
+        </listOfReactants>
+        <listOfProducts>
+          <speciesReference species="M_acgal1p_p" stoichiometry="1" constant="true"/>
+        </listOfProducts>
+        <fbc:geneProductAssociation>
+          <fbc:or>
+            <fbc:geneProductRef fbc:geneProduct="G_b0241"/>
+            <fbc:geneProductRef fbc:geneProduct="G_b0929"/>
+            <fbc:geneProductRef fbc:geneProduct="G_b1377"/>
+            <fbc:geneProductRef fbc:geneProduct="G_b2215"/>
+          </fbc:or>
+        </fbc:geneProductAssociation>
+      </reaction>
+      <reaction id="R_ACGALtex" fast="false" reversible="true" name="N-acetyl-D-galactosamine transport via diffusion (extracellular to periplasm)" metaid="R_ACGALtex" sboTerm="SBO:0000185" fbc:upperFluxBound="cobra_default_ub" fbc:lowerFluxBound="cobra_default_lb">
+        <sbml:annotation xmlns:sbml="http://www.sbml.org/sbml/level3/version1/core">
+          <rdf:RDF xmlns:rdf="http://www.w3.org/1999/02/22-rdf-syntax-ns#">
+            <rdf:Description rdf:about="#R_ACGALtex">
+              <bqbiol:is xmlns:bqbiol="http://biomodels.net/biology-qualifiers/">
+                <rdf:Bag>
+                  <rdf:li rdf:resource="http://identifiers.org/bigg.reaction/ACGALtex"/>
+                  <rdf:li rdf:resource="http://identifiers.org/metanetx.reaction/MNXR95244"/>
+                  <rdf:li rdf:resource="http://identifiers.org/seed.reaction/rxn08037"/>
+                </rdf:Bag>
+              </bqbiol:is>
+            </rdf:Description>
+          </rdf:RDF>
+        </sbml:annotation>
+        <listOfReactants>
+          <speciesReference species="M_acgal_e" stoichiometry="1" constant="true"/>
+        </listOfReactants>
+        <listOfProducts>
+          <speciesReference species="M_acgal_p" stoichiometry="1" constant="true"/>
+        </listOfProducts>
+        <fbc:geneProductAssociation>
+          <fbc:or>
+            <fbc:geneProductRef fbc:geneProduct="G_b0241"/>
+            <fbc:geneProductRef fbc:geneProduct="G_b0929"/>
+            <fbc:geneProductRef fbc:geneProduct="G_b1377"/>
+            <fbc:geneProductRef fbc:geneProduct="G_b2215"/>
+          </fbc:or>
+        </fbc:geneProductAssociation>
+      </reaction>
+      <reaction id="R_GLCUR1Ptex" fast="false" reversible="true" name="D-glucuronate 1-phosphate transport via diffusion (extracellular to periplasm)" metaid="R_GLCUR1Ptex" sboTerm="SBO:0000185" fbc:upperFluxBound="cobra_default_ub" fbc:lowerFluxBound="cobra_default_lb">
+        <sbml:annotation xmlns:sbml="http://www.sbml.org/sbml/level3/version1/core">
+          <rdf:RDF xmlns:rdf="http://www.w3.org/1999/02/22-rdf-syntax-ns#">
+            <rdf:Description rdf:about="#R_GLCUR1Ptex">
+              <bqbiol:is xmlns:bqbiol="http://biomodels.net/biology-qualifiers/">
+                <rdf:Bag>
+                  <rdf:li rdf:resource="http://identifiers.org/bigg.reaction/GLCUR1Ptex"/>
+                  <rdf:li rdf:resource="http://identifiers.org/metanetx.reaction/MNXR100231"/>
+                  <rdf:li rdf:resource="http://identifiers.org/seed.reaction/rxn08621"/>
+                </rdf:Bag>
+              </bqbiol:is>
+            </rdf:Description>
+          </rdf:RDF>
+        </sbml:annotation>
+        <listOfReactants>
+          <speciesReference species="M_glcur1p_e" stoichiometry="1" constant="true"/>
+        </listOfReactants>
+        <listOfProducts>
+          <speciesReference species="M_glcur1p_p" stoichiometry="1" constant="true"/>
+        </listOfProducts>
+        <fbc:geneProductAssociation>
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+            <fbc:geneProductRef fbc:geneProduct="G_b1377"/>
+            <fbc:geneProductRef fbc:geneProduct="G_b2215"/>
+          </fbc:or>
+        </fbc:geneProductAssociation>
+      </reaction>
+      <reaction id="R_UDPGLCURtex" fast="false" reversible="true" name="UDP-D-glucuronate transport via diffusion (extracellular to periplasm)" metaid="R_UDPGLCURtex" sboTerm="SBO:0000185" fbc:upperFluxBound="cobra_default_ub" fbc:lowerFluxBound="cobra_default_lb">
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+        <listOfProducts>
+          <speciesReference species="M_udpglcur_p" stoichiometry="1" constant="true"/>
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+            <fbc:geneProductRef fbc:geneProduct="G_b2215"/>
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+        </fbc:geneProductAssociation>
+      </reaction>
+      <reaction id="R_UDPGALPpp" fast="false" reversible="false" name="UDPgalactose pyrophosphohydrolase" metaid="R_UDPGALPpp" sboTerm="SBO:0000176" fbc:upperFluxBound="cobra_default_ub" fbc:lowerFluxBound="cobra_0_bound">
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+          <speciesReference species="M_gal1p_p" stoichiometry="1" constant="true"/>
+          <speciesReference species="M_h_p" stoichiometry="2" constant="true"/>
+          <speciesReference species="M_ump_p" stoichiometry="1" constant="true"/>
+        </listOfProducts>
+        <fbc:geneProductAssociation>
+          <fbc:geneProductRef fbc:geneProduct="G_b0480"/>
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+      <reaction id="R_UACGAMPpp" fast="false" reversible="false" name="UDP-N-acetyl-D-glucosamine pyrophosphohydrolase (periplasm)" metaid="R_UACGAMPpp" sboTerm="SBO:0000176" fbc:upperFluxBound="cobra_default_ub" fbc:lowerFluxBound="cobra_0_bound">
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+          <speciesReference species="M_uacgam_p" stoichiometry="1" constant="true"/>
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+        <listOfProducts>
+          <speciesReference species="M_acgam1p_p" stoichiometry="1" constant="true"/>
+          <speciesReference species="M_h_p" stoichiometry="2" constant="true"/>
+          <speciesReference species="M_ump_p" stoichiometry="1" constant="true"/>
+        </listOfProducts>
+        <fbc:geneProductAssociation>
+          <fbc:geneProductRef fbc:geneProduct="G_b0480"/>
+        </fbc:geneProductAssociation>
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+      <reaction id="R_UACGALPpp" fast="false" reversible="false" name="UDP-N-acetyl-D-galactosamine pyrophosphohydrolase (periplasm)" metaid="R_UACGALPpp" sboTerm="SBO:0000176" fbc:upperFluxBound="cobra_default_ub" fbc:lowerFluxBound="cobra_0_bound">
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+        </sbml:annotation>
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+          <speciesReference species="M_udpacgal_p" stoichiometry="1" constant="true"/>
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+        <listOfProducts>
+          <speciesReference species="M_acgal1p_p" stoichiometry="1" constant="true"/>
+          <speciesReference species="M_h_p" stoichiometry="2" constant="true"/>
+          <speciesReference species="M_ump_p" stoichiometry="1" constant="true"/>
+        </listOfProducts>
+        <fbc:geneProductAssociation>
+          <fbc:geneProductRef fbc:geneProduct="G_b0480"/>
+        </fbc:geneProductAssociation>
+      </reaction>
+      <reaction id="R_UGLCURPpp" fast="false" reversible="false" name="UDP-D-glucuronate pyrophosphohydrolase (periplasm)" metaid="R_UGLCURPpp" sboTerm="SBO:0000176" fbc:upperFluxBound="cobra_default_ub" fbc:lowerFluxBound="cobra_0_bound">
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+              <bqbiol:is xmlns:bqbiol="http://biomodels.net/biology-qualifiers/">
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+                  <rdf:li rdf:resource="http://identifiers.org/metanetx.reaction/MNXR105055"/>
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+                  <rdf:li rdf:resource="http://identifiers.org/rhea/29559"/>
+                  <rdf:li rdf:resource="http://identifiers.org/rhea/29561"/>
+                  <rdf:li rdf:resource="http://identifiers.org/rhea/29560"/>
+                  <rdf:li rdf:resource="http://identifiers.org/seed.reaction/rxn09355"/>
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+        </sbml:annotation>
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+          <speciesReference species="M_udpglcur_p" stoichiometry="1" constant="true"/>
+        </listOfReactants>
+        <listOfProducts>
+          <speciesReference species="M_glcur1p_p" stoichiometry="1" constant="true"/>
+          <speciesReference species="M_h_p" stoichiometry="2" constant="true"/>
+          <speciesReference species="M_ump_p" stoichiometry="1" constant="true"/>
+        </listOfProducts>
+        <fbc:geneProductAssociation>
+          <fbc:geneProductRef fbc:geneProduct="G_b0480"/>
+        </fbc:geneProductAssociation>
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+        <sbml:annotation xmlns:sbml="http://www.sbml.org/sbml/level3/version1/core">
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+                  <rdf:li rdf:resource="http://identifiers.org/rhea/11149"/>
+                  <rdf:li rdf:resource="http://identifiers.org/rhea/11438"/>
+                  <rdf:li rdf:resource="http://identifiers.org/rhea/11151"/>
+                  <rdf:li rdf:resource="http://identifiers.org/rhea/11439"/>
+                  <rdf:li rdf:resource="http://identifiers.org/rhea/11436"/>
+                  <rdf:li rdf:resource="http://identifiers.org/rhea/11150"/>
+                  <rdf:li rdf:resource="http://identifiers.org/rhea/11148"/>
+                  <rdf:li rdf:resource="http://identifiers.org/sabiork/665"/>
+                  <rdf:li rdf:resource="http://identifiers.org/seed.reaction/rxn00056"/>
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+        </sbml:annotation>
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+          <speciesReference species="M_fe2_p" stoichiometry="4" constant="true"/>
+          <speciesReference species="M_h_p" stoichiometry="4" constant="true"/>
+          <speciesReference species="M_o2_p" stoichiometry="1" constant="true"/>
+        </listOfReactants>
+        <listOfProducts>
+          <speciesReference species="M_fe3_p" stoichiometry="4" constant="true"/>
+          <speciesReference species="M_h2o_p" stoichiometry="2" constant="true"/>
+        </listOfProducts>
+        <fbc:geneProductAssociation>
+          <fbc:or>
+            <fbc:geneProductRef fbc:geneProduct="G_b0123"/>
+            <fbc:geneProductRef fbc:geneProduct="G_b3336"/>
+          </fbc:or>
+        </fbc:geneProductAssociation>
+      </reaction>
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+        <sbml:annotation xmlns:sbml="http://www.sbml.org/sbml/level3/version1/core">
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+                  <rdf:li rdf:resource="http://identifiers.org/seed.reaction/rxn08758"/>
+                  <rdf:li rdf:resource="http://identifiers.org/seed.reaction/rxn05594"/>
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+            </rdf:Description>
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+        </sbml:annotation>
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+          <speciesReference species="M_h2o_c" stoichiometry="1" constant="true"/>
+          <speciesReference species="M_isetac_p" stoichiometry="1" constant="true"/>
+        </listOfReactants>
+        <listOfProducts>
+          <speciesReference species="M_adp_c" stoichiometry="1" constant="true"/>
+          <speciesReference species="M_h_c" stoichiometry="1" constant="true"/>
+          <speciesReference species="M_isetac_c" stoichiometry="1" constant="true"/>
+          <speciesReference species="M_pi_c" stoichiometry="1" constant="true"/>
+        </listOfProducts>
+        <fbc:geneProductAssociation>
+          <fbc:or>
+            <fbc:and>
+              <fbc:geneProductRef fbc:geneProduct="G_b0365"/>
+              <fbc:geneProductRef fbc:geneProduct="G_b0366"/>
+              <fbc:geneProductRef fbc:geneProduct="G_b0367"/>
+            </fbc:and>
+            <fbc:and>
+              <fbc:geneProductRef fbc:geneProduct="G_b0933"/>
+              <fbc:geneProductRef fbc:geneProduct="G_b0934"/>
+              <fbc:geneProductRef fbc:geneProduct="G_b0936"/>
+            </fbc:and>
+          </fbc:or>
+        </fbc:geneProductAssociation>
+      </reaction>
+      <reaction id="R_ISETACtex" fast="false" reversible="true" name="Isethionate transport via diffusion (extracellular to periplasm)" metaid="R_ISETACtex" sboTerm="SBO:0000185" fbc:upperFluxBound="cobra_default_ub" fbc:lowerFluxBound="cobra_default_lb">
+        <sbml:annotation xmlns:sbml="http://www.sbml.org/sbml/level3/version1/core">
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+              <bqbiol:is xmlns:bqbiol="http://biomodels.net/biology-qualifiers/">
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+        </sbml:annotation>
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+          <speciesReference species="M_isetac_e" stoichiometry="1" constant="true"/>
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+        <listOfProducts>
+          <speciesReference species="M_isetac_p" stoichiometry="1" constant="true"/>
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+        <fbc:geneProductAssociation>
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+            <fbc:geneProductRef fbc:geneProduct="G_b0929"/>
+            <fbc:geneProductRef fbc:geneProduct="G_b1377"/>
+            <fbc:geneProductRef fbc:geneProduct="G_b2215"/>
+          </fbc:or>
+        </fbc:geneProductAssociation>
+      </reaction>
+      <reaction id="R_GUR1PPpp" fast="false" reversible="false" name="Glucuronate 1-phosphate phosphatase (periplasm)" metaid="R_GUR1PPpp" sboTerm="SBO:0000176" fbc:upperFluxBound="cobra_default_ub" fbc:lowerFluxBound="cobra_0_bound">
+        <sbml:annotation xmlns:sbml="http://www.sbml.org/sbml/level3/version1/core">
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+              <bqbiol:is xmlns:bqbiol="http://biomodels.net/biology-qualifiers/">
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+          </rdf:RDF>
+        </sbml:annotation>
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+          <speciesReference species="M_h2o_p" stoichiometry="1" constant="true"/>
+        </listOfReactants>
+        <listOfProducts>
+          <speciesReference species="M_glcur_p" stoichiometry="1" constant="true"/>
+          <speciesReference species="M_pi_p" stoichiometry="1" constant="true"/>
+        </listOfProducts>
+      </reaction>
+      <reaction id="R_UDPGtex" fast="false" reversible="true" name="UDPglucose transport via diffusion (extracellular to periplasm)" metaid="R_UDPGtex" sboTerm="SBO:0000185" fbc:upperFluxBound="cobra_default_ub" fbc:lowerFluxBound="cobra_default_lb">
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+          <speciesReference species="M_udpg_e" stoichiometry="1" constant="true"/>
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+          <speciesReference species="M_udpg_p" stoichiometry="1" constant="true"/>
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+            <fbc:geneProductRef fbc:geneProduct="G_b2215"/>
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+        </fbc:geneProductAssociation>
+      </reaction>
+      <reaction id="R_ACGAL1PPpp" fast="false" reversible="false" name="N-acetyl-D-galactosamine 1-phosphatase (periplasm)" metaid="R_ACGAL1PPpp" sboTerm="SBO:0000176" fbc:upperFluxBound="cobra_default_ub" fbc:lowerFluxBound="cobra_0_bound">
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+          <speciesReference species="M_acgal_p" stoichiometry="1" constant="true"/>
+          <speciesReference species="M_pi_p" stoichiometry="1" constant="true"/>
+        </listOfProducts>
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+          <speciesReference species="M_udpgal_p" stoichiometry="1" constant="true"/>
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+            <fbc:geneProductRef fbc:geneProduct="G_b2215"/>
+            <fbc:geneProductRef fbc:geneProduct="G_b0241"/>
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+        </fbc:geneProductAssociation>
+      </reaction>
+      <reaction id="R_ACGAM1Ptex" fast="false" reversible="true" name="N-acetyl-D-glucosamine 1-phosphate transport via diffusion (extracellular to periplasm)" metaid="R_ACGAM1Ptex" sboTerm="SBO:0000185" fbc:upperFluxBound="cobra_default_ub" fbc:lowerFluxBound="cobra_default_lb">
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+          <rdf:RDF xmlns:rdf="http://www.w3.org/1999/02/22-rdf-syntax-ns#">
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+              <bqbiol:is xmlns:bqbiol="http://biomodels.net/biology-qualifiers/">
+                <rdf:Bag>
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+                  <rdf:li rdf:resource="http://identifiers.org/metanetx.reaction/MNXR95246"/>
+                  <rdf:li rdf:resource="http://identifiers.org/seed.reaction/rxn08039"/>
+                </rdf:Bag>
+              </bqbiol:is>
+            </rdf:Description>
+          </rdf:RDF>
+        </sbml:annotation>
+        <listOfReactants>
+          <speciesReference species="M_acgam1p_e" stoichiometry="1" constant="true"/>
+        </listOfReactants>
+        <listOfProducts>
+          <speciesReference species="M_acgam1p_p" stoichiometry="1" constant="true"/>
+        </listOfProducts>
+        <fbc:geneProductAssociation>
+          <fbc:or>
+            <fbc:geneProductRef fbc:geneProduct="G_b0241"/>
+            <fbc:geneProductRef fbc:geneProduct="G_b0929"/>
+            <fbc:geneProductRef fbc:geneProduct="G_b1377"/>
+            <fbc:geneProductRef fbc:geneProduct="G_b2215"/>
+          </fbc:or>
+        </fbc:geneProductAssociation>
+      </reaction>
+      <reaction id="R_UACGAMtex" fast="false" reversible="true" name="UDP-N-acetyl-D-glucosamine transport via diffusion (extracellular to periplasm)" metaid="R_UACGAMtex" sboTerm="SBO:0000185" fbc:upperFluxBound="cobra_default_ub" fbc:lowerFluxBound="cobra_default_lb">
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+              <bqbiol:is xmlns:bqbiol="http://biomodels.net/biology-qualifiers/">
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+                  <rdf:li rdf:resource="http://identifiers.org/reactome.reaction/R-SCE-742354"/>
+                  <rdf:li rdf:resource="http://identifiers.org/reactome.reaction/R-CEL-742354"/>
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+                  <rdf:li rdf:resource="http://identifiers.org/reactome.reaction/R-MMU-742354"/>
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+                  <rdf:li rdf:resource="http://identifiers.org/reactome.reaction/R-SPO-742354"/>
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+                  <rdf:li rdf:resource="http://identifiers.org/reactome.reaction/R-TGU-742354"/>
+                  <rdf:li rdf:resource="http://identifiers.org/reactome.reaction/R-GGA-742354"/>
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+                  <rdf:li rdf:resource="http://identifiers.org/seed.reaction/rxn09342"/>
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+              </bqbiol:is>
+            </rdf:Description>
+          </rdf:RDF>
+        </sbml:annotation>
+        <listOfReactants>
+          <speciesReference species="M_uacgam_e" stoichiometry="1" constant="true"/>
+        </listOfReactants>
+        <listOfProducts>
+          <speciesReference species="M_uacgam_p" stoichiometry="1" constant="true"/>
+        </listOfProducts>
+        <fbc:geneProductAssociation>
+          <fbc:or>
+            <fbc:geneProductRef fbc:geneProduct="G_b0241"/>
+            <fbc:geneProductRef fbc:geneProduct="G_b0929"/>
+            <fbc:geneProductRef fbc:geneProduct="G_b1377"/>
+            <fbc:geneProductRef fbc:geneProduct="G_b2215"/>
+          </fbc:or>
+        </fbc:geneProductAssociation>
+      </reaction>
+      <reaction id="R_UDPACGALtex" fast="false" reversible="true" name="UDP-N-acetyl-D-galactosamine transport via diffusion (extracellular to periplasm)" metaid="R_UDPACGALtex" sboTerm="SBO:0000185" fbc:upperFluxBound="cobra_default_ub" fbc:lowerFluxBound="cobra_default_lb">
+        <sbml:annotation xmlns:sbml="http://www.sbml.org/sbml/level3/version1/core">
+          <rdf:RDF xmlns:rdf="http://www.w3.org/1999/02/22-rdf-syntax-ns#">
+            <rdf:Description rdf:about="#R_UDPACGALtex">
+              <bqbiol:is xmlns:bqbiol="http://biomodels.net/biology-qualifiers/">
+                <rdf:Bag>
+                  <rdf:li rdf:resource="http://identifiers.org/bigg.reaction/UDPACGALtex"/>
+                  <rdf:li rdf:resource="http://identifiers.org/metanetx.reaction/MNXR105046"/>
+                  <rdf:li rdf:resource="http://identifiers.org/seed.reaction/rxn09347"/>
+                </rdf:Bag>
+              </bqbiol:is>
+            </rdf:Description>
+          </rdf:RDF>
+        </sbml:annotation>
+        <listOfReactants>
+          <speciesReference species="M_udpacgal_e" stoichiometry="1" constant="true"/>
+        </listOfReactants>
+        <listOfProducts>
+          <speciesReference species="M_udpacgal_p" stoichiometry="1" constant="true"/>
+        </listOfProducts>
+        <fbc:geneProductAssociation>
+          <fbc:or>
+            <fbc:geneProductRef fbc:geneProduct="G_b0241"/>
+            <fbc:geneProductRef fbc:geneProduct="G_b0929"/>
+            <fbc:geneProductRef fbc:geneProduct="G_b1377"/>
+            <fbc:geneProductRef fbc:geneProduct="G_b2215"/>
+          </fbc:or>
+        </fbc:geneProductAssociation>
+      </reaction>
+      <reaction id="R_AM4PCP" fast="false" reversible="false" name="Anhydrous-N-Acetylmuramyl-tetrapeptide L,D-carboxypeptidase" metaid="R_AM4PCP" sboTerm="SBO:0000176" fbc:upperFluxBound="cobra_default_ub" fbc:lowerFluxBound="cobra_0_bound">
+        <sbml:annotation xmlns:sbml="http://www.sbml.org/sbml/level3/version1/core">
+          <rdf:RDF xmlns:rdf="http://www.w3.org/1999/02/22-rdf-syntax-ns#">
+            <rdf:Description rdf:about="#R_AM4PCP">
+              <bqbiol:is xmlns:bqbiol="http://biomodels.net/biology-qualifiers/">
+                <rdf:Bag>
+                  <rdf:li rdf:resource="http://identifiers.org/bigg.reaction/AM4PCP"/>
+                  <rdf:li rdf:resource="http://identifiers.org/metanetx.reaction/MNXR95794"/>
+                  <rdf:li rdf:resource="http://identifiers.org/seed.reaction/rxn08125"/>
+                </rdf:Bag>
+              </bqbiol:is>
+            </rdf:Description>
+          </rdf:RDF>
+        </sbml:annotation>
+        <listOfReactants>
+          <speciesReference species="M_anhm4p_c" stoichiometry="1" constant="true"/>
+          <speciesReference species="M_h2o_c" stoichiometry="1" constant="true"/>
+        </listOfReactants>
+        <listOfProducts>
+          <speciesReference species="M_ala__D_c" stoichiometry="1" constant="true"/>
+          <speciesReference species="M_anhm3p_c" stoichiometry="1" constant="true"/>
+        </listOfProducts>
+        <fbc:geneProductAssociation>
+          <fbc:geneProductRef fbc:geneProduct="G_b1192"/>
+        </fbc:geneProductAssociation>
+      </reaction>
+      <reaction id="R_AM3PA" fast="false" reversible="false" name="Anhydrous-N-Acetylmuramyl-tripeptide amidase" metaid="R_AM3PA" sboTerm="SBO:0000176" fbc:upperFluxBound="cobra_default_ub" fbc:lowerFluxBound="cobra_0_bound">
+        <sbml:annotation xmlns:sbml="http://www.sbml.org/sbml/level3/version1/core">
+          <rdf:RDF xmlns:rdf="http://www.w3.org/1999/02/22-rdf-syntax-ns#">
+            <rdf:Description rdf:about="#R_AM3PA">
+              <bqbiol:is xmlns:bqbiol="http://biomodels.net/biology-qualifiers/">
+                <rdf:Bag>
+                  <rdf:li rdf:resource="http://identifiers.org/bigg.reaction/AM3PA"/>
+                  <rdf:li rdf:resource="http://identifiers.org/metanetx.reaction/MNXR95792"/>
+                  <rdf:li rdf:resource="http://identifiers.org/seed.reaction/rxn08123"/>
+                </rdf:Bag>
+              </bqbiol:is>
+            </rdf:Description>
+          </rdf:RDF>
+        </sbml:annotation>
+        <listOfReactants>
+          <speciesReference species="M_anhm3p_c" stoichiometry="1" constant="true"/>
+          <speciesReference species="M_h2o_c" stoichiometry="1" constant="true"/>
+        </listOfReactants>
+        <listOfProducts>
+          <speciesReference species="M_LalaDgluMdap_c" stoichiometry="1" constant="true"/>
+          <speciesReference species="M_anhm_c" stoichiometry="1" constant="true"/>
+        </listOfProducts>
+        <fbc:geneProductAssociation>
+          <fbc:geneProductRef fbc:geneProduct="G_b0110"/>
+        </fbc:geneProductAssociation>
+      </reaction>
+      <reaction id="R_UM4PCP" fast="false" reversible="false" name="UDP-N-acetylmuramoyl-L-alanyl-D-gamma-glutamyl-meso-2,6-diaminopimelate-D-alanine L,D-carboxypeptidase" metaid="R_UM4PCP" sboTerm="SBO:0000176" fbc:upperFluxBound="cobra_default_ub" fbc:lowerFluxBound="cobra_0_bound">
+        <sbml:annotation xmlns:sbml="http://www.sbml.org/sbml/level3/version1/core">
+          <rdf:RDF xmlns:rdf="http://www.w3.org/1999/02/22-rdf-syntax-ns#">
+            <rdf:Description rdf:about="#R_UM4PCP">
+              <bqbiol:is xmlns:bqbiol="http://biomodels.net/biology-qualifiers/">
+                <rdf:Bag>
+                  <rdf:li rdf:resource="http://identifiers.org/bigg.reaction/UM4PCP"/>
+                  <rdf:li rdf:resource="http://identifiers.org/metanetx.reaction/MNXR105116"/>
+                </rdf:Bag>
+              </bqbiol:is>
+            </rdf:Description>
+          </rdf:RDF>
+        </sbml:annotation>
+        <listOfReactants>
+          <speciesReference species="M_h2o_c" stoichiometry="1" constant="true"/>
+          <speciesReference species="M_um4p_c" stoichiometry="1" constant="true"/>
+        </listOfReactants>
+        <listOfProducts>
+          <speciesReference species="M_ala__D_c" stoichiometry="1" constant="true"/>
+          <speciesReference species="M_ugmd_c" stoichiometry="1" constant="true"/>
+        </listOfProducts>
+        <fbc:geneProductAssociation>
+          <fbc:geneProductRef fbc:geneProduct="G_b1192"/>
+        </fbc:geneProductAssociation>
+      </reaction>
+      <reaction id="R_CBLAT" fast="false" reversible="true" name="Cob(I)alamin adenosyltransferase" metaid="R_CBLAT" sboTerm="SBO:0000176" fbc:upperFluxBound="cobra_default_ub" fbc:lowerFluxBound="cobra_default_lb">
+        <sbml:annotation xmlns:sbml="http://www.sbml.org/sbml/level3/version1/core">
+          <rdf:RDF xmlns:rdf="http://www.w3.org/1999/02/22-rdf-syntax-ns#">
+            <rdf:Description rdf:about="#R_CBLAT">
+              <bqbiol:is xmlns:bqbiol="http://biomodels.net/biology-qualifiers/">
+                <rdf:Bag>
+                  <rdf:li rdf:resource="http://identifiers.org/bigg.reaction/CBLAT"/>
+                  <rdf:li rdf:resource="http://identifiers.org/biocyc/META:COBALADENOSYLTRANS-RXN"/>
+                  <rdf:li rdf:resource="http://identifiers.org/ec-code/2.5.1.17"/>
+                  <rdf:li rdf:resource="http://identifiers.org/kegg.reaction/R01492"/>
+                  <rdf:li rdf:resource="http://identifiers.org/metanetx.reaction/MNXR96476"/>
+                </rdf:Bag>
+              </bqbiol:is>
+            </rdf:Description>
+          </rdf:RDF>
+        </sbml:annotation>
+        <listOfReactants>
+          <speciesReference species="M_atp_c" stoichiometry="1" constant="true"/>
+          <speciesReference species="M_cbl1_c" stoichiometry="1" constant="true"/>
+          <speciesReference species="M_h_c" stoichiometry="1" constant="true"/>
+        </listOfReactants>
+        <listOfProducts>
+          <speciesReference species="M_adocbl_c" stoichiometry="1" constant="true"/>
+          <speciesReference species="M_pppi_c" stoichiometry="1" constant="true"/>
+        </listOfProducts>
+        <fbc:geneProductAssociation>
+          <fbc:geneProductRef fbc:geneProduct="G_b1270"/>
+        </fbc:geneProductAssociation>
+      </reaction>
+      <reaction id="R_NTRIR4pp" fast="false" reversible="false" name="Nitrite Reductase (Menaquinole-8, periplasm)" metaid="R_NTRIR4pp" sboTerm="SBO:0000185" fbc:upperFluxBound="cobra_default_ub" fbc:lowerFluxBound="cobra_0_bound">
+        <sbml:annotation xmlns:sbml="http://www.sbml.org/sbml/level3/version1/core">
+          <rdf:RDF xmlns:rdf="http://www.w3.org/1999/02/22-rdf-syntax-ns#">
+            <rdf:Description rdf:about="#R_NTRIR4pp">
+              <bqbiol:is xmlns:bqbiol="http://biomodels.net/biology-qualifiers/">
+                <rdf:Bag>
+                  <rdf:li rdf:resource="http://identifiers.org/bigg.reaction/NTRIR4pp"/>
+                  <rdf:li rdf:resource="http://identifiers.org/metanetx.reaction/MNXR102065"/>
+                  <rdf:li rdf:resource="http://identifiers.org/rhea/29164"/>
+                  <rdf:li rdf:resource="http://identifiers.org/rhea/29166"/>
+                  <rdf:li rdf:resource="http://identifiers.org/rhea/29165"/>
+                  <rdf:li rdf:resource="http://identifiers.org/rhea/29163"/>
+                  <rdf:li rdf:resource="http://identifiers.org/seed.reaction/rxn09019"/>
+                </rdf:Bag>
+              </bqbiol:is>
+            </rdf:Description>
+          </rdf:RDF>
+        </sbml:annotation>
+        <listOfReactants>
+          <speciesReference species="M_h_p" stoichiometry="2" constant="true"/>
+          <speciesReference species="M_mql8_c" stoichiometry="3" constant="true"/>
+          <speciesReference species="M_no2_p" stoichiometry="1" constant="true"/>
+        </listOfReactants>
+        <listOfProducts>
+          <speciesReference species="M_h2o_p" stoichiometry="2" constant="true"/>
+          <speciesReference species="M_mqn8_c" stoichiometry="3" constant="true"/>
+          <speciesReference species="M_nh4_p" stoichiometry="1" constant="true"/>
+        </listOfProducts>
+        <fbc:geneProductAssociation>
+          <fbc:and>
+            <fbc:geneProductRef fbc:geneProduct="G_b4070"/>
+            <fbc:geneProductRef fbc:geneProduct="G_b4071"/>
+            <fbc:geneProductRef fbc:geneProduct="G_b4072"/>
+            <fbc:geneProductRef fbc:geneProduct="G_b4073"/>
+          </fbc:and>
+        </fbc:geneProductAssociation>
+      </reaction>
+      <reaction id="R_NTRIR3pp" fast="false" reversible="false" name="Nitrite Reductase (Ubiquinole-8, periplasm)" metaid="R_NTRIR3pp" sboTerm="SBO:0000185" fbc:upperFluxBound="cobra_default_ub" fbc:lowerFluxBound="cobra_0_bound">
+        <sbml:annotation xmlns:sbml="http://www.sbml.org/sbml/level3/version1/core">
+          <rdf:RDF xmlns:rdf="http://www.w3.org/1999/02/22-rdf-syntax-ns#">
+            <rdf:Description rdf:about="#R_NTRIR3pp">
+              <bqbiol:is xmlns:bqbiol="http://biomodels.net/biology-qualifiers/">
+                <rdf:Bag>
+                  <rdf:li rdf:resource="http://identifiers.org/bigg.reaction/NTRIR3pp"/>
+                  <rdf:li rdf:resource="http://identifiers.org/metanetx.reaction/MNXR102064"/>
+                  <rdf:li rdf:resource="http://identifiers.org/rhea/29157"/>
+                  <rdf:li rdf:resource="http://identifiers.org/rhea/29155"/>
+                  <rdf:li rdf:resource="http://identifiers.org/rhea/29156"/>
+                  <rdf:li rdf:resource="http://identifiers.org/rhea/29158"/>
+                  <rdf:li rdf:resource="http://identifiers.org/seed.reaction/rxn09018"/>
+                </rdf:Bag>
+              </bqbiol:is>
+            </rdf:Description>
+          </rdf:RDF>
+        </sbml:annotation>
+        <listOfReactants>
+          <speciesReference species="M_h_p" stoichiometry="2" constant="true"/>
+          <speciesReference species="M_no2_p" stoichiometry="1" constant="true"/>
+          <speciesReference species="M_q8h2_c" stoichiometry="3" constant="true"/>
+        </listOfReactants>
+        <listOfProducts>
+          <speciesReference species="M_h2o_p" stoichiometry="2" constant="true"/>
+          <speciesReference species="M_nh4_p" stoichiometry="1" constant="true"/>
+          <speciesReference species="M_q8_c" stoichiometry="3" constant="true"/>
+        </listOfProducts>
+        <fbc:geneProductAssociation>
+          <fbc:and>
+            <fbc:geneProductRef fbc:geneProduct="G_b4070"/>
+            <fbc:geneProductRef fbc:geneProduct="G_b4071"/>
+            <fbc:geneProductRef fbc:geneProduct="G_b4072"/>
+            <fbc:geneProductRef fbc:geneProduct="G_b4073"/>
+          </fbc:and>
+        </fbc:geneProductAssociation>
+      </reaction>
+      <reaction id="R_INOSTt4pp" fast="false" reversible="false" name="Na+/myo-inositol symporter (periplasm)" metaid="R_INOSTt4pp" sboTerm="SBO:0000185" fbc:upperFluxBound="cobra_default_ub" fbc:lowerFluxBound="cobra_0_bound">
+        <sbml:annotation xmlns:sbml="http://www.sbml.org/sbml/level3/version1/core">
+          <rdf:RDF xmlns:rdf="http://www.w3.org/1999/02/22-rdf-syntax-ns#">
+            <rdf:Description rdf:about="#R_INOSTt4pp">
+              <bqbiol:is xmlns:bqbiol="http://biomodels.net/biology-qualifiers/">
+                <rdf:Bag>
+                  <rdf:li rdf:resource="http://identifiers.org/bigg.reaction/INOSTt4pp"/>
+                  <rdf:li rdf:resource="http://identifiers.org/metanetx.reaction/MNXR100840"/>
+                  <rdf:li rdf:resource="http://identifiers.org/seed.reaction/rxn08752"/>
+                </rdf:Bag>
+              </bqbiol:is>
+            </rdf:Description>
+          </rdf:RDF>
+        </sbml:annotation>
+        <listOfReactants>
+          <speciesReference species="M_inost_p" stoichiometry="1" constant="true"/>
+          <speciesReference species="M_na1_p" stoichiometry="1" constant="true"/>
+        </listOfReactants>
+        <listOfProducts>
+          <speciesReference species="M_inost_c" stoichiometry="1" constant="true"/>
+          <speciesReference species="M_na1_c" stoichiometry="1" constant="true"/>
+        </listOfProducts>
+        <fbc:geneProductAssociation>
+          <fbc:geneProductRef fbc:geneProduct="G_b3679"/>
+        </fbc:geneProductAssociation>
+      </reaction>
+      <reaction id="R_PHEMEtiex" fast="false" reversible="false" name="Protoheme transport irreversible out via diffusion (periplasm to extracellular)" metaid="R_PHEMEtiex" sboTerm="SBO:0000185" fbc:upperFluxBound="cobra_default_ub" fbc:lowerFluxBound="cobra_0_bound">
+        <sbml:annotation xmlns:sbml="http://www.sbml.org/sbml/level3/version1/core">
+          <rdf:RDF xmlns:rdf="http://www.w3.org/1999/02/22-rdf-syntax-ns#">
+            <rdf:Description rdf:about="#R_PHEMEtiex">
+              <bqbiol:is xmlns:bqbiol="http://biomodels.net/biology-qualifiers/">
+                <rdf:Bag>
+                  <rdf:li rdf:resource="http://identifiers.org/bigg.reaction/PHEMEtiex"/>
+                  <rdf:li rdf:resource="http://identifiers.org/metanetx.reaction/MNXR102625"/>
+                  <rdf:li rdf:resource="http://identifiers.org/reactome.reaction/R-CFA-917892"/>
+                  <rdf:li rdf:resource="http://identifiers.org/reactome.reaction/R-RNO-917892"/>
+                  <rdf:li rdf:resource="http://identifiers.org/reactome.reaction/R-CEL-917892"/>
+                  <rdf:li rdf:resource="http://identifiers.org/reactome.reaction/R-BTA-917892"/>
+                  <rdf:li rdf:resource="http://identifiers.org/reactome.reaction/R-TGU-917892"/>
+                  <rdf:li rdf:resource="http://identifiers.org/reactome.reaction/R-HSA-917892"/>
+                  <rdf:li rdf:resource="http://identifiers.org/reactome.reaction/R-MMU-917892"/>
+                  <rdf:li rdf:resource="http://identifiers.org/reactome.reaction/R-DRE-917892"/>
+                  <rdf:li rdf:resource="http://identifiers.org/reactome.reaction/R-XTR-917892"/>
+                  <rdf:li rdf:resource="http://identifiers.org/reactome.reaction/R-SSC-917892"/>
+                  <rdf:li rdf:resource="http://identifiers.org/reactome.reaction/R-DME-917892"/>
+                  <rdf:li rdf:resource="http://identifiers.org/reactome.reaction/R-GGA-917892"/>
+                </rdf:Bag>
+              </bqbiol:is>
+            </rdf:Description>
+          </rdf:RDF>
+        </sbml:annotation>
+        <listOfReactants>
+          <speciesReference species="M_pheme_p" stoichiometry="1" constant="true"/>
+        </listOfReactants>
+        <listOfProducts>
+          <speciesReference species="M_pheme_e" stoichiometry="1" constant="true"/>
+        </listOfProducts>
+      </reaction>
+      <reaction id="R_AGM3PA" fast="false" reversible="false" name="N-Acetyl-D-glucosamine(anhydrous)N-Acetylmuramyl-tripeptide amidase" metaid="R_AGM3PA" sboTerm="SBO:0000176" fbc:upperFluxBound="cobra_default_ub" fbc:lowerFluxBound="cobra_0_bound">
+        <sbml:annotation xmlns:sbml="http://www.sbml.org/sbml/level3/version1/core">
+          <rdf:RDF xmlns:rdf="http://www.w3.org/1999/02/22-rdf-syntax-ns#">
+            <rdf:Description rdf:about="#R_AGM3PA">
+              <bqbiol:is xmlns:bqbiol="http://biomodels.net/biology-qualifiers/">
+                <rdf:Bag>
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+                  <rdf:li rdf:resource="http://identifiers.org/metanetx.reaction/MNXR95543"/>
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+                </rdf:Bag>
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+            </rdf:Description>
+          </rdf:RDF>
+        </sbml:annotation>
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+          <speciesReference species="M_anhgm3p_c" stoichiometry="1" constant="true"/>
+          <speciesReference species="M_h2o_c" stoichiometry="1" constant="true"/>
+        </listOfReactants>
+        <listOfProducts>
+          <speciesReference species="M_LalaDgluMdap_c" stoichiometry="1" constant="true"/>
+          <speciesReference species="M_anhgm_c" stoichiometry="1" constant="true"/>
+        </listOfProducts>
+        <fbc:geneProductAssociation>
+          <fbc:geneProductRef fbc:geneProduct="G_b0110"/>
+        </fbc:geneProductAssociation>
+      </reaction>
+      <reaction id="R_CYANtex" fast="false" reversible="true" name="Cyanide transport via diffusion (extracellular to periplasm)" metaid="R_CYANtex" sboTerm="SBO:0000185" fbc:upperFluxBound="cobra_default_ub" fbc:lowerFluxBound="cobra_default_lb">
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+        <listOfProducts>
+          <speciesReference species="M_cyan_p" stoichiometry="1" constant="true"/>
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+            <fbc:geneProductRef fbc:geneProduct="G_b2215"/>
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+        </fbc:geneProductAssociation>
+      </reaction>
+      <reaction id="R_SO3tex" fast="false" reversible="true" name="Sulfite transport via diffusion (extracellular to periplasm)" metaid="R_SO3tex" sboTerm="SBO:0000185" fbc:upperFluxBound="cobra_default_ub" fbc:lowerFluxBound="cobra_default_lb">
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+                  <rdf:li rdf:resource="http://identifiers.org/seed.reaction/rxn09260"/>
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+          <speciesReference species="M_so3_e" stoichiometry="1" constant="true"/>
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+        <listOfProducts>
+          <speciesReference species="M_so3_p" stoichiometry="1" constant="true"/>
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+            <fbc:geneProductRef fbc:geneProduct="G_b1377"/>
+            <fbc:geneProductRef fbc:geneProduct="G_b2215"/>
+          </fbc:or>
+        </fbc:geneProductAssociation>
+      </reaction>
+      <reaction id="R_TCYNTtex" fast="false" reversible="true" name="Thiocyanate transport via diffusion (extracellular to periplasm)" metaid="R_TCYNTtex" sboTerm="SBO:0000185" fbc:upperFluxBound="cobra_default_ub" fbc:lowerFluxBound="cobra_default_lb">
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+                  <rdf:li rdf:resource="http://identifiers.org/metanetx.reaction/MNXR104749"/>
+                  <rdf:li rdf:resource="http://identifiers.org/seed.reaction/rxn09287"/>
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+        </sbml:annotation>
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+          <speciesReference species="M_tcynt_e" stoichiometry="1" constant="true"/>
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+        <listOfProducts>
+          <speciesReference species="M_tcynt_p" stoichiometry="1" constant="true"/>
+        </listOfProducts>
+        <fbc:geneProductAssociation>
+          <fbc:or>
+            <fbc:geneProductRef fbc:geneProduct="G_b0241"/>
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+            <fbc:geneProductRef fbc:geneProduct="G_b1377"/>
+            <fbc:geneProductRef fbc:geneProduct="G_b2215"/>
+          </fbc:or>
+        </fbc:geneProductAssociation>
+      </reaction>
+      <reaction id="R_ACANTHAT" fast="false" reversible="false" name="Acetyl-CoA:anthranilate acetyltransferase" metaid="R_ACANTHAT" sboTerm="SBO:0000176" fbc:upperFluxBound="cobra_default_ub" fbc:lowerFluxBound="cobra_0_bound">
+        <sbml:annotation xmlns:sbml="http://www.sbml.org/sbml/level3/version1/core">
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+                  <rdf:li rdf:resource="http://identifiers.org/metanetx.reaction/MNXR95213"/>
+                  <rdf:li rdf:resource="http://identifiers.org/rhea/28551"/>
+                  <rdf:li rdf:resource="http://identifiers.org/rhea/28550"/>
+                  <rdf:li rdf:resource="http://identifiers.org/rhea/28553"/>
+                  <rdf:li rdf:resource="http://identifiers.org/rhea/28552"/>
+                  <rdf:li rdf:resource="http://identifiers.org/seed.reaction/rxn08034"/>
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+        </sbml:annotation>
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+          <speciesReference species="M_accoa_c" stoichiometry="1" constant="true"/>
+          <speciesReference species="M_anth_c" stoichiometry="1" constant="true"/>
+        </listOfReactants>
+        <listOfProducts>
+          <speciesReference species="M_acanth_c" stoichiometry="1" constant="true"/>
+          <speciesReference species="M_coa_c" stoichiometry="1" constant="true"/>
+        </listOfProducts>
+        <fbc:geneProductAssociation>
+          <fbc:geneProductRef fbc:geneProduct="G_b1463"/>
+        </fbc:geneProductAssociation>
+      </reaction>
+      <reaction id="R_METSOX2abcpp" fast="false" reversible="false" name="L-methionine R-oxide transport via ABC system (periplasm)" metaid="R_METSOX2abcpp" sboTerm="SBO:0000185" fbc:upperFluxBound="cobra_default_ub" fbc:lowerFluxBound="cobra_0_bound">
+        <sbml:annotation xmlns:sbml="http://www.sbml.org/sbml/level3/version1/core">
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+              <bqbiol:is xmlns:bqbiol="http://biomodels.net/biology-qualifiers/">
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+                  <rdf:li rdf:resource="http://identifiers.org/biocyc/META:RXN0-7185"/>
+                  <rdf:li rdf:resource="http://identifiers.org/metanetx.reaction/MNXR138592"/>
+                  <rdf:li rdf:resource="http://identifiers.org/seed.reaction/rxn08916"/>
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+        </sbml:annotation>
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+          <speciesReference species="M_atp_c" stoichiometry="1" constant="true"/>
+          <speciesReference species="M_h2o_c" stoichiometry="1" constant="true"/>
+          <speciesReference species="M_metsox_R__L_p" stoichiometry="1" constant="true"/>
+        </listOfReactants>
+        <listOfProducts>
+          <speciesReference species="M_adp_c" stoichiometry="1" constant="true"/>
+          <speciesReference species="M_h_c" stoichiometry="1" constant="true"/>
+          <speciesReference species="M_metsox_R__L_c" stoichiometry="1" constant="true"/>
+          <speciesReference species="M_pi_c" stoichiometry="1" constant="true"/>
+        </listOfProducts>
+      </reaction>
+      <reaction id="R_METSOX1tex" fast="false" reversible="true" name="L-methionine S-oxide diffusion (extracellular)" metaid="R_METSOX1tex" sboTerm="SBO:0000185" fbc:upperFluxBound="cobra_default_ub" fbc:lowerFluxBound="cobra_default_lb">
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+        </listOfReactants>
+        <listOfProducts>
+          <speciesReference species="M_metsox_S__L_p" stoichiometry="1" constant="true"/>
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+        <fbc:geneProductAssociation>
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+            <fbc:geneProductRef fbc:geneProduct="G_b0241"/>
+            <fbc:geneProductRef fbc:geneProduct="G_b0929"/>
+            <fbc:geneProductRef fbc:geneProduct="G_b1377"/>
+            <fbc:geneProductRef fbc:geneProduct="G_b2215"/>
+          </fbc:or>
+        </fbc:geneProductAssociation>
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+        <sbml:annotation xmlns:sbml="http://www.sbml.org/sbml/level3/version1/core">
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+              <bqbiol:is xmlns:bqbiol="http://biomodels.net/biology-qualifiers/">
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+          <speciesReference species="M_metsox_R__L_e" stoichiometry="1" constant="true"/>
+        </listOfReactants>
+        <listOfProducts>
+          <speciesReference species="M_metsox_R__L_p" stoichiometry="1" constant="true"/>
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+            <fbc:geneProductRef fbc:geneProduct="G_b0241"/>
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+            <fbc:geneProductRef fbc:geneProduct="G_b1377"/>
+            <fbc:geneProductRef fbc:geneProduct="G_b2215"/>
+          </fbc:or>
+        </fbc:geneProductAssociation>
+      </reaction>
+      <reaction id="R_3UMPtex" fast="false" reversible="true" name="3UMP transport via diffusion (extracellular to periplasm)" metaid="R_3UMPtex" sboTerm="SBO:0000185" fbc:upperFluxBound="cobra_default_ub" fbc:lowerFluxBound="cobra_default_lb">
+        <sbml:annotation xmlns:sbml="http://www.sbml.org/sbml/level3/version1/core">
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+            <rdf:Description rdf:about="#R_3UMPtex">
+              <bqbiol:is xmlns:bqbiol="http://biomodels.net/biology-qualifiers/">
+                <rdf:Bag>
+                  <rdf:li rdf:resource="http://identifiers.org/bigg.reaction/3UMPtex"/>
+                  <rdf:li rdf:resource="http://identifiers.org/metanetx.reaction/MNXR94983"/>
+                  <rdf:li rdf:resource="http://identifiers.org/seed.reaction/rxn08005"/>
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+        </sbml:annotation>
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+          <speciesReference species="M_3ump_e" stoichiometry="1" constant="true"/>
+        </listOfReactants>
+        <listOfProducts>
+          <speciesReference species="M_3ump_p" stoichiometry="1" constant="true"/>
+        </listOfProducts>
+        <fbc:geneProductAssociation>
+          <fbc:or>
+            <fbc:geneProductRef fbc:geneProduct="G_b0241"/>
+            <fbc:geneProductRef fbc:geneProduct="G_b0929"/>
+            <fbc:geneProductRef fbc:geneProduct="G_b1377"/>
+            <fbc:geneProductRef fbc:geneProduct="G_b2215"/>
+          </fbc:or>
+        </fbc:geneProductAssociation>
+      </reaction>
+      <reaction id="R_MSO3abcpp" fast="false" reversible="false" name="Methanesulfonate transport via ABC system (periplasm)" metaid="R_MSO3abcpp" sboTerm="SBO:0000185" fbc:upperFluxBound="cobra_default_ub" fbc:lowerFluxBound="cobra_0_bound">
+        <sbml:annotation xmlns:sbml="http://www.sbml.org/sbml/level3/version1/core">
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+            <rdf:Description rdf:about="#R_MSO3abcpp">
+              <bqbiol:is xmlns:bqbiol="http://biomodels.net/biology-qualifiers/">
+                <rdf:Bag>
+                  <rdf:li rdf:resource="http://identifiers.org/bigg.reaction/MSO3abcpp"/>
+                  <rdf:li rdf:resource="http://identifiers.org/metanetx.reaction/MNXR101741"/>
+                  <rdf:li rdf:resource="http://identifiers.org/seed.reaction/rxn05621"/>
+                  <rdf:li rdf:resource="http://identifiers.org/seed.reaction/rxn08959"/>
+                </rdf:Bag>
+              </bqbiol:is>
+            </rdf:Description>
+          </rdf:RDF>
+        </sbml:annotation>
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+          <speciesReference species="M_atp_c" stoichiometry="1" constant="true"/>
+          <speciesReference species="M_h2o_c" stoichiometry="1" constant="true"/>
+          <speciesReference species="M_mso3_p" stoichiometry="1" constant="true"/>
+        </listOfReactants>
+        <listOfProducts>
+          <speciesReference species="M_adp_c" stoichiometry="1" constant="true"/>
+          <speciesReference species="M_h_c" stoichiometry="1" constant="true"/>
+          <speciesReference species="M_mso3_c" stoichiometry="1" constant="true"/>
+          <speciesReference species="M_pi_c" stoichiometry="1" constant="true"/>
+        </listOfProducts>
+        <fbc:geneProductAssociation>
+          <fbc:and>
+            <fbc:geneProductRef fbc:geneProduct="G_b0933"/>
+            <fbc:geneProductRef fbc:geneProduct="G_b0936"/>
+            <fbc:geneProductRef fbc:geneProduct="G_b0934"/>
+          </fbc:and>
+        </fbc:geneProductAssociation>
+      </reaction>
+      <reaction id="R_MSO3tex" fast="false" reversible="true" name="Methanesulfonate transport via diffusion (extracellular to periplasm)" metaid="R_MSO3tex" sboTerm="SBO:0000185" fbc:upperFluxBound="cobra_default_ub" fbc:lowerFluxBound="cobra_default_lb">
+        <sbml:annotation xmlns:sbml="http://www.sbml.org/sbml/level3/version1/core">
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+            <rdf:Description rdf:about="#R_MSO3tex">
+              <bqbiol:is xmlns:bqbiol="http://biomodels.net/biology-qualifiers/">
+                <rdf:Bag>
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+                  <rdf:li rdf:resource="http://identifiers.org/metanetx.reaction/MNXR101742"/>
+                  <rdf:li rdf:resource="http://identifiers.org/seed.reaction/rxn08960"/>
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+          <speciesReference species="M_mso3_e" stoichiometry="1" constant="true"/>
+        </listOfReactants>
+        <listOfProducts>
+          <speciesReference species="M_mso3_p" stoichiometry="1" constant="true"/>
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+            <fbc:geneProductRef fbc:geneProduct="G_b0929"/>
+            <fbc:geneProductRef fbc:geneProduct="G_b1377"/>
+            <fbc:geneProductRef fbc:geneProduct="G_b2215"/>
+          </fbc:or>
+        </fbc:geneProductAssociation>
+      </reaction>
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+        <sbml:annotation xmlns:sbml="http://www.sbml.org/sbml/level3/version1/core">
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+                  <rdf:li rdf:resource="http://identifiers.org/metanetx.reaction/MNXR99530"/>
+                  <rdf:li rdf:resource="http://identifiers.org/seed.reaction/rxn08495"/>
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+        </sbml:annotation>
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+          <speciesReference species="M_fecrm_c" stoichiometry="2" constant="true"/>
+        </listOfReactants>
+        <listOfProducts>
+          <speciesReference species="M_fad_c" stoichiometry="1" constant="true"/>
+          <speciesReference species="M_fe2_c" stoichiometry="2" constant="true"/>
+          <speciesReference species="M_fecrm_un_c" stoichiometry="2" constant="true"/>
+          <speciesReference species="M_h_c" stoichiometry="2" constant="true"/>
+        </listOfProducts>
+      </reaction>
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+                <rdf:Bag>
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+        </sbml:annotation>
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+          <speciesReference species="M_fecrm_c" stoichiometry="2" constant="true"/>
+          <speciesReference species="M_fmnh2_c" stoichiometry="1" constant="true"/>
+        </listOfReactants>
+        <listOfProducts>
+          <speciesReference species="M_fe2_c" stoichiometry="2" constant="true"/>
+          <speciesReference species="M_fecrm_un_c" stoichiometry="2" constant="true"/>
+          <speciesReference species="M_fmn_c" stoichiometry="1" constant="true"/>
+          <speciesReference species="M_h_c" stoichiometry="2" constant="true"/>
+        </listOfProducts>
+      </reaction>
+      <reaction id="R_TDP" fast="false" reversible="false" name="Thiamin pyrophosphatase" metaid="R_TDP" sboTerm="SBO:0000176" fbc:upperFluxBound="cobra_default_ub" fbc:lowerFluxBound="cobra_0_bound">
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+                  <rdf:li rdf:resource="http://identifiers.org/ec-code/3.6.1"/>
+                  <rdf:li rdf:resource="http://identifiers.org/ec-code/3.6.1.-"/>
+                  <rdf:li rdf:resource="http://identifiers.org/ec-code/3.6.1.15"/>
+                  <rdf:li rdf:resource="http://identifiers.org/kegg.reaction/R00615"/>
+                  <rdf:li rdf:resource="http://identifiers.org/metanetx.reaction/MNXR104756"/>
+                  <rdf:li rdf:resource="http://identifiers.org/rhea/27998"/>
+                  <rdf:li rdf:resource="http://identifiers.org/rhea/28000"/>
+                  <rdf:li rdf:resource="http://identifiers.org/rhea/28001"/>
+                  <rdf:li rdf:resource="http://identifiers.org/rhea/27999"/>
+                  <rdf:li rdf:resource="http://identifiers.org/seed.reaction/rxn00436"/>
+                </rdf:Bag>
+              </bqbiol:is>
+            </rdf:Description>
+          </rdf:RDF>
+        </sbml:annotation>
+        <listOfReactants>
+          <speciesReference species="M_h2o_c" stoichiometry="1" constant="true"/>
+          <speciesReference species="M_thmpp_c" stoichiometry="1" constant="true"/>
+        </listOfReactants>
+        <listOfProducts>
+          <speciesReference species="M_h_c" stoichiometry="1" constant="true"/>
+          <speciesReference species="M_pi_c" stoichiometry="1" constant="true"/>
+          <speciesReference species="M_thmmp_c" stoichiometry="1" constant="true"/>
+        </listOfProducts>
+        <fbc:geneProductAssociation>
+          <fbc:geneProductRef fbc:geneProduct="G_b1134"/>
+        </fbc:geneProductAssociation>
+      </reaction>
+      <reaction id="R_3PEPTabcpp" fast="false" reversible="false" name="Tripeptide (LalaDgluMdap) transport via ABC system (periplasm)" metaid="R_3PEPTabcpp" sboTerm="SBO:0000185" fbc:upperFluxBound="cobra_default_ub" fbc:lowerFluxBound="cobra_0_bound">
+        <sbml:annotation xmlns:sbml="http://www.sbml.org/sbml/level3/version1/core">
+          <rdf:RDF xmlns:rdf="http://www.w3.org/1999/02/22-rdf-syntax-ns#">
+            <rdf:Description rdf:about="#R_3PEPTabcpp">
+              <bqbiol:is xmlns:bqbiol="http://biomodels.net/biology-qualifiers/">
+                <rdf:Bag>
+                  <rdf:li rdf:resource="http://identifiers.org/bigg.reaction/3PEPTabcpp"/>
+                  <rdf:li rdf:resource="http://identifiers.org/metanetx.reaction/MNXR94970"/>
+                  <rdf:li rdf:resource="http://identifiers.org/seed.reaction/rxn08003"/>
+                </rdf:Bag>
+              </bqbiol:is>
+            </rdf:Description>
+          </rdf:RDF>
+        </sbml:annotation>
+        <listOfReactants>
+          <speciesReference species="M_LalaDgluMdap_p" stoichiometry="1" constant="true"/>
+          <speciesReference species="M_atp_c" stoichiometry="1" constant="true"/>
+          <speciesReference species="M_h2o_c" stoichiometry="1" constant="true"/>
+        </listOfReactants>
+        <listOfProducts>
+          <speciesReference species="M_LalaDgluMdap_c" stoichiometry="1" constant="true"/>
+          <speciesReference species="M_adp_c" stoichiometry="1" constant="true"/>
+          <speciesReference species="M_h_c" stoichiometry="1" constant="true"/>
+          <speciesReference species="M_pi_c" stoichiometry="1" constant="true"/>
+        </listOfProducts>
+        <fbc:geneProductAssociation>
+          <fbc:or>
+            <fbc:and>
+              <fbc:geneProductRef fbc:geneProduct="G_b1245"/>
+              <fbc:geneProductRef fbc:geneProduct="G_b1247"/>
+              <fbc:geneProductRef fbc:geneProduct="G_b1244"/>
+              <fbc:geneProductRef fbc:geneProduct="G_b1329"/>
+              <fbc:geneProductRef fbc:geneProduct="G_b1246"/>
+            </fbc:and>
+            <fbc:and>
+              <fbc:geneProductRef fbc:geneProduct="G_b2177"/>
+              <fbc:geneProductRef fbc:geneProduct="G_b2180"/>
+              <fbc:geneProductRef fbc:geneProduct="G_b2178"/>
+              <fbc:geneProductRef fbc:geneProduct="G_b2179"/>
+            </fbc:and>
+            <fbc:and>
+              <fbc:geneProductRef fbc:geneProduct="G_b1245"/>
+              <fbc:geneProductRef fbc:geneProduct="G_b1247"/>
+              <fbc:geneProductRef fbc:geneProduct="G_b1246"/>
+              <fbc:geneProductRef fbc:geneProduct="G_b1244"/>
+              <fbc:geneProductRef fbc:geneProduct="G_b1243"/>
+            </fbc:and>
+          </fbc:or>
+        </fbc:geneProductAssociation>
+      </reaction>
+      <reaction id="R_4PEPTabcpp" fast="false" reversible="false" name="Tetrapeptide (LalaDgluMdapDala) transport via ABC system (periplasm)" metaid="R_4PEPTabcpp" sboTerm="SBO:0000185" fbc:upperFluxBound="cobra_default_ub" fbc:lowerFluxBound="cobra_0_bound">
+        <sbml:annotation xmlns:sbml="http://www.sbml.org/sbml/level3/version1/core">
+          <rdf:RDF xmlns:rdf="http://www.w3.org/1999/02/22-rdf-syntax-ns#">
+            <rdf:Description rdf:about="#R_4PEPTabcpp">
+              <bqbiol:is xmlns:bqbiol="http://biomodels.net/biology-qualifiers/">
+                <rdf:Bag>
+                  <rdf:li rdf:resource="http://identifiers.org/bigg.reaction/4PEPTabcpp"/>
+                  <rdf:li rdf:resource="http://identifiers.org/metanetx.reaction/MNXR95050"/>
+                  <rdf:li rdf:resource="http://identifiers.org/seed.reaction/rxn08008"/>
+                </rdf:Bag>
+              </bqbiol:is>
+            </rdf:Description>
+          </rdf:RDF>
+        </sbml:annotation>
+        <listOfReactants>
+          <speciesReference species="M_LalaDgluMdapDala_p" stoichiometry="1" constant="true"/>
+          <speciesReference species="M_atp_c" stoichiometry="1" constant="true"/>
+          <speciesReference species="M_h2o_c" stoichiometry="1" constant="true"/>
+        </listOfReactants>
+        <listOfProducts>
+          <speciesReference species="M_LalaDgluMdapDala_c" stoichiometry="1" constant="true"/>
+          <speciesReference species="M_adp_c" stoichiometry="1" constant="true"/>
+          <speciesReference species="M_h_c" stoichiometry="1" constant="true"/>
+          <speciesReference species="M_pi_c" stoichiometry="1" constant="true"/>
+        </listOfProducts>
+        <fbc:geneProductAssociation>
+          <fbc:or>
+            <fbc:and>
+              <fbc:geneProductRef fbc:geneProduct="G_b1243"/>
+              <fbc:geneProductRef fbc:geneProduct="G_b1247"/>
+              <fbc:geneProductRef fbc:geneProduct="G_b1244"/>
+              <fbc:geneProductRef fbc:geneProduct="G_b1245"/>
+              <fbc:geneProductRef fbc:geneProduct="G_b1246"/>
+            </fbc:and>
+            <fbc:and>
+              <fbc:geneProductRef fbc:geneProduct="G_b2177"/>
+              <fbc:geneProductRef fbc:geneProduct="G_b2180"/>
+              <fbc:geneProductRef fbc:geneProduct="G_b2178"/>
+              <fbc:geneProductRef fbc:geneProduct="G_b2179"/>
+            </fbc:and>
+          </fbc:or>
+        </fbc:geneProductAssociation>
+      </reaction>
+      <reaction id="R_3GMPtex" fast="false" reversible="true" name="3GMP transport via diffusion (extracellular to periplasm)" metaid="R_3GMPtex" sboTerm="SBO:0000185" fbc:upperFluxBound="cobra_default_ub" fbc:lowerFluxBound="cobra_default_lb">
+        <sbml:annotation xmlns:sbml="http://www.sbml.org/sbml/level3/version1/core">
+          <rdf:RDF xmlns:rdf="http://www.w3.org/1999/02/22-rdf-syntax-ns#">
+            <rdf:Description rdf:about="#R_3GMPtex">
+              <bqbiol:is xmlns:bqbiol="http://biomodels.net/biology-qualifiers/">
+                <rdf:Bag>
+                  <rdf:li rdf:resource="http://identifiers.org/bigg.reaction/3GMPtex"/>
+                  <rdf:li rdf:resource="http://identifiers.org/metanetx.reaction/MNXR94868"/>
+                  <rdf:li rdf:resource="http://identifiers.org/seed.reaction/rxn07975"/>
+                </rdf:Bag>
+              </bqbiol:is>
+            </rdf:Description>
+          </rdf:RDF>
+        </sbml:annotation>
+        <listOfReactants>
+          <speciesReference species="M_3gmp_e" stoichiometry="1" constant="true"/>
+        </listOfReactants>
+        <listOfProducts>
+          <speciesReference species="M_3gmp_p" stoichiometry="1" constant="true"/>
+        </listOfProducts>
+        <fbc:geneProductAssociation>
+          <fbc:or>
+            <fbc:geneProductRef fbc:geneProduct="G_b0241"/>
+            <fbc:geneProductRef fbc:geneProduct="G_b0929"/>
+            <fbc:geneProductRef fbc:geneProduct="G_b1377"/>
+            <fbc:geneProductRef fbc:geneProduct="G_b2215"/>
+          </fbc:or>
+        </fbc:geneProductAssociation>
+      </reaction>
+      <reaction id="R_FALDtpp" fast="false" reversible="true" name="Formaldehyde transport via diffusion (periplasm)" metaid="R_FALDtpp" sboTerm="SBO:0000185" fbc:upperFluxBound="cobra_default_ub" fbc:lowerFluxBound="cobra_default_lb">
+        <sbml:annotation xmlns:sbml="http://www.sbml.org/sbml/level3/version1/core">
+          <rdf:RDF xmlns:rdf="http://www.w3.org/1999/02/22-rdf-syntax-ns#">
+            <rdf:Description rdf:about="#R_FALDtpp">
+              <bqbiol:is xmlns:bqbiol="http://biomodels.net/biology-qualifiers/">
+                <rdf:Bag>
+                  <rdf:li rdf:resource="http://identifiers.org/bigg.reaction/FALDtpp"/>
+                  <rdf:li rdf:resource="http://identifiers.org/metanetx.reaction/MNXR99238"/>
+                  <rdf:li rdf:resource="http://identifiers.org/seed.reaction/rxn08461"/>
+                  <rdf:li rdf:resource="http://identifiers.org/seed.reaction/rxn08462"/>
+                </rdf:Bag>
+              </bqbiol:is>
+            </rdf:Description>
+          </rdf:RDF>
+        </sbml:annotation>
+        <listOfReactants>
+          <speciesReference species="M_fald_p" stoichiometry="1" constant="true"/>
+        </listOfReactants>
+        <listOfProducts>
+          <speciesReference species="M_fald_c" stoichiometry="1" constant="true"/>
+        </listOfProducts>
+        <fbc:geneProductAssociation>
+          <fbc:geneProductRef fbc:geneProduct="G_s0001"/>
+        </fbc:geneProductAssociation>
+      </reaction>
+      <reaction id="R_EX_tym_e" fast="false" reversible="false" name="Tyramine exchange" metaid="R_EX_tym_e" sboTerm="SBO:0000627" fbc:upperFluxBound="cobra_default_ub" fbc:lowerFluxBound="cobra_0_bound">
+        <sbml:annotation xmlns:sbml="http://www.sbml.org/sbml/level3/version1/core">
+          <rdf:RDF xmlns:rdf="http://www.w3.org/1999/02/22-rdf-syntax-ns#">
+            <rdf:Description rdf:about="#R_EX_tym_e">
+              <bqbiol:is xmlns:bqbiol="http://biomodels.net/biology-qualifiers/">
+                <rdf:Bag>
+                  <rdf:li rdf:resource="http://identifiers.org/bigg.reaction/EX_tym_e"/>
+                  <rdf:li rdf:resource="http://identifiers.org/metanetx.reaction/MNXR104985"/>
+                  <rdf:li rdf:resource="http://identifiers.org/seed.reaction/rxn09335"/>
+                </rdf:Bag>
+              </bqbiol:is>
+            </rdf:Description>
+          </rdf:RDF>
+        </sbml:annotation>
+        <listOfReactants>
+          <speciesReference species="M_tym_e" stoichiometry="1" constant="true"/>
+        </listOfReactants>
+      </reaction>
+      <reaction id="R_AGM3Pt2pp" fast="false" reversible="false" name="GlcNAc-anhMurNAc tripeptide transport in via proton symport (periplasm)" metaid="R_AGM3Pt2pp" sboTerm="SBO:0000185" fbc:upperFluxBound="cobra_default_ub" fbc:lowerFluxBound="cobra_0_bound">
+        <sbml:annotation xmlns:sbml="http://www.sbml.org/sbml/level3/version1/core">
+          <rdf:RDF xmlns:rdf="http://www.w3.org/1999/02/22-rdf-syntax-ns#">
+            <rdf:Description rdf:about="#R_AGM3Pt2pp">
+              <bqbiol:is xmlns:bqbiol="http://biomodels.net/biology-qualifiers/">
+                <rdf:Bag>
+                  <rdf:li rdf:resource="http://identifiers.org/bigg.reaction/AGM3Pt2pp"/>
+                  <rdf:li rdf:resource="http://identifiers.org/metanetx.reaction/MNXR95545"/>
+                  <rdf:li rdf:resource="http://identifiers.org/seed.reaction/rxn08075"/>
+                </rdf:Bag>
+              </bqbiol:is>
+            </rdf:Description>
+          </rdf:RDF>
+        </sbml:annotation>
+        <listOfReactants>
+          <speciesReference species="M_anhgm3p_p" stoichiometry="1" constant="true"/>
+          <speciesReference species="M_h_p" stoichiometry="1" constant="true"/>
+        </listOfReactants>
+        <listOfProducts>
+          <speciesReference species="M_anhgm3p_c" stoichiometry="1" constant="true"/>
+          <speciesReference species="M_h_c" stoichiometry="1" constant="true"/>
+        </listOfProducts>
+        <fbc:geneProductAssociation>
+          <fbc:geneProductRef fbc:geneProduct="G_b0433"/>
+        </fbc:geneProductAssociation>
+      </reaction>
+      <reaction id="R_SO4tex" fast="false" reversible="true" name="Sulfate transport via diffusion (extracellular to periplasm)" metaid="R_SO4tex" sboTerm="SBO:0000185" fbc:upperFluxBound="cobra_default_ub" fbc:lowerFluxBound="cobra_default_lb">
+        <sbml:annotation xmlns:sbml="http://www.sbml.org/sbml/level3/version1/core">
+          <rdf:RDF xmlns:rdf="http://www.w3.org/1999/02/22-rdf-syntax-ns#">
+            <rdf:Description rdf:about="#R_SO4tex">
+              <bqbiol:is xmlns:bqbiol="http://biomodels.net/biology-qualifiers/">
+                <rdf:Bag>
+                  <rdf:li rdf:resource="http://identifiers.org/bigg.reaction/SO4tex"/>
+                  <rdf:li rdf:resource="http://identifiers.org/metanetx.reaction/MNXR104469"/>
+                  <rdf:li rdf:resource="http://identifiers.org/reactome.reaction/R-TGU-8875871"/>
+                  <rdf:li rdf:resource="http://identifiers.org/reactome.reaction/R-DRE-8875871"/>
+                  <rdf:li rdf:resource="http://identifiers.org/reactome.reaction/R-GGA-8875871"/>
+                  <rdf:li rdf:resource="http://identifiers.org/reactome.reaction/R-BTA-8875871"/>
+                  <rdf:li rdf:resource="http://identifiers.org/reactome.reaction/R-SCE-8875871"/>
+                  <rdf:li rdf:resource="http://identifiers.org/reactome.reaction/R-HSA-8875871"/>
+                  <rdf:li rdf:resource="http://identifiers.org/reactome.reaction/R-SPO-8875871"/>
+                  <rdf:li rdf:resource="http://identifiers.org/reactome.reaction/R-XTR-8875871"/>
+                  <rdf:li rdf:resource="http://identifiers.org/reactome.reaction/R-MMU-8875871"/>
+                  <rdf:li rdf:resource="http://identifiers.org/reactome.reaction/R-RNO-8875871"/>
+                  <rdf:li rdf:resource="http://identifiers.org/reactome.reaction/R-SSC-8875871"/>
+                  <rdf:li rdf:resource="http://identifiers.org/reactome.reaction/R-PFA-8875871"/>
+                  <rdf:li rdf:resource="http://identifiers.org/reactome.reaction/R-ATH-8875871"/>
+                  <rdf:li rdf:resource="http://identifiers.org/reactome.reaction/R-CFA-8875871"/>
+                  <rdf:li rdf:resource="http://identifiers.org/reactome.reaction/R-OSA-8875871"/>
+                  <rdf:li rdf:resource="http://identifiers.org/reactome.reaction/R-DME-8875871"/>
+                  <rdf:li rdf:resource="http://identifiers.org/rhea/34983"/>
+                  <rdf:li rdf:resource="http://identifiers.org/rhea/34984"/>
+                  <rdf:li rdf:resource="http://identifiers.org/rhea/34986"/>
+                  <rdf:li rdf:resource="http://identifiers.org/rhea/34985"/>
+                  <rdf:li rdf:resource="http://identifiers.org/seed.reaction/rxn09261"/>
+                  <rdf:li rdf:resource="http://identifiers.org/seed.reaction/rxn05238"/>
+                </rdf:Bag>
+              </bqbiol:is>
+            </rdf:Description>
+          </rdf:RDF>
+        </sbml:annotation>
+        <listOfReactants>
+          <speciesReference species="M_so4_e" stoichiometry="1" constant="true"/>
+        </listOfReactants>
+        <listOfProducts>
+          <speciesReference species="M_so4_p" stoichiometry="1" constant="true"/>
+        </listOfProducts>
+        <fbc:geneProductAssociation>
+          <fbc:or>
+            <fbc:geneProductRef fbc:geneProduct="G_b0241"/>
+            <fbc:geneProductRef fbc:geneProduct="G_b0929"/>
+            <fbc:geneProductRef fbc:geneProduct="G_b1377"/>
+            <fbc:geneProductRef fbc:geneProduct="G_b2215"/>
+          </fbc:or>
+        </fbc:geneProductAssociation>
+      </reaction>
+      <reaction id="R_AGM4Pt2pp" fast="false" reversible="false" name="GlcNAc-anhMurNAc tetrapeptide transport in via proton symport (periplasm)" metaid="R_AGM4Pt2pp" sboTerm="SBO:0000185" fbc:upperFluxBound="cobra_default_ub" fbc:lowerFluxBound="cobra_0_bound">
+        <sbml:annotation xmlns:sbml="http://www.sbml.org/sbml/level3/version1/core">
+          <rdf:RDF xmlns:rdf="http://www.w3.org/1999/02/22-rdf-syntax-ns#">
+            <rdf:Description rdf:about="#R_AGM4Pt2pp">
+              <bqbiol:is xmlns:bqbiol="http://biomodels.net/biology-qualifiers/">
+                <rdf:Bag>
+                  <rdf:li rdf:resource="http://identifiers.org/bigg.reaction/AGM4Pt2pp"/>
+                  <rdf:li rdf:resource="http://identifiers.org/metanetx.reaction/MNXR95549"/>
+                  <rdf:li rdf:resource="http://identifiers.org/seed.reaction/rxn08079"/>
+                </rdf:Bag>
+              </bqbiol:is>
+            </rdf:Description>
+          </rdf:RDF>
+        </sbml:annotation>
+        <listOfReactants>
+          <speciesReference species="M_anhgm4p_p" stoichiometry="1" constant="true"/>
+          <speciesReference species="M_h_p" stoichiometry="1" constant="true"/>
+        </listOfReactants>
+        <listOfProducts>
+          <speciesReference species="M_anhgm4p_c" stoichiometry="1" constant="true"/>
+          <speciesReference species="M_h_c" stoichiometry="1" constant="true"/>
+        </listOfProducts>
+        <fbc:geneProductAssociation>
+          <fbc:geneProductRef fbc:geneProduct="G_b0433"/>
+        </fbc:geneProductAssociation>
+      </reaction>
+      <reaction id="R_AGMt2pp" fast="false" reversible="false" name="GlcNAc-anhMurNAc transport in via proton symport (periplasm)" metaid="R_AGMt2pp" sboTerm="SBO:0000185" fbc:upperFluxBound="cobra_default_ub" fbc:lowerFluxBound="cobra_0_bound">
+        <sbml:annotation xmlns:sbml="http://www.sbml.org/sbml/level3/version1/core">
+          <rdf:RDF xmlns:rdf="http://www.w3.org/1999/02/22-rdf-syntax-ns#">
+            <rdf:Description rdf:about="#R_AGMt2pp">
+              <bqbiol:is xmlns:bqbiol="http://biomodels.net/biology-qualifiers/">
+                <rdf:Bag>
+                  <rdf:li rdf:resource="http://identifiers.org/bigg.reaction/AGMt2pp"/>
+                  <rdf:li rdf:resource="http://identifiers.org/metanetx.reaction/MNXR95555"/>
+                  <rdf:li rdf:resource="http://identifiers.org/seed.reaction/rxn08081"/>
+                </rdf:Bag>
+              </bqbiol:is>
+            </rdf:Description>
+          </rdf:RDF>
+        </sbml:annotation>
+        <listOfReactants>
+          <speciesReference species="M_anhgm_p" stoichiometry="1" constant="true"/>
+          <speciesReference species="M_h_p" stoichiometry="1" constant="true"/>
+        </listOfReactants>
+        <listOfProducts>
+          <speciesReference species="M_anhgm_c" stoichiometry="1" constant="true"/>
+          <speciesReference species="M_h_c" stoichiometry="1" constant="true"/>
+        </listOfProducts>
+        <fbc:geneProductAssociation>
+          <fbc:geneProductRef fbc:geneProduct="G_b0433"/>
+        </fbc:geneProductAssociation>
+      </reaction>
+      <reaction id="R_FECRMexs" fast="false" reversible="false" name="Ferrichrome Fe(III)-loading reaction (spontaneous)" metaid="R_FECRMexs" sboTerm="SBO:0000176" fbc:upperFluxBound="cobra_default_ub" fbc:lowerFluxBound="cobra_0_bound">
+        <sbml:annotation xmlns:sbml="http://www.sbml.org/sbml/level3/version1/core">
+          <rdf:RDF xmlns:rdf="http://www.w3.org/1999/02/22-rdf-syntax-ns#">
+            <rdf:Description rdf:about="#R_FECRMexs">
+              <bqbiol:is xmlns:bqbiol="http://biomodels.net/biology-qualifiers/">
+                <rdf:Bag>
+                  <rdf:li rdf:resource="http://identifiers.org/bigg.reaction/FECRMexs"/>
+                  <rdf:li rdf:resource="http://identifiers.org/metanetx.reaction/MNXR99536"/>
+                  <rdf:li rdf:resource="http://identifiers.org/seed.reaction/rxn08494"/>
+                </rdf:Bag>
+              </bqbiol:is>
+            </rdf:Description>
+          </rdf:RDF>
+        </sbml:annotation>
+        <listOfReactants>
+          <speciesReference species="M_fe3_e" stoichiometry="1" constant="true"/>
+          <speciesReference species="M_fecrm_un_e" stoichiometry="1" constant="true"/>
+        </listOfReactants>
+        <listOfProducts>
+          <speciesReference species="M_fecrm_e" stoichiometry="1" constant="true"/>
+        </listOfProducts>
+        <fbc:geneProductAssociation>
+          <fbc:geneProductRef fbc:geneProduct="G_s0001"/>
+        </fbc:geneProductAssociation>
+      </reaction>
+      <reaction id="R_ARBTNR1" fast="false" reversible="false" name="Aerobactin reductase" metaid="R_ARBTNR1" sboTerm="SBO:0000176" fbc:upperFluxBound="cobra_default_ub" fbc:lowerFluxBound="cobra_0_bound">
+        <sbml:annotation xmlns:sbml="http://www.sbml.org/sbml/level3/version1/core">
+          <rdf:RDF xmlns:rdf="http://www.w3.org/1999/02/22-rdf-syntax-ns#">
+            <rdf:Description rdf:about="#R_ARBTNR1">
+              <bqbiol:is xmlns:bqbiol="http://biomodels.net/biology-qualifiers/">
+                <rdf:Bag>
+                  <rdf:li rdf:resource="http://identifiers.org/bigg.reaction/ARBTNR1"/>
+                  <rdf:li rdf:resource="http://identifiers.org/metanetx.reaction/MNXR95924"/>
+                  <rdf:li rdf:resource="http://identifiers.org/seed.reaction/rxn08145"/>
+                </rdf:Bag>
+              </bqbiol:is>
+            </rdf:Description>
+          </rdf:RDF>
+        </sbml:annotation>
+        <listOfReactants>
+          <speciesReference species="M_arbtn_fe3_c" stoichiometry="2" constant="true"/>
+          <speciesReference species="M_fadh2_c" stoichiometry="1" constant="true"/>
+        </listOfReactants>
+        <listOfProducts>
+          <speciesReference species="M_arbtn_c" stoichiometry="2" constant="true"/>
+          <speciesReference species="M_fad_c" stoichiometry="1" constant="true"/>
+          <speciesReference species="M_fe2_c" stoichiometry="2" constant="true"/>
+          <speciesReference species="M_h_c" stoichiometry="2" constant="true"/>
+        </listOfProducts>
+      </reaction>
+      <reaction id="R_ARBTNR2" fast="false" reversible="false" name="Aerobactin reductase" metaid="R_ARBTNR2" sboTerm="SBO:0000176" fbc:upperFluxBound="cobra_default_ub" fbc:lowerFluxBound="cobra_0_bound">
+        <sbml:annotation xmlns:sbml="http://www.sbml.org/sbml/level3/version1/core">
+          <rdf:RDF xmlns:rdf="http://www.w3.org/1999/02/22-rdf-syntax-ns#">
+            <rdf:Description rdf:about="#R_ARBTNR2">
+              <bqbiol:is xmlns:bqbiol="http://biomodels.net/biology-qualifiers/">
+                <rdf:Bag>
+                  <rdf:li rdf:resource="http://identifiers.org/bigg.reaction/ARBTNR2"/>
+                  <rdf:li rdf:resource="http://identifiers.org/metanetx.reaction/MNXR95925"/>
+                  <rdf:li rdf:resource="http://identifiers.org/seed.reaction/rxn08146"/>
+                </rdf:Bag>
+              </bqbiol:is>
+            </rdf:Description>
+          </rdf:RDF>
+        </sbml:annotation>
+        <listOfReactants>
+          <speciesReference species="M_arbtn_fe3_c" stoichiometry="2" constant="true"/>
+          <speciesReference species="M_fmnh2_c" stoichiometry="1" constant="true"/>
+        </listOfReactants>
+        <listOfProducts>
+          <speciesReference species="M_arbtn_c" stoichiometry="2" constant="true"/>
+          <speciesReference species="M_fe2_c" stoichiometry="2" constant="true"/>
+          <speciesReference species="M_fmn_c" stoichiometry="1" constant="true"/>
+          <speciesReference species="M_h_c" stoichiometry="2" constant="true"/>
+        </listOfProducts>
+      </reaction>
+      <reaction id="R_METSOXR1" fast="false" reversible="false" name="L-methionine-S-oxide reductase" metaid="R_METSOXR1" sboTerm="SBO:0000176" fbc:upperFluxBound="cobra_default_ub" fbc:lowerFluxBound="cobra_0_bound">
+        <sbml:annotation xmlns:sbml="http://www.sbml.org/sbml/level3/version1/core">
+          <rdf:RDF xmlns:rdf="http://www.w3.org/1999/02/22-rdf-syntax-ns#">
+            <rdf:Description rdf:about="#R_METSOXR1">
+              <bqbiol:is xmlns:bqbiol="http://biomodels.net/biology-qualifiers/">
+                <rdf:Bag>
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+                  <rdf:li rdf:resource="http://identifiers.org/ec-code/1.8.4.14"/>
+                  <rdf:li rdf:resource="http://identifiers.org/ec-code/1.8.4.13"/>
+                  <rdf:li rdf:resource="http://identifiers.org/kegg.reaction/R02025"/>
+                  <rdf:li rdf:resource="http://identifiers.org/metanetx.reaction/MNXR101484"/>
+                  <rdf:li rdf:resource="http://identifiers.org/seed.reaction/rxn06077"/>
+                  <rdf:li rdf:resource="http://identifiers.org/seed.reaction/rxn08918"/>
+                </rdf:Bag>
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+            </rdf:Description>
+          </rdf:RDF>
+        </sbml:annotation>
+        <listOfReactants>
+          <speciesReference species="M_metsox_S__L_c" stoichiometry="1" constant="true"/>
+          <speciesReference species="M_trdrd_c" stoichiometry="1" constant="true"/>
+        </listOfReactants>
+        <listOfProducts>
+          <speciesReference species="M_h2o_c" stoichiometry="1" constant="true"/>
+          <speciesReference species="M_met__L_c" stoichiometry="1" constant="true"/>
+          <speciesReference species="M_trdox_c" stoichiometry="1" constant="true"/>
+        </listOfProducts>
+        <fbc:geneProductAssociation>
+          <fbc:or>
+            <fbc:and>
+              <fbc:geneProductRef fbc:geneProduct="G_b2582"/>
+              <fbc:geneProductRef fbc:geneProduct="G_b4219"/>
+            </fbc:and>
+            <fbc:and>
+              <fbc:geneProductRef fbc:geneProduct="G_b3781"/>
+              <fbc:geneProductRef fbc:geneProduct="G_b4219"/>
+            </fbc:and>
+            <fbc:and>
+              <fbc:geneProductRef fbc:geneProduct="G_b3551"/>
+              <fbc:geneProductRef fbc:geneProduct="G_b2582"/>
+            </fbc:and>
+            <fbc:and>
+              <fbc:geneProductRef fbc:geneProduct="G_b3551"/>
+              <fbc:geneProductRef fbc:geneProduct="G_b3781"/>
+            </fbc:and>
+          </fbc:or>
+        </fbc:geneProductAssociation>
+      </reaction>
+      <reaction id="R_METSOXR2" fast="false" reversible="false" name="L-methionine-R-sulfoxide reductase" metaid="R_METSOXR2" sboTerm="SBO:0000176" fbc:upperFluxBound="cobra_default_ub" fbc:lowerFluxBound="cobra_0_bound">
+        <sbml:annotation xmlns:sbml="http://www.sbml.org/sbml/level3/version1/core">
+          <rdf:RDF xmlns:rdf="http://www.w3.org/1999/02/22-rdf-syntax-ns#">
+            <rdf:Description rdf:about="#R_METSOXR2">
+              <bqbiol:is xmlns:bqbiol="http://biomodels.net/biology-qualifiers/">
+                <rdf:Bag>
+                  <rdf:li rdf:resource="http://identifiers.org/bigg.reaction/METSOXR2"/>
+                  <rdf:li rdf:resource="http://identifiers.org/biocyc/META:1.8.4.14-RXN"/>
+                  <rdf:li rdf:resource="http://identifiers.org/ec-code/1.8.4.14"/>
+                  <rdf:li rdf:resource="http://identifiers.org/kegg.reaction/R07608"/>
+                  <rdf:li rdf:resource="http://identifiers.org/metanetx.reaction/MNXR138594"/>
+                  <rdf:li rdf:resource="http://identifiers.org/seed.reaction/rxn08919"/>
+                  <rdf:li rdf:resource="http://identifiers.org/seed.reaction/rxn07439"/>
+                </rdf:Bag>
+              </bqbiol:is>
+            </rdf:Description>
+          </rdf:RDF>
+        </sbml:annotation>
+        <listOfReactants>
+          <speciesReference species="M_metsox_R__L_c" stoichiometry="1" constant="true"/>
+          <speciesReference species="M_trdrd_c" stoichiometry="1" constant="true"/>
+        </listOfReactants>
+        <listOfProducts>
+          <speciesReference species="M_h2o_c" stoichiometry="1" constant="true"/>
+          <speciesReference species="M_met__L_c" stoichiometry="1" constant="true"/>
+          <speciesReference species="M_trdox_c" stoichiometry="1" constant="true"/>
+        </listOfProducts>
+        <fbc:geneProductAssociation>
+          <fbc:or>
+            <fbc:and>
+              <fbc:geneProductRef fbc:geneProduct="G_b2582"/>
+              <fbc:geneProductRef fbc:geneProduct="G_b1778"/>
+            </fbc:and>
+            <fbc:and>
+              <fbc:geneProductRef fbc:geneProduct="G_b3781"/>
+              <fbc:geneProductRef fbc:geneProduct="G_b1778"/>
+            </fbc:and>
+            <fbc:and>
+              <fbc:geneProductRef fbc:geneProduct="G_b1832"/>
+              <fbc:geneProductRef fbc:geneProduct="G_b3781"/>
+            </fbc:and>
+            <fbc:and>
+              <fbc:geneProductRef fbc:geneProduct="G_b1832"/>
+              <fbc:geneProductRef fbc:geneProduct="G_b2582"/>
+            </fbc:and>
+          </fbc:or>
+        </fbc:geneProductAssociation>
+      </reaction>
+      <reaction id="R_DAPAL" fast="false" reversible="false" name="2,3-diaminopropionate amonnia lyase" metaid="R_DAPAL" sboTerm="SBO:0000176" fbc:upperFluxBound="cobra_default_ub" fbc:lowerFluxBound="cobra_0_bound">
+        <sbml:annotation xmlns:sbml="http://www.sbml.org/sbml/level3/version1/core">
+          <rdf:RDF xmlns:rdf="http://www.w3.org/1999/02/22-rdf-syntax-ns#">
+            <rdf:Description rdf:about="#R_DAPAL">
+              <bqbiol:is xmlns:bqbiol="http://biomodels.net/biology-qualifiers/">
+                <rdf:Bag>
+                  <rdf:li rdf:resource="http://identifiers.org/bigg.reaction/DAPAL"/>
+                  <rdf:li rdf:resource="http://identifiers.org/biocyc/META:4.3.1.15-RXN"/>
+                  <rdf:li rdf:resource="http://identifiers.org/ec-code/4.3.1.15"/>
+                  <rdf:li rdf:resource="http://identifiers.org/kegg.reaction/R00195"/>
+                  <rdf:li rdf:resource="http://identifiers.org/metanetx.reaction/MNXR97138"/>
+                  <rdf:li rdf:resource="http://identifiers.org/rhea/22085"/>
+                  <rdf:li rdf:resource="http://identifiers.org/rhea/22087"/>
+                  <rdf:li rdf:resource="http://identifiers.org/rhea/22084"/>
+                  <rdf:li rdf:resource="http://identifiers.org/rhea/22086"/>
+                  <rdf:li rdf:resource="http://identifiers.org/sabiork/741"/>
+                  <rdf:li rdf:resource="http://identifiers.org/sabiork/9888"/>
+                  <rdf:li rdf:resource="http://identifiers.org/seed.reaction/rxn00144"/>
+                </rdf:Bag>
+              </bqbiol:is>
+            </rdf:Description>
+          </rdf:RDF>
+        </sbml:annotation>
+        <listOfReactants>
+          <speciesReference species="M_23dappa_c" stoichiometry="1" constant="true"/>
+          <speciesReference species="M_h2o_c" stoichiometry="1" constant="true"/>
+        </listOfReactants>
+        <listOfProducts>
+          <speciesReference species="M_nh4_c" stoichiometry="2" constant="true"/>
+          <speciesReference species="M_pyr_c" stoichiometry="1" constant="true"/>
+        </listOfProducts>
+        <fbc:geneProductAssociation>
+          <fbc:geneProductRef fbc:geneProduct="G_b2871"/>
+        </fbc:geneProductAssociation>
+      </reaction>
+      <reaction id="R_AMPTASECG" fast="false" reversible="false" name="Alanyl aminopeptidase (cys-gly)" metaid="R_AMPTASECG" sboTerm="SBO:0000176" fbc:upperFluxBound="cobra_default_ub" fbc:lowerFluxBound="cobra_0_bound">
+        <sbml:annotation xmlns:sbml="http://www.sbml.org/sbml/level3/version1/core">
+          <rdf:RDF xmlns:rdf="http://www.w3.org/1999/02/22-rdf-syntax-ns#">
+            <rdf:Description rdf:about="#R_AMPTASECG">
+              <bqbiol:is xmlns:bqbiol="http://biomodels.net/biology-qualifiers/">
+                <rdf:Bag>
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+                  <rdf:li rdf:resource="http://identifiers.org/biocyc/META:RXN-6622"/>
+                  <rdf:li rdf:resource="http://identifiers.org/ec-code/3.4.11.2"/>
+                  <rdf:li rdf:resource="http://identifiers.org/ec-code/3.4.13.18"/>
+                  <rdf:li rdf:resource="http://identifiers.org/ec-code/3.4.11.23"/>
+                  <rdf:li rdf:resource="http://identifiers.org/ec-code/3.4.11.1"/>
+                  <rdf:li rdf:resource="http://identifiers.org/ec-code/3.4.13.-"/>
+                  <rdf:li rdf:resource="http://identifiers.org/kegg.reaction/R00899"/>
+                  <rdf:li rdf:resource="http://identifiers.org/metanetx.reaction/MNXR95828"/>
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+                  <rdf:li rdf:resource="http://identifiers.org/reactome.reaction/R-SSC-1247910"/>
+                  <rdf:li rdf:resource="http://identifiers.org/reactome.reaction/R-HSA-1247910"/>
+                  <rdf:li rdf:resource="http://identifiers.org/reactome.reaction/R-MMU-1247910"/>
+                  <rdf:li rdf:resource="http://identifiers.org/reactome.reaction/R-TGU-1247910"/>
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+                  <rdf:li rdf:resource="http://identifiers.org/reactome.reaction/R-DME-1247910"/>
+                  <rdf:li rdf:resource="http://identifiers.org/reactome.reaction/R-RNO-1247910"/>
+                  <rdf:li rdf:resource="http://identifiers.org/reactome.reaction/R-SPO-1247910"/>
+                  <rdf:li rdf:resource="http://identifiers.org/reactome.reaction/R-XTR-1247910"/>
+                  <rdf:li rdf:resource="http://identifiers.org/reactome.reaction/R-BTA-1247910"/>
+                  <rdf:li rdf:resource="http://identifiers.org/reactome.reaction/R-CFA-1247910"/>
+                  <rdf:li rdf:resource="http://identifiers.org/reactome.reaction/R-DDI-1247910"/>
+                  <rdf:li rdf:resource="http://identifiers.org/reactome.reaction/R-SCE-1247910"/>
+                  <rdf:li rdf:resource="http://identifiers.org/reactome.reaction/R-GGA-1247910"/>
+                  <rdf:li rdf:resource="http://identifiers.org/rhea/28786"/>
+                  <rdf:li rdf:resource="http://identifiers.org/rhea/28785"/>
+                  <rdf:li rdf:resource="http://identifiers.org/rhea/28784"/>
+                  <rdf:li rdf:resource="http://identifiers.org/rhea/28783"/>
+                  <rdf:li rdf:resource="http://identifiers.org/sabiork/1221"/>
+                  <rdf:li rdf:resource="http://identifiers.org/seed.reaction/rxn00650"/>
+                </rdf:Bag>
+              </bqbiol:is>
+            </rdf:Description>
+          </rdf:RDF>
+        </sbml:annotation>
+        <listOfReactants>
+          <speciesReference species="M_cgly_c" stoichiometry="1" constant="true"/>
+          <speciesReference species="M_h2o_c" stoichiometry="1" constant="true"/>
+        </listOfReactants>
+        <listOfProducts>
+          <speciesReference species="M_cys__L_c" stoichiometry="1" constant="true"/>
+          <speciesReference species="M_gly_c" stoichiometry="1" constant="true"/>
+        </listOfProducts>
+        <fbc:geneProductAssociation>
+          <fbc:or>
+            <fbc:geneProductRef fbc:geneProduct="G_b0932"/>
+            <fbc:geneProductRef fbc:geneProduct="G_b4260"/>
+            <fbc:geneProductRef fbc:geneProduct="G_b2523"/>
+            <fbc:geneProductRef fbc:geneProduct="G_b0237"/>
+          </fbc:or>
+        </fbc:geneProductAssociation>
+      </reaction>
+      <reaction id="R_EX_imp_e" fast="false" reversible="false" name="IMP exchange" metaid="R_EX_imp_e" sboTerm="SBO:0000627" fbc:upperFluxBound="cobra_default_ub" fbc:lowerFluxBound="cobra_0_bound">
+        <sbml:annotation xmlns:sbml="http://www.sbml.org/sbml/level3/version1/core">
+          <rdf:RDF xmlns:rdf="http://www.w3.org/1999/02/22-rdf-syntax-ns#">
+            <rdf:Description rdf:about="#R_EX_imp_e">
+              <bqbiol:is xmlns:bqbiol="http://biomodels.net/biology-qualifiers/">
+                <rdf:Bag>
+                  <rdf:li rdf:resource="http://identifiers.org/bigg.reaction/EX_imp_e"/>
+                  <rdf:li rdf:resource="http://identifiers.org/biocyc/META:TRANS-RXN0-566"/>
+                  <rdf:li rdf:resource="http://identifiers.org/metanetx.reaction/MNXR100831"/>
+                  <rdf:li rdf:resource="http://identifiers.org/seed.reaction/rxn08749"/>
+                </rdf:Bag>
+              </bqbiol:is>
+            </rdf:Description>
+          </rdf:RDF>
+        </sbml:annotation>
+        <listOfReactants>
+          <speciesReference species="M_imp_e" stoichiometry="1" constant="true"/>
+        </listOfReactants>
+      </reaction>
+      <reaction id="R_DOPAtex" fast="false" reversible="true" name="Dopamine transport via diffusion (extracellular to periplasm)" metaid="R_DOPAtex" sboTerm="SBO:0000185" fbc:upperFluxBound="cobra_default_ub" fbc:lowerFluxBound="cobra_default_lb">
+        <sbml:annotation xmlns:sbml="http://www.sbml.org/sbml/level3/version1/core">
+          <rdf:RDF xmlns:rdf="http://www.w3.org/1999/02/22-rdf-syntax-ns#">
+            <rdf:Description rdf:about="#R_DOPAtex">
+              <bqbiol:is xmlns:bqbiol="http://biomodels.net/biology-qualifiers/">
+                <rdf:Bag>
+                  <rdf:li rdf:resource="http://identifiers.org/bigg.reaction/DOPAtex"/>
+                  <rdf:li rdf:resource="http://identifiers.org/metanetx.reaction/MNXR97758"/>
+                  <rdf:li rdf:resource="http://identifiers.org/reactome.reaction/R-TGU-372542"/>
+                  <rdf:li rdf:resource="http://identifiers.org/reactome.reaction/R-GGA-372542"/>
+                  <rdf:li rdf:resource="http://identifiers.org/reactome.reaction/R-CFA-372542"/>
+                  <rdf:li rdf:resource="http://identifiers.org/reactome.reaction/R-BTA-372542"/>
+                  <rdf:li rdf:resource="http://identifiers.org/reactome.reaction/R-CEL-372542"/>
+                  <rdf:li rdf:resource="http://identifiers.org/reactome.reaction/R-DRE-372542"/>
+                  <rdf:li rdf:resource="http://identifiers.org/reactome.reaction/R-HSA-372542"/>
+                  <rdf:li rdf:resource="http://identifiers.org/reactome.reaction/R-MMU-372542"/>
+                  <rdf:li rdf:resource="http://identifiers.org/reactome.reaction/R-SSC-372542"/>
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+                  <rdf:li rdf:resource="http://identifiers.org/reactome.reaction/R-HSA-351596"/>
+                  <rdf:li rdf:resource="http://identifiers.org/sabiork/7032"/>
+                  <rdf:li rdf:resource="http://identifiers.org/seed.reaction/rxn08363"/>
+                </rdf:Bag>
+              </bqbiol:is>
+            </rdf:Description>
+          </rdf:RDF>
+        </sbml:annotation>
+        <listOfReactants>
+          <speciesReference species="M_dopa_e" stoichiometry="1" constant="true"/>
+        </listOfReactants>
+        <listOfProducts>
+          <speciesReference species="M_dopa_p" stoichiometry="1" constant="true"/>
+        </listOfProducts>
+        <fbc:geneProductAssociation>
+          <fbc:or>
+            <fbc:geneProductRef fbc:geneProduct="G_b0241"/>
+            <fbc:geneProductRef fbc:geneProduct="G_b0929"/>
+            <fbc:geneProductRef fbc:geneProduct="G_b1377"/>
+            <fbc:geneProductRef fbc:geneProduct="G_b2215"/>
+          </fbc:or>
+        </fbc:geneProductAssociation>
+      </reaction>
+      <reaction id="R_4HOXPACDtex" fast="false" reversible="true" name="4-hydroxyphenylacetaldehyde transport via diffusion (extracellular to periplasm)" metaid="R_4HOXPACDtex" sboTerm="SBO:0000185" fbc:upperFluxBound="cobra_default_ub" fbc:lowerFluxBound="cobra_default_lb">
+        <sbml:annotation xmlns:sbml="http://www.sbml.org/sbml/level3/version1/core">
+          <rdf:RDF xmlns:rdf="http://www.w3.org/1999/02/22-rdf-syntax-ns#">
+            <rdf:Description rdf:about="#R_4HOXPACDtex">
+              <bqbiol:is xmlns:bqbiol="http://biomodels.net/biology-qualifiers/">
+                <rdf:Bag>
+                  <rdf:li rdf:resource="http://identifiers.org/bigg.reaction/4HOXPACDtex"/>
+                  <rdf:li rdf:resource="http://identifiers.org/metanetx.reaction/MNXR95017"/>
+                  <rdf:li rdf:resource="http://identifiers.org/seed.reaction/rxn08006"/>
+                </rdf:Bag>
+              </bqbiol:is>
+            </rdf:Description>
+          </rdf:RDF>
+        </sbml:annotation>
+        <listOfReactants>
+          <speciesReference species="M_4hoxpacd_e" stoichiometry="1" constant="true"/>
+        </listOfReactants>
+        <listOfProducts>
+          <speciesReference species="M_4hoxpacd_p" stoichiometry="1" constant="true"/>
+        </listOfProducts>
+        <fbc:geneProductAssociation>
+          <fbc:or>
+            <fbc:geneProductRef fbc:geneProduct="G_b0241"/>
+            <fbc:geneProductRef fbc:geneProduct="G_b0929"/>
+            <fbc:geneProductRef fbc:geneProduct="G_b1377"/>
+            <fbc:geneProductRef fbc:geneProduct="G_b2215"/>
+          </fbc:or>
+        </fbc:geneProductAssociation>
+      </reaction>
+      <reaction id="R_ARBTNR3" fast="false" reversible="false" name="Aerobactin reductase" metaid="R_ARBTNR3" sboTerm="SBO:0000176" fbc:upperFluxBound="cobra_default_ub" fbc:lowerFluxBound="cobra_0_bound">
+        <sbml:annotation xmlns:sbml="http://www.sbml.org/sbml/level3/version1/core">
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+            <rdf:Description rdf:about="#R_ARBTNR3">
+              <bqbiol:is xmlns:bqbiol="http://biomodels.net/biology-qualifiers/">
+                <rdf:Bag>
+                  <rdf:li rdf:resource="http://identifiers.org/bigg.reaction/ARBTNR3"/>
+                  <rdf:li rdf:resource="http://identifiers.org/metanetx.reaction/MNXR95926"/>
+                  <rdf:li rdf:resource="http://identifiers.org/seed.reaction/rxn08147"/>
+                </rdf:Bag>
+              </bqbiol:is>
+            </rdf:Description>
+          </rdf:RDF>
+        </sbml:annotation>
+        <listOfReactants>
+          <speciesReference species="M_arbtn_fe3_c" stoichiometry="2" constant="true"/>
+          <speciesReference species="M_rbflvrd_c" stoichiometry="1" constant="true"/>
+        </listOfReactants>
+        <listOfProducts>
+          <speciesReference species="M_arbtn_c" stoichiometry="2" constant="true"/>
+          <speciesReference species="M_fe2_c" stoichiometry="2" constant="true"/>
+          <speciesReference species="M_h_c" stoichiometry="2" constant="true"/>
+          <speciesReference species="M_ribflv_c" stoichiometry="1" constant="true"/>
+        </listOfProducts>
+      </reaction>
+      <reaction id="R_ARBTNexs" fast="false" reversible="false" name="Aerobactin Fe-loading reaction (spontaneous)" metaid="R_ARBTNexs" sboTerm="SBO:0000176" fbc:upperFluxBound="cobra_default_ub" fbc:lowerFluxBound="cobra_0_bound">
+        <sbml:annotation xmlns:sbml="http://www.sbml.org/sbml/level3/version1/core">
+          <rdf:RDF xmlns:rdf="http://www.w3.org/1999/02/22-rdf-syntax-ns#">
+            <rdf:Description rdf:about="#R_ARBTNexs">
+              <bqbiol:is xmlns:bqbiol="http://biomodels.net/biology-qualifiers/">
+                <rdf:Bag>
+                  <rdf:li rdf:resource="http://identifiers.org/bigg.reaction/ARBTNexs"/>
+                  <rdf:li rdf:resource="http://identifiers.org/metanetx.reaction/MNXR95928"/>
+                  <rdf:li rdf:resource="http://identifiers.org/seed.reaction/rxn08144"/>
+                </rdf:Bag>
+              </bqbiol:is>
+            </rdf:Description>
+          </rdf:RDF>
+        </sbml:annotation>
+        <listOfReactants>
+          <speciesReference species="M_arbtn_e" stoichiometry="1" constant="true"/>
+          <speciesReference species="M_fe3_e" stoichiometry="1" constant="true"/>
+        </listOfReactants>
+        <listOfProducts>
+          <speciesReference species="M_arbtn_fe3_e" stoichiometry="1" constant="true"/>
+        </listOfProducts>
+        <fbc:geneProductAssociation>
+          <fbc:geneProductRef fbc:geneProduct="G_s0001"/>
+        </fbc:geneProductAssociation>
+      </reaction>
+      <reaction id="R_FEOXAMexs" fast="false" reversible="false" name="Ferroxamine Fe3-loading reaction (spontaneous)" metaid="R_FEOXAMexs" sboTerm="SBO:0000176" fbc:upperFluxBound="cobra_default_ub" fbc:lowerFluxBound="cobra_0_bound">
+        <sbml:annotation xmlns:sbml="http://www.sbml.org/sbml/level3/version1/core">
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+              <bqbiol:is xmlns:bqbiol="http://biomodels.net/biology-qualifiers/">
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+                  <rdf:li rdf:resource="http://identifiers.org/metanetx.reaction/MNXR143101"/>
+                  <rdf:li rdf:resource="http://identifiers.org/seed.reaction/rxn08510"/>
+                </rdf:Bag>
+              </bqbiol:is>
+            </rdf:Description>
+          </rdf:RDF>
+        </sbml:annotation>
+        <listOfReactants>
+          <speciesReference species="M_fe3_e" stoichiometry="1" constant="true"/>
+          <speciesReference species="M_feoxam_un_e" stoichiometry="1" constant="true"/>
+        </listOfReactants>
+        <listOfProducts>
+          <speciesReference species="M_feoxam_e" stoichiometry="1" constant="true"/>
+        </listOfProducts>
+        <fbc:geneProductAssociation>
+          <fbc:geneProductRef fbc:geneProduct="G_s0001"/>
+        </fbc:geneProductAssociation>
+      </reaction>
+      <reaction id="R_LACZpp" fast="false" reversible="false" name="B-galactosidase" metaid="R_LACZpp" sboTerm="SBO:0000176" fbc:upperFluxBound="cobra_default_ub" fbc:lowerFluxBound="cobra_0_bound">
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+            <rdf:Description rdf:about="#R_LACZpp">
+              <bqbiol:is xmlns:bqbiol="http://biomodels.net/biology-qualifiers/">
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+                  <rdf:li rdf:resource="http://identifiers.org/kegg.reaction/R01100"/>
+                  <rdf:li rdf:resource="http://identifiers.org/metanetx.reaction/MNXR101000"/>
+                  <rdf:li rdf:resource="http://identifiers.org/rhea/10077"/>
+                  <rdf:li rdf:resource="http://identifiers.org/rhea/10078"/>
+                  <rdf:li rdf:resource="http://identifiers.org/rhea/10076"/>
+                  <rdf:li rdf:resource="http://identifiers.org/rhea/10079"/>
+                  <rdf:li rdf:resource="http://identifiers.org/sabiork/9724"/>
+                  <rdf:li rdf:resource="http://identifiers.org/seed.reaction/rxn00816"/>
+                  <rdf:li rdf:resource="http://identifiers.org/seed.reaction/rxn11244"/>
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+            </rdf:Description>
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+        </sbml:annotation>
+        <listOfReactants>
+          <speciesReference species="M_h2o_p" stoichiometry="1" constant="true"/>
+          <speciesReference species="M_lcts_p" stoichiometry="1" constant="true"/>
+        </listOfReactants>
+        <listOfProducts>
+          <speciesReference species="M_gal_p" stoichiometry="1" constant="true"/>
+          <speciesReference species="M_glc__D_p" stoichiometry="1" constant="true"/>
+        </listOfProducts>
+        <fbc:geneProductAssociation>
+          <fbc:geneProductRef fbc:geneProduct="G_b2132"/>
+        </fbc:geneProductAssociation>
+      </reaction>
+      <reaction id="R_SPMDtex" fast="false" reversible="true" name="Spermidine transport via diffusion (extracellular to periplasm)" metaid="R_SPMDtex" sboTerm="SBO:0000185" fbc:upperFluxBound="cobra_default_ub" fbc:lowerFluxBound="cobra_default_lb">
+        <sbml:annotation xmlns:sbml="http://www.sbml.org/sbml/level3/version1/core">
+          <rdf:RDF xmlns:rdf="http://www.w3.org/1999/02/22-rdf-syntax-ns#">
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+              <bqbiol:is xmlns:bqbiol="http://biomodels.net/biology-qualifiers/">
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+                  <rdf:li rdf:resource="http://identifiers.org/metanetx.reaction/MNXR104495"/>
+                  <rdf:li rdf:resource="http://identifiers.org/rhea/35040"/>
+                  <rdf:li rdf:resource="http://identifiers.org/rhea/35039"/>
+                  <rdf:li rdf:resource="http://identifiers.org/rhea/35042"/>
+                  <rdf:li rdf:resource="http://identifiers.org/rhea/35041"/>
+                  <rdf:li rdf:resource="http://identifiers.org/sabiork/13767"/>
+                  <rdf:li rdf:resource="http://identifiers.org/seed.reaction/rxn13397"/>
+                  <rdf:li rdf:resource="http://identifiers.org/seed.reaction/rxn09266"/>
+                </rdf:Bag>
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+          </rdf:RDF>
+        </sbml:annotation>
+        <listOfReactants>
+          <speciesReference species="M_spmd_e" stoichiometry="1" constant="true"/>
+        </listOfReactants>
+        <listOfProducts>
+          <speciesReference species="M_spmd_p" stoichiometry="1" constant="true"/>
+        </listOfProducts>
+        <fbc:geneProductAssociation>
+          <fbc:or>
+            <fbc:geneProductRef fbc:geneProduct="G_b2215"/>
+            <fbc:geneProductRef fbc:geneProduct="G_b0241"/>
+            <fbc:geneProductRef fbc:geneProduct="G_b0929"/>
+            <fbc:geneProductRef fbc:geneProduct="G_b1377"/>
+          </fbc:or>
+        </fbc:geneProductAssociation>
+      </reaction>
+      <reaction id="R_GPDDA1pp" fast="false" reversible="false" name="Glycerophosphodiester phosphodiesterase (Glycerophosphocholine)" metaid="R_GPDDA1pp" sboTerm="SBO:0000176" fbc:upperFluxBound="cobra_default_ub" fbc:lowerFluxBound="cobra_0_bound">
+        <sbml:annotation xmlns:sbml="http://www.sbml.org/sbml/level3/version1/core">
+          <rdf:RDF xmlns:rdf="http://www.w3.org/1999/02/22-rdf-syntax-ns#">
+            <rdf:Description rdf:about="#R_GPDDA1pp">
+              <bqbiol:is xmlns:bqbiol="http://biomodels.net/biology-qualifiers/">
+                <rdf:Bag>
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+                  <rdf:li rdf:resource="http://identifiers.org/biocyc/META:3.1.4.2-RXN"/>
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+                  <rdf:li rdf:resource="http://identifiers.org/ec-code/3.1.4.2"/>
+                  <rdf:li rdf:resource="http://identifiers.org/kegg.reaction/R01030"/>
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+                  <rdf:li rdf:resource="http://identifiers.org/reactome.reaction/R-MMU-6814137"/>
+                  <rdf:li rdf:resource="http://identifiers.org/reactome.reaction/R-HSA-1483116"/>
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+                  <rdf:li rdf:resource="http://identifiers.org/reactome.reaction/R-MMU-1483112"/>
+                  <rdf:li rdf:resource="http://identifiers.org/rhea/16061"/>
+                  <rdf:li rdf:resource="http://identifiers.org/rhea/16063"/>
+                  <rdf:li rdf:resource="http://identifiers.org/rhea/16062"/>
+                  <rdf:li rdf:resource="http://identifiers.org/rhea/16064"/>
+                  <rdf:li rdf:resource="http://identifiers.org/sabiork/1318"/>
+                  <rdf:li rdf:resource="http://identifiers.org/seed.reaction/rxn00758"/>
+                </rdf:Bag>
+              </bqbiol:is>
+            </rdf:Description>
+          </rdf:RDF>
+        </sbml:annotation>
+        <listOfReactants>
+          <speciesReference species="M_g3pc_p" stoichiometry="1" constant="true"/>
+          <speciesReference species="M_h2o_p" stoichiometry="1" constant="true"/>
+        </listOfReactants>
+        <listOfProducts>
+          <speciesReference species="M_chol_p" stoichiometry="1" constant="true"/>
+          <speciesReference species="M_glyc3p_p" stoichiometry="1" constant="true"/>
+          <speciesReference species="M_h_p" stoichiometry="1" constant="true"/>
+        </listOfProducts>
+        <fbc:geneProductAssociation>
+          <fbc:geneProductRef fbc:geneProduct="G_b2239"/>
+        </fbc:geneProductAssociation>
+      </reaction>
+      <reaction id="R_GPDDA5pp" fast="false" reversible="false" name="Glycerophosphodiester phosphodiesterase (Glycerophosphoinositol)" metaid="R_GPDDA5pp" sboTerm="SBO:0000176" fbc:upperFluxBound="cobra_default_ub" fbc:lowerFluxBound="cobra_0_bound">
+        <sbml:annotation xmlns:sbml="http://www.sbml.org/sbml/level3/version1/core">
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+              <bqbiol:is xmlns:bqbiol="http://biomodels.net/biology-qualifiers/">
+                <rdf:Bag>
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+                  <rdf:li rdf:resource="http://identifiers.org/kegg.reaction/R01193"/>
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+                  <rdf:li rdf:resource="http://identifiers.org/reactome.reaction/R-CEL-6813740"/>
+                  <rdf:li rdf:resource="http://identifiers.org/reactome.reaction/R-HSA-6813740"/>
+                  <rdf:li rdf:resource="http://identifiers.org/reactome.reaction/R-TGU-6813740"/>
+                  <rdf:li rdf:resource="http://identifiers.org/reactome.reaction/R-DDI-6813740"/>
+                  <rdf:li rdf:resource="http://identifiers.org/reactome.reaction/R-RNO-6813740"/>
+                  <rdf:li rdf:resource="http://identifiers.org/reactome.reaction/R-SSC-6813740"/>
+                  <rdf:li rdf:resource="http://identifiers.org/reactome.reaction/R-CFA-6813740"/>
+                  <rdf:li rdf:resource="http://identifiers.org/reactome.reaction/R-GGA-6813740"/>
+                  <rdf:li rdf:resource="http://identifiers.org/reactome.reaction/R-MMU-6813740"/>
+                  <rdf:li rdf:resource="http://identifiers.org/reactome.reaction/R-DME-6813740"/>
+                  <rdf:li rdf:resource="http://identifiers.org/reactome.reaction/R-DRE-6813740"/>
+                  <rdf:li rdf:resource="http://identifiers.org/reactome.reaction/R-XTR-6813740"/>
+                  <rdf:li rdf:resource="http://identifiers.org/reactome.reaction/R-BTA-6813740"/>
+                  <rdf:li rdf:resource="http://identifiers.org/rhea/16502"/>
+                  <rdf:li rdf:resource="http://identifiers.org/rhea/16501"/>
+                  <rdf:li rdf:resource="http://identifiers.org/rhea/16503"/>
+                  <rdf:li rdf:resource="http://identifiers.org/rhea/16504"/>
+                  <rdf:li rdf:resource="http://identifiers.org/sabiork/1430"/>
+                  <rdf:li rdf:resource="http://identifiers.org/seed.reaction/rxn00889"/>
+                </rdf:Bag>
+              </bqbiol:is>
+            </rdf:Description>
+          </rdf:RDF>
+        </sbml:annotation>
+        <listOfReactants>
+          <speciesReference species="M_g3pi_p" stoichiometry="1" constant="true"/>
+          <speciesReference species="M_h2o_p" stoichiometry="1" constant="true"/>
+        </listOfReactants>
+        <listOfProducts>
+          <speciesReference species="M_glyc3p_p" stoichiometry="1" constant="true"/>
+          <speciesReference species="M_h_p" stoichiometry="1" constant="true"/>
+          <speciesReference species="M_inost_p" stoichiometry="1" constant="true"/>
+        </listOfProducts>
+        <fbc:geneProductAssociation>
+          <fbc:geneProductRef fbc:geneProduct="G_b2239"/>
+        </fbc:geneProductAssociation>
+      </reaction>
+      <reaction id="R_ETHAtex" fast="false" reversible="true" name="Ethanolamine transport via diffusion (extracellular)" metaid="R_ETHAtex" sboTerm="SBO:0000185" fbc:upperFluxBound="cobra_default_ub" fbc:lowerFluxBound="cobra_default_lb">
+        <sbml:annotation xmlns:sbml="http://www.sbml.org/sbml/level3/version1/core">
+          <rdf:RDF xmlns:rdf="http://www.w3.org/1999/02/22-rdf-syntax-ns#">
+            <rdf:Description rdf:about="#R_ETHAtex">
+              <bqbiol:is xmlns:bqbiol="http://biomodels.net/biology-qualifiers/">
+                <rdf:Bag>
+                  <rdf:li rdf:resource="http://identifiers.org/bigg.reaction/ETHAtex"/>
+                  <rdf:li rdf:resource="http://identifiers.org/biocyc/META:TRANS-RXN0-476"/>
+                  <rdf:li rdf:resource="http://identifiers.org/metanetx.reaction/MNXR97974"/>
+                  <rdf:li rdf:resource="http://identifiers.org/rhea/32750"/>
+                  <rdf:li rdf:resource="http://identifiers.org/rhea/32749"/>
+                  <rdf:li rdf:resource="http://identifiers.org/rhea/32747"/>
+                  <rdf:li rdf:resource="http://identifiers.org/rhea/32748"/>
+                  <rdf:li rdf:resource="http://identifiers.org/seed.reaction/rxn08424"/>
+                  <rdf:li rdf:resource="http://identifiers.org/seed.reaction/rxn10841"/>
+                </rdf:Bag>
+              </bqbiol:is>
+            </rdf:Description>
+          </rdf:RDF>
+        </sbml:annotation>
+        <listOfReactants>
+          <speciesReference species="M_etha_e" stoichiometry="1" constant="true"/>
+        </listOfReactants>
+        <listOfProducts>
+          <speciesReference species="M_etha_p" stoichiometry="1" constant="true"/>
+        </listOfProducts>
+        <fbc:geneProductAssociation>
+          <fbc:or>
+            <fbc:geneProductRef fbc:geneProduct="G_b0241"/>
+            <fbc:geneProductRef fbc:geneProduct="G_b0929"/>
+            <fbc:geneProductRef fbc:geneProduct="G_b1377"/>
+            <fbc:geneProductRef fbc:geneProduct="G_b2215"/>
+          </fbc:or>
+        </fbc:geneProductAssociation>
+      </reaction>
+      <reaction id="R_G3PStex" fast="false" reversible="true" name="Glycerophosphserine transport via diffusion (extracellular to periplasm)" metaid="R_G3PStex" sboTerm="SBO:0000185" fbc:upperFluxBound="cobra_default_ub" fbc:lowerFluxBound="cobra_default_lb">
+        <sbml:annotation xmlns:sbml="http://www.sbml.org/sbml/level3/version1/core">
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+            <rdf:Description rdf:about="#R_G3PStex">
+              <bqbiol:is xmlns:bqbiol="http://biomodels.net/biology-qualifiers/">
+                <rdf:Bag>
+                  <rdf:li rdf:resource="http://identifiers.org/bigg.reaction/G3PStex"/>
+                  <rdf:li rdf:resource="http://identifiers.org/metanetx.reaction/MNXR99893"/>
+                  <rdf:li rdf:resource="http://identifiers.org/seed.reaction/rxn08566"/>
+                </rdf:Bag>
+              </bqbiol:is>
+            </rdf:Description>
+          </rdf:RDF>
+        </sbml:annotation>
+        <listOfReactants>
+          <speciesReference species="M_g3ps_e" stoichiometry="1" constant="true"/>
+        </listOfReactants>
+        <listOfProducts>
+          <speciesReference species="M_g3ps_p" stoichiometry="1" constant="true"/>
+        </listOfProducts>
+        <fbc:geneProductAssociation>
+          <fbc:or>
+            <fbc:geneProductRef fbc:geneProduct="G_b0241"/>
+            <fbc:geneProductRef fbc:geneProduct="G_b0929"/>
+            <fbc:geneProductRef fbc:geneProduct="G_b1377"/>
+            <fbc:geneProductRef fbc:geneProduct="G_b2215"/>
+          </fbc:or>
+        </fbc:geneProductAssociation>
+      </reaction>
+      <reaction id="R_FEOXAMR1" fast="false" reversible="false" name="Ferroxamine reductase" metaid="R_FEOXAMR1" sboTerm="SBO:0000176" fbc:upperFluxBound="cobra_default_ub" fbc:lowerFluxBound="cobra_0_bound">
+        <sbml:annotation xmlns:sbml="http://www.sbml.org/sbml/level3/version1/core">
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+            <rdf:Description rdf:about="#R_FEOXAMR1">
+              <bqbiol:is xmlns:bqbiol="http://biomodels.net/biology-qualifiers/">
+                <rdf:Bag>
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+                  <rdf:li rdf:resource="http://identifiers.org/metanetx.reaction/MNXR143097"/>
+                  <rdf:li rdf:resource="http://identifiers.org/seed.reaction/rxn08511"/>
+                </rdf:Bag>
+              </bqbiol:is>
+            </rdf:Description>
+          </rdf:RDF>
+        </sbml:annotation>
+        <listOfReactants>
+          <speciesReference species="M_fadh2_c" stoichiometry="1" constant="true"/>
+          <speciesReference species="M_feoxam_c" stoichiometry="2" constant="true"/>
+        </listOfReactants>
+        <listOfProducts>
+          <speciesReference species="M_fad_c" stoichiometry="1" constant="true"/>
+          <speciesReference species="M_fe2_c" stoichiometry="2" constant="true"/>
+          <speciesReference species="M_feoxam_un_c" stoichiometry="2" constant="true"/>
+          <speciesReference species="M_h_c" stoichiometry="2" constant="true"/>
+        </listOfProducts>
+        <fbc:geneProductAssociation>
+          <fbc:geneProductRef fbc:geneProduct="G_b4367"/>
+        </fbc:geneProductAssociation>
+      </reaction>
+      <reaction id="R_FEOXAMR2" fast="false" reversible="false" name="Ferroxamine reductase" metaid="R_FEOXAMR2" sboTerm="SBO:0000176" fbc:upperFluxBound="cobra_default_ub" fbc:lowerFluxBound="cobra_0_bound">
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+              <bqbiol:is xmlns:bqbiol="http://biomodels.net/biology-qualifiers/">
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+        </sbml:annotation>
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+          <speciesReference species="M_feoxam_c" stoichiometry="2" constant="true"/>
+          <speciesReference species="M_fmnh2_c" stoichiometry="1" constant="true"/>
+        </listOfReactants>
+        <listOfProducts>
+          <speciesReference species="M_fe2_c" stoichiometry="2" constant="true"/>
+          <speciesReference species="M_feoxam_un_c" stoichiometry="2" constant="true"/>
+          <speciesReference species="M_fmn_c" stoichiometry="1" constant="true"/>
+          <speciesReference species="M_h_c" stoichiometry="2" constant="true"/>
+        </listOfProducts>
+        <fbc:geneProductAssociation>
+          <fbc:geneProductRef fbc:geneProduct="G_b4367"/>
+        </fbc:geneProductAssociation>
+      </reaction>
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+        </sbml:annotation>
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+          <speciesReference species="M_rbflvrd_c" stoichiometry="1" constant="true"/>
+        </listOfReactants>
+        <listOfProducts>
+          <speciesReference species="M_fe2_c" stoichiometry="2" constant="true"/>
+          <speciesReference species="M_feoxam_un_c" stoichiometry="2" constant="true"/>
+          <speciesReference species="M_h_c" stoichiometry="2" constant="true"/>
+          <speciesReference species="M_ribflv_c" stoichiometry="1" constant="true"/>
+        </listOfProducts>
+        <fbc:geneProductAssociation>
+          <fbc:geneProductRef fbc:geneProduct="G_b4367"/>
+        </fbc:geneProductAssociation>
+      </reaction>
+      <reaction id="R_PTHRpp" fast="false" reversible="false" name="Phospho-L-threonine phosphatase (periplasmic)" metaid="R_PTHRpp" sboTerm="SBO:0000176" fbc:upperFluxBound="cobra_default_ub" fbc:lowerFluxBound="cobra_0_bound">
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+          <speciesReference species="M_thrp_p" stoichiometry="1" constant="true"/>
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+          <speciesReference species="M_thr__L_p" stoichiometry="1" constant="true"/>
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+            <fbc:geneProductRef fbc:geneProduct="G_b0383"/>
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+        </fbc:geneProductAssociation>
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+          <speciesReference species="M_fmn_c" stoichiometry="1" constant="true"/>
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+          <speciesReference species="M_nadph_c" stoichiometry="1" constant="true"/>
+          <speciesReference species="M_ribflv_c" stoichiometry="1" constant="true"/>
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+        <listOfProducts>
+          <speciesReference species="M_nadp_c" stoichiometry="1" constant="true"/>
+          <speciesReference species="M_rbflvrd_c" stoichiometry="1" constant="true"/>
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+            <fbc:and>
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+              <fbc:geneProductRef fbc:geneProduct="G_b2763"/>
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+        </fbc:geneProductAssociation>
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+                  <rdf:li rdf:resource="http://identifiers.org/seed.reaction/rxn09271"/>
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+            <fbc:geneProductRef fbc:geneProduct="G_b2215"/>
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+        </fbc:geneProductAssociation>
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+            <fbc:geneProductRef fbc:geneProduct="G_b2215"/>
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+          <fbc:geneProductRef fbc:geneProduct="G_s0001"/>
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+          <speciesReference species="M_ribflv_c" stoichiometry="1" constant="true"/>
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+          <speciesReference species="M_mso3_c" stoichiometry="1" constant="true"/>
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+          <speciesReference species="M_so3_c" stoichiometry="1" constant="true"/>
+        </listOfProducts>
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+          <fbc:geneProductRef fbc:geneProduct="G_b0935"/>
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+            <fbc:geneProductRef fbc:geneProduct="G_b0867"/>
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+        </fbc:geneProductAssociation>
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+            <fbc:geneProductRef fbc:geneProduct="G_b0575"/>
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+          <speciesReference species="M_zn2_p" stoichiometry="1" constant="true"/>
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+            <fbc:geneProductRef fbc:geneProduct="G_b1377"/>
+            <fbc:geneProductRef fbc:geneProduct="G_b2215"/>
+          </fbc:or>
+        </fbc:geneProductAssociation>
+      </reaction>
+      <reaction id="R_R5PPpp" fast="false" reversible="false" name="Ribose 5-phosphate phosphatase" metaid="R_R5PPpp" sboTerm="SBO:0000176" fbc:upperFluxBound="cobra_default_ub" fbc:lowerFluxBound="cobra_0_bound">
+        <sbml:annotation xmlns:sbml="http://www.sbml.org/sbml/level3/version1/core">
+          <rdf:RDF xmlns:rdf="http://www.w3.org/1999/02/22-rdf-syntax-ns#">
+            <rdf:Description rdf:about="#R_R5PPpp">
+              <bqbiol:is xmlns:bqbiol="http://biomodels.net/biology-qualifiers/">
+                <rdf:Bag>
+                  <rdf:li rdf:resource="http://identifiers.org/bigg.reaction/R5PPpp"/>
+                  <rdf:li rdf:resource="http://identifiers.org/metanetx.reaction/MNXR103410"/>
+                </rdf:Bag>
+              </bqbiol:is>
+            </rdf:Description>
+          </rdf:RDF>
+        </sbml:annotation>
+        <listOfReactants>
+          <speciesReference species="M_h2o_p" stoichiometry="1" constant="true"/>
+          <speciesReference species="M_r5p_p" stoichiometry="1" constant="true"/>
+        </listOfReactants>
+        <listOfProducts>
+          <speciesReference species="M_pi_p" stoichiometry="1" constant="true"/>
+          <speciesReference species="M_rib__D_p" stoichiometry="1" constant="true"/>
+        </listOfProducts>
+        <fbc:geneProductAssociation>
+          <fbc:or>
+            <fbc:geneProductRef fbc:geneProduct="G_b4055"/>
+            <fbc:geneProductRef fbc:geneProduct="G_b0383"/>
+          </fbc:or>
+        </fbc:geneProductAssociation>
+      </reaction>
+      <reaction id="R_PSP_Lpp" fast="false" reversible="false" name="Phospho-L-serine phosphatase (periplasmic)" metaid="R_PSP_Lpp" sboTerm="SBO:0000176" fbc:upperFluxBound="cobra_default_ub" fbc:lowerFluxBound="cobra_0_bound">
+        <sbml:annotation xmlns:sbml="http://www.sbml.org/sbml/level3/version1/core">
+          <rdf:RDF xmlns:rdf="http://www.w3.org/1999/02/22-rdf-syntax-ns#">
+            <rdf:Description rdf:about="#R_PSP_Lpp">
+              <bqbiol:is xmlns:bqbiol="http://biomodels.net/biology-qualifiers/">
+                <rdf:Bag>
+                  <rdf:li rdf:resource="http://identifiers.org/bigg.reaction/PSP_Lpp"/>
+                  <rdf:li rdf:resource="http://identifiers.org/biocyc/META:RXN0-5114"/>
+                  <rdf:li rdf:resource="http://identifiers.org/ec-code/3.1.3.3"/>
+                  <rdf:li rdf:resource="http://identifiers.org/kegg.reaction/R00582"/>
+                  <rdf:li rdf:resource="http://identifiers.org/metanetx.reaction/MNXR103260"/>
+                  <rdf:li rdf:resource="http://identifiers.org/reactome.reaction/R-MMU-977324"/>
+                  <rdf:li rdf:resource="http://identifiers.org/reactome.reaction/R-CFA-977324"/>
+                  <rdf:li rdf:resource="http://identifiers.org/reactome.reaction/R-DME-977324"/>
+                  <rdf:li rdf:resource="http://identifiers.org/reactome.reaction/R-DRE-977324"/>
+                  <rdf:li rdf:resource="http://identifiers.org/reactome.reaction/R-SCE-977324"/>
+                  <rdf:li rdf:resource="http://identifiers.org/reactome.reaction/R-GGA-977324"/>
+                  <rdf:li rdf:resource="http://identifiers.org/reactome.reaction/R-BTA-977324"/>
+                  <rdf:li rdf:resource="http://identifiers.org/reactome.reaction/R-SSC-977324"/>
+                  <rdf:li rdf:resource="http://identifiers.org/reactome.reaction/R-HSA-977324"/>
+                  <rdf:li rdf:resource="http://identifiers.org/reactome.reaction/R-DDI-977324"/>
+                  <rdf:li rdf:resource="http://identifiers.org/reactome.reaction/R-SPO-977324"/>
+                  <rdf:li rdf:resource="http://identifiers.org/reactome.reaction/R-ATH-977324"/>
+                  <rdf:li rdf:resource="http://identifiers.org/reactome.reaction/R-XTR-977324"/>
+                  <rdf:li rdf:resource="http://identifiers.org/reactome.reaction/R-CEL-977324"/>
+                  <rdf:li rdf:resource="http://identifiers.org/reactome.reaction/R-OSA-977324"/>
+                  <rdf:li rdf:resource="http://identifiers.org/reactome.reaction/R-RNO-977324"/>
+                  <rdf:li rdf:resource="http://identifiers.org/reactome.reaction/R-TGU-977324"/>
+                  <rdf:li rdf:resource="http://identifiers.org/rhea/21208"/>
+                  <rdf:li rdf:resource="http://identifiers.org/rhea/21211"/>
+                  <rdf:li rdf:resource="http://identifiers.org/rhea/21210"/>
+                  <rdf:li rdf:resource="http://identifiers.org/rhea/21209"/>
+                  <rdf:li rdf:resource="http://identifiers.org/sabiork/10330"/>
+                  <rdf:li rdf:resource="http://identifiers.org/sabiork/983"/>
+                  <rdf:li rdf:resource="http://identifiers.org/seed.reaction/rxn00420"/>
+                </rdf:Bag>
+              </bqbiol:is>
+            </rdf:Description>
+          </rdf:RDF>
+        </sbml:annotation>
+        <listOfReactants>
+          <speciesReference species="M_h2o_p" stoichiometry="1" constant="true"/>
+          <speciesReference species="M_pser__L_p" stoichiometry="1" constant="true"/>
+        </listOfReactants>
+        <listOfProducts>
+          <speciesReference species="M_pi_p" stoichiometry="1" constant="true"/>
+          <speciesReference species="M_ser__L_p" stoichiometry="1" constant="true"/>
+        </listOfProducts>
+        <fbc:geneProductAssociation>
+          <fbc:or>
+            <fbc:geneProductRef fbc:geneProduct="G_b4055"/>
+            <fbc:geneProductRef fbc:geneProduct="G_b0383"/>
+          </fbc:or>
+        </fbc:geneProductAssociation>
+      </reaction>
+      <reaction id="R_TYRPpp" fast="false" reversible="false" name="Phospho-L-tyrosine phosphatase (periplasmic)" metaid="R_TYRPpp" sboTerm="SBO:0000176" fbc:upperFluxBound="cobra_default_ub" fbc:lowerFluxBound="cobra_0_bound">
+        <sbml:annotation xmlns:sbml="http://www.sbml.org/sbml/level3/version1/core">
+          <rdf:RDF xmlns:rdf="http://www.w3.org/1999/02/22-rdf-syntax-ns#">
+            <rdf:Description rdf:about="#R_TYRPpp">
+              <bqbiol:is xmlns:bqbiol="http://biomodels.net/biology-qualifiers/">
+                <rdf:Bag>
+                  <rdf:li rdf:resource="http://identifiers.org/bigg.reaction/TYRPpp"/>
+                  <rdf:li rdf:resource="http://identifiers.org/biocyc/META:RXN-14534"/>
+                  <rdf:li rdf:resource="http://identifiers.org/metanetx.reaction/MNXR104998"/>
+                  <rdf:li rdf:resource="http://identifiers.org/rhea/30866"/>
+                  <rdf:li rdf:resource="http://identifiers.org/rhea/30863"/>
+                  <rdf:li rdf:resource="http://identifiers.org/rhea/30865"/>
+                  <rdf:li rdf:resource="http://identifiers.org/rhea/30864"/>
+                  <rdf:li rdf:resource="http://identifiers.org/sabiork/9571"/>
+                  <rdf:li rdf:resource="http://identifiers.org/seed.reaction/rxn09336"/>
+                </rdf:Bag>
+              </bqbiol:is>
+            </rdf:Description>
+          </rdf:RDF>
+        </sbml:annotation>
+        <listOfReactants>
+          <speciesReference species="M_h2o_p" stoichiometry="1" constant="true"/>
+          <speciesReference species="M_tyrp_p" stoichiometry="1" constant="true"/>
+        </listOfReactants>
+        <listOfProducts>
+          <speciesReference species="M_pi_p" stoichiometry="1" constant="true"/>
+          <speciesReference species="M_tyr__L_p" stoichiometry="1" constant="true"/>
+        </listOfProducts>
+        <fbc:geneProductAssociation>
+          <fbc:geneProductRef fbc:geneProduct="G_b4055"/>
+        </fbc:geneProductAssociation>
+      </reaction>
+      <reaction id="R_R1PK" fast="false" reversible="false" name="Ribose 1-phosphokinase" metaid="R_R1PK" sboTerm="SBO:0000176" fbc:upperFluxBound="cobra_default_ub" fbc:lowerFluxBound="cobra_0_bound">
+        <sbml:annotation xmlns:sbml="http://www.sbml.org/sbml/level3/version1/core">
+          <rdf:RDF xmlns:rdf="http://www.w3.org/1999/02/22-rdf-syntax-ns#">
+            <rdf:Description rdf:about="#R_R1PK">
+              <bqbiol:is xmlns:bqbiol="http://biomodels.net/biology-qualifiers/">
+                <rdf:Bag>
+                  <rdf:li rdf:resource="http://identifiers.org/bigg.reaction/R1PK"/>
+                  <rdf:li rdf:resource="http://identifiers.org/biocyc/META:RXN0-1402"/>
+                  <rdf:li rdf:resource="http://identifiers.org/metanetx.reaction/MNXR103408"/>
+                  <rdf:li rdf:resource="http://identifiers.org/rhea/29776"/>
+                  <rdf:li rdf:resource="http://identifiers.org/rhea/29775"/>
+                  <rdf:li rdf:resource="http://identifiers.org/rhea/29777"/>
+                  <rdf:li rdf:resource="http://identifiers.org/rhea/29778"/>
+                  <rdf:li rdf:resource="http://identifiers.org/seed.reaction/rxn09221"/>
+                </rdf:Bag>
+              </bqbiol:is>
+            </rdf:Description>
+          </rdf:RDF>
+        </sbml:annotation>
+        <listOfReactants>
+          <speciesReference species="M_atp_c" stoichiometry="1" constant="true"/>
+          <speciesReference species="M_r1p_c" stoichiometry="1" constant="true"/>
+        </listOfReactants>
+        <listOfProducts>
+          <speciesReference species="M_adp_c" stoichiometry="1" constant="true"/>
+          <speciesReference species="M_h_c" stoichiometry="1" constant="true"/>
+          <speciesReference species="M_r15bp_c" stoichiometry="1" constant="true"/>
+        </listOfProducts>
+      </reaction>
+      <reaction id="R_PAPSR2" fast="false" reversible="false" name="Phosphoadenylyl-sulfate reductase (glutaredoxin)" metaid="R_PAPSR2" sboTerm="SBO:0000176" fbc:upperFluxBound="cobra_default_ub" fbc:lowerFluxBound="cobra_0_bound">
+        <sbml:annotation xmlns:sbml="http://www.sbml.org/sbml/level3/version1/core">
+          <rdf:RDF xmlns:rdf="http://www.w3.org/1999/02/22-rdf-syntax-ns#">
+            <rdf:Description rdf:about="#R_PAPSR2">
+              <bqbiol:is xmlns:bqbiol="http://biomodels.net/biology-qualifiers/">
+                <rdf:Bag>
+                  <rdf:li rdf:resource="http://identifiers.org/bigg.reaction/PAPSR2"/>
+                  <rdf:li rdf:resource="http://identifiers.org/ec-code/1.8.4.8"/>
+                  <rdf:li rdf:resource="http://identifiers.org/metanetx.reaction/MNXR102377"/>
+                  <rdf:li rdf:resource="http://identifiers.org/seed.reaction/rxn09069"/>
+                </rdf:Bag>
+              </bqbiol:is>
+            </rdf:Description>
+          </rdf:RDF>
+        </sbml:annotation>
+        <listOfReactants>
+          <speciesReference species="M_grxrd_c" stoichiometry="1" constant="true"/>
+          <speciesReference species="M_paps_c" stoichiometry="1" constant="true"/>
+        </listOfReactants>
+        <listOfProducts>
+          <speciesReference species="M_grxox_c" stoichiometry="1" constant="true"/>
+          <speciesReference species="M_h_c" stoichiometry="2" constant="true"/>
+          <speciesReference species="M_pap_c" stoichiometry="1" constant="true"/>
+          <speciesReference species="M_so3_c" stoichiometry="1" constant="true"/>
+        </listOfProducts>
+        <fbc:geneProductAssociation>
+          <fbc:or>
+            <fbc:and>
+              <fbc:geneProductRef fbc:geneProduct="G_b3610"/>
+              <fbc:geneProductRef fbc:geneProduct="G_b2762"/>
+            </fbc:and>
+            <fbc:and>
+              <fbc:geneProductRef fbc:geneProduct="G_b0849"/>
+              <fbc:geneProductRef fbc:geneProduct="G_b2762"/>
+            </fbc:and>
+            <fbc:and>
+              <fbc:geneProductRef fbc:geneProduct="G_b1064"/>
+              <fbc:geneProductRef fbc:geneProduct="G_b2762"/>
+            </fbc:and>
+            <fbc:and>
+              <fbc:geneProductRef fbc:geneProduct="G_b1654"/>
+              <fbc:geneProductRef fbc:geneProduct="G_b2762"/>
+            </fbc:and>
+          </fbc:or>
+        </fbc:geneProductAssociation>
+      </reaction>
+      <reaction id="R_GRXR" fast="false" reversible="false" name="Glutaredoxin reductase" metaid="R_GRXR" sboTerm="SBO:0000176" fbc:upperFluxBound="cobra_default_ub" fbc:lowerFluxBound="cobra_0_bound">
+        <sbml:annotation xmlns:sbml="http://www.sbml.org/sbml/level3/version1/core">
+          <rdf:RDF xmlns:rdf="http://www.w3.org/1999/02/22-rdf-syntax-ns#">
+            <rdf:Description rdf:about="#R_GRXR">
+              <bqbiol:is xmlns:bqbiol="http://biomodels.net/biology-qualifiers/">
+                <rdf:Bag>
+                  <rdf:li rdf:resource="http://identifiers.org/bigg.reaction/GRXR"/>
+                  <rdf:li rdf:resource="http://identifiers.org/ec-code/1.8.4.2"/>
+                  <rdf:li rdf:resource="http://identifiers.org/metanetx.reaction/MNXR100431"/>
+                  <rdf:li rdf:resource="http://identifiers.org/seed.reaction/rxn08670"/>
+                </rdf:Bag>
+              </bqbiol:is>
+            </rdf:Description>
+          </rdf:RDF>
+        </sbml:annotation>
+        <listOfReactants>
+          <speciesReference species="M_grxox_c" stoichiometry="1" constant="true"/>
+          <speciesReference species="M_gthrd_c" stoichiometry="2" constant="true"/>
+        </listOfReactants>
+        <listOfProducts>
+          <speciesReference species="M_grxrd_c" stoichiometry="1" constant="true"/>
+          <speciesReference species="M_gthox_c" stoichiometry="1" constant="true"/>
+        </listOfProducts>
+        <fbc:geneProductAssociation>
+          <fbc:or>
+            <fbc:geneProductRef fbc:geneProduct="G_b1064"/>
+            <fbc:geneProductRef fbc:geneProduct="G_b3610"/>
+            <fbc:geneProductRef fbc:geneProduct="G_b1654"/>
+            <fbc:geneProductRef fbc:geneProduct="G_b0849"/>
+          </fbc:or>
+        </fbc:geneProductAssociation>
+      </reaction>
+      <reaction id="R_RNDR1b" fast="false" reversible="false" name="Ribonucleoside-diphosphate reductase (ADP) (glutaredoxin)" metaid="R_RNDR1b" sboTerm="SBO:0000176" fbc:upperFluxBound="cobra_default_ub" fbc:lowerFluxBound="cobra_0_bound">
+        <sbml:annotation xmlns:sbml="http://www.sbml.org/sbml/level3/version1/core">
+          <rdf:RDF xmlns:rdf="http://www.w3.org/1999/02/22-rdf-syntax-ns#">
+            <rdf:Description rdf:about="#R_RNDR1b">
+              <bqbiol:is xmlns:bqbiol="http://biomodels.net/biology-qualifiers/">
+                <rdf:Bag>
+                  <rdf:li rdf:resource="http://identifiers.org/bigg.reaction/RNDR1b"/>
+                  <rdf:li rdf:resource="http://identifiers.org/metanetx.reaction/MNXR104061"/>
+                  <rdf:li rdf:resource="http://identifiers.org/seed.reaction/rxn09231"/>
+                </rdf:Bag>
+              </bqbiol:is>
+            </rdf:Description>
+          </rdf:RDF>
+        </sbml:annotation>
+        <listOfReactants>
+          <speciesReference species="M_adp_c" stoichiometry="1" constant="true"/>
+          <speciesReference species="M_grxrd_c" stoichiometry="1" constant="true"/>
+        </listOfReactants>
+        <listOfProducts>
+          <speciesReference species="M_dadp_c" stoichiometry="1" constant="true"/>
+          <speciesReference species="M_grxox_c" stoichiometry="1" constant="true"/>
+          <speciesReference species="M_h2o_c" stoichiometry="1" constant="true"/>
+        </listOfProducts>
+        <fbc:geneProductAssociation>
+          <fbc:or>
+            <fbc:and>
+              <fbc:and>
+                <fbc:geneProductRef fbc:geneProduct="G_b2675"/>
+                <fbc:geneProductRef fbc:geneProduct="G_b2676"/>
+              </fbc:and>
+              <fbc:geneProductRef fbc:geneProduct="G_b1064"/>
+            </fbc:and>
+            <fbc:and>
+              <fbc:and>
+                <fbc:geneProductRef fbc:geneProduct="G_b2675"/>
+                <fbc:geneProductRef fbc:geneProduct="G_b2676"/>
+              </fbc:and>
+              <fbc:geneProductRef fbc:geneProduct="G_b3610"/>
+            </fbc:and>
+            <fbc:and>
+              <fbc:geneProductRef fbc:geneProduct="G_b0849"/>
+              <fbc:and>
+                <fbc:geneProductRef fbc:geneProduct="G_b2675"/>
+                <fbc:geneProductRef fbc:geneProduct="G_b2676"/>
+              </fbc:and>
+            </fbc:and>
+            <fbc:and>
+              <fbc:and>
+                <fbc:geneProductRef fbc:geneProduct="G_b2675"/>
+                <fbc:geneProductRef fbc:geneProduct="G_b2676"/>
+              </fbc:and>
+              <fbc:geneProductRef fbc:geneProduct="G_b1654"/>
+            </fbc:and>
+          </fbc:or>
+        </fbc:geneProductAssociation>
+      </reaction>
+      <reaction id="R_R15BPK" fast="false" reversible="false" name="Ribose-1,5-bisphosphokinase" metaid="R_R15BPK" sboTerm="SBO:0000176" fbc:upperFluxBound="cobra_default_ub" fbc:lowerFluxBound="cobra_0_bound">
+        <sbml:annotation xmlns:sbml="http://www.sbml.org/sbml/level3/version1/core">
+          <rdf:RDF xmlns:rdf="http://www.w3.org/1999/02/22-rdf-syntax-ns#">
+            <rdf:Description rdf:about="#R_R15BPK">
+              <bqbiol:is xmlns:bqbiol="http://biomodels.net/biology-qualifiers/">
+                <rdf:Bag>
+                  <rdf:li rdf:resource="http://identifiers.org/bigg.reaction/R15BPK"/>
+                  <rdf:li rdf:resource="http://identifiers.org/biocyc/META:RXN0-1401"/>
+                  <rdf:li rdf:resource="http://identifiers.org/ec-code/2.7.4.23"/>
+                  <rdf:li rdf:resource="http://identifiers.org/kegg.reaction/R06836"/>
+                  <rdf:li rdf:resource="http://identifiers.org/metanetx.reaction/MNXR103407"/>
+                  <rdf:li rdf:resource="http://identifiers.org/rhea/20110"/>
+                  <rdf:li rdf:resource="http://identifiers.org/rhea/20111"/>
+                  <rdf:li rdf:resource="http://identifiers.org/rhea/20109"/>
+                  <rdf:li rdf:resource="http://identifiers.org/rhea/20112"/>
+                  <rdf:li rdf:resource="http://identifiers.org/seed.reaction/rxn04651"/>
+                </rdf:Bag>
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+            </rdf:Description>
+          </rdf:RDF>
+        </sbml:annotation>
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+          <speciesReference species="M_atp_c" stoichiometry="1" constant="true"/>
+          <speciesReference species="M_r15bp_c" stoichiometry="1" constant="true"/>
+        </listOfReactants>
+        <listOfProducts>
+          <speciesReference species="M_adp_c" stoichiometry="1" constant="true"/>
+          <speciesReference species="M_prpp_c" stoichiometry="1" constant="true"/>
+        </listOfProducts>
+        <fbc:geneProductAssociation>
+          <fbc:geneProductRef fbc:geneProduct="G_b4094"/>
+        </fbc:geneProductAssociation>
+      </reaction>
+      <reaction id="R_Kabcpp" fast="false" reversible="false" name="Potassium ABC transporter (periplasm)" metaid="R_Kabcpp" sboTerm="SBO:0000185" fbc:upperFluxBound="cobra_default_ub" fbc:lowerFluxBound="cobra_0_bound">
+        <sbml:annotation xmlns:sbml="http://www.sbml.org/sbml/level3/version1/core">
+          <rdf:RDF xmlns:rdf="http://www.w3.org/1999/02/22-rdf-syntax-ns#">
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+              <bqbiol:is xmlns:bqbiol="http://biomodels.net/biology-qualifiers/">
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+                  <rdf:li rdf:resource="http://identifiers.org/biocyc/META:3.6.3.12-RXN"/>
+                  <rdf:li rdf:resource="http://identifiers.org/biocyc/META:TRANS-RXN-2"/>
+                  <rdf:li rdf:resource="http://identifiers.org/biocyc/META:3.6.3.10-RXN"/>
+                  <rdf:li rdf:resource="http://identifiers.org/ec-code/3.6.3.10"/>
+                  <rdf:li rdf:resource="http://identifiers.org/ec-code/3.6.3.12"/>
+                  <rdf:li rdf:resource="http://identifiers.org/metanetx.reaction/MNXR100657"/>
+                  <rdf:li rdf:resource="http://identifiers.org/rhea/16777#1"/>
+                  <rdf:li rdf:resource="http://identifiers.org/rhea/16778#1"/>
+                  <rdf:li rdf:resource="http://identifiers.org/rhea/16779#1"/>
+                  <rdf:li rdf:resource="http://identifiers.org/rhea/16780#1"/>
+                  <rdf:li rdf:resource="http://identifiers.org/sabiork/9646#2"/>
+                  <rdf:li rdf:resource="http://identifiers.org/seed.reaction/rxn08762"/>
+                  <rdf:li rdf:resource="http://identifiers.org/seed.reaction/rxn10168"/>
+                  <rdf:li rdf:resource="http://identifiers.org/seed.reaction/rxn10558"/>
+                </rdf:Bag>
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+            </rdf:Description>
+          </rdf:RDF>
+        </sbml:annotation>
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+          <speciesReference species="M_atp_c" stoichiometry="1" constant="true"/>
+          <speciesReference species="M_h2o_c" stoichiometry="1" constant="true"/>
+          <speciesReference species="M_k_p" stoichiometry="1" constant="true"/>
+        </listOfReactants>
+        <listOfProducts>
+          <speciesReference species="M_adp_c" stoichiometry="1" constant="true"/>
+          <speciesReference species="M_h_c" stoichiometry="1" constant="true"/>
+          <speciesReference species="M_k_c" stoichiometry="1" constant="true"/>
+          <speciesReference species="M_pi_c" stoichiometry="1" constant="true"/>
+        </listOfProducts>
+        <fbc:geneProductAssociation>
+          <fbc:or>
+            <fbc:and>
+              <fbc:geneProductRef fbc:geneProduct="G_b0698"/>
+              <fbc:geneProductRef fbc:geneProduct="G_b0697"/>
+              <fbc:geneProductRef fbc:geneProduct="G_b0696"/>
+            </fbc:and>
+            <fbc:and>
+              <fbc:geneProductRef fbc:geneProduct="G_b0698"/>
+              <fbc:geneProductRef fbc:geneProduct="G_b0696"/>
+              <fbc:geneProductRef fbc:geneProduct="G_b0697"/>
+              <fbc:geneProductRef fbc:geneProduct="G_b4513"/>
+            </fbc:and>
+          </fbc:or>
+        </fbc:geneProductAssociation>
+      </reaction>
+      <reaction id="R_RNDR2b" fast="false" reversible="false" name="Ribonucleoside-diphosphate reductase (GDP) (glutaredoxin)" metaid="R_RNDR2b" sboTerm="SBO:0000176" fbc:upperFluxBound="cobra_default_ub" fbc:lowerFluxBound="cobra_0_bound">
+        <sbml:annotation xmlns:sbml="http://www.sbml.org/sbml/level3/version1/core">
+          <rdf:RDF xmlns:rdf="http://www.w3.org/1999/02/22-rdf-syntax-ns#">
+            <rdf:Description rdf:about="#R_RNDR2b">
+              <bqbiol:is xmlns:bqbiol="http://biomodels.net/biology-qualifiers/">
+                <rdf:Bag>
+                  <rdf:li rdf:resource="http://identifiers.org/bigg.reaction/RNDR2b"/>
+                  <rdf:li rdf:resource="http://identifiers.org/metanetx.reaction/MNXR104063"/>
+                  <rdf:li rdf:resource="http://identifiers.org/seed.reaction/rxn09232"/>
+                </rdf:Bag>
+              </bqbiol:is>
+            </rdf:Description>
+          </rdf:RDF>
+        </sbml:annotation>
+        <listOfReactants>
+          <speciesReference species="M_gdp_c" stoichiometry="1" constant="true"/>
+          <speciesReference species="M_grxrd_c" stoichiometry="1" constant="true"/>
+        </listOfReactants>
+        <listOfProducts>
+          <speciesReference species="M_dgdp_c" stoichiometry="1" constant="true"/>
+          <speciesReference species="M_grxox_c" stoichiometry="1" constant="true"/>
+          <speciesReference species="M_h2o_c" stoichiometry="1" constant="true"/>
+        </listOfProducts>
+        <fbc:geneProductAssociation>
+          <fbc:or>
+            <fbc:and>
+              <fbc:geneProductRef fbc:geneProduct="G_b0849"/>
+              <fbc:and>
+                <fbc:geneProductRef fbc:geneProduct="G_b2675"/>
+                <fbc:geneProductRef fbc:geneProduct="G_b2676"/>
+              </fbc:and>
+            </fbc:and>
+            <fbc:and>
+              <fbc:and>
+                <fbc:geneProductRef fbc:geneProduct="G_b2675"/>
+                <fbc:geneProductRef fbc:geneProduct="G_b2676"/>
+              </fbc:and>
+              <fbc:geneProductRef fbc:geneProduct="G_b1064"/>
+            </fbc:and>
+            <fbc:and>
+              <fbc:and>
+                <fbc:geneProductRef fbc:geneProduct="G_b2675"/>
+                <fbc:geneProductRef fbc:geneProduct="G_b2676"/>
+              </fbc:and>
+              <fbc:geneProductRef fbc:geneProduct="G_b1654"/>
+            </fbc:and>
+            <fbc:and>
+              <fbc:and>
+                <fbc:geneProductRef fbc:geneProduct="G_b2675"/>
+                <fbc:geneProductRef fbc:geneProduct="G_b2676"/>
+              </fbc:and>
+              <fbc:geneProductRef fbc:geneProduct="G_b3610"/>
+            </fbc:and>
+          </fbc:or>
+        </fbc:geneProductAssociation>
+      </reaction>
+      <reaction id="R_TAURtex" fast="false" reversible="true" name="Taurine transport via diffusion (extracellular to periplasm)" metaid="R_TAURtex" sboTerm="SBO:0000185" fbc:upperFluxBound="cobra_default_ub" fbc:lowerFluxBound="cobra_default_lb">
+        <sbml:annotation xmlns:sbml="http://www.sbml.org/sbml/level3/version1/core">
+          <rdf:RDF xmlns:rdf="http://www.w3.org/1999/02/22-rdf-syntax-ns#">
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+              <bqbiol:is xmlns:bqbiol="http://biomodels.net/biology-qualifiers/">
+                <rdf:Bag>
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+                  <rdf:li rdf:resource="http://identifiers.org/metanetx.reaction/MNXR104733"/>
+                  <rdf:li rdf:resource="http://identifiers.org/seed.reaction/rxn09286"/>
+                  <rdf:li rdf:resource="http://identifiers.org/seed.reaction/rxn13402"/>
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+            </rdf:Description>
+          </rdf:RDF>
+        </sbml:annotation>
+        <listOfReactants>
+          <speciesReference species="M_taur_e" stoichiometry="1" constant="true"/>
+        </listOfReactants>
+        <listOfProducts>
+          <speciesReference species="M_taur_p" stoichiometry="1" constant="true"/>
+        </listOfProducts>
+        <fbc:geneProductAssociation>
+          <fbc:or>
+            <fbc:geneProductRef fbc:geneProduct="G_b0241"/>
+            <fbc:geneProductRef fbc:geneProduct="G_b0929"/>
+            <fbc:geneProductRef fbc:geneProduct="G_b1377"/>
+            <fbc:geneProductRef fbc:geneProduct="G_b2215"/>
+          </fbc:or>
+        </fbc:geneProductAssociation>
+      </reaction>
+      <reaction id="R_FACOAE181" fast="false" reversible="false" name="Fatty-acid-CoA thioesterase (octadecenoate)" metaid="R_FACOAE181" sboTerm="SBO:0000176" fbc:upperFluxBound="cobra_default_ub" fbc:lowerFluxBound="cobra_0_bound">
+        <sbml:annotation xmlns:sbml="http://www.sbml.org/sbml/level3/version1/core">
+          <rdf:RDF xmlns:rdf="http://www.w3.org/1999/02/22-rdf-syntax-ns#">
+            <rdf:Description rdf:about="#R_FACOAE181">
+              <bqbiol:is xmlns:bqbiol="http://biomodels.net/biology-qualifiers/">
+                <rdf:Bag>
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+                  <rdf:li rdf:resource="http://identifiers.org/metanetx.reaction/MNXR99134"/>
+                </rdf:Bag>
+              </bqbiol:is>
+            </rdf:Description>
+          </rdf:RDF>
+        </sbml:annotation>
+        <listOfReactants>
+          <speciesReference species="M_h2o_c" stoichiometry="1" constant="true"/>
+          <speciesReference species="M_odecoa_c" stoichiometry="1" constant="true"/>
+        </listOfReactants>
+        <listOfProducts>
+          <speciesReference species="M_coa_c" stoichiometry="1" constant="true"/>
+          <speciesReference species="M_h_c" stoichiometry="1" constant="true"/>
+          <speciesReference species="M_ocdcea_c" stoichiometry="1" constant="true"/>
+        </listOfProducts>
+        <fbc:geneProductAssociation>
+          <fbc:geneProductRef fbc:geneProduct="G_b0452"/>
+        </fbc:geneProductAssociation>
+      </reaction>
+      <reaction id="R_FACOAE160" fast="false" reversible="false" name="Fatty-acid-CoA thioesterase (hexadecanoate)" metaid="R_FACOAE160" sboTerm="SBO:0000176" fbc:upperFluxBound="cobra_default_ub" fbc:lowerFluxBound="cobra_0_bound">
+        <sbml:annotation xmlns:sbml="http://www.sbml.org/sbml/level3/version1/core">
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+              <bqbiol:is xmlns:bqbiol="http://biomodels.net/biology-qualifiers/">
+                <rdf:Bag>
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+                  <rdf:li rdf:resource="http://identifiers.org/biocyc/META:PALMITOYL-COA-HYDROLASE-RXN"/>
+                  <rdf:li rdf:resource="http://identifiers.org/ec-code/3.1.2.22"/>
+                  <rdf:li rdf:resource="http://identifiers.org/ec-code/3.1.2.2"/>
+                  <rdf:li rdf:resource="http://identifiers.org/kegg.reaction/R01274"/>
+                  <rdf:li rdf:resource="http://identifiers.org/metanetx.reaction/MNXR99131"/>
+                  <rdf:li rdf:resource="http://identifiers.org/rhea/16648"/>
+                  <rdf:li rdf:resource="http://identifiers.org/rhea/16645"/>
+                  <rdf:li rdf:resource="http://identifiers.org/rhea/16646"/>
+                  <rdf:li rdf:resource="http://identifiers.org/rhea/16647"/>
+                  <rdf:li rdf:resource="http://identifiers.org/sabiork/1490"/>
+                  <rdf:li rdf:resource="http://identifiers.org/seed.reaction/rxn00943"/>
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+            </rdf:Description>
+          </rdf:RDF>
+        </sbml:annotation>
+        <listOfReactants>
+          <speciesReference species="M_h2o_c" stoichiometry="1" constant="true"/>
+          <speciesReference species="M_pmtcoa_c" stoichiometry="1" constant="true"/>
+        </listOfReactants>
+        <listOfProducts>
+          <speciesReference species="M_coa_c" stoichiometry="1" constant="true"/>
+          <speciesReference species="M_h_c" stoichiometry="1" constant="true"/>
+          <speciesReference species="M_hdca_c" stoichiometry="1" constant="true"/>
+        </listOfProducts>
+        <fbc:geneProductAssociation>
+          <fbc:geneProductRef fbc:geneProduct="G_b0452"/>
+        </fbc:geneProductAssociation>
+      </reaction>
+      <reaction id="R_FACOAE140" fast="false" reversible="false" name="Fatty-acid-CoA thioesterase (tetradecanoate)" metaid="R_FACOAE140" sboTerm="SBO:0000176" fbc:upperFluxBound="cobra_default_ub" fbc:lowerFluxBound="cobra_0_bound">
+        <sbml:annotation xmlns:sbml="http://www.sbml.org/sbml/level3/version1/core">
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+            <rdf:Description rdf:about="#R_FACOAE140">
+              <bqbiol:is xmlns:bqbiol="http://biomodels.net/biology-qualifiers/">
+                <rdf:Bag>
+                  <rdf:li rdf:resource="http://identifiers.org/bigg.reaction/FACOAE140"/>
+                  <rdf:li rdf:resource="http://identifiers.org/ec-code/3.1.2.2"/>
+                  <rdf:li rdf:resource="http://identifiers.org/metanetx.reaction/MNXR99129"/>
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+              </bqbiol:is>
+            </rdf:Description>
+          </rdf:RDF>
+        </sbml:annotation>
+        <listOfReactants>
+          <speciesReference species="M_h2o_c" stoichiometry="1" constant="true"/>
+          <speciesReference species="M_tdcoa_c" stoichiometry="1" constant="true"/>
+        </listOfReactants>
+        <listOfProducts>
+          <speciesReference species="M_coa_c" stoichiometry="1" constant="true"/>
+          <speciesReference species="M_h_c" stoichiometry="1" constant="true"/>
+          <speciesReference species="M_ttdca_c" stoichiometry="1" constant="true"/>
+        </listOfProducts>
+        <fbc:geneProductAssociation>
+          <fbc:geneProductRef fbc:geneProduct="G_b0452"/>
+        </fbc:geneProductAssociation>
+      </reaction>
+      <reaction id="R_LEUabcpp" fast="false" reversible="false" name="L-leucine transport via ABC system (periplasm)" metaid="R_LEUabcpp" sboTerm="SBO:0000185" fbc:upperFluxBound="cobra_default_ub" fbc:lowerFluxBound="cobra_0_bound">
+        <sbml:annotation xmlns:sbml="http://www.sbml.org/sbml/level3/version1/core">
+          <rdf:RDF xmlns:rdf="http://www.w3.org/1999/02/22-rdf-syntax-ns#">
+            <rdf:Description rdf:about="#R_LEUabcpp">
+              <bqbiol:is xmlns:bqbiol="http://biomodels.net/biology-qualifiers/">
+                <rdf:Bag>
+                  <rdf:li rdf:resource="http://identifiers.org/bigg.reaction/LEUabcpp"/>
+                  <rdf:li rdf:resource="http://identifiers.org/biocyc/META:ABC-35-RXN"/>
+                  <rdf:li rdf:resource="http://identifiers.org/metanetx.reaction/MNXR101054"/>
+                  <rdf:li rdf:resource="http://identifiers.org/rhea/29810#1"/>
+                  <rdf:li rdf:resource="http://identifiers.org/rhea/29808#1"/>
+                  <rdf:li rdf:resource="http://identifiers.org/rhea/29809#1"/>
+                  <rdf:li rdf:resource="http://identifiers.org/rhea/29807#1"/>
+                  <rdf:li rdf:resource="http://identifiers.org/seed.reaction/rxn05161"/>
+                  <rdf:li rdf:resource="http://identifiers.org/seed.reaction/rxn08784"/>
+                </rdf:Bag>
+              </bqbiol:is>
+            </rdf:Description>
+          </rdf:RDF>
+        </sbml:annotation>
+        <listOfReactants>
+          <speciesReference species="M_atp_c" stoichiometry="1" constant="true"/>
+          <speciesReference species="M_h2o_c" stoichiometry="1" constant="true"/>
+          <speciesReference species="M_leu__L_p" stoichiometry="1" constant="true"/>
+        </listOfReactants>
+        <listOfProducts>
+          <speciesReference species="M_adp_c" stoichiometry="1" constant="true"/>
+          <speciesReference species="M_h_c" stoichiometry="1" constant="true"/>
+          <speciesReference species="M_leu__L_c" stoichiometry="1" constant="true"/>
+          <speciesReference species="M_pi_c" stoichiometry="1" constant="true"/>
+        </listOfProducts>
+        <fbc:geneProductAssociation>
+          <fbc:or>
+            <fbc:and>
+              <fbc:geneProductRef fbc:geneProduct="G_b3455"/>
+              <fbc:geneProductRef fbc:geneProduct="G_b3460"/>
+              <fbc:geneProductRef fbc:geneProduct="G_b3457"/>
+              <fbc:geneProductRef fbc:geneProduct="G_b3454"/>
+              <fbc:geneProductRef fbc:geneProduct="G_b3456"/>
+            </fbc:and>
+            <fbc:and>
+              <fbc:geneProductRef fbc:geneProduct="G_b3458"/>
+              <fbc:geneProductRef fbc:geneProduct="G_b3456"/>
+              <fbc:geneProductRef fbc:geneProduct="G_b3455"/>
+              <fbc:geneProductRef fbc:geneProduct="G_b3457"/>
+              <fbc:geneProductRef fbc:geneProduct="G_b3454"/>
+            </fbc:and>
+          </fbc:or>
+        </fbc:geneProductAssociation>
+      </reaction>
+      <reaction id="R_L_LACt2rpp" fast="false" reversible="true" name="L-lactate reversible transport via proton symport (periplasm)" metaid="R_L_LACt2rpp" sboTerm="SBO:0000185" fbc:upperFluxBound="cobra_default_ub" fbc:lowerFluxBound="cobra_default_lb">
+        <sbml:annotation xmlns:sbml="http://www.sbml.org/sbml/level3/version1/core">
+          <rdf:RDF xmlns:rdf="http://www.w3.org/1999/02/22-rdf-syntax-ns#">
+            <rdf:Description rdf:about="#R_L_LACt2rpp">
+              <bqbiol:is xmlns:bqbiol="http://biomodels.net/biology-qualifiers/">
+                <rdf:Bag>
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+                  <rdf:li rdf:resource="http://identifiers.org/biocyc/META:TRANS-RXN-104"/>
+                  <rdf:li rdf:resource="http://identifiers.org/metanetx.reaction/MNXR101277"/>
+                  <rdf:li rdf:resource="http://identifiers.org/reactome.reaction/R-GGA-373889"/>
+                  <rdf:li rdf:resource="http://identifiers.org/reactome.reaction/R-XTR-373875"/>
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+                  <rdf:li rdf:resource="http://identifiers.org/reactome.reaction/R-GGA-373887"/>
+                  <rdf:li rdf:resource="http://identifiers.org/reactome.reaction/R-SSC-373875"/>
+                  <rdf:li rdf:resource="http://identifiers.org/reactome.reaction/R-DRE-373875"/>
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+                  <rdf:li rdf:resource="http://identifiers.org/reactome.reaction/R-CFA-373867"/>
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+                  <rdf:li rdf:resource="http://identifiers.org/reactome.reaction/R-DRE-373867"/>
+                  <rdf:li rdf:resource="http://identifiers.org/reactome.reaction/R-RNO-373867"/>
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+                  <rdf:li rdf:resource="http://identifiers.org/rhea/29415"/>
+                  <rdf:li rdf:resource="http://identifiers.org/rhea/29416"/>
+                  <rdf:li rdf:resource="http://identifiers.org/rhea/29417"/>
+                  <rdf:li rdf:resource="http://identifiers.org/seed.reaction/rxn05602"/>
+                  <rdf:li rdf:resource="http://identifiers.org/seed.reaction/rxn08794"/>
+                  <rdf:li rdf:resource="http://identifiers.org/seed.reaction/rxn13334"/>
+                </rdf:Bag>
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+            </rdf:Description>
+          </rdf:RDF>
+        </sbml:annotation>
+        <listOfReactants>
+          <speciesReference species="M_h_p" stoichiometry="1" constant="true"/>
+          <speciesReference species="M_lac__L_p" stoichiometry="1" constant="true"/>
+        </listOfReactants>
+        <listOfProducts>
+          <speciesReference species="M_h_c" stoichiometry="1" constant="true"/>
+          <speciesReference species="M_lac__L_c" stoichiometry="1" constant="true"/>
+        </listOfProducts>
+        <fbc:geneProductAssociation>
+          <fbc:or>
+            <fbc:geneProductRef fbc:geneProduct="G_b3603"/>
+            <fbc:geneProductRef fbc:geneProduct="G_b2975"/>
+          </fbc:or>
+        </fbc:geneProductAssociation>
+      </reaction>
+      <reaction id="R_MALt2_2pp" fast="false" reversible="false" name="Malate transport via proton symport (2 H) (periplasm)" metaid="R_MALt2_2pp" sboTerm="SBO:0000185" fbc:upperFluxBound="cobra_default_ub" fbc:lowerFluxBound="cobra_0_bound">
+        <sbml:annotation xmlns:sbml="http://www.sbml.org/sbml/level3/version1/core">
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+              <bqbiol:is xmlns:bqbiol="http://biomodels.net/biology-qualifiers/">
+                <rdf:Bag>
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+                  <rdf:li rdf:resource="http://identifiers.org/biocyc/META:TRANS-RXN-121A"/>
+                  <rdf:li rdf:resource="http://identifiers.org/metanetx.reaction/MNXR101370"/>
+                  <rdf:li rdf:resource="http://identifiers.org/rhea/29341"/>
+                  <rdf:li rdf:resource="http://identifiers.org/rhea/29340"/>
+                  <rdf:li rdf:resource="http://identifiers.org/rhea/29342"/>
+                  <rdf:li rdf:resource="http://identifiers.org/rhea/29339"/>
+                  <rdf:li rdf:resource="http://identifiers.org/seed.reaction/rxn08865"/>
+                  <rdf:li rdf:resource="http://identifiers.org/seed.reaction/rxn10153"/>
+                </rdf:Bag>
+              </bqbiol:is>
+            </rdf:Description>
+          </rdf:RDF>
+        </sbml:annotation>
+        <listOfReactants>
+          <speciesReference species="M_h_p" stoichiometry="2" constant="true"/>
+          <speciesReference species="M_mal__L_p" stoichiometry="1" constant="true"/>
+        </listOfReactants>
+        <listOfProducts>
+          <speciesReference species="M_h_c" stoichiometry="2" constant="true"/>
+          <speciesReference species="M_mal__L_c" stoichiometry="1" constant="true"/>
+        </listOfProducts>
+        <fbc:geneProductAssociation>
+          <fbc:geneProductRef fbc:geneProduct="G_b3528"/>
+        </fbc:geneProductAssociation>
+      </reaction>
+      <reaction id="R_CPGNR1" fast="false" reversible="false" name="Coprogen(Fe(III)) reductase" metaid="R_CPGNR1" sboTerm="SBO:0000176" fbc:upperFluxBound="cobra_default_ub" fbc:lowerFluxBound="cobra_0_bound">
+        <sbml:annotation xmlns:sbml="http://www.sbml.org/sbml/level3/version1/core">
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+              <bqbiol:is xmlns:bqbiol="http://biomodels.net/biology-qualifiers/">
+                <rdf:Bag>
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+                  <rdf:li rdf:resource="http://identifiers.org/metanetx.reaction/MNXR96868"/>
+                  <rdf:li rdf:resource="http://identifiers.org/seed.reaction/rxn08247"/>
+                </rdf:Bag>
+              </bqbiol:is>
+            </rdf:Description>
+          </rdf:RDF>
+        </sbml:annotation>
+        <listOfReactants>
+          <speciesReference species="M_cpgn_c" stoichiometry="2" constant="true"/>
+          <speciesReference species="M_fadh2_c" stoichiometry="1" constant="true"/>
+        </listOfReactants>
+        <listOfProducts>
+          <speciesReference species="M_cpgn_un_c" stoichiometry="2" constant="true"/>
+          <speciesReference species="M_fad_c" stoichiometry="1" constant="true"/>
+          <speciesReference species="M_fe2_c" stoichiometry="2" constant="true"/>
+          <speciesReference species="M_h_c" stoichiometry="2" constant="true"/>
+        </listOfProducts>
+      </reaction>
+      <reaction id="R_CPGNR2" fast="false" reversible="false" name="Coprogen(Fe(III)) reductase" metaid="R_CPGNR2" sboTerm="SBO:0000176" fbc:upperFluxBound="cobra_default_ub" fbc:lowerFluxBound="cobra_0_bound">
+        <sbml:annotation xmlns:sbml="http://www.sbml.org/sbml/level3/version1/core">
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+            <rdf:Description rdf:about="#R_CPGNR2">
+              <bqbiol:is xmlns:bqbiol="http://biomodels.net/biology-qualifiers/">
+                <rdf:Bag>
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+                  <rdf:li rdf:resource="http://identifiers.org/metanetx.reaction/MNXR96869"/>
+                  <rdf:li rdf:resource="http://identifiers.org/seed.reaction/rxn08248"/>
+                </rdf:Bag>
+              </bqbiol:is>
+            </rdf:Description>
+          </rdf:RDF>
+        </sbml:annotation>
+        <listOfReactants>
+          <speciesReference species="M_cpgn_c" stoichiometry="2" constant="true"/>
+          <speciesReference species="M_fmnh2_c" stoichiometry="1" constant="true"/>
+        </listOfReactants>
+        <listOfProducts>
+          <speciesReference species="M_cpgn_un_c" stoichiometry="2" constant="true"/>
+          <speciesReference species="M_fe2_c" stoichiometry="2" constant="true"/>
+          <speciesReference species="M_fmn_c" stoichiometry="1" constant="true"/>
+          <speciesReference species="M_h_c" stoichiometry="2" constant="true"/>
+        </listOfProducts>
+      </reaction>
+      <reaction id="R_THRtex" fast="false" reversible="true" name="L-threonine transport via diffusion (extracellular to periplasm)" metaid="R_THRtex" sboTerm="SBO:0000185" fbc:upperFluxBound="cobra_default_ub" fbc:lowerFluxBound="cobra_default_lb">
+        <sbml:annotation xmlns:sbml="http://www.sbml.org/sbml/level3/version1/core">
+          <rdf:RDF xmlns:rdf="http://www.w3.org/1999/02/22-rdf-syntax-ns#">
+            <rdf:Description rdf:about="#R_THRtex">
+              <bqbiol:is xmlns:bqbiol="http://biomodels.net/biology-qualifiers/">
+                <rdf:Bag>
+                  <rdf:li rdf:resource="http://identifiers.org/bigg.reaction/THRtex"/>
+                  <rdf:li rdf:resource="http://identifiers.org/metanetx.reaction/MNXR104852"/>
+                  <rdf:li rdf:resource="http://identifiers.org/rhea/35022"/>
+                  <rdf:li rdf:resource="http://identifiers.org/rhea/35020"/>
+                  <rdf:li rdf:resource="http://identifiers.org/rhea/35019"/>
+                  <rdf:li rdf:resource="http://identifiers.org/rhea/35021"/>
+                  <rdf:li rdf:resource="http://identifiers.org/sabiork/13464"/>
+                  <rdf:li rdf:resource="http://identifiers.org/seed.reaction/rxn09307"/>
+                  <rdf:li rdf:resource="http://identifiers.org/seed.reaction/rxn13117"/>
+                  <rdf:li rdf:resource="http://identifiers.org/seed.reaction/rxn10898"/>
+                </rdf:Bag>
+              </bqbiol:is>
+            </rdf:Description>
+          </rdf:RDF>
+        </sbml:annotation>
+        <listOfReactants>
+          <speciesReference species="M_thr__L_e" stoichiometry="1" constant="true"/>
+        </listOfReactants>
+        <listOfProducts>
+          <speciesReference species="M_thr__L_p" stoichiometry="1" constant="true"/>
+        </listOfProducts>
+        <fbc:geneProductAssociation>
+          <fbc:or>
+            <fbc:geneProductRef fbc:geneProduct="G_b0241"/>
+            <fbc:geneProductRef fbc:geneProduct="G_b0929"/>
+            <fbc:geneProductRef fbc:geneProduct="G_b1377"/>
+            <fbc:geneProductRef fbc:geneProduct="G_b2215"/>
+          </fbc:or>
+        </fbc:geneProductAssociation>
+      </reaction>
+      <reaction id="R_CPGNR3" fast="false" reversible="false" name="Coprogen(Fe(III)) reductase" metaid="R_CPGNR3" sboTerm="SBO:0000176" fbc:upperFluxBound="cobra_default_ub" fbc:lowerFluxBound="cobra_0_bound">
+        <sbml:annotation xmlns:sbml="http://www.sbml.org/sbml/level3/version1/core">
+          <rdf:RDF xmlns:rdf="http://www.w3.org/1999/02/22-rdf-syntax-ns#">
+            <rdf:Description rdf:about="#R_CPGNR3">
+              <bqbiol:is xmlns:bqbiol="http://biomodels.net/biology-qualifiers/">
+                <rdf:Bag>
+                  <rdf:li rdf:resource="http://identifiers.org/bigg.reaction/CPGNR3"/>
+                  <rdf:li rdf:resource="http://identifiers.org/metanetx.reaction/MNXR96870"/>
+                  <rdf:li rdf:resource="http://identifiers.org/seed.reaction/rxn08249"/>
+                </rdf:Bag>
+              </bqbiol:is>
+            </rdf:Description>
+          </rdf:RDF>
+        </sbml:annotation>
+        <listOfReactants>
+          <speciesReference species="M_cpgn_c" stoichiometry="2" constant="true"/>
+          <speciesReference species="M_rbflvrd_c" stoichiometry="1" constant="true"/>
+        </listOfReactants>
+        <listOfProducts>
+          <speciesReference species="M_cpgn_un_c" stoichiometry="2" constant="true"/>
+          <speciesReference species="M_fe2_c" stoichiometry="2" constant="true"/>
+          <speciesReference species="M_h_c" stoichiometry="2" constant="true"/>
+          <speciesReference species="M_ribflv_c" stoichiometry="1" constant="true"/>
+        </listOfProducts>
+      </reaction>
+      <reaction id="R_CPGNUtpp" fast="false" reversible="false" name="Coprogen unloaded secretion" metaid="R_CPGNUtpp" sboTerm="SBO:0000185" fbc:upperFluxBound="cobra_default_ub" fbc:lowerFluxBound="cobra_0_bound">
+        <sbml:annotation xmlns:sbml="http://www.sbml.org/sbml/level3/version1/core">
+          <rdf:RDF xmlns:rdf="http://www.w3.org/1999/02/22-rdf-syntax-ns#">
+            <rdf:Description rdf:about="#R_CPGNUtpp">
+              <bqbiol:is xmlns:bqbiol="http://biomodels.net/biology-qualifiers/">
+                <rdf:Bag>
+                  <rdf:li rdf:resource="http://identifiers.org/bigg.reaction/CPGNUtpp"/>
+                  <rdf:li rdf:resource="http://identifiers.org/metanetx.reaction/MNXR96872"/>
+                  <rdf:li rdf:resource="http://identifiers.org/seed.reaction/rxn08252"/>
+                </rdf:Bag>
+              </bqbiol:is>
+            </rdf:Description>
+          </rdf:RDF>
+        </sbml:annotation>
+        <listOfReactants>
+          <speciesReference species="M_cpgn_un_c" stoichiometry="1" constant="true"/>
+          <speciesReference species="M_h_p" stoichiometry="1" constant="true"/>
+        </listOfReactants>
+        <listOfProducts>
+          <speciesReference species="M_cpgn_un_p" stoichiometry="1" constant="true"/>
+          <speciesReference species="M_h_c" stoichiometry="1" constant="true"/>
+        </listOfProducts>
+      </reaction>
+      <reaction id="R_CPGNUtex" fast="false" reversible="false" name="Coprogen unloaded secretion (extracellular)" metaid="R_CPGNUtex" sboTerm="SBO:0000185" fbc:upperFluxBound="cobra_default_ub" fbc:lowerFluxBound="cobra_0_bound">
+        <sbml:annotation xmlns:sbml="http://www.sbml.org/sbml/level3/version1/core">
+          <rdf:RDF xmlns:rdf="http://www.w3.org/1999/02/22-rdf-syntax-ns#">
+            <rdf:Description rdf:about="#R_CPGNUtex">
+              <bqbiol:is xmlns:bqbiol="http://biomodels.net/biology-qualifiers/">
+                <rdf:Bag>
+                  <rdf:li rdf:resource="http://identifiers.org/bigg.reaction/CPGNUtex"/>
+                  <rdf:li rdf:resource="http://identifiers.org/metanetx.reaction/MNXR96871"/>
+                  <rdf:li rdf:resource="http://identifiers.org/seed.reaction/rxn08251"/>
+                </rdf:Bag>
+              </bqbiol:is>
+            </rdf:Description>
+          </rdf:RDF>
+        </sbml:annotation>
+        <listOfReactants>
+          <speciesReference species="M_cpgn_un_p" stoichiometry="1" constant="true"/>
+          <speciesReference species="M_h_p" stoichiometry="1" constant="true"/>
+        </listOfReactants>
+        <listOfProducts>
+          <speciesReference species="M_cpgn_un_e" stoichiometry="1" constant="true"/>
+          <speciesReference species="M_h_c" stoichiometry="1" constant="true"/>
+        </listOfProducts>
+      </reaction>
+      <reaction id="R_MALt2_3pp" fast="false" reversible="false" name="Malate transport via proton symport (3 H) (periplasm)" metaid="R_MALt2_3pp" sboTerm="SBO:0000185" fbc:upperFluxBound="cobra_default_ub" fbc:lowerFluxBound="cobra_0_bound">
+        <sbml:annotation xmlns:sbml="http://www.sbml.org/sbml/level3/version1/core">
+          <rdf:RDF xmlns:rdf="http://www.w3.org/1999/02/22-rdf-syntax-ns#">
+            <rdf:Description rdf:about="#R_MALt2_3pp">
+              <bqbiol:is xmlns:bqbiol="http://biomodels.net/biology-qualifiers/">
+                <rdf:Bag>
+                  <rdf:li rdf:resource="http://identifiers.org/bigg.reaction/MALt2_3pp"/>
+                  <rdf:li rdf:resource="http://identifiers.org/metanetx.reaction/MNXR101371"/>
+                  <rdf:li rdf:resource="http://identifiers.org/seed.reaction/rxn10156"/>
+                  <rdf:li rdf:resource="http://identifiers.org/seed.reaction/rxn08866"/>
+                </rdf:Bag>
+              </bqbiol:is>
+            </rdf:Description>
+          </rdf:RDF>
+        </sbml:annotation>
+        <listOfReactants>
+          <speciesReference species="M_h_p" stoichiometry="3" constant="true"/>
+          <speciesReference species="M_mal__L_p" stoichiometry="1" constant="true"/>
+        </listOfReactants>
+        <listOfProducts>
+          <speciesReference species="M_h_c" stoichiometry="3" constant="true"/>
+          <speciesReference species="M_mal__L_c" stoichiometry="1" constant="true"/>
+        </listOfProducts>
+        <fbc:geneProductAssociation>
+          <fbc:or>
+            <fbc:geneProductRef fbc:geneProduct="G_b4123"/>
+            <fbc:geneProductRef fbc:geneProduct="G_b4138"/>
+          </fbc:or>
+        </fbc:geneProductAssociation>
+      </reaction>
+      <reaction id="R_MALTabcpp" fast="false" reversible="false" name="Maltose transport via ABC system (periplasm)" metaid="R_MALTabcpp" sboTerm="SBO:0000185" fbc:upperFluxBound="cobra_default_ub" fbc:lowerFluxBound="cobra_0_bound">
+        <sbml:annotation xmlns:sbml="http://www.sbml.org/sbml/level3/version1/core">
+          <rdf:RDF xmlns:rdf="http://www.w3.org/1999/02/22-rdf-syntax-ns#">
+            <rdf:Description rdf:about="#R_MALTabcpp">
+              <bqbiol:is xmlns:bqbiol="http://biomodels.net/biology-qualifiers/">
+                <rdf:Bag>
+                  <rdf:li rdf:resource="http://identifiers.org/bigg.reaction/MALTabcpp"/>
+                  <rdf:li rdf:resource="http://identifiers.org/biocyc/META:3.6.3.19-RXN"/>
+                  <rdf:li rdf:resource="http://identifiers.org/biocyc/META:ABC-16-RXN"/>
+                  <rdf:li rdf:resource="http://identifiers.org/ec-code/3.6.3.19"/>
+                  <rdf:li rdf:resource="http://identifiers.org/metanetx.reaction/MNXR101362"/>
+                  <rdf:li rdf:resource="http://identifiers.org/rhea/22134#1"/>
+                  <rdf:li rdf:resource="http://identifiers.org/rhea/22135#1"/>
+                  <rdf:li rdf:resource="http://identifiers.org/rhea/22132#1"/>
+                  <rdf:li rdf:resource="http://identifiers.org/rhea/22133#1"/>
+                  <rdf:li rdf:resource="http://identifiers.org/sabiork/12365#2"/>
+                  <rdf:li rdf:resource="http://identifiers.org/seed.reaction/rxn08867"/>
+                  <rdf:li rdf:resource="http://identifiers.org/seed.reaction/rxn05170"/>
+                </rdf:Bag>
+              </bqbiol:is>
+            </rdf:Description>
+          </rdf:RDF>
+        </sbml:annotation>
+        <listOfReactants>
+          <speciesReference species="M_atp_c" stoichiometry="1" constant="true"/>
+          <speciesReference species="M_h2o_c" stoichiometry="1" constant="true"/>
+          <speciesReference species="M_malt_p" stoichiometry="1" constant="true"/>
+        </listOfReactants>
+        <listOfProducts>
+          <speciesReference species="M_adp_c" stoichiometry="1" constant="true"/>
+          <speciesReference species="M_h_c" stoichiometry="1" constant="true"/>
+          <speciesReference species="M_malt_c" stoichiometry="1" constant="true"/>
+          <speciesReference species="M_pi_c" stoichiometry="1" constant="true"/>
+        </listOfProducts>
+        <fbc:geneProductAssociation>
+          <fbc:and>
+            <fbc:geneProductRef fbc:geneProduct="G_b4033"/>
+            <fbc:geneProductRef fbc:geneProduct="G_b4035"/>
+            <fbc:geneProductRef fbc:geneProduct="G_b4032"/>
+            <fbc:geneProductRef fbc:geneProduct="G_b4034"/>
+          </fbc:and>
+        </fbc:geneProductAssociation>
+      </reaction>
+      <reaction id="R_MALTHXabcpp" fast="false" reversible="false" name="Maltohexaose transport via ABC system (periplasm)" metaid="R_MALTHXabcpp" sboTerm="SBO:0000185" fbc:upperFluxBound="cobra_default_ub" fbc:lowerFluxBound="cobra_0_bound">
+        <sbml:annotation xmlns:sbml="http://www.sbml.org/sbml/level3/version1/core">
+          <rdf:RDF xmlns:rdf="http://www.w3.org/1999/02/22-rdf-syntax-ns#">
+            <rdf:Description rdf:about="#R_MALTHXabcpp">
+              <bqbiol:is xmlns:bqbiol="http://biomodels.net/biology-qualifiers/">
+                <rdf:Bag>
+                  <rdf:li rdf:resource="http://identifiers.org/bigg.reaction/MALTHXabcpp"/>
+                  <rdf:li rdf:resource="http://identifiers.org/metanetx.reaction/MNXR101353"/>
+                  <rdf:li rdf:resource="http://identifiers.org/seed.reaction/rxn08869"/>
+                  <rdf:li rdf:resource="http://identifiers.org/seed.reaction/rxn10174"/>
+                </rdf:Bag>
+              </bqbiol:is>
+            </rdf:Description>
+          </rdf:RDF>
+        </sbml:annotation>
+        <listOfReactants>
+          <speciesReference species="M_atp_c" stoichiometry="1" constant="true"/>
+          <speciesReference species="M_h2o_c" stoichiometry="1" constant="true"/>
+          <speciesReference species="M_malthx_p" stoichiometry="1" constant="true"/>
+        </listOfReactants>
+        <listOfProducts>
+          <speciesReference species="M_adp_c" stoichiometry="1" constant="true"/>
+          <speciesReference species="M_h_c" stoichiometry="1" constant="true"/>
+          <speciesReference species="M_malthx_c" stoichiometry="1" constant="true"/>
+          <speciesReference species="M_pi_c" stoichiometry="1" constant="true"/>
+        </listOfProducts>
+        <fbc:geneProductAssociation>
+          <fbc:and>
+            <fbc:geneProductRef fbc:geneProduct="G_b4034"/>
+            <fbc:geneProductRef fbc:geneProduct="G_b4032"/>
+            <fbc:geneProductRef fbc:geneProduct="G_b4033"/>
+            <fbc:geneProductRef fbc:geneProduct="G_b4035"/>
+          </fbc:and>
+        </fbc:geneProductAssociation>
+      </reaction>
+      <reaction id="R_MALTPTabcpp" fast="false" reversible="false" name="Maltopentaose transport via ABC system (periplasm)" metaid="R_MALTPTabcpp" sboTerm="SBO:0000185" fbc:upperFluxBound="cobra_default_ub" fbc:lowerFluxBound="cobra_0_bound">
+        <sbml:annotation xmlns:sbml="http://www.sbml.org/sbml/level3/version1/core">
+          <rdf:RDF xmlns:rdf="http://www.w3.org/1999/02/22-rdf-syntax-ns#">
+            <rdf:Description rdf:about="#R_MALTPTabcpp">
+              <bqbiol:is xmlns:bqbiol="http://biomodels.net/biology-qualifiers/">
+                <rdf:Bag>
+                  <rdf:li rdf:resource="http://identifiers.org/bigg.reaction/MALTPTabcpp"/>
+                  <rdf:li rdf:resource="http://identifiers.org/metanetx.reaction/MNXR101355"/>
+                  <rdf:li rdf:resource="http://identifiers.org/seed.reaction/rxn08871"/>
+                  <rdf:li rdf:resource="http://identifiers.org/seed.reaction/rxn10172"/>
+                </rdf:Bag>
+              </bqbiol:is>
+            </rdf:Description>
+          </rdf:RDF>
+        </sbml:annotation>
+        <listOfReactants>
+          <speciesReference species="M_atp_c" stoichiometry="1" constant="true"/>
+          <speciesReference species="M_h2o_c" stoichiometry="1" constant="true"/>
+          <speciesReference species="M_maltpt_p" stoichiometry="1" constant="true"/>
+        </listOfReactants>
+        <listOfProducts>
+          <speciesReference species="M_adp_c" stoichiometry="1" constant="true"/>
+          <speciesReference species="M_h_c" stoichiometry="1" constant="true"/>
+          <speciesReference species="M_maltpt_c" stoichiometry="1" constant="true"/>
+          <speciesReference species="M_pi_c" stoichiometry="1" constant="true"/>
+        </listOfProducts>
+        <fbc:geneProductAssociation>
+          <fbc:and>
+            <fbc:geneProductRef fbc:geneProduct="G_b4035"/>
+            <fbc:geneProductRef fbc:geneProduct="G_b4032"/>
+            <fbc:geneProductRef fbc:geneProduct="G_b4033"/>
+            <fbc:geneProductRef fbc:geneProduct="G_b4034"/>
+          </fbc:and>
+        </fbc:geneProductAssociation>
+      </reaction>
+      <reaction id="R_AAMYL" fast="false" reversible="false" name="Alpha-amylase" metaid="R_AAMYL" sboTerm="SBO:0000176" fbc:upperFluxBound="cobra_default_ub" fbc:lowerFluxBound="cobra_0_bound">
+        <sbml:annotation xmlns:sbml="http://www.sbml.org/sbml/level3/version1/core">
+          <rdf:RDF xmlns:rdf="http://www.w3.org/1999/02/22-rdf-syntax-ns#">
+            <rdf:Description rdf:about="#R_AAMYL">
+              <bqbiol:is xmlns:bqbiol="http://biomodels.net/biology-qualifiers/">
+                <rdf:Bag>
+                  <rdf:li rdf:resource="http://identifiers.org/bigg.reaction/AAMYL"/>
+                  <rdf:li rdf:resource="http://identifiers.org/metanetx.reaction/MNXR95153"/>
+                </rdf:Bag>
+              </bqbiol:is>
+            </rdf:Description>
+          </rdf:RDF>
+        </sbml:annotation>
+        <listOfReactants>
+          <speciesReference species="M_14glucan_c" stoichiometry="1" constant="true"/>
+        </listOfReactants>
+        <listOfProducts>
+          <speciesReference species="M_malthx_c" stoichiometry="1" constant="true"/>
+        </listOfProducts>
+        <fbc:geneProductAssociation>
+          <fbc:geneProductRef fbc:geneProduct="G_b1927"/>
+        </fbc:geneProductAssociation>
+      </reaction>
+      <reaction id="R_AAMYLpp" fast="false" reversible="false" name="Alpha-amylase (periplasm)" metaid="R_AAMYLpp" sboTerm="SBO:0000176" fbc:upperFluxBound="cobra_default_ub" fbc:lowerFluxBound="cobra_0_bound">
+        <sbml:annotation xmlns:sbml="http://www.sbml.org/sbml/level3/version1/core">
+          <rdf:RDF xmlns:rdf="http://www.w3.org/1999/02/22-rdf-syntax-ns#">
+            <rdf:Description rdf:about="#R_AAMYLpp">
+              <bqbiol:is xmlns:bqbiol="http://biomodels.net/biology-qualifiers/">
+                <rdf:Bag>
+                  <rdf:li rdf:resource="http://identifiers.org/bigg.reaction/AAMYLpp"/>
+                  <rdf:li rdf:resource="http://identifiers.org/metanetx.reaction/MNXR95153"/>
+                </rdf:Bag>
+              </bqbiol:is>
+            </rdf:Description>
+          </rdf:RDF>
+        </sbml:annotation>
+        <listOfReactants>
+          <speciesReference species="M_14glucan_p" stoichiometry="1" constant="true"/>
+        </listOfReactants>
+        <listOfProducts>
+          <speciesReference species="M_malthx_p" stoichiometry="1" constant="true"/>
+        </listOfProducts>
+        <fbc:geneProductAssociation>
+          <fbc:geneProductRef fbc:geneProduct="G_b3571"/>
+        </fbc:geneProductAssociation>
+      </reaction>
+      <reaction id="R_MALTTRabcpp" fast="false" reversible="false" name="Maltotriose transport via ABC system (periplasm)" metaid="R_MALTTRabcpp" sboTerm="SBO:0000185" fbc:upperFluxBound="cobra_default_ub" fbc:lowerFluxBound="cobra_0_bound">
+        <sbml:annotation xmlns:sbml="http://www.sbml.org/sbml/level3/version1/core">
+          <rdf:RDF xmlns:rdf="http://www.w3.org/1999/02/22-rdf-syntax-ns#">
+            <rdf:Description rdf:about="#R_MALTTRabcpp">
+              <bqbiol:is xmlns:bqbiol="http://biomodels.net/biology-qualifiers/">
+                <rdf:Bag>
+                  <rdf:li rdf:resource="http://identifiers.org/bigg.reaction/MALTTRabcpp"/>
+                  <rdf:li rdf:resource="http://identifiers.org/biocyc/META:TRANS-RXN0-503"/>
+                  <rdf:li rdf:resource="http://identifiers.org/ec-code/3.6.3"/>
+                  <rdf:li rdf:resource="http://identifiers.org/metanetx.reaction/MNXR101358"/>
+                  <rdf:li rdf:resource="http://identifiers.org/seed.reaction/rxn05608"/>
+                  <rdf:li rdf:resource="http://identifiers.org/seed.reaction/rxn08875"/>
+                </rdf:Bag>
+              </bqbiol:is>
+            </rdf:Description>
+          </rdf:RDF>
+        </sbml:annotation>
+        <listOfReactants>
+          <speciesReference species="M_atp_c" stoichiometry="1" constant="true"/>
+          <speciesReference species="M_h2o_c" stoichiometry="1" constant="true"/>
+          <speciesReference species="M_malttr_p" stoichiometry="1" constant="true"/>
+        </listOfReactants>
+        <listOfProducts>
+          <speciesReference species="M_adp_c" stoichiometry="1" constant="true"/>
+          <speciesReference species="M_h_c" stoichiometry="1" constant="true"/>
+          <speciesReference species="M_malttr_c" stoichiometry="1" constant="true"/>
+          <speciesReference species="M_pi_c" stoichiometry="1" constant="true"/>
+        </listOfProducts>
+        <fbc:geneProductAssociation>
+          <fbc:and>
+            <fbc:geneProductRef fbc:geneProduct="G_b4034"/>
+            <fbc:geneProductRef fbc:geneProduct="G_b4035"/>
+            <fbc:geneProductRef fbc:geneProduct="G_b4033"/>
+            <fbc:geneProductRef fbc:geneProduct="G_b4032"/>
+          </fbc:and>
+        </fbc:geneProductAssociation>
+      </reaction>
+      <reaction id="R_THMDtex" fast="false" reversible="true" name="Thymidine transport via diffusion (extracellular to periplasm)" metaid="R_THMDtex" sboTerm="SBO:0000185" fbc:upperFluxBound="cobra_default_ub" fbc:lowerFluxBound="cobra_default_lb">
+        <sbml:annotation xmlns:sbml="http://www.sbml.org/sbml/level3/version1/core">
+          <rdf:RDF xmlns:rdf="http://www.w3.org/1999/02/22-rdf-syntax-ns#">
+            <rdf:Description rdf:about="#R_THMDtex">
+              <bqbiol:is xmlns:bqbiol="http://biomodels.net/biology-qualifiers/">
+                <rdf:Bag>
+                  <rdf:li rdf:resource="http://identifiers.org/bigg.reaction/THMDtex"/>
+                  <rdf:li rdf:resource="http://identifiers.org/metanetx.reaction/MNXR104821"/>
+                  <rdf:li rdf:resource="http://identifiers.org/seed.reaction/rxn10916"/>
+                  <rdf:li rdf:resource="http://identifiers.org/seed.reaction/rxn09299"/>
+                </rdf:Bag>
+              </bqbiol:is>
+            </rdf:Description>
+          </rdf:RDF>
+        </sbml:annotation>
+        <listOfReactants>
+          <speciesReference species="M_thymd_e" stoichiometry="1" constant="true"/>
+        </listOfReactants>
+        <listOfProducts>
+          <speciesReference species="M_thymd_p" stoichiometry="1" constant="true"/>
+        </listOfProducts>
+        <fbc:geneProductAssociation>
+          <fbc:or>
+            <fbc:geneProductRef fbc:geneProduct="G_b0241"/>
+            <fbc:geneProductRef fbc:geneProduct="G_b0929"/>
+            <fbc:geneProductRef fbc:geneProduct="G_b1377"/>
+            <fbc:geneProductRef fbc:geneProduct="G_b2215"/>
+          </fbc:or>
+        </fbc:geneProductAssociation>
+      </reaction>
+      <reaction id="R_MALTTTRabcpp" fast="false" reversible="false" name="Maltotetraose transport via ABC system (periplasm)" metaid="R_MALTTTRabcpp" sboTerm="SBO:0000185" fbc:upperFluxBound="cobra_default_ub" fbc:lowerFluxBound="cobra_0_bound">
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+              <bqbiol:is xmlns:bqbiol="http://biomodels.net/biology-qualifiers/">
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+                  <rdf:li rdf:resource="http://identifiers.org/biocyc/META:TRANS-RXN0-504"/>
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+                  <rdf:li rdf:resource="http://identifiers.org/seed.reaction/rxn08877"/>
+                  <rdf:li rdf:resource="http://identifiers.org/seed.reaction/rxn10173"/>
+                </rdf:Bag>
+              </bqbiol:is>
+            </rdf:Description>
+          </rdf:RDF>
+        </sbml:annotation>
+        <listOfReactants>
+          <speciesReference species="M_atp_c" stoichiometry="1" constant="true"/>
+          <speciesReference species="M_h2o_c" stoichiometry="1" constant="true"/>
+          <speciesReference species="M_maltttr_p" stoichiometry="1" constant="true"/>
+        </listOfReactants>
+        <listOfProducts>
+          <speciesReference species="M_adp_c" stoichiometry="1" constant="true"/>
+          <speciesReference species="M_h_c" stoichiometry="1" constant="true"/>
+          <speciesReference species="M_maltttr_c" stoichiometry="1" constant="true"/>
+          <speciesReference species="M_pi_c" stoichiometry="1" constant="true"/>
+        </listOfProducts>
+        <fbc:geneProductAssociation>
+          <fbc:and>
+            <fbc:geneProductRef fbc:geneProduct="G_b4033"/>
+            <fbc:geneProductRef fbc:geneProduct="G_b4032"/>
+            <fbc:geneProductRef fbc:geneProduct="G_b4034"/>
+            <fbc:geneProductRef fbc:geneProduct="G_b4035"/>
+          </fbc:and>
+        </fbc:geneProductAssociation>
+      </reaction>
+      <reaction id="R_MAN6Pt6_2pp" fast="false" reversible="false" name="Mannose-6-phosphate transport via phosphate antiport (periplasm)" metaid="R_MAN6Pt6_2pp" sboTerm="SBO:0000185" fbc:upperFluxBound="cobra_default_ub" fbc:lowerFluxBound="cobra_0_bound">
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+                <rdf:Bag>
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+                  <rdf:li rdf:resource="http://identifiers.org/metanetx.reaction/MNXR101384"/>
+                  <rdf:li rdf:resource="http://identifiers.org/seed.reaction/rxn10187"/>
+                  <rdf:li rdf:resource="http://identifiers.org/seed.reaction/rxn08879"/>
+                </rdf:Bag>
+              </bqbiol:is>
+            </rdf:Description>
+          </rdf:RDF>
+        </sbml:annotation>
+        <listOfReactants>
+          <speciesReference species="M_man6p_p" stoichiometry="1" constant="true"/>
+          <speciesReference species="M_pi_c" stoichiometry="2" constant="true"/>
+        </listOfReactants>
+        <listOfProducts>
+          <speciesReference species="M_man6p_c" stoichiometry="1" constant="true"/>
+          <speciesReference species="M_pi_p" stoichiometry="2" constant="true"/>
+        </listOfProducts>
+        <fbc:geneProductAssociation>
+          <fbc:geneProductRef fbc:geneProduct="G_b3666"/>
+        </fbc:geneProductAssociation>
+      </reaction>
+      <reaction id="R_FACOAL80t2pp" fast="false" reversible="false" name="Fatty-acid-CoA ligase (octanoate transport via vectoral Co-A coupling)" metaid="R_FACOAL80t2pp" sboTerm="SBO:0000185" fbc:upperFluxBound="cobra_default_ub" fbc:lowerFluxBound="cobra_0_bound">
+        <sbml:annotation xmlns:sbml="http://www.sbml.org/sbml/level3/version1/core">
+          <rdf:RDF xmlns:rdf="http://www.w3.org/1999/02/22-rdf-syntax-ns#">
+            <rdf:Description rdf:about="#R_FACOAL80t2pp">
+              <bqbiol:is xmlns:bqbiol="http://biomodels.net/biology-qualifiers/">
+                <rdf:Bag>
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+                  <rdf:li rdf:resource="http://identifiers.org/metanetx.reaction/MNXR99206"/>
+                  <rdf:li rdf:resource="http://identifiers.org/rhea/51824"/>
+                  <rdf:li rdf:resource="http://identifiers.org/rhea/51825"/>
+                  <rdf:li rdf:resource="http://identifiers.org/rhea/51827"/>
+                  <rdf:li rdf:resource="http://identifiers.org/rhea/51826"/>
+                </rdf:Bag>
+              </bqbiol:is>
+            </rdf:Description>
+          </rdf:RDF>
+        </sbml:annotation>
+        <listOfReactants>
+          <speciesReference species="M_atp_c" stoichiometry="1" constant="true"/>
+          <speciesReference species="M_coa_c" stoichiometry="1" constant="true"/>
+          <speciesReference species="M_h_p" stoichiometry="1" constant="true"/>
+          <speciesReference species="M_octa_p" stoichiometry="1" constant="true"/>
+        </listOfReactants>
+        <listOfProducts>
+          <speciesReference species="M_amp_c" stoichiometry="1" constant="true"/>
+          <speciesReference species="M_h_c" stoichiometry="1" constant="true"/>
+          <speciesReference species="M_occoa_c" stoichiometry="1" constant="true"/>
+          <speciesReference species="M_ppi_c" stoichiometry="1" constant="true"/>
+        </listOfProducts>
+        <fbc:geneProductAssociation>
+          <fbc:or>
+            <fbc:geneProductRef fbc:geneProduct="G_b1805"/>
+            <fbc:geneProductRef fbc:geneProduct="G_b1701"/>
+          </fbc:or>
+        </fbc:geneProductAssociation>
+      </reaction>
+      <reaction id="R_PPGPPDP" fast="false" reversible="false" name="Guanosine-3',5'-bis(diphosphate) 3'-diphosphatase" metaid="R_PPGPPDP" sboTerm="SBO:0000176" fbc:upperFluxBound="cobra_default_ub" fbc:lowerFluxBound="cobra_0_bound">
+        <sbml:annotation xmlns:sbml="http://www.sbml.org/sbml/level3/version1/core">
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+            <rdf:Description rdf:about="#R_PPGPPDP">
+              <bqbiol:is xmlns:bqbiol="http://biomodels.net/biology-qualifiers/">
+                <rdf:Bag>
+                  <rdf:li rdf:resource="http://identifiers.org/bigg.reaction/PPGPPDP"/>
+                  <rdf:li rdf:resource="http://identifiers.org/biocyc/META:PPGPPSYN-RXN"/>
+                  <rdf:li rdf:resource="http://identifiers.org/ec-code/3.1.7.2"/>
+                  <rdf:li rdf:resource="http://identifiers.org/kegg.reaction/R00336"/>
+                  <rdf:li rdf:resource="http://identifiers.org/metanetx.reaction/MNXR103109"/>
+                  <rdf:li rdf:resource="http://identifiers.org/rhea/14254"/>
+                  <rdf:li rdf:resource="http://identifiers.org/rhea/14255"/>
+                  <rdf:li rdf:resource="http://identifiers.org/rhea/14256"/>
+                  <rdf:li rdf:resource="http://identifiers.org/rhea/14253"/>
+                  <rdf:li rdf:resource="http://identifiers.org/seed.reaction/rxn00242"/>
+                </rdf:Bag>
+              </bqbiol:is>
+            </rdf:Description>
+          </rdf:RDF>
+        </sbml:annotation>
+        <listOfReactants>
+          <speciesReference species="M_h2o_c" stoichiometry="1" constant="true"/>
+          <speciesReference species="M_ppgpp_c" stoichiometry="1" constant="true"/>
+        </listOfReactants>
+        <listOfProducts>
+          <speciesReference species="M_gdp_c" stoichiometry="1" constant="true"/>
+          <speciesReference species="M_ppi_c" stoichiometry="1" constant="true"/>
+        </listOfProducts>
+        <fbc:geneProductAssociation>
+          <fbc:geneProductRef fbc:geneProduct="G_b3650"/>
+        </fbc:geneProductAssociation>
+      </reaction>
+      <reaction id="R_CPGNabcpp" fast="false" reversible="false" name="Coprogen transport via ABC system (periplasm)" metaid="R_CPGNabcpp" sboTerm="SBO:0000185" fbc:upperFluxBound="cobra_default_ub" fbc:lowerFluxBound="cobra_0_bound">
+        <sbml:annotation xmlns:sbml="http://www.sbml.org/sbml/level3/version1/core">
+          <rdf:RDF xmlns:rdf="http://www.w3.org/1999/02/22-rdf-syntax-ns#">
+            <rdf:Description rdf:about="#R_CPGNabcpp">
+              <bqbiol:is xmlns:bqbiol="http://biomodels.net/biology-qualifiers/">
+                <rdf:Bag>
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+                  <rdf:li rdf:resource="http://identifiers.org/metanetx.reaction/MNXR96873"/>
+                  <rdf:li rdf:resource="http://identifiers.org/seed.reaction/rxn08245"/>
+                </rdf:Bag>
+              </bqbiol:is>
+            </rdf:Description>
+          </rdf:RDF>
+        </sbml:annotation>
+        <listOfReactants>
+          <speciesReference species="M_atp_c" stoichiometry="1" constant="true"/>
+          <speciesReference species="M_cpgn_p" stoichiometry="1" constant="true"/>
+          <speciesReference species="M_h2o_c" stoichiometry="1" constant="true"/>
+        </listOfReactants>
+        <listOfProducts>
+          <speciesReference species="M_adp_c" stoichiometry="1" constant="true"/>
+          <speciesReference species="M_cpgn_c" stoichiometry="1" constant="true"/>
+          <speciesReference species="M_h_c" stoichiometry="1" constant="true"/>
+          <speciesReference species="M_pi_c" stoichiometry="1" constant="true"/>
+        </listOfProducts>
+        <fbc:geneProductAssociation>
+          <fbc:and>
+            <fbc:geneProductRef fbc:geneProduct="G_b0151"/>
+            <fbc:geneProductRef fbc:geneProduct="G_b0153"/>
+            <fbc:geneProductRef fbc:geneProduct="G_b0152"/>
+          </fbc:and>
+        </fbc:geneProductAssociation>
+      </reaction>
+      <reaction id="R_CPGNexs" fast="false" reversible="false" name="Coprogen Fe-loading reaction (spontaneaous)" metaid="R_CPGNexs" sboTerm="SBO:0000176" fbc:upperFluxBound="cobra_default_ub" fbc:lowerFluxBound="cobra_0_bound">
+        <sbml:annotation xmlns:sbml="http://www.sbml.org/sbml/level3/version1/core">
+          <rdf:RDF xmlns:rdf="http://www.w3.org/1999/02/22-rdf-syntax-ns#">
+            <rdf:Description rdf:about="#R_CPGNexs">
+              <bqbiol:is xmlns:bqbiol="http://biomodels.net/biology-qualifiers/">
+                <rdf:Bag>
+                  <rdf:li rdf:resource="http://identifiers.org/bigg.reaction/CPGNexs"/>
+                  <rdf:li rdf:resource="http://identifiers.org/metanetx.reaction/MNXR96874"/>
+                  <rdf:li rdf:resource="http://identifiers.org/seed.reaction/rxn08246"/>
+                </rdf:Bag>
+              </bqbiol:is>
+            </rdf:Description>
+          </rdf:RDF>
+        </sbml:annotation>
+        <listOfReactants>
+          <speciesReference species="M_cpgn_un_e" stoichiometry="1" constant="true"/>
+          <speciesReference species="M_fe3_e" stoichiometry="1" constant="true"/>
+        </listOfReactants>
+        <listOfProducts>
+          <speciesReference species="M_cpgn_e" stoichiometry="1" constant="true"/>
+        </listOfProducts>
+        <fbc:geneProductAssociation>
+          <fbc:geneProductRef fbc:geneProduct="G_s0001"/>
+        </fbc:geneProductAssociation>
+      </reaction>
+      <reaction id="R_MANGLYCptspp" fast="false" reversible="false" name="2-O-alpha-mannosyl-D-glycerate transport via PEP:Pyr PTS (periplasm)" metaid="R_MANGLYCptspp" sboTerm="SBO:0000185" fbc:upperFluxBound="cobra_default_ub" fbc:lowerFluxBound="cobra_0_bound">
+        <sbml:annotation xmlns:sbml="http://www.sbml.org/sbml/level3/version1/core">
+          <rdf:RDF xmlns:rdf="http://www.w3.org/1999/02/22-rdf-syntax-ns#">
+            <rdf:Description rdf:about="#R_MANGLYCptspp">
+              <bqbiol:is xmlns:bqbiol="http://biomodels.net/biology-qualifiers/">
+                <rdf:Bag>
+                  <rdf:li rdf:resource="http://identifiers.org/bigg.reaction/MANGLYCptspp"/>
+                  <rdf:li rdf:resource="http://identifiers.org/metanetx.reaction/MNXR101394"/>
+                  <rdf:li rdf:resource="http://identifiers.org/seed.reaction/rxn08882"/>
+                </rdf:Bag>
+              </bqbiol:is>
+            </rdf:Description>
+          </rdf:RDF>
+        </sbml:annotation>
+        <listOfReactants>
+          <speciesReference species="M_manglyc_p" stoichiometry="1" constant="true"/>
+          <speciesReference species="M_pep_c" stoichiometry="1" constant="true"/>
+        </listOfReactants>
+        <listOfProducts>
+          <speciesReference species="M_man6pglyc_c" stoichiometry="1" constant="true"/>
+          <speciesReference species="M_pyr_c" stoichiometry="1" constant="true"/>
+        </listOfProducts>
+        <fbc:geneProductAssociation>
+          <fbc:and>
+            <fbc:geneProductRef fbc:geneProduct="G_b2415"/>
+            <fbc:geneProductRef fbc:geneProduct="G_b0731"/>
+            <fbc:geneProductRef fbc:geneProduct="G_b2416"/>
+          </fbc:and>
+        </fbc:geneProductAssociation>
+      </reaction>
+      <reaction id="R_MELIBt2pp" fast="false" reversible="false" name="Melibiose transport in via symport (periplasm)" metaid="R_MELIBt2pp" sboTerm="SBO:0000185" fbc:upperFluxBound="cobra_default_ub" fbc:lowerFluxBound="cobra_0_bound">
+        <sbml:annotation xmlns:sbml="http://www.sbml.org/sbml/level3/version1/core">
+          <rdf:RDF xmlns:rdf="http://www.w3.org/1999/02/22-rdf-syntax-ns#">
+            <rdf:Description rdf:about="#R_MELIBt2pp">
+              <bqbiol:is xmlns:bqbiol="http://biomodels.net/biology-qualifiers/">
+                <rdf:Bag>
+                  <rdf:li rdf:resource="http://identifiers.org/bigg.reaction/MELIBt2pp"/>
+                  <rdf:li rdf:resource="http://identifiers.org/biocyc/META:TRANS-RXN-94"/>
+                  <rdf:li rdf:resource="http://identifiers.org/metanetx.reaction/MNXR138587"/>
+                </rdf:Bag>
+              </bqbiol:is>
+            </rdf:Description>
+          </rdf:RDF>
+        </sbml:annotation>
+        <listOfReactants>
+          <speciesReference species="M_h_p" stoichiometry="1" constant="true"/>
+          <speciesReference species="M_melib_p" stoichiometry="1" constant="true"/>
+        </listOfReactants>
+        <listOfProducts>
+          <speciesReference species="M_h_c" stoichiometry="1" constant="true"/>
+          <speciesReference species="M_melib_c" stoichiometry="1" constant="true"/>
+        </listOfProducts>
+        <fbc:geneProductAssociation>
+          <fbc:or>
+            <fbc:geneProductRef fbc:geneProduct="G_b4120"/>
+            <fbc:geneProductRef fbc:geneProduct="G_b0343"/>
+          </fbc:or>
+        </fbc:geneProductAssociation>
+      </reaction>
+      <reaction id="R_CBIuabcpp" fast="false" reversible="false" name="Cobinamide transport via ABC system (uptake, periplasm)" metaid="R_CBIuabcpp" sboTerm="SBO:0000185" fbc:upperFluxBound="cobra_default_ub" fbc:lowerFluxBound="cobra_0_bound">
+        <sbml:annotation xmlns:sbml="http://www.sbml.org/sbml/level3/version1/core">
+          <rdf:RDF xmlns:rdf="http://www.w3.org/1999/02/22-rdf-syntax-ns#">
+            <rdf:Description rdf:about="#R_CBIuabcpp">
+              <bqbiol:is xmlns:bqbiol="http://biomodels.net/biology-qualifiers/">
+                <rdf:Bag>
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+                  <rdf:li rdf:resource="http://identifiers.org/biocyc/META:TRANS-RXN-296"/>
+                  <rdf:li rdf:resource="http://identifiers.org/ec-code/3.6.3.33"/>
+                  <rdf:li rdf:resource="http://identifiers.org/metanetx.reaction/MNXR96467"/>
+                </rdf:Bag>
+              </bqbiol:is>
+            </rdf:Description>
+          </rdf:RDF>
+        </sbml:annotation>
+        <listOfReactants>
+          <speciesReference species="M_atp_c" stoichiometry="1" constant="true"/>
+          <speciesReference species="M_cbi_p" stoichiometry="1" constant="true"/>
+          <speciesReference species="M_h2o_c" stoichiometry="1" constant="true"/>
+        </listOfReactants>
+        <listOfProducts>
+          <speciesReference species="M_adp_c" stoichiometry="1" constant="true"/>
+          <speciesReference species="M_cbi_c" stoichiometry="1" constant="true"/>
+          <speciesReference species="M_h_c" stoichiometry="1" constant="true"/>
+          <speciesReference species="M_pi_c" stoichiometry="1" constant="true"/>
+        </listOfProducts>
+        <fbc:geneProductAssociation>
+          <fbc:and>
+            <fbc:geneProductRef fbc:geneProduct="G_b1711"/>
+            <fbc:geneProductRef fbc:geneProduct="G_b0158"/>
+            <fbc:geneProductRef fbc:geneProduct="G_b1709"/>
+          </fbc:and>
+        </fbc:geneProductAssociation>
+      </reaction>
+      <reaction id="R_METabcpp" fast="false" reversible="false" name="L-methionine transport via ABC system (periplasm)" metaid="R_METabcpp" sboTerm="SBO:0000185" fbc:upperFluxBound="cobra_default_ub" fbc:lowerFluxBound="cobra_0_bound">
+        <sbml:annotation xmlns:sbml="http://www.sbml.org/sbml/level3/version1/core">
+          <rdf:RDF xmlns:rdf="http://www.w3.org/1999/02/22-rdf-syntax-ns#">
+            <rdf:Description rdf:about="#R_METabcpp">
+              <bqbiol:is xmlns:bqbiol="http://biomodels.net/biology-qualifiers/">
+                <rdf:Bag>
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+                  <rdf:li rdf:resource="http://identifiers.org/biocyc/META:RXN0-4522"/>
+                  <rdf:li rdf:resource="http://identifiers.org/metanetx.reaction/MNXR101489"/>
+                  <rdf:li rdf:resource="http://identifiers.org/rhea/29780#2"/>
+                  <rdf:li rdf:resource="http://identifiers.org/rhea/29779#2"/>
+                  <rdf:li rdf:resource="http://identifiers.org/rhea/29782#2"/>
+                  <rdf:li rdf:resource="http://identifiers.org/rhea/29781#2"/>
+                  <rdf:li rdf:resource="http://identifiers.org/rhea/32829#1"/>
+                  <rdf:li rdf:resource="http://identifiers.org/rhea/32827#1"/>
+                  <rdf:li rdf:resource="http://identifiers.org/rhea/32830#1"/>
+                  <rdf:li rdf:resource="http://identifiers.org/rhea/32828#1"/>
+                  <rdf:li rdf:resource="http://identifiers.org/seed.reaction/rxn05219"/>
+                  <rdf:li rdf:resource="http://identifiers.org/seed.reaction/rxn08909"/>
+                  <rdf:li rdf:resource="http://identifiers.org/seed.reaction/rxn11151"/>
+                </rdf:Bag>
+              </bqbiol:is>
+            </rdf:Description>
+          </rdf:RDF>
+        </sbml:annotation>
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+          <speciesReference species="M_atp_c" stoichiometry="1" constant="true"/>
+          <speciesReference species="M_h2o_c" stoichiometry="1" constant="true"/>
+          <speciesReference species="M_met__L_p" stoichiometry="1" constant="true"/>
+        </listOfReactants>
+        <listOfProducts>
+          <speciesReference species="M_adp_c" stoichiometry="1" constant="true"/>
+          <speciesReference species="M_h_c" stoichiometry="1" constant="true"/>
+          <speciesReference species="M_met__L_c" stoichiometry="1" constant="true"/>
+          <speciesReference species="M_pi_c" stoichiometry="1" constant="true"/>
+        </listOfProducts>
+        <fbc:geneProductAssociation>
+          <fbc:and>
+            <fbc:geneProductRef fbc:geneProduct="G_b0198"/>
+            <fbc:geneProductRef fbc:geneProduct="G_b0197"/>
+            <fbc:geneProductRef fbc:geneProduct="G_b0199"/>
+          </fbc:and>
+        </fbc:geneProductAssociation>
+      </reaction>
+      <reaction id="R_CITtex" fast="false" reversible="true" name="Citrate transport via diffusion (extracellular to periplasm)" metaid="R_CITtex" sboTerm="SBO:0000185" fbc:upperFluxBound="cobra_default_ub" fbc:lowerFluxBound="cobra_default_lb">
+        <sbml:annotation xmlns:sbml="http://www.sbml.org/sbml/level3/version1/core">
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+            <rdf:Description rdf:about="#R_CITtex">
+              <bqbiol:is xmlns:bqbiol="http://biomodels.net/biology-qualifiers/">
+                <rdf:Bag>
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+                  <rdf:li rdf:resource="http://identifiers.org/metanetx.reaction/MNXR96756"/>
+                  <rdf:li rdf:resource="http://identifiers.org/rhea/33184"/>
+                  <rdf:li rdf:resource="http://identifiers.org/rhea/33186"/>
+                  <rdf:li rdf:resource="http://identifiers.org/rhea/33183"/>
+                  <rdf:li rdf:resource="http://identifiers.org/rhea/33185"/>
+                  <rdf:li rdf:resource="http://identifiers.org/seed.reaction/rxn10946"/>
+                  <rdf:li rdf:resource="http://identifiers.org/seed.reaction/rxn08217"/>
+                </rdf:Bag>
+              </bqbiol:is>
+            </rdf:Description>
+          </rdf:RDF>
+        </sbml:annotation>
+        <listOfReactants>
+          <speciesReference species="M_cit_e" stoichiometry="1" constant="true"/>
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+        <listOfProducts>
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+            <fbc:geneProductRef fbc:geneProduct="G_b1377"/>
+            <fbc:geneProductRef fbc:geneProduct="G_b2215"/>
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+        </fbc:geneProductAssociation>
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+        <listOfProducts>
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+          <speciesReference species="M_glu__L_c" stoichiometry="1" constant="true"/>
+          <speciesReference species="M_ptrc_c" stoichiometry="1" constant="true"/>
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+        <listOfProducts>
+          <speciesReference species="M_adp_c" stoichiometry="1" constant="true"/>
+          <speciesReference species="M_ggptrc_c" stoichiometry="1" constant="true"/>
+          <speciesReference species="M_h_c" stoichiometry="1" constant="true"/>
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+          <speciesReference species="M_h_c" stoichiometry="1" constant="true"/>
+          <speciesReference species="M_rmn_c" stoichiometry="1" constant="true"/>
+        </listOfProducts>
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+          <fbc:geneProductRef fbc:geneProduct="G_b3907"/>
+        </fbc:geneProductAssociation>
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+          <speciesReference species="M_h2o_p" stoichiometry="1" constant="true"/>
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+        <listOfProducts>
+          <speciesReference species="M_3ump_p" stoichiometry="1" constant="true"/>
+          <speciesReference species="M_h_p" stoichiometry="1" constant="true"/>
+        </listOfProducts>
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+                  <rdf:li rdf:resource="http://identifiers.org/bigg.reaction/SERt4pp"/>
+                  <rdf:li rdf:resource="http://identifiers.org/biocyc/META:RXN0-4083"/>
+                  <rdf:li rdf:resource="http://identifiers.org/metanetx.reaction/MNXR104346"/>
+                  <rdf:li rdf:resource="http://identifiers.org/rhea/29576"/>
+                  <rdf:li rdf:resource="http://identifiers.org/rhea/29577"/>
+                  <rdf:li rdf:resource="http://identifiers.org/rhea/29578"/>
+                  <rdf:li rdf:resource="http://identifiers.org/rhea/29575"/>
+                  <rdf:li rdf:resource="http://identifiers.org/seed.reaction/rxn10185"/>
+                  <rdf:li rdf:resource="http://identifiers.org/seed.reaction/rxn09247"/>
+                </rdf:Bag>
+              </bqbiol:is>
+            </rdf:Description>
+          </rdf:RDF>
+        </sbml:annotation>
+        <listOfReactants>
+          <speciesReference species="M_na1_p" stoichiometry="1" constant="true"/>
+          <speciesReference species="M_ser__L_p" stoichiometry="1" constant="true"/>
+        </listOfReactants>
+        <listOfProducts>
+          <speciesReference species="M_na1_c" stoichiometry="1" constant="true"/>
+          <speciesReference species="M_ser__L_c" stoichiometry="1" constant="true"/>
+        </listOfProducts>
+        <fbc:geneProductAssociation>
+          <fbc:geneProductRef fbc:geneProduct="G_b3089"/>
+        </fbc:geneProductAssociation>
+      </reaction>
+      <reaction id="R_METDtex" fast="false" reversible="true" name="D-methionine transport via diffusion (extracellular to periplasm)" metaid="R_METDtex" sboTerm="SBO:0000185" fbc:upperFluxBound="cobra_default_ub" fbc:lowerFluxBound="cobra_default_lb">
+        <sbml:annotation xmlns:sbml="http://www.sbml.org/sbml/level3/version1/core">
+          <rdf:RDF xmlns:rdf="http://www.w3.org/1999/02/22-rdf-syntax-ns#">
+            <rdf:Description rdf:about="#R_METDtex">
+              <bqbiol:is xmlns:bqbiol="http://biomodels.net/biology-qualifiers/">
+                <rdf:Bag>
+                  <rdf:li rdf:resource="http://identifiers.org/bigg.reaction/METDtex"/>
+                  <rdf:li rdf:resource="http://identifiers.org/metanetx.reaction/MNXR101473"/>
+                  <rdf:li rdf:resource="http://identifiers.org/rhea/34913"/>
+                  <rdf:li rdf:resource="http://identifiers.org/rhea/34912"/>
+                  <rdf:li rdf:resource="http://identifiers.org/rhea/34914"/>
+                  <rdf:li rdf:resource="http://identifiers.org/rhea/34911"/>
+                  <rdf:li rdf:resource="http://identifiers.org/seed.reaction/rxn08911"/>
+                </rdf:Bag>
+              </bqbiol:is>
+            </rdf:Description>
+          </rdf:RDF>
+        </sbml:annotation>
+        <listOfReactants>
+          <speciesReference species="M_met__D_e" stoichiometry="1" constant="true"/>
+        </listOfReactants>
+        <listOfProducts>
+          <speciesReference species="M_met__D_p" stoichiometry="1" constant="true"/>
+        </listOfProducts>
+        <fbc:geneProductAssociation>
+          <fbc:or>
+            <fbc:geneProductRef fbc:geneProduct="G_b0241"/>
+            <fbc:geneProductRef fbc:geneProduct="G_b0929"/>
+            <fbc:geneProductRef fbc:geneProduct="G_b1377"/>
+            <fbc:geneProductRef fbc:geneProduct="G_b2215"/>
+          </fbc:or>
+        </fbc:geneProductAssociation>
+      </reaction>
+      <reaction id="R_SUCCt2_3pp" fast="false" reversible="false" name="Succintate transport via proton symport (3 H) (periplasm)" metaid="R_SUCCt2_3pp" sboTerm="SBO:0000185" fbc:upperFluxBound="cobra_default_ub" fbc:lowerFluxBound="cobra_0_bound">
+        <sbml:annotation xmlns:sbml="http://www.sbml.org/sbml/level3/version1/core">
+          <rdf:RDF xmlns:rdf="http://www.w3.org/1999/02/22-rdf-syntax-ns#">
+            <rdf:Description rdf:about="#R_SUCCt2_3pp">
+              <bqbiol:is xmlns:bqbiol="http://biomodels.net/biology-qualifiers/">
+                <rdf:Bag>
+                  <rdf:li rdf:resource="http://identifiers.org/bigg.reaction/SUCCt2_3pp"/>
+                  <rdf:li rdf:resource="http://identifiers.org/biocyc/META:TRANS-RXN-300"/>
+                  <rdf:li rdf:resource="http://identifiers.org/metanetx.reaction/MNXR104621"/>
+                  <rdf:li rdf:resource="http://identifiers.org/seed.reaction/rxn10157"/>
+                </rdf:Bag>
+              </bqbiol:is>
+            </rdf:Description>
+          </rdf:RDF>
+        </sbml:annotation>
+        <listOfReactants>
+          <speciesReference species="M_h_p" stoichiometry="3" constant="true"/>
+          <speciesReference species="M_succ_p" stoichiometry="1" constant="true"/>
+        </listOfReactants>
+        <listOfProducts>
+          <speciesReference species="M_h_c" stoichiometry="3" constant="true"/>
+          <speciesReference species="M_succ_c" stoichiometry="1" constant="true"/>
+        </listOfProducts>
+        <fbc:geneProductAssociation>
+          <fbc:or>
+            <fbc:geneProductRef fbc:geneProduct="G_b4123"/>
+            <fbc:geneProductRef fbc:geneProduct="G_b4138"/>
+          </fbc:or>
+        </fbc:geneProductAssociation>
+      </reaction>
+      <reaction id="R_MNLptspp" fast="false" reversible="false" name="Mannitol transport via PEP:Pyr PTS (periplasm)" metaid="R_MNLptspp" sboTerm="SBO:0000185" fbc:upperFluxBound="cobra_default_ub" fbc:lowerFluxBound="cobra_0_bound">
+        <sbml:annotation xmlns:sbml="http://www.sbml.org/sbml/level3/version1/core">
+          <rdf:RDF xmlns:rdf="http://www.w3.org/1999/02/22-rdf-syntax-ns#">
+            <rdf:Description rdf:about="#R_MNLptspp">
+              <bqbiol:is xmlns:bqbiol="http://biomodels.net/biology-qualifiers/">
+                <rdf:Bag>
+                  <rdf:li rdf:resource="http://identifiers.org/bigg.reaction/MNLptspp"/>
+                  <rdf:li rdf:resource="http://identifiers.org/metanetx.reaction/MNXR101677"/>
+                  <rdf:li rdf:resource="http://identifiers.org/seed.reaction/rxn08949"/>
+                  <rdf:li rdf:resource="http://identifiers.org/seed.reaction/rxn13944"/>
+                  <rdf:li rdf:resource="http://identifiers.org/seed.reaction/rxn13934"/>
+                  <rdf:li rdf:resource="http://identifiers.org/seed.reaction/rxn05617"/>
+                </rdf:Bag>
+              </bqbiol:is>
+            </rdf:Description>
+          </rdf:RDF>
+        </sbml:annotation>
+        <listOfReactants>
+          <speciesReference species="M_mnl_p" stoichiometry="1" constant="true"/>
+          <speciesReference species="M_pep_c" stoichiometry="1" constant="true"/>
+        </listOfReactants>
+        <listOfProducts>
+          <speciesReference species="M_mnl1p_c" stoichiometry="1" constant="true"/>
+          <speciesReference species="M_pyr_c" stoichiometry="1" constant="true"/>
+        </listOfProducts>
+        <fbc:geneProductAssociation>
+          <fbc:or>
+            <fbc:and>
+              <fbc:geneProductRef fbc:geneProduct="G_b2415"/>
+              <fbc:geneProductRef fbc:geneProduct="G_b3599"/>
+              <fbc:geneProductRef fbc:geneProduct="G_b2416"/>
+            </fbc:and>
+            <fbc:and>
+              <fbc:geneProductRef fbc:geneProduct="G_b2415"/>
+              <fbc:geneProductRef fbc:geneProduct="G_b2934"/>
+              <fbc:geneProductRef fbc:geneProduct="G_b2933"/>
+              <fbc:geneProductRef fbc:geneProduct="G_b2416"/>
+            </fbc:and>
+            <fbc:and>
+              <fbc:geneProductRef fbc:geneProduct="G_b2415"/>
+              <fbc:geneProductRef fbc:geneProduct="G_b2704"/>
+              <fbc:geneProductRef fbc:geneProduct="G_b2702"/>
+              <fbc:geneProductRef fbc:geneProduct="G_b2703"/>
+              <fbc:geneProductRef fbc:geneProduct="G_b2416"/>
+            </fbc:and>
+          </fbc:or>
+        </fbc:geneProductAssociation>
+      </reaction>
+      <reaction id="R_NAt3_1p5pp" fast="false" reversible="false" name="Sodium proton antiporter (H:NA is 1.5) (periplasm)" metaid="R_NAt3_1p5pp" sboTerm="SBO:0000185" fbc:upperFluxBound="cobra_default_ub" fbc:lowerFluxBound="cobra_0_bound">
+        <sbml:annotation xmlns:sbml="http://www.sbml.org/sbml/level3/version1/core">
+          <rdf:RDF xmlns:rdf="http://www.w3.org/1999/02/22-rdf-syntax-ns#">
+            <rdf:Description rdf:about="#R_NAt3_1p5pp">
+              <bqbiol:is xmlns:bqbiol="http://biomodels.net/biology-qualifiers/">
+                <rdf:Bag>
+                  <rdf:li rdf:resource="http://identifiers.org/bigg.reaction/NAt3_1p5pp"/>
+                  <rdf:li rdf:resource="http://identifiers.org/biocyc/META:TRANS-RXN-130"/>
+                  <rdf:li rdf:resource="http://identifiers.org/metanetx.reaction/MNXR101914"/>
+                  <rdf:li rdf:resource="http://identifiers.org/rhea/29249"/>
+                  <rdf:li rdf:resource="http://identifiers.org/rhea/29250"/>
+                  <rdf:li rdf:resource="http://identifiers.org/rhea/29247"/>
+                  <rdf:li rdf:resource="http://identifiers.org/rhea/29248"/>
+                  <rdf:li rdf:resource="http://identifiers.org/seed.reaction/rxn10179"/>
+                  <rdf:li rdf:resource="http://identifiers.org/seed.reaction/rxn08982"/>
+                </rdf:Bag>
+              </bqbiol:is>
+            </rdf:Description>
+          </rdf:RDF>
+        </sbml:annotation>
+        <listOfReactants>
+          <speciesReference species="M_h_p" stoichiometry="3" constant="true"/>
+          <speciesReference species="M_na1_c" stoichiometry="2" constant="true"/>
+        </listOfReactants>
+        <listOfProducts>
+          <speciesReference species="M_h_c" stoichiometry="3" constant="true"/>
+          <speciesReference species="M_na1_p" stoichiometry="2" constant="true"/>
+        </listOfProducts>
+        <fbc:geneProductAssociation>
+          <fbc:geneProductRef fbc:geneProduct="G_b1186"/>
+        </fbc:geneProductAssociation>
+      </reaction>
+      <reaction id="R_ATPHs" fast="false" reversible="false" name="ATP amine hydrolysis (spontaneous)" metaid="R_ATPHs" sboTerm="SBO:0000176" fbc:upperFluxBound="cobra_default_ub" fbc:lowerFluxBound="cobra_0_bound">
+        <sbml:annotation xmlns:sbml="http://www.sbml.org/sbml/level3/version1/core">
+          <rdf:RDF xmlns:rdf="http://www.w3.org/1999/02/22-rdf-syntax-ns#">
+            <rdf:Description rdf:about="#R_ATPHs">
+              <bqbiol:is xmlns:bqbiol="http://biomodels.net/biology-qualifiers/">
+                <rdf:Bag>
+                  <rdf:li rdf:resource="http://identifiers.org/bigg.reaction/ATPHs"/>
+                  <rdf:li rdf:resource="http://identifiers.org/biocyc/META:ATP-DEAMINASE-RXN"/>
+                  <rdf:li rdf:resource="http://identifiers.org/ec-code/3.5.4.17"/>
+                  <rdf:li rdf:resource="http://identifiers.org/ec-code/3.5.4.18"/>
+                  <rdf:li rdf:resource="http://identifiers.org/kegg.reaction/R00088"/>
+                  <rdf:li rdf:resource="http://identifiers.org/metanetx.reaction/MNXR96130"/>
+                  <rdf:li rdf:resource="http://identifiers.org/rhea/13038"/>
+                  <rdf:li rdf:resource="http://identifiers.org/rhea/13040"/>
+                  <rdf:li rdf:resource="http://identifiers.org/rhea/13039"/>
+                  <rdf:li rdf:resource="http://identifiers.org/rhea/13037"/>
+                  <rdf:li rdf:resource="http://identifiers.org/seed.reaction/rxn00064"/>
+                </rdf:Bag>
+              </bqbiol:is>
+            </rdf:Description>
+          </rdf:RDF>
+        </sbml:annotation>
+        <listOfReactants>
+          <speciesReference species="M_atp_c" stoichiometry="1" constant="true"/>
+          <speciesReference species="M_h2o_c" stoichiometry="1" constant="true"/>
+          <speciesReference species="M_h_c" stoichiometry="1" constant="true"/>
+        </listOfReactants>
+        <listOfProducts>
+          <speciesReference species="M_itp_c" stoichiometry="1" constant="true"/>
+          <speciesReference species="M_nh4_c" stoichiometry="1" constant="true"/>
+        </listOfProducts>
+        <fbc:geneProductAssociation>
+          <fbc:geneProductRef fbc:geneProduct="G_s0001"/>
+        </fbc:geneProductAssociation>
+      </reaction>
+      <reaction id="R_SARCOX" fast="false" reversible="false" name="Sarcosine oxidase" metaid="R_SARCOX" sboTerm="SBO:0000176" fbc:upperFluxBound="cobra_default_ub" fbc:lowerFluxBound="cobra_0_bound">
+        <sbml:annotation xmlns:sbml="http://www.sbml.org/sbml/level3/version1/core">
+          <rdf:RDF xmlns:rdf="http://www.w3.org/1999/02/22-rdf-syntax-ns#">
+            <rdf:Description rdf:about="#R_SARCOX">
+              <bqbiol:is xmlns:bqbiol="http://biomodels.net/biology-qualifiers/">
+                <rdf:Bag>
+                  <rdf:li rdf:resource="http://identifiers.org/bigg.reaction/SARCOX"/>
+                  <rdf:li rdf:resource="http://identifiers.org/biocyc/META:SARCOX-RXN"/>
+                  <rdf:li rdf:resource="http://identifiers.org/ec-code/1.5.3.1"/>
+                  <rdf:li rdf:resource="http://identifiers.org/kegg.reaction/R00610"/>
+                  <rdf:li rdf:resource="http://identifiers.org/metanetx.reaction/MNXR104272"/>
+                  <rdf:li rdf:resource="http://identifiers.org/rhea/13315"/>
+                  <rdf:li rdf:resource="http://identifiers.org/rhea/13314"/>
+                  <rdf:li rdf:resource="http://identifiers.org/rhea/13313"/>
+                  <rdf:li rdf:resource="http://identifiers.org/rhea/13316"/>
+                  <rdf:li rdf:resource="http://identifiers.org/sabiork/1001"/>
+                  <rdf:li rdf:resource="http://identifiers.org/seed.reaction/rxn00433"/>
+                </rdf:Bag>
+              </bqbiol:is>
+            </rdf:Description>
+          </rdf:RDF>
+        </sbml:annotation>
+        <listOfReactants>
+          <speciesReference species="M_h2o_c" stoichiometry="1" constant="true"/>
+          <speciesReference species="M_o2_c" stoichiometry="1" constant="true"/>
+          <speciesReference species="M_sarcs_c" stoichiometry="1" constant="true"/>
+        </listOfReactants>
+        <listOfProducts>
+          <speciesReference species="M_fald_c" stoichiometry="1" constant="true"/>
+          <speciesReference species="M_gly_c" stoichiometry="1" constant="true"/>
+          <speciesReference species="M_h2o2_c" stoichiometry="1" constant="true"/>
+        </listOfProducts>
+        <fbc:geneProductAssociation>
+          <fbc:geneProductRef fbc:geneProduct="G_b1059"/>
+        </fbc:geneProductAssociation>
+      </reaction>
+      <reaction id="R_GTPHs" fast="false" reversible="false" name="GTP amine hydrolysis (spontaneous)" metaid="R_GTPHs" sboTerm="SBO:0000176" fbc:upperFluxBound="cobra_default_ub" fbc:lowerFluxBound="cobra_0_bound">
+        <sbml:annotation xmlns:sbml="http://www.sbml.org/sbml/level3/version1/core">
+          <rdf:RDF xmlns:rdf="http://www.w3.org/1999/02/22-rdf-syntax-ns#">
+            <rdf:Description rdf:about="#R_GTPHs">
+              <bqbiol:is xmlns:bqbiol="http://biomodels.net/biology-qualifiers/">
+                <rdf:Bag>
+                  <rdf:li rdf:resource="http://identifiers.org/bigg.reaction/GTPHs"/>
+                  <rdf:li rdf:resource="http://identifiers.org/metanetx.reaction/MNXR100459"/>
+                  <rdf:li rdf:resource="http://identifiers.org/seed.reaction/rxn08679"/>
+                </rdf:Bag>
+              </bqbiol:is>
+            </rdf:Description>
+          </rdf:RDF>
+        </sbml:annotation>
+        <listOfReactants>
+          <speciesReference species="M_gtp_c" stoichiometry="1" constant="true"/>
+          <speciesReference species="M_h2o_c" stoichiometry="1" constant="true"/>
+          <speciesReference species="M_h_c" stoichiometry="1" constant="true"/>
+        </listOfReactants>
+        <listOfProducts>
+          <speciesReference species="M_nh4_c" stoichiometry="1" constant="true"/>
+          <speciesReference species="M_xtp_c" stoichiometry="1" constant="true"/>
+        </listOfProducts>
+        <fbc:geneProductAssociation>
+          <fbc:geneProductRef fbc:geneProduct="G_s0001"/>
+        </fbc:geneProductAssociation>
+      </reaction>
+      <reaction id="R_MN6PP" fast="false" reversible="false" name="Mannose 6-phosphate phosphatase" metaid="R_MN6PP" sboTerm="SBO:0000176" fbc:upperFluxBound="cobra_default_ub" fbc:lowerFluxBound="cobra_0_bound">
+        <sbml:annotation xmlns:sbml="http://www.sbml.org/sbml/level3/version1/core">
+          <rdf:RDF xmlns:rdf="http://www.w3.org/1999/02/22-rdf-syntax-ns#">
+            <rdf:Description rdf:about="#R_MN6PP">
+              <bqbiol:is xmlns:bqbiol="http://biomodels.net/biology-qualifiers/">
+                <rdf:Bag>
+                  <rdf:li rdf:resource="http://identifiers.org/bigg.reaction/MN6PP"/>
+                  <rdf:li rdf:resource="http://identifiers.org/metanetx.reaction/MNXR101671"/>
+                  <rdf:li rdf:resource="http://identifiers.org/rhea/28556"/>
+                  <rdf:li rdf:resource="http://identifiers.org/rhea/28557"/>
+                  <rdf:li rdf:resource="http://identifiers.org/rhea/28555"/>
+                  <rdf:li rdf:resource="http://identifiers.org/rhea/28554"/>
+                  <rdf:li rdf:resource="http://identifiers.org/sabiork/9955"/>
+                  <rdf:li rdf:resource="http://identifiers.org/sabiork/7278"/>
+                  <rdf:li rdf:resource="http://identifiers.org/seed.reaction/rxn08948"/>
+                </rdf:Bag>
+              </bqbiol:is>
+            </rdf:Description>
+          </rdf:RDF>
+        </sbml:annotation>
+        <listOfReactants>
+          <speciesReference species="M_h2o_c" stoichiometry="1" constant="true"/>
+          <speciesReference species="M_man6p_c" stoichiometry="1" constant="true"/>
+        </listOfReactants>
+        <listOfProducts>
+          <speciesReference species="M_man_c" stoichiometry="1" constant="true"/>
+          <speciesReference species="M_pi_c" stoichiometry="1" constant="true"/>
+        </listOfProducts>
+        <fbc:geneProductAssociation>
+          <fbc:or>
+            <fbc:geneProductRef fbc:geneProduct="G_b0822"/>
+            <fbc:geneProductRef fbc:geneProduct="G_b1727"/>
+            <fbc:geneProductRef fbc:geneProduct="G_b3697"/>
+            <fbc:geneProductRef fbc:geneProduct="G_b3826"/>
+          </fbc:or>
+        </fbc:geneProductAssociation>
+      </reaction>
+      <reaction id="R_NAt3_2pp" fast="false" reversible="false" name="Sodium proton antiporter (H:NA is 2) (periplasm)" metaid="R_NAt3_2pp" sboTerm="SBO:0000185" fbc:upperFluxBound="cobra_default_ub" fbc:lowerFluxBound="cobra_0_bound">
+        <sbml:annotation xmlns:sbml="http://www.sbml.org/sbml/level3/version1/core">
+          <rdf:RDF xmlns:rdf="http://www.w3.org/1999/02/22-rdf-syntax-ns#">
+            <rdf:Description rdf:about="#R_NAt3_2pp">
+              <bqbiol:is xmlns:bqbiol="http://biomodels.net/biology-qualifiers/">
+                <rdf:Bag>
+                  <rdf:li rdf:resource="http://identifiers.org/bigg.reaction/NAt3_2pp"/>
+                  <rdf:li rdf:resource="http://identifiers.org/biocyc/META:TRANS-RXN-129"/>
+                  <rdf:li rdf:resource="http://identifiers.org/metanetx.reaction/MNXR101915"/>
+                  <rdf:li rdf:resource="http://identifiers.org/rhea/29252"/>
+                  <rdf:li rdf:resource="http://identifiers.org/rhea/29251"/>
+                  <rdf:li rdf:resource="http://identifiers.org/rhea/29254"/>
+                  <rdf:li rdf:resource="http://identifiers.org/rhea/29253"/>
+                  <rdf:li rdf:resource="http://identifiers.org/seed.reaction/rxn10178"/>
+                  <rdf:li rdf:resource="http://identifiers.org/seed.reaction/rxn08983"/>
+                </rdf:Bag>
+              </bqbiol:is>
+            </rdf:Description>
+          </rdf:RDF>
+        </sbml:annotation>
+        <listOfReactants>
+          <speciesReference species="M_h_p" stoichiometry="2" constant="true"/>
+          <speciesReference species="M_na1_c" stoichiometry="1" constant="true"/>
+        </listOfReactants>
+        <listOfProducts>
+          <speciesReference species="M_h_c" stoichiometry="2" constant="true"/>
+          <speciesReference species="M_na1_p" stoichiometry="1" constant="true"/>
+        </listOfProducts>
+        <fbc:geneProductAssociation>
+          <fbc:geneProductRef fbc:geneProduct="G_b0019"/>
+        </fbc:geneProductAssociation>
+      </reaction>
+      <reaction id="R_NH4tpp" fast="false" reversible="true" name="Ammonia reversible transport (periplasm)" metaid="R_NH4tpp" sboTerm="SBO:0000185" fbc:upperFluxBound="cobra_default_ub" fbc:lowerFluxBound="cobra_default_lb">
+        <sbml:annotation xmlns:sbml="http://www.sbml.org/sbml/level3/version1/core">
+          <rdf:RDF xmlns:rdf="http://www.w3.org/1999/02/22-rdf-syntax-ns#">
+            <rdf:Description rdf:about="#R_NH4tpp">
+              <bqbiol:is xmlns:bqbiol="http://biomodels.net/biology-qualifiers/">
+                <rdf:Bag>
+                  <rdf:li rdf:resource="http://identifiers.org/bigg.reaction/NH4tpp"/>
+                  <rdf:li rdf:resource="http://identifiers.org/biocyc/META:TRANS-RXN0-206"/>
+                  <rdf:li rdf:resource="http://identifiers.org/biocyc/META:RXN-9615"/>
+                  <rdf:li rdf:resource="http://identifiers.org/biocyc/META:TRANS-RXN0-544"/>
+                  <rdf:li rdf:resource="http://identifiers.org/metanetx.reaction/MNXR101950"/>
+                  <rdf:li rdf:resource="http://identifiers.org/reactome.reaction/R-CEL-444416"/>
+                  <rdf:li rdf:resource="http://identifiers.org/reactome.reaction/R-SSC-444416"/>
+                  <rdf:li rdf:resource="http://identifiers.org/reactome.reaction/R-DDI-444416"/>
+                  <rdf:li rdf:resource="http://identifiers.org/reactome.reaction/R-MMU-444416"/>
+                  <rdf:li rdf:resource="http://identifiers.org/reactome.reaction/R-DRE-444416"/>
+                  <rdf:li rdf:resource="http://identifiers.org/reactome.reaction/R-GGA-444416"/>
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+                  <rdf:li rdf:resource="http://identifiers.org/reactome.reaction/R-HSA-444416"/>
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+                  <rdf:li rdf:resource="http://identifiers.org/rhea/28747"/>
+                  <rdf:li rdf:resource="http://identifiers.org/sabiork/11683"/>
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+                  <rdf:li rdf:resource="http://identifiers.org/seed.reaction/rxn09835"/>
+                  <rdf:li rdf:resource="http://identifiers.org/seed.reaction/rxn05466"/>
+                  <rdf:li rdf:resource="http://identifiers.org/seed.reaction/rxn08987"/>
+                  <rdf:li rdf:resource="http://identifiers.org/seed.reaction/rxn08986"/>
+                  <rdf:li rdf:resource="http://identifiers.org/seed.reaction/rxn09736"/>
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+            </rdf:Description>
+          </rdf:RDF>
+        </sbml:annotation>
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+          <speciesReference species="M_nh4_p" stoichiometry="1" constant="true"/>
+        </listOfReactants>
+        <listOfProducts>
+          <speciesReference species="M_nh4_c" stoichiometry="1" constant="true"/>
+        </listOfProducts>
+        <fbc:geneProductAssociation>
+          <fbc:or>
+            <fbc:geneProductRef fbc:geneProduct="G_s0001"/>
+            <fbc:geneProductRef fbc:geneProduct="G_b0451"/>
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+        </fbc:geneProductAssociation>
+      </reaction>
+      <reaction id="R_3KGK" fast="false" reversible="false" name="3-keto-L-gulonate kinase" metaid="R_3KGK" sboTerm="SBO:0000176" fbc:upperFluxBound="cobra_default_ub" fbc:lowerFluxBound="cobra_0_bound">
+        <sbml:annotation xmlns:sbml="http://www.sbml.org/sbml/level3/version1/core">
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+                  <rdf:li rdf:resource="http://identifiers.org/kegg.reaction/R07127"/>
+                  <rdf:li rdf:resource="http://identifiers.org/metanetx.reaction/MNXR94909"/>
+                  <rdf:li rdf:resource="http://identifiers.org/rhea/28222"/>
+                  <rdf:li rdf:resource="http://identifiers.org/rhea/28223"/>
+                  <rdf:li rdf:resource="http://identifiers.org/rhea/28225"/>
+                  <rdf:li rdf:resource="http://identifiers.org/rhea/28224"/>
+                  <rdf:li rdf:resource="http://identifiers.org/seed.reaction/rxn04930"/>
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+        </sbml:annotation>
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+          <speciesReference species="M_3dhguln_c" stoichiometry="1" constant="true"/>
+          <speciesReference species="M_atp_c" stoichiometry="1" constant="true"/>
+        </listOfReactants>
+        <listOfProducts>
+          <speciesReference species="M_3dhgulnp_c" stoichiometry="1" constant="true"/>
+          <speciesReference species="M_adp_c" stoichiometry="1" constant="true"/>
+          <speciesReference species="M_h_c" stoichiometry="1" constant="true"/>
+        </listOfProducts>
+        <fbc:geneProductAssociation>
+          <fbc:geneProductRef fbc:geneProduct="G_b3580"/>
+        </fbc:geneProductAssociation>
+      </reaction>
+      <reaction id="R_METtex" fast="false" reversible="true" name="L-methionine transport via diffusion (extracellular to periplasm)" metaid="R_METtex" sboTerm="SBO:0000185" fbc:upperFluxBound="cobra_default_ub" fbc:lowerFluxBound="cobra_default_lb">
+        <sbml:annotation xmlns:sbml="http://www.sbml.org/sbml/level3/version1/core">
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+                  <rdf:li rdf:resource="http://identifiers.org/metanetx.reaction/MNXR101493"/>
+                  <rdf:li rdf:resource="http://identifiers.org/sabiork/13469"/>
+                  <rdf:li rdf:resource="http://identifiers.org/sabiork/13461"/>
+                  <rdf:li rdf:resource="http://identifiers.org/seed.reaction/rxn08920"/>
+                  <rdf:li rdf:resource="http://identifiers.org/seed.reaction/rxn10976"/>
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+        <listOfProducts>
+          <speciesReference species="M_met__L_p" stoichiometry="1" constant="true"/>
+        </listOfProducts>
+        <fbc:geneProductAssociation>
+          <fbc:or>
+            <fbc:geneProductRef fbc:geneProduct="G_b0241"/>
+            <fbc:geneProductRef fbc:geneProduct="G_b0929"/>
+            <fbc:geneProductRef fbc:geneProduct="G_b1377"/>
+            <fbc:geneProductRef fbc:geneProduct="G_b2215"/>
+          </fbc:or>
+        </fbc:geneProductAssociation>
+      </reaction>
+      <reaction id="R_EX_cd2_e" fast="false" reversible="false" name="Cadmium exchange" metaid="R_EX_cd2_e" sboTerm="SBO:0000627" fbc:upperFluxBound="cobra_default_ub" fbc:lowerFluxBound="cobra_0_bound">
+        <sbml:annotation xmlns:sbml="http://www.sbml.org/sbml/level3/version1/core">
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+              <bqbiol:is xmlns:bqbiol="http://biomodels.net/biology-qualifiers/">
+                <rdf:Bag>
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+                  <rdf:li rdf:resource="http://identifiers.org/biocyc/META:RXN0-10"/>
+                  <rdf:li rdf:resource="http://identifiers.org/metanetx.reaction/MNXR96499"/>
+                  <rdf:li rdf:resource="http://identifiers.org/rhea/28709"/>
+                  <rdf:li rdf:resource="http://identifiers.org/rhea/28708"/>
+                  <rdf:li rdf:resource="http://identifiers.org/rhea/28707"/>
+                  <rdf:li rdf:resource="http://identifiers.org/rhea/28710"/>
+                  <rdf:li rdf:resource="http://identifiers.org/sabiork/13041"/>
+                  <rdf:li rdf:resource="http://identifiers.org/seed.reaction/rxn08198"/>
+                  <rdf:li rdf:resource="http://identifiers.org/seed.reaction/rxn08197"/>
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+          <speciesReference species="M_cd2_e" stoichiometry="1" constant="true"/>
+        </listOfReactants>
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+      <reaction id="R_F6PP" fast="false" reversible="false" name="D-fructose 6-phosphate phosphatase" metaid="R_F6PP" sboTerm="SBO:0000176" fbc:upperFluxBound="cobra_default_ub" fbc:lowerFluxBound="cobra_0_bound">
+        <sbml:annotation xmlns:sbml="http://www.sbml.org/sbml/level3/version1/core">
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+              <bqbiol:is xmlns:bqbiol="http://biomodels.net/biology-qualifiers/">
+                <rdf:Bag>
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+                  <rdf:li rdf:resource="http://identifiers.org/metanetx.reaction/MNXR99077"/>
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+        </sbml:annotation>
+        <listOfReactants>
+          <speciesReference species="M_f6p_c" stoichiometry="1" constant="true"/>
+          <speciesReference species="M_h2o_c" stoichiometry="1" constant="true"/>
+        </listOfReactants>
+        <listOfProducts>
+          <speciesReference species="M_fru_c" stoichiometry="1" constant="true"/>
+          <speciesReference species="M_pi_c" stoichiometry="1" constant="true"/>
+        </listOfProducts>
+        <fbc:geneProductAssociation>
+          <fbc:or>
+            <fbc:geneProductRef fbc:geneProduct="G_b0822"/>
+            <fbc:geneProductRef fbc:geneProduct="G_b3697"/>
+            <fbc:geneProductRef fbc:geneProduct="G_b2690"/>
+            <fbc:geneProductRef fbc:geneProduct="G_b2293"/>
+            <fbc:geneProductRef fbc:geneProduct="G_b3826"/>
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+        </fbc:geneProductAssociation>
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+      <reaction id="R_NMNPtpp" fast="false" reversible="false" name="NMN permease (periplasm)" metaid="R_NMNPtpp" sboTerm="SBO:0000185" fbc:upperFluxBound="cobra_default_ub" fbc:lowerFluxBound="cobra_0_bound">
+        <sbml:annotation xmlns:sbml="http://www.sbml.org/sbml/level3/version1/core">
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+            <rdf:Description rdf:about="#R_NMNPtpp">
+              <bqbiol:is xmlns:bqbiol="http://biomodels.net/biology-qualifiers/">
+                <rdf:Bag>
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+                  <rdf:li rdf:resource="http://identifiers.org/metanetx.reaction/MNXR101972"/>
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+                  <rdf:li rdf:resource="http://identifiers.org/rhea/28483"/>
+                  <rdf:li rdf:resource="http://identifiers.org/rhea/28482"/>
+                  <rdf:li rdf:resource="http://identifiers.org/rhea/28484"/>
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+                  <rdf:li rdf:resource="http://identifiers.org/seed.reaction/rxn08995"/>
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+        <listOfProducts>
+          <speciesReference species="M_nmn_c" stoichiometry="1" constant="true"/>
+        </listOfProducts>
+        <fbc:geneProductAssociation>
+          <fbc:geneProductRef fbc:geneProduct="G_b0751"/>
+        </fbc:geneProductAssociation>
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+                <rdf:Bag>
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+                  <rdf:li rdf:resource="http://identifiers.org/metanetx.reaction/MNXR101984"/>
+                  <rdf:li rdf:resource="http://identifiers.org/seed.reaction/rxn05625"/>
+                  <rdf:li rdf:resource="http://identifiers.org/seed.reaction/rxn08998"/>
+                </rdf:Bag>
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+            </rdf:Description>
+          </rdf:RDF>
+        </sbml:annotation>
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+          <speciesReference species="M_h_p" stoichiometry="1" constant="true"/>
+          <speciesReference species="M_no2_p" stoichiometry="1" constant="true"/>
+        </listOfReactants>
+        <listOfProducts>
+          <speciesReference species="M_h_c" stoichiometry="1" constant="true"/>
+          <speciesReference species="M_no2_c" stoichiometry="1" constant="true"/>
+        </listOfProducts>
+        <fbc:geneProductAssociation>
+          <fbc:or>
+            <fbc:geneProductRef fbc:geneProduct="G_b1223"/>
+            <fbc:geneProductRef fbc:geneProduct="G_b3367"/>
+          </fbc:or>
+        </fbc:geneProductAssociation>
+      </reaction>
+      <reaction id="R_NO3t7pp" fast="false" reversible="false" name="Nitrate transport in via nitrite antiport (periplasm)" metaid="R_NO3t7pp" sboTerm="SBO:0000185" fbc:upperFluxBound="cobra_default_ub" fbc:lowerFluxBound="cobra_0_bound">
+        <sbml:annotation xmlns:sbml="http://www.sbml.org/sbml/level3/version1/core">
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+                  <rdf:li rdf:resource="http://identifiers.org/metanetx.reaction/MNXR101995"/>
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+                  <rdf:li rdf:resource="http://identifiers.org/rhea/28743"/>
+                  <rdf:li rdf:resource="http://identifiers.org/rhea/28744"/>
+                  <rdf:li rdf:resource="http://identifiers.org/rhea/28745"/>
+                  <rdf:li rdf:resource="http://identifiers.org/seed.reaction/rxn09004"/>
+                  <rdf:li rdf:resource="http://identifiers.org/seed.reaction/rxn10177"/>
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+          <speciesReference species="M_no3_p" stoichiometry="1" constant="true"/>
+        </listOfReactants>
+        <listOfProducts>
+          <speciesReference species="M_no2_p" stoichiometry="1" constant="true"/>
+          <speciesReference species="M_no3_c" stoichiometry="1" constant="true"/>
+        </listOfProducts>
+        <fbc:geneProductAssociation>
+          <fbc:or>
+            <fbc:geneProductRef fbc:geneProduct="G_b1223"/>
+            <fbc:geneProductRef fbc:geneProduct="G_b1469"/>
+          </fbc:or>
+        </fbc:geneProductAssociation>
+      </reaction>
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+        <sbml:annotation xmlns:sbml="http://www.sbml.org/sbml/level3/version1/core">
+          <rdf:RDF xmlns:rdf="http://www.w3.org/1999/02/22-rdf-syntax-ns#">
+            <rdf:Description rdf:about="#R_ORNabcpp">
+              <bqbiol:is xmlns:bqbiol="http://biomodels.net/biology-qualifiers/">
+                <rdf:Bag>
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+                  <rdf:li rdf:resource="http://identifiers.org/biocyc/META:ABC-37-RXN"/>
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+                  <rdf:li rdf:resource="http://identifiers.org/metanetx.reaction/MNXR102222"/>
+                  <rdf:li rdf:resource="http://identifiers.org/rhea/29883#1"/>
+                  <rdf:li rdf:resource="http://identifiers.org/rhea/29885#1"/>
+                  <rdf:li rdf:resource="http://identifiers.org/rhea/29886#1"/>
+                  <rdf:li rdf:resource="http://identifiers.org/rhea/29884#1"/>
+                  <rdf:li rdf:resource="http://identifiers.org/seed.reaction/rxn09046"/>
+                  <rdf:li rdf:resource="http://identifiers.org/seed.reaction/rxn05156"/>
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+        </sbml:annotation>
+        <listOfReactants>
+          <speciesReference species="M_atp_c" stoichiometry="1" constant="true"/>
+          <speciesReference species="M_h2o_c" stoichiometry="1" constant="true"/>
+          <speciesReference species="M_orn_p" stoichiometry="1" constant="true"/>
+        </listOfReactants>
+        <listOfProducts>
+          <speciesReference species="M_adp_c" stoichiometry="1" constant="true"/>
+          <speciesReference species="M_h_c" stoichiometry="1" constant="true"/>
+          <speciesReference species="M_orn_c" stoichiometry="1" constant="true"/>
+          <speciesReference species="M_pi_c" stoichiometry="1" constant="true"/>
+        </listOfProducts>
+        <fbc:geneProductAssociation>
+          <fbc:and>
+            <fbc:geneProductRef fbc:geneProduct="G_b2307"/>
+            <fbc:geneProductRef fbc:geneProduct="G_b2308"/>
+            <fbc:geneProductRef fbc:geneProduct="G_b2306"/>
+            <fbc:geneProductRef fbc:geneProduct="G_b2310"/>
+          </fbc:and>
+        </fbc:geneProductAssociation>
+      </reaction>
+      <reaction id="R_PIuabcpp" fast="false" reversible="false" name="Phosphate transport via ABC system (uptake, periplasm)" metaid="R_PIuabcpp" sboTerm="SBO:0000185" fbc:upperFluxBound="cobra_default_ub" fbc:lowerFluxBound="cobra_0_bound">
+        <sbml:annotation xmlns:sbml="http://www.sbml.org/sbml/level3/version1/core">
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+                  <rdf:li rdf:resource="http://identifiers.org/rhea/24441#1"/>
+                  <rdf:li rdf:resource="http://identifiers.org/rhea/24442#1"/>
+                  <rdf:li rdf:resource="http://identifiers.org/rhea/24443#1"/>
+                  <rdf:li rdf:resource="http://identifiers.org/rhea/24440#1"/>
+                  <rdf:li rdf:resource="http://identifiers.org/seed.reaction/rxn05145"/>
+                  <rdf:li rdf:resource="http://identifiers.org/seed.reaction/rxn09122"/>
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+          <speciesReference species="M_atp_c" stoichiometry="1" constant="true"/>
+          <speciesReference species="M_h2o_c" stoichiometry="1" constant="true"/>
+          <speciesReference species="M_pi_p" stoichiometry="1" constant="true"/>
+        </listOfReactants>
+        <listOfProducts>
+          <speciesReference species="M_adp_c" stoichiometry="1" constant="true"/>
+          <speciesReference species="M_h_c" stoichiometry="1" constant="true"/>
+          <speciesReference species="M_pi_c" stoichiometry="2" constant="true"/>
+        </listOfProducts>
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+            <fbc:geneProductRef fbc:geneProduct="G_b3725"/>
+            <fbc:geneProductRef fbc:geneProduct="G_b3727"/>
+            <fbc:geneProductRef fbc:geneProduct="G_b3728"/>
+            <fbc:geneProductRef fbc:geneProduct="G_b3726"/>
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+        </fbc:geneProductAssociation>
+      </reaction>
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+                  <rdf:li rdf:resource="http://identifiers.org/metanetx.reaction/MNXR103054"/>
+                  <rdf:li rdf:resource="http://identifiers.org/rhea/29927"/>
+                  <rdf:li rdf:resource="http://identifiers.org/rhea/29930"/>
+                  <rdf:li rdf:resource="http://identifiers.org/rhea/29929"/>
+                  <rdf:li rdf:resource="http://identifiers.org/rhea/29928"/>
+                  <rdf:li rdf:resource="http://identifiers.org/seed.reaction/rxn09165"/>
+                  <rdf:li rdf:resource="http://identifiers.org/seed.reaction/rxn10180"/>
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+        </sbml:annotation>
+        <listOfReactants>
+          <speciesReference species="M_na1_p" stoichiometry="1" constant="true"/>
+          <speciesReference species="M_pnto__R_p" stoichiometry="1" constant="true"/>
+        </listOfReactants>
+        <listOfProducts>
+          <speciesReference species="M_na1_c" stoichiometry="1" constant="true"/>
+          <speciesReference species="M_pnto__R_c" stoichiometry="1" constant="true"/>
+        </listOfProducts>
+        <fbc:geneProductAssociation>
+          <fbc:geneProductRef fbc:geneProduct="G_b3258"/>
+        </fbc:geneProductAssociation>
+      </reaction>
+      <reaction id="R_FRULYSDG" fast="false" reversible="true" name="Fructoselysine phosphate deglycase" metaid="R_FRULYSDG" sboTerm="SBO:0000176" fbc:upperFluxBound="cobra_default_ub" fbc:lowerFluxBound="cobra_default_lb">
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+              <bqbiol:is xmlns:bqbiol="http://biomodels.net/biology-qualifiers/">
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+                  <rdf:li rdf:resource="http://identifiers.org/seed.reaction/rxn08530"/>
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+            </rdf:Description>
+          </rdf:RDF>
+        </sbml:annotation>
+        <listOfReactants>
+          <speciesReference species="M_frulysp_c" stoichiometry="1" constant="true"/>
+          <speciesReference species="M_h2o_c" stoichiometry="1" constant="true"/>
+        </listOfReactants>
+        <listOfProducts>
+          <speciesReference species="M_g6p_c" stoichiometry="1" constant="true"/>
+          <speciesReference species="M_lys__L_c" stoichiometry="1" constant="true"/>
+        </listOfProducts>
+        <fbc:geneProductAssociation>
+          <fbc:geneProductRef fbc:geneProduct="G_b3371"/>
+        </fbc:geneProductAssociation>
+      </reaction>
+      <reaction id="R_METDabcpp" fast="false" reversible="false" name="D-methionine transport via ABC system (periplasm)" metaid="R_METDabcpp" sboTerm="SBO:0000185" fbc:upperFluxBound="cobra_default_ub" fbc:lowerFluxBound="cobra_0_bound">
+        <sbml:annotation xmlns:sbml="http://www.sbml.org/sbml/level3/version1/core">
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+              <bqbiol:is xmlns:bqbiol="http://biomodels.net/biology-qualifiers/">
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+                  <rdf:li rdf:resource="http://identifiers.org/biocyc/META:TRANS-RXN0-202"/>
+                  <rdf:li rdf:resource="http://identifiers.org/metanetx.reaction/MNXR101472"/>
+                  <rdf:li rdf:resource="http://identifiers.org/rhea/29770#1"/>
+                  <rdf:li rdf:resource="http://identifiers.org/rhea/29767#1"/>
+                  <rdf:li rdf:resource="http://identifiers.org/rhea/29769#1"/>
+                  <rdf:li rdf:resource="http://identifiers.org/rhea/29768#1"/>
+                  <rdf:li rdf:resource="http://identifiers.org/seed.reaction/rxn08910"/>
+                  <rdf:li rdf:resource="http://identifiers.org/seed.reaction/rxn05183"/>
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+          <speciesReference species="M_h2o_c" stoichiometry="1" constant="true"/>
+          <speciesReference species="M_met__D_p" stoichiometry="1" constant="true"/>
+        </listOfReactants>
+        <listOfProducts>
+          <speciesReference species="M_adp_c" stoichiometry="1" constant="true"/>
+          <speciesReference species="M_h_c" stoichiometry="1" constant="true"/>
+          <speciesReference species="M_met__D_c" stoichiometry="1" constant="true"/>
+          <speciesReference species="M_pi_c" stoichiometry="1" constant="true"/>
+        </listOfProducts>
+        <fbc:geneProductAssociation>
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+            <fbc:geneProductRef fbc:geneProduct="G_b0198"/>
+            <fbc:geneProductRef fbc:geneProduct="G_b0199"/>
+            <fbc:geneProductRef fbc:geneProduct="G_b0197"/>
+          </fbc:and>
+        </fbc:geneProductAssociation>
+      </reaction>
+      <reaction id="R_GDPMNH" fast="false" reversible="false" name="GDP-mannose mannosyl hydrolase" metaid="R_GDPMNH" sboTerm="SBO:0000176" fbc:upperFluxBound="cobra_default_ub" fbc:lowerFluxBound="cobra_0_bound">
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+              <bqbiol:is xmlns:bqbiol="http://biomodels.net/biology-qualifiers/">
+                <rdf:Bag>
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+                  <rdf:li rdf:resource="http://identifiers.org/metanetx.reaction/MNXR100091"/>
+                  <rdf:li rdf:resource="http://identifiers.org/rhea/28102"/>
+                  <rdf:li rdf:resource="http://identifiers.org/rhea/28104"/>
+                  <rdf:li rdf:resource="http://identifiers.org/rhea/28103"/>
+                  <rdf:li rdf:resource="http://identifiers.org/rhea/28105"/>
+                  <rdf:li rdf:resource="http://identifiers.org/seed.reaction/rxn08599"/>
+                </rdf:Bag>
+              </bqbiol:is>
+            </rdf:Description>
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+        </sbml:annotation>
+        <listOfReactants>
+          <speciesReference species="M_gdpmann_c" stoichiometry="1" constant="true"/>
+          <speciesReference species="M_h2o_c" stoichiometry="1" constant="true"/>
+        </listOfReactants>
+        <listOfProducts>
+          <speciesReference species="M_gdp_c" stoichiometry="1" constant="true"/>
+          <speciesReference species="M_h_c" stoichiometry="1" constant="true"/>
+          <speciesReference species="M_man_c" stoichiometry="1" constant="true"/>
+        </listOfProducts>
+        <fbc:geneProductAssociation>
+          <fbc:geneProductRef fbc:geneProduct="G_b2051"/>
+        </fbc:geneProductAssociation>
+      </reaction>
+      <reaction id="R_FACOAL60t2pp" fast="false" reversible="false" name="Fatty-acid-CoA ligase (hexanoate transport via vectoral Co-A coupling)" metaid="R_FACOAL60t2pp" sboTerm="SBO:0000185" fbc:upperFluxBound="cobra_default_ub" fbc:lowerFluxBound="cobra_0_bound">
+        <sbml:annotation xmlns:sbml="http://www.sbml.org/sbml/level3/version1/core">
+          <rdf:RDF xmlns:rdf="http://www.w3.org/1999/02/22-rdf-syntax-ns#">
+            <rdf:Description rdf:about="#R_FACOAL60t2pp">
+              <bqbiol:is xmlns:bqbiol="http://biomodels.net/biology-qualifiers/">
+                <rdf:Bag>
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+                  <rdf:li rdf:resource="http://identifiers.org/metanetx.reaction/MNXR99204"/>
+                </rdf:Bag>
+              </bqbiol:is>
+            </rdf:Description>
+          </rdf:RDF>
+        </sbml:annotation>
+        <listOfReactants>
+          <speciesReference species="M_atp_c" stoichiometry="1" constant="true"/>
+          <speciesReference species="M_coa_c" stoichiometry="1" constant="true"/>
+          <speciesReference species="M_h_p" stoichiometry="1" constant="true"/>
+          <speciesReference species="M_hxa_p" stoichiometry="1" constant="true"/>
+        </listOfReactants>
+        <listOfProducts>
+          <speciesReference species="M_amp_c" stoichiometry="1" constant="true"/>
+          <speciesReference species="M_h_c" stoichiometry="1" constant="true"/>
+          <speciesReference species="M_hxcoa_c" stoichiometry="1" constant="true"/>
+          <speciesReference species="M_ppi_c" stoichiometry="1" constant="true"/>
+        </listOfProducts>
+        <fbc:geneProductAssociation>
+          <fbc:or>
+            <fbc:geneProductRef fbc:geneProduct="G_b1805"/>
+            <fbc:geneProductRef fbc:geneProduct="G_b1701"/>
+          </fbc:or>
+        </fbc:geneProductAssociation>
+      </reaction>
+      <reaction id="R_IDONt2rpp" fast="false" reversible="true" name="L-idonate transport via proton symport, reversible (periplasm)" metaid="R_IDONt2rpp" sboTerm="SBO:0000185" fbc:upperFluxBound="cobra_default_ub" fbc:lowerFluxBound="cobra_default_lb">
+        <sbml:annotation xmlns:sbml="http://www.sbml.org/sbml/level3/version1/core">
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+            <rdf:Description rdf:about="#R_IDONt2rpp">
+              <bqbiol:is xmlns:bqbiol="http://biomodels.net/biology-qualifiers/">
+                <rdf:Bag>
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+                  <rdf:li rdf:resource="http://identifiers.org/biocyc/META:TRANS-RXN-181A"/>
+                  <rdf:li rdf:resource="http://identifiers.org/ec-code/3.6.3"/>
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+                  <rdf:li rdf:resource="http://identifiers.org/rhea/29572"/>
+                  <rdf:li rdf:resource="http://identifiers.org/rhea/29573"/>
+                  <rdf:li rdf:resource="http://identifiers.org/rhea/29571"/>
+                  <rdf:li rdf:resource="http://identifiers.org/rhea/29574"/>
+                  <rdf:li rdf:resource="http://identifiers.org/seed.reaction/rxn08742"/>
+                  <rdf:li rdf:resource="http://identifiers.org/seed.reaction/rxn10167"/>
+                </rdf:Bag>
+              </bqbiol:is>
+            </rdf:Description>
+          </rdf:RDF>
+        </sbml:annotation>
+        <listOfReactants>
+          <speciesReference species="M_h_p" stoichiometry="1" constant="true"/>
+          <speciesReference species="M_idon__L_p" stoichiometry="1" constant="true"/>
+        </listOfReactants>
+        <listOfProducts>
+          <speciesReference species="M_h_c" stoichiometry="1" constant="true"/>
+          <speciesReference species="M_idon__L_c" stoichiometry="1" constant="true"/>
+        </listOfProducts>
+        <fbc:geneProductAssociation>
+          <fbc:geneProductRef fbc:geneProduct="G_b4265"/>
+        </fbc:geneProductAssociation>
+      </reaction>
+      <reaction id="R_ILEabcpp" fast="false" reversible="false" name="L-isoleucine transport via ABC system (periplasm)" metaid="R_ILEabcpp" sboTerm="SBO:0000185" fbc:upperFluxBound="cobra_default_ub" fbc:lowerFluxBound="cobra_0_bound">
+        <sbml:annotation xmlns:sbml="http://www.sbml.org/sbml/level3/version1/core">
+          <rdf:RDF xmlns:rdf="http://www.w3.org/1999/02/22-rdf-syntax-ns#">
+            <rdf:Description rdf:about="#R_ILEabcpp">
+              <bqbiol:is xmlns:bqbiol="http://biomodels.net/biology-qualifiers/">
+                <rdf:Bag>
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+                  <rdf:li rdf:resource="http://identifiers.org/biocyc/META:ABC-15-RXN"/>
+                  <rdf:li rdf:resource="http://identifiers.org/metanetx.reaction/MNXR100821"/>
+                  <rdf:li rdf:resource="http://identifiers.org/rhea/29820#1"/>
+                  <rdf:li rdf:resource="http://identifiers.org/rhea/29819#1"/>
+                  <rdf:li rdf:resource="http://identifiers.org/rhea/29821#1"/>
+                  <rdf:li rdf:resource="http://identifiers.org/rhea/29822#1"/>
+                  <rdf:li rdf:resource="http://identifiers.org/seed.reaction/rxn08745"/>
+                  <rdf:li rdf:resource="http://identifiers.org/seed.reaction/rxn05179"/>
+                </rdf:Bag>
+              </bqbiol:is>
+            </rdf:Description>
+          </rdf:RDF>
+        </sbml:annotation>
+        <listOfReactants>
+          <speciesReference species="M_atp_c" stoichiometry="1" constant="true"/>
+          <speciesReference species="M_h2o_c" stoichiometry="1" constant="true"/>
+          <speciesReference species="M_ile__L_p" stoichiometry="1" constant="true"/>
+        </listOfReactants>
+        <listOfProducts>
+          <speciesReference species="M_adp_c" stoichiometry="1" constant="true"/>
+          <speciesReference species="M_h_c" stoichiometry="1" constant="true"/>
+          <speciesReference species="M_ile__L_c" stoichiometry="1" constant="true"/>
+          <speciesReference species="M_pi_c" stoichiometry="1" constant="true"/>
+        </listOfProducts>
+        <fbc:geneProductAssociation>
+          <fbc:and>
+            <fbc:geneProductRef fbc:geneProduct="G_b3456"/>
+            <fbc:geneProductRef fbc:geneProduct="G_b3455"/>
+            <fbc:geneProductRef fbc:geneProduct="G_b3460"/>
+            <fbc:geneProductRef fbc:geneProduct="G_b3457"/>
+            <fbc:geneProductRef fbc:geneProduct="G_b3454"/>
+          </fbc:and>
+        </fbc:geneProductAssociation>
+      </reaction>
+      <reaction id="R_INDOLEt2pp" fast="false" reversible="false" name="Indole transport via proton symport, irreversible (periplasm)" metaid="R_INDOLEt2pp" sboTerm="SBO:0000185" fbc:upperFluxBound="cobra_default_ub" fbc:lowerFluxBound="cobra_0_bound">
+        <sbml:annotation xmlns:sbml="http://www.sbml.org/sbml/level3/version1/core">
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+            <rdf:Description rdf:about="#R_INDOLEt2pp">
+              <bqbiol:is xmlns:bqbiol="http://biomodels.net/biology-qualifiers/">
+                <rdf:Bag>
+                  <rdf:li rdf:resource="http://identifiers.org/bigg.reaction/INDOLEt2pp"/>
+                  <rdf:li rdf:resource="http://identifiers.org/biocyc/META:TRANS-RXN-142"/>
+                  <rdf:li rdf:resource="http://identifiers.org/metanetx.reaction/MNXR100835"/>
+                  <rdf:li rdf:resource="http://identifiers.org/rhea/29228"/>
+                  <rdf:li rdf:resource="http://identifiers.org/rhea/29227"/>
+                  <rdf:li rdf:resource="http://identifiers.org/rhea/29230"/>
+                  <rdf:li rdf:resource="http://identifiers.org/rhea/29229"/>
+                  <rdf:li rdf:resource="http://identifiers.org/seed.reaction/rxn08750"/>
+                  <rdf:li rdf:resource="http://identifiers.org/seed.reaction/rxn10176"/>
+                </rdf:Bag>
+              </bqbiol:is>
+            </rdf:Description>
+          </rdf:RDF>
+        </sbml:annotation>
+        <listOfReactants>
+          <speciesReference species="M_h_c" stoichiometry="1" constant="true"/>
+          <speciesReference species="M_indole_c" stoichiometry="1" constant="true"/>
+        </listOfReactants>
+        <listOfProducts>
+          <speciesReference species="M_h_p" stoichiometry="1" constant="true"/>
+          <speciesReference species="M_indole_p" stoichiometry="1" constant="true"/>
+        </listOfProducts>
+        <fbc:geneProductAssociation>
+          <fbc:and>
+            <fbc:and>
+              <fbc:geneProductRef fbc:geneProduct="G_b3266"/>
+              <fbc:geneProductRef fbc:geneProduct="G_b3265"/>
+            </fbc:and>
+            <fbc:geneProductRef fbc:geneProduct="G_b3035"/>
+          </fbc:and>
+        </fbc:geneProductAssociation>
+      </reaction>
+      <reaction id="R_INSt2pp" fast="false" reversible="false" name="Inosine transport in via proton symport (periplasm)" metaid="R_INSt2pp" sboTerm="SBO:0000185" fbc:upperFluxBound="cobra_default_ub" fbc:lowerFluxBound="cobra_0_bound">
+        <sbml:annotation xmlns:sbml="http://www.sbml.org/sbml/level3/version1/core">
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+                  <rdf:li rdf:resource="http://identifiers.org/rhea/29964"/>
+                  <rdf:li rdf:resource="http://identifiers.org/rhea/29966"/>
+                  <rdf:li rdf:resource="http://identifiers.org/rhea/29963"/>
+                  <rdf:li rdf:resource="http://identifiers.org/seed.reaction/rxn05316"/>
+                  <rdf:li rdf:resource="http://identifiers.org/seed.reaction/rxn08753"/>
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+          <speciesReference species="M_h_p" stoichiometry="1" constant="true"/>
+          <speciesReference species="M_ins_p" stoichiometry="1" constant="true"/>
+        </listOfReactants>
+        <listOfProducts>
+          <speciesReference species="M_h_c" stoichiometry="1" constant="true"/>
+          <speciesReference species="M_ins_c" stoichiometry="1" constant="true"/>
+        </listOfProducts>
+        <fbc:geneProductAssociation>
+          <fbc:or>
+            <fbc:geneProductRef fbc:geneProduct="G_b2964"/>
+            <fbc:geneProductRef fbc:geneProduct="G_b2406"/>
+            <fbc:geneProductRef fbc:geneProduct="G_b2393"/>
+          </fbc:or>
+        </fbc:geneProductAssociation>
+      </reaction>
+      <reaction id="R_PROabcpp" fast="false" reversible="false" name="L-proline transport via ABC system (periplasm)" metaid="R_PROabcpp" sboTerm="SBO:0000185" fbc:upperFluxBound="cobra_default_ub" fbc:lowerFluxBound="cobra_0_bound">
+        <sbml:annotation xmlns:sbml="http://www.sbml.org/sbml/level3/version1/core">
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+                  <rdf:li rdf:resource="http://identifiers.org/biocyc/META:ABC-26-RXN"/>
+                  <rdf:li rdf:resource="http://identifiers.org/metanetx.reaction/MNXR103210"/>
+                  <rdf:li rdf:resource="http://identifiers.org/rhea/29816#1"/>
+                  <rdf:li rdf:resource="http://identifiers.org/rhea/29817#1"/>
+                  <rdf:li rdf:resource="http://identifiers.org/rhea/29815#1"/>
+                  <rdf:li rdf:resource="http://identifiers.org/rhea/29818#1"/>
+                  <rdf:li rdf:resource="http://identifiers.org/seed.reaction/rxn09187"/>
+                  <rdf:li rdf:resource="http://identifiers.org/seed.reaction/rxn05165"/>
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+          <speciesReference species="M_atp_c" stoichiometry="1" constant="true"/>
+          <speciesReference species="M_h2o_c" stoichiometry="1" constant="true"/>
+          <speciesReference species="M_pro__L_p" stoichiometry="1" constant="true"/>
+        </listOfReactants>
+        <listOfProducts>
+          <speciesReference species="M_adp_c" stoichiometry="1" constant="true"/>
+          <speciesReference species="M_h_c" stoichiometry="1" constant="true"/>
+          <speciesReference species="M_pi_c" stoichiometry="1" constant="true"/>
+          <speciesReference species="M_pro__L_c" stoichiometry="1" constant="true"/>
+        </listOfProducts>
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+          <fbc:and>
+            <fbc:geneProductRef fbc:geneProduct="G_b2677"/>
+            <fbc:geneProductRef fbc:geneProduct="G_b2678"/>
+            <fbc:geneProductRef fbc:geneProduct="G_b2679"/>
+          </fbc:and>
+        </fbc:geneProductAssociation>
+      </reaction>
+      <reaction id="R_PROt2rpp" fast="false" reversible="true" name="L-proline reversible transport via proton symport (periplasm)" metaid="R_PROt2rpp" sboTerm="SBO:0000185" fbc:upperFluxBound="cobra_default_ub" fbc:lowerFluxBound="cobra_default_lb">
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+                  <rdf:li rdf:resource="http://identifiers.org/biocyc/META:TRANS-RXN-29"/>
+                  <rdf:li rdf:resource="http://identifiers.org/metanetx.reaction/MNXR103211"/>
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+                  <rdf:li rdf:resource="http://identifiers.org/rhea/28964"/>
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+                  <rdf:li rdf:resource="http://identifiers.org/rhea/28966"/>
+                  <rdf:li rdf:resource="http://identifiers.org/seed.reaction/rxn11167"/>
+                  <rdf:li rdf:resource="http://identifiers.org/seed.reaction/rxn09191"/>
+                  <rdf:li rdf:resource="http://identifiers.org/seed.reaction/rxn05638"/>
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+            </rdf:Description>
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+          <speciesReference species="M_h_p" stoichiometry="1" constant="true"/>
+          <speciesReference species="M_pro__L_p" stoichiometry="1" constant="true"/>
+        </listOfReactants>
+        <listOfProducts>
+          <speciesReference species="M_h_c" stoichiometry="1" constant="true"/>
+          <speciesReference species="M_pro__L_c" stoichiometry="1" constant="true"/>
+        </listOfProducts>
+        <fbc:geneProductAssociation>
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+            <fbc:geneProductRef fbc:geneProduct="G_b4111"/>
+            <fbc:geneProductRef fbc:geneProduct="G_b0402"/>
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+        </fbc:geneProductAssociation>
+      </reaction>
+      <reaction id="R_MNLtex" fast="false" reversible="true" name="Mannitol transport via diffusion (extracellular to periplasm)" metaid="R_MNLtex" sboTerm="SBO:0000185" fbc:upperFluxBound="cobra_default_ub" fbc:lowerFluxBound="cobra_default_lb">
+        <sbml:annotation xmlns:sbml="http://www.sbml.org/sbml/level3/version1/core">
+          <rdf:RDF xmlns:rdf="http://www.w3.org/1999/02/22-rdf-syntax-ns#">
+            <rdf:Description rdf:about="#R_MNLtex">
+              <bqbiol:is xmlns:bqbiol="http://biomodels.net/biology-qualifiers/">
+                <rdf:Bag>
+                  <rdf:li rdf:resource="http://identifiers.org/bigg.reaction/MNLtex"/>
+                  <rdf:li rdf:resource="http://identifiers.org/metanetx.reaction/MNXR101678"/>
+                  <rdf:li rdf:resource="http://identifiers.org/seed.reaction/rxn08950"/>
+                </rdf:Bag>
+              </bqbiol:is>
+            </rdf:Description>
+          </rdf:RDF>
+        </sbml:annotation>
+        <listOfReactants>
+          <speciesReference species="M_mnl_e" stoichiometry="1" constant="true"/>
+        </listOfReactants>
+        <listOfProducts>
+          <speciesReference species="M_mnl_p" stoichiometry="1" constant="true"/>
+        </listOfProducts>
+        <fbc:geneProductAssociation>
+          <fbc:or>
+            <fbc:geneProductRef fbc:geneProduct="G_b1377"/>
+            <fbc:geneProductRef fbc:geneProduct="G_b2215"/>
+            <fbc:geneProductRef fbc:geneProduct="G_b0241"/>
+            <fbc:geneProductRef fbc:geneProduct="G_b0929"/>
+          </fbc:or>
+        </fbc:geneProductAssociation>
+      </reaction>
+      <reaction id="R_PROt4pp" fast="false" reversible="false" name="Na+/Proline-L symporter (periplasm)" metaid="R_PROt4pp" sboTerm="SBO:0000185" fbc:upperFluxBound="cobra_default_ub" fbc:lowerFluxBound="cobra_0_bound">
+        <sbml:annotation xmlns:sbml="http://www.sbml.org/sbml/level3/version1/core">
+          <rdf:RDF xmlns:rdf="http://www.w3.org/1999/02/22-rdf-syntax-ns#">
+            <rdf:Description rdf:about="#R_PROt4pp">
+              <bqbiol:is xmlns:bqbiol="http://biomodels.net/biology-qualifiers/">
+                <rdf:Bag>
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+                  <rdf:li rdf:resource="http://identifiers.org/biocyc/META:TRANS-RXN-118"/>
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+                  <rdf:li rdf:resource="http://identifiers.org/reactome.reaction/R-BTA-352052"/>
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+                  <rdf:li rdf:resource="http://identifiers.org/reactome.reaction/R-RNO-352052"/>
+                  <rdf:li rdf:resource="http://identifiers.org/rhea/28968"/>
+                  <rdf:li rdf:resource="http://identifiers.org/rhea/28969"/>
+                  <rdf:li rdf:resource="http://identifiers.org/rhea/28970"/>
+                  <rdf:li rdf:resource="http://identifiers.org/rhea/28967"/>
+                  <rdf:li rdf:resource="http://identifiers.org/seed.reaction/rxn05221"/>
+                  <rdf:li rdf:resource="http://identifiers.org/seed.reaction/rxn09192"/>
+                </rdf:Bag>
+              </bqbiol:is>
+            </rdf:Description>
+          </rdf:RDF>
+        </sbml:annotation>
+        <listOfReactants>
+          <speciesReference species="M_na1_p" stoichiometry="1" constant="true"/>
+          <speciesReference species="M_pro__L_p" stoichiometry="1" constant="true"/>
+        </listOfReactants>
+        <listOfProducts>
+          <speciesReference species="M_na1_c" stoichiometry="1" constant="true"/>
+          <speciesReference species="M_pro__L_c" stoichiometry="1" constant="true"/>
+        </listOfProducts>
+        <fbc:geneProductAssociation>
+          <fbc:geneProductRef fbc:geneProduct="G_b1015"/>
+        </fbc:geneProductAssociation>
+      </reaction>
+      <reaction id="R_PTRCabcpp" fast="false" reversible="false" name="Putrescine transport via ABC system (periplasm)" metaid="R_PTRCabcpp" sboTerm="SBO:0000185" fbc:upperFluxBound="cobra_default_ub" fbc:lowerFluxBound="cobra_0_bound">
+        <sbml:annotation xmlns:sbml="http://www.sbml.org/sbml/level3/version1/core">
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+            <rdf:Description rdf:about="#R_PTRCabcpp">
+              <bqbiol:is xmlns:bqbiol="http://biomodels.net/biology-qualifiers/">
+                <rdf:Bag>
+                  <rdf:li rdf:resource="http://identifiers.org/bigg.reaction/PTRCabcpp"/>
+                  <rdf:li rdf:resource="http://identifiers.org/biocyc/META:ABC-25-RXN"/>
+                  <rdf:li rdf:resource="http://identifiers.org/ec-code/3.6.3.31"/>
+                  <rdf:li rdf:resource="http://identifiers.org/metanetx.reaction/MNXR103338"/>
+                  <rdf:li rdf:resource="http://identifiers.org/rhea/29998#1"/>
+                  <rdf:li rdf:resource="http://identifiers.org/rhea/29996#1"/>
+                  <rdf:li rdf:resource="http://identifiers.org/rhea/29995#1"/>
+                  <rdf:li rdf:resource="http://identifiers.org/rhea/29997#1"/>
+                  <rdf:li rdf:resource="http://identifiers.org/seed.reaction/rxn11263"/>
+                  <rdf:li rdf:resource="http://identifiers.org/seed.reaction/rxn05163"/>
+                  <rdf:li rdf:resource="http://identifiers.org/seed.reaction/rxn09213"/>
+                </rdf:Bag>
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+            </rdf:Description>
+          </rdf:RDF>
+        </sbml:annotation>
+        <listOfReactants>
+          <speciesReference species="M_atp_c" stoichiometry="1" constant="true"/>
+          <speciesReference species="M_h2o_c" stoichiometry="1" constant="true"/>
+          <speciesReference species="M_ptrc_p" stoichiometry="1" constant="true"/>
+        </listOfReactants>
+        <listOfProducts>
+          <speciesReference species="M_adp_c" stoichiometry="1" constant="true"/>
+          <speciesReference species="M_h_c" stoichiometry="1" constant="true"/>
+          <speciesReference species="M_pi_c" stoichiometry="1" constant="true"/>
+          <speciesReference species="M_ptrc_c" stoichiometry="1" constant="true"/>
+        </listOfProducts>
+        <fbc:geneProductAssociation>
+          <fbc:or>
+            <fbc:and>
+              <fbc:geneProductRef fbc:geneProduct="G_b0854"/>
+              <fbc:geneProductRef fbc:geneProduct="G_b0855"/>
+              <fbc:geneProductRef fbc:geneProduct="G_b0857"/>
+              <fbc:geneProductRef fbc:geneProduct="G_b0856"/>
+            </fbc:and>
+            <fbc:and>
+              <fbc:geneProductRef fbc:geneProduct="G_b1440"/>
+              <fbc:geneProductRef fbc:geneProduct="G_b1442"/>
+              <fbc:geneProductRef fbc:geneProduct="G_b1441"/>
+              <fbc:geneProductRef fbc:geneProduct="G_b1443"/>
+            </fbc:and>
+            <fbc:and>
+              <fbc:geneProductRef fbc:geneProduct="G_b1125"/>
+              <fbc:geneProductRef fbc:geneProduct="G_b1126"/>
+              <fbc:geneProductRef fbc:geneProduct="G_b1124"/>
+              <fbc:geneProductRef fbc:geneProduct="G_b1123"/>
+            </fbc:and>
+          </fbc:or>
+        </fbc:geneProductAssociation>
+      </reaction>
+      <reaction id="R_LYXt2pp" fast="false" reversible="false" name="L-Lyxose transport via proton symport (periplasm)" metaid="R_LYXt2pp" sboTerm="SBO:0000185" fbc:upperFluxBound="cobra_default_ub" fbc:lowerFluxBound="cobra_0_bound">
+        <sbml:annotation xmlns:sbml="http://www.sbml.org/sbml/level3/version1/core">
+          <rdf:RDF xmlns:rdf="http://www.w3.org/1999/02/22-rdf-syntax-ns#">
+            <rdf:Description rdf:about="#R_LYXt2pp">
+              <bqbiol:is xmlns:bqbiol="http://biomodels.net/biology-qualifiers/">
+                <rdf:Bag>
+                  <rdf:li rdf:resource="http://identifiers.org/bigg.reaction/LYXt2pp"/>
+                  <rdf:li rdf:resource="http://identifiers.org/biocyc/META:TRANS-RXN0-236"/>
+                  <rdf:li rdf:resource="http://identifiers.org/metanetx.reaction/MNXR101271"/>
+                  <rdf:li rdf:resource="http://identifiers.org/seed.reaction/rxn08858"/>
+                  <rdf:li rdf:resource="http://identifiers.org/seed.reaction/rxn05692"/>
+                </rdf:Bag>
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+            </rdf:Description>
+          </rdf:RDF>
+        </sbml:annotation>
+        <listOfReactants>
+          <speciesReference species="M_h_p" stoichiometry="1" constant="true"/>
+          <speciesReference species="M_lyx__L_p" stoichiometry="1" constant="true"/>
+        </listOfReactants>
+        <listOfProducts>
+          <speciesReference species="M_h_c" stoichiometry="1" constant="true"/>
+          <speciesReference species="M_lyx__L_c" stoichiometry="1" constant="true"/>
+        </listOfProducts>
+        <fbc:geneProductAssociation>
+          <fbc:geneProductRef fbc:geneProduct="G_b3907"/>
+        </fbc:geneProductAssociation>
+      </reaction>
+      <reaction id="R_GDPDPK" fast="false" reversible="false" name="GDP diphosphokinase" metaid="R_GDPDPK" sboTerm="SBO:0000176" fbc:upperFluxBound="cobra_default_ub" fbc:lowerFluxBound="cobra_0_bound">
+        <sbml:annotation xmlns:sbml="http://www.sbml.org/sbml/level3/version1/core">
+          <rdf:RDF xmlns:rdf="http://www.w3.org/1999/02/22-rdf-syntax-ns#">
+            <rdf:Description rdf:about="#R_GDPDPK">
+              <bqbiol:is xmlns:bqbiol="http://biomodels.net/biology-qualifiers/">
+                <rdf:Bag>
+                  <rdf:li rdf:resource="http://identifiers.org/bigg.reaction/GDPDPK"/>
+                  <rdf:li rdf:resource="http://identifiers.org/biocyc/META:GDPPYPHOSKIN-RXN"/>
+                  <rdf:li rdf:resource="http://identifiers.org/ec-code/2.7.6.5"/>
+                  <rdf:li rdf:resource="http://identifiers.org/metanetx.reaction/MNXR100088"/>
+                  <rdf:li rdf:resource="http://identifiers.org/rhea/28098"/>
+                  <rdf:li rdf:resource="http://identifiers.org/rhea/28101"/>
+                  <rdf:li rdf:resource="http://identifiers.org/rhea/28099"/>
+                  <rdf:li rdf:resource="http://identifiers.org/rhea/28100"/>
+                  <rdf:li rdf:resource="http://identifiers.org/seed.reaction/rxn08598"/>
+                </rdf:Bag>
+              </bqbiol:is>
+            </rdf:Description>
+          </rdf:RDF>
+        </sbml:annotation>
+        <listOfReactants>
+          <speciesReference species="M_atp_c" stoichiometry="1" constant="true"/>
+          <speciesReference species="M_gdp_c" stoichiometry="1" constant="true"/>
+        </listOfReactants>
+        <listOfProducts>
+          <speciesReference species="M_amp_c" stoichiometry="1" constant="true"/>
+          <speciesReference species="M_h_c" stoichiometry="1" constant="true"/>
+          <speciesReference species="M_ppgpp_c" stoichiometry="1" constant="true"/>
+        </listOfProducts>
+        <fbc:geneProductAssociation>
+          <fbc:or>
+            <fbc:geneProductRef fbc:geneProduct="G_b2784"/>
+            <fbc:geneProductRef fbc:geneProduct="G_b3650"/>
+          </fbc:or>
+        </fbc:geneProductAssociation>
+      </reaction>
+      <reaction id="R_OCDCAtexi" fast="false" reversible="false" name="Octadecanoate transport via facilitated irreversible diffusion (extracellular to periplasm)" metaid="R_OCDCAtexi" sboTerm="SBO:0000185" fbc:upperFluxBound="cobra_default_ub" fbc:lowerFluxBound="cobra_0_bound">
+        <sbml:annotation xmlns:sbml="http://www.sbml.org/sbml/level3/version1/core">
+          <rdf:RDF xmlns:rdf="http://www.w3.org/1999/02/22-rdf-syntax-ns#">
+            <rdf:Description rdf:about="#R_OCDCAtexi">
+              <bqbiol:is xmlns:bqbiol="http://biomodels.net/biology-qualifiers/">
+                <rdf:Bag>
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+                  <rdf:li rdf:resource="http://identifiers.org/metanetx.reaction/MNXR99109"/>
+                  <rdf:li rdf:resource="http://identifiers.org/rhea/39807"/>
+                  <rdf:li rdf:resource="http://identifiers.org/rhea/39808"/>
+                  <rdf:li rdf:resource="http://identifiers.org/rhea/39809"/>
+                  <rdf:li rdf:resource="http://identifiers.org/rhea/39810"/>
+                  <rdf:li rdf:resource="http://identifiers.org/seed.reaction/rxn09034"/>
+                  <rdf:li rdf:resource="http://identifiers.org/seed.reaction/rxn09669"/>
+                </rdf:Bag>
+              </bqbiol:is>
+            </rdf:Description>
+          </rdf:RDF>
+        </sbml:annotation>
+        <listOfReactants>
+          <speciesReference species="M_ocdca_e" stoichiometry="1" constant="true"/>
+        </listOfReactants>
+        <listOfProducts>
+          <speciesReference species="M_ocdca_p" stoichiometry="1" constant="true"/>
+        </listOfProducts>
+        <fbc:geneProductAssociation>
+          <fbc:geneProductRef fbc:geneProduct="G_b2344"/>
+        </fbc:geneProductAssociation>
+      </reaction>
+      <reaction id="R_OCDCEAtexi" fast="false" reversible="false" name="Octadecenoate (n-C18:1) transport via facilitated irreversible diffusion (extracellular to periplasm)" metaid="R_OCDCEAtexi" sboTerm="SBO:0000185" fbc:upperFluxBound="cobra_default_ub" fbc:lowerFluxBound="cobra_0_bound">
+        <sbml:annotation xmlns:sbml="http://www.sbml.org/sbml/level3/version1/core">
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+              <bqbiol:is xmlns:bqbiol="http://biomodels.net/biology-qualifiers/">
+                <rdf:Bag>
+                  <rdf:li rdf:resource="http://identifiers.org/bigg.reaction/OCDCEAtexi"/>
+                  <rdf:li rdf:resource="http://identifiers.org/metanetx.reaction/MNXR99110"/>
+                  <rdf:li rdf:resource="http://identifiers.org/rhea/33658"/>
+                  <rdf:li rdf:resource="http://identifiers.org/rhea/33655"/>
+                  <rdf:li rdf:resource="http://identifiers.org/rhea/33656"/>
+                  <rdf:li rdf:resource="http://identifiers.org/rhea/33657"/>
+                  <rdf:li rdf:resource="http://identifiers.org/sabiork/10346"/>
+                </rdf:Bag>
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+          </rdf:RDF>
+        </sbml:annotation>
+        <listOfReactants>
+          <speciesReference species="M_ocdcea_e" stoichiometry="1" constant="true"/>
+        </listOfReactants>
+        <listOfProducts>
+          <speciesReference species="M_ocdcea_p" stoichiometry="1" constant="true"/>
+        </listOfProducts>
+        <fbc:geneProductAssociation>
+          <fbc:geneProductRef fbc:geneProduct="G_b2344"/>
+        </fbc:geneProductAssociation>
+      </reaction>
+      <reaction id="R_ASNNpp" fast="false" reversible="false" name="L-asparaginase" metaid="R_ASNNpp" sboTerm="SBO:0000176" fbc:upperFluxBound="cobra_default_ub" fbc:lowerFluxBound="cobra_0_bound">
+        <sbml:annotation xmlns:sbml="http://www.sbml.org/sbml/level3/version1/core">
+          <rdf:RDF xmlns:rdf="http://www.w3.org/1999/02/22-rdf-syntax-ns#">
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+              <bqbiol:is xmlns:bqbiol="http://biomodels.net/biology-qualifiers/">
+                <rdf:Bag>
+                  <rdf:li rdf:resource="http://identifiers.org/bigg.reaction/ASNNpp"/>
+                  <rdf:li rdf:resource="http://identifiers.org/biocyc/META:ASPARAGHYD-RXN"/>
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+                  <rdf:li rdf:resource="http://identifiers.org/ec-code/3.5.5.4"/>
+                  <rdf:li rdf:resource="http://identifiers.org/ec-code/3.5.1.1"/>
+                  <rdf:li rdf:resource="http://identifiers.org/kegg.reaction/R00485"/>
+                  <rdf:li rdf:resource="http://identifiers.org/metanetx.reaction/MNXR96056"/>
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+                  <rdf:li rdf:resource="http://identifiers.org/reactome.reaction/R-SPO-6797627"/>
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+                  <rdf:li rdf:resource="http://identifiers.org/reactome.reaction/R-CFA-6797627"/>
+                  <rdf:li rdf:resource="http://identifiers.org/rhea/21017"/>
+                  <rdf:li rdf:resource="http://identifiers.org/rhea/21019"/>
+                  <rdf:li rdf:resource="http://identifiers.org/rhea/21016"/>
+                  <rdf:li rdf:resource="http://identifiers.org/rhea/21018"/>
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+                  <rdf:li rdf:resource="http://identifiers.org/seed.reaction/rxn00342"/>
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+        </sbml:annotation>
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+          <speciesReference species="M_asn__L_p" stoichiometry="1" constant="true"/>
+          <speciesReference species="M_h2o_p" stoichiometry="1" constant="true"/>
+        </listOfReactants>
+        <listOfProducts>
+          <speciesReference species="M_asp__L_p" stoichiometry="1" constant="true"/>
+          <speciesReference species="M_nh4_p" stoichiometry="1" constant="true"/>
+        </listOfProducts>
+        <fbc:geneProductAssociation>
+          <fbc:geneProductRef fbc:geneProduct="G_b2957"/>
+        </fbc:geneProductAssociation>
+      </reaction>
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+        <sbml:annotation xmlns:sbml="http://www.sbml.org/sbml/level3/version1/core">
+          <rdf:RDF xmlns:rdf="http://www.w3.org/1999/02/22-rdf-syntax-ns#">
+            <rdf:Description rdf:about="#R_GLUNpp">
+              <bqbiol:is xmlns:bqbiol="http://biomodels.net/biology-qualifiers/">
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+                  <rdf:li rdf:resource="http://identifiers.org/biocyc/META:GLUTAMIN-RXN"/>
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+                  <rdf:li rdf:resource="http://identifiers.org/reactome.reaction/R-GGA-70609"/>
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+                  <rdf:li rdf:resource="http://identifiers.org/reactome.reaction/R-CFA-70609"/>
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+                  <rdf:li rdf:resource="http://identifiers.org/rhea/15889"/>
+                  <rdf:li rdf:resource="http://identifiers.org/rhea/15891"/>
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+                  <rdf:li rdf:resource="http://identifiers.org/seed.reaction/rxn00189"/>
+                </rdf:Bag>
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+          </rdf:RDF>
+        </sbml:annotation>
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+          <speciesReference species="M_h2o_p" stoichiometry="1" constant="true"/>
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+        <listOfProducts>
+          <speciesReference species="M_glu__L_p" stoichiometry="1" constant="true"/>
+          <speciesReference species="M_nh4_p" stoichiometry="1" constant="true"/>
+        </listOfProducts>
+        <fbc:geneProductAssociation>
+          <fbc:geneProductRef fbc:geneProduct="G_b2957"/>
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+                  <rdf:li rdf:resource="http://identifiers.org/seed.reaction/rxn09644"/>
+                  <rdf:li rdf:resource="http://identifiers.org/seed.reaction/rxn13641"/>
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+        <listOfProducts>
+          <speciesReference species="M_g6p_p" stoichiometry="1" constant="true"/>
+        </listOfProducts>
+        <fbc:geneProductAssociation>
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+            <fbc:geneProductRef fbc:geneProduct="G_b0241"/>
+            <fbc:geneProductRef fbc:geneProduct="G_b0929"/>
+            <fbc:geneProductRef fbc:geneProduct="G_b1377"/>
+            <fbc:geneProductRef fbc:geneProduct="G_b2215"/>
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+        </fbc:geneProductAssociation>
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+                  <rdf:li rdf:resource="http://identifiers.org/rhea/29386"/>
+                  <rdf:li rdf:resource="http://identifiers.org/rhea/29384"/>
+                  <rdf:li rdf:resource="http://identifiers.org/rhea/29383"/>
+                  <rdf:li rdf:resource="http://identifiers.org/rhea/29385"/>
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+          <speciesReference species="M_h2o_c" stoichiometry="1" constant="true"/>
+        </listOfReactants>
+        <listOfProducts>
+          <speciesReference species="M_din_c" stoichiometry="1" constant="true"/>
+          <speciesReference species="M_pi_c" stoichiometry="1" constant="true"/>
+        </listOfProducts>
+        <fbc:geneProductAssociation>
+          <fbc:or>
+            <fbc:geneProductRef fbc:geneProduct="G_b2744"/>
+            <fbc:geneProductRef fbc:geneProduct="G_b2291"/>
+            <fbc:geneProductRef fbc:geneProduct="G_b3399"/>
+            <fbc:geneProductRef fbc:geneProduct="G_b2361"/>
+          </fbc:or>
+        </fbc:geneProductAssociation>
+      </reaction>
+      <reaction id="R_TUNGSabcpp" fast="false" reversible="false" name="Tungstate transport via ABC system (periplasm)" metaid="R_TUNGSabcpp" sboTerm="SBO:0000185" fbc:upperFluxBound="cobra_default_ub" fbc:lowerFluxBound="cobra_0_bound">
+        <sbml:annotation xmlns:sbml="http://www.sbml.org/sbml/level3/version1/core">
+          <rdf:RDF xmlns:rdf="http://www.w3.org/1999/02/22-rdf-syntax-ns#">
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+                  <rdf:li rdf:resource="http://identifiers.org/rhea/35030#2"/>
+                  <rdf:li rdf:resource="http://identifiers.org/rhea/35028#2"/>
+                  <rdf:li rdf:resource="http://identifiers.org/rhea/35027#2"/>
+                  <rdf:li rdf:resource="http://identifiers.org/rhea/35029#2"/>
+                  <rdf:li rdf:resource="http://identifiers.org/seed.reaction/rxn09333"/>
+                  <rdf:li rdf:resource="http://identifiers.org/seed.reaction/rxn13756"/>
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+          <speciesReference species="M_atp_c" stoichiometry="1" constant="true"/>
+          <speciesReference species="M_h2o_c" stoichiometry="1" constant="true"/>
+          <speciesReference species="M_tungs_p" stoichiometry="1" constant="true"/>
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+        <listOfProducts>
+          <speciesReference species="M_adp_c" stoichiometry="1" constant="true"/>
+          <speciesReference species="M_h_c" stoichiometry="1" constant="true"/>
+          <speciesReference species="M_pi_c" stoichiometry="1" constant="true"/>
+          <speciesReference species="M_tungs_c" stoichiometry="1" constant="true"/>
+        </listOfProducts>
+        <fbc:geneProductAssociation>
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+            <fbc:geneProductRef fbc:geneProduct="G_b0764"/>
+            <fbc:geneProductRef fbc:geneProduct="G_b0765"/>
+            <fbc:geneProductRef fbc:geneProduct="G_b0763"/>
+          </fbc:and>
+        </fbc:geneProductAssociation>
+      </reaction>
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+        <sbml:annotation xmlns:sbml="http://www.sbml.org/sbml/level3/version1/core">
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+                  <rdf:li rdf:resource="http://identifiers.org/seed.reaction/rxn10899"/>
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+        </sbml:annotation>
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+          <speciesReference species="M_na1_e" stoichiometry="1" constant="true"/>
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+        <listOfProducts>
+          <speciesReference species="M_na1_p" stoichiometry="1" constant="true"/>
+        </listOfProducts>
+        <fbc:geneProductAssociation>
+          <fbc:or>
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+            <fbc:geneProductRef fbc:geneProduct="G_b0929"/>
+            <fbc:geneProductRef fbc:geneProduct="G_b1377"/>
+            <fbc:geneProductRef fbc:geneProduct="G_b2215"/>
+          </fbc:or>
+        </fbc:geneProductAssociation>
+      </reaction>
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+                  <rdf:li rdf:resource="http://identifiers.org/rhea/22020#1"/>
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+                  <rdf:li rdf:resource="http://identifiers.org/rhea/22021#1"/>
+                  <rdf:li rdf:resource="http://identifiers.org/rhea/22022#1"/>
+                  <rdf:li rdf:resource="http://identifiers.org/seed.reaction/rxn05619"/>
+                  <rdf:li rdf:resource="http://identifiers.org/seed.reaction/rxn08955"/>
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+        </sbml:annotation>
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+          <speciesReference species="M_atp_c" stoichiometry="1" constant="true"/>
+          <speciesReference species="M_h2o_c" stoichiometry="1" constant="true"/>
+          <speciesReference species="M_mobd_p" stoichiometry="1" constant="true"/>
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+        <listOfProducts>
+          <speciesReference species="M_adp_c" stoichiometry="1" constant="true"/>
+          <speciesReference species="M_h_c" stoichiometry="1" constant="true"/>
+          <speciesReference species="M_mobd_c" stoichiometry="1" constant="true"/>
+          <speciesReference species="M_pi_c" stoichiometry="1" constant="true"/>
+        </listOfProducts>
+        <fbc:geneProductAssociation>
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+              <fbc:geneProductRef fbc:geneProduct="G_b0764"/>
+              <fbc:geneProductRef fbc:geneProduct="G_b0765"/>
+              <fbc:geneProductRef fbc:geneProduct="G_b0763"/>
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+            <fbc:and>
+              <fbc:geneProductRef fbc:geneProduct="G_b2422"/>
+              <fbc:geneProductRef fbc:geneProduct="G_b2423"/>
+              <fbc:geneProductRef fbc:geneProduct="G_b2424"/>
+              <fbc:geneProductRef fbc:geneProduct="G_b3917"/>
+            </fbc:and>
+            <fbc:and>
+              <fbc:geneProductRef fbc:geneProduct="G_b2425"/>
+              <fbc:geneProductRef fbc:geneProduct="G_b2422"/>
+              <fbc:geneProductRef fbc:geneProduct="G_b2423"/>
+              <fbc:geneProductRef fbc:geneProduct="G_b2424"/>
+            </fbc:and>
+          </fbc:or>
+        </fbc:geneProductAssociation>
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+                  <rdf:li rdf:resource="http://identifiers.org/rhea/34908"/>
+                  <rdf:li rdf:resource="http://identifiers.org/seed.reaction/rxn08956"/>
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+          <speciesReference species="M_mobd_p" stoichiometry="1" constant="true"/>
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+            <fbc:geneProductRef fbc:geneProduct="G_b2215"/>
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+              <fbc:geneProductRef fbc:geneProduct="G_b3479"/>
+              <fbc:geneProductRef fbc:geneProduct="G_b3477"/>
+              <fbc:geneProductRef fbc:geneProduct="G_b3478"/>
+            </fbc:and>
+            <fbc:geneProductRef fbc:geneProduct="G_b4242"/>
+          </fbc:or>
+        </fbc:geneProductAssociation>
+      </reaction>
+      <reaction id="R_FECRMtonex" fast="false" reversible="false" name="Ferrichrome transport via ton system (extracellular)" metaid="R_FECRMtonex" sboTerm="SBO:0000185" fbc:upperFluxBound="cobra_default_ub" fbc:lowerFluxBound="cobra_0_bound">
+        <sbml:annotation xmlns:sbml="http://www.sbml.org/sbml/level3/version1/core">
+          <rdf:RDF xmlns:rdf="http://www.w3.org/1999/02/22-rdf-syntax-ns#">
+            <rdf:Description rdf:about="#R_FECRMtonex">
+              <bqbiol:is xmlns:bqbiol="http://biomodels.net/biology-qualifiers/">
+                <rdf:Bag>
+                  <rdf:li rdf:resource="http://identifiers.org/bigg.reaction/FECRMtonex"/>
+                  <rdf:li rdf:resource="http://identifiers.org/metanetx.reaction/MNXR99537"/>
+                  <rdf:li rdf:resource="http://identifiers.org/seed.reaction/rxn08498"/>
+                </rdf:Bag>
+              </bqbiol:is>
+            </rdf:Description>
+          </rdf:RDF>
+        </sbml:annotation>
+        <listOfReactants>
+          <speciesReference species="M_fecrm_e" stoichiometry="1" constant="true"/>
+          <speciesReference species="M_h_p" stoichiometry="1" constant="true"/>
+        </listOfReactants>
+        <listOfProducts>
+          <speciesReference species="M_fecrm_p" stoichiometry="1" constant="true"/>
+          <speciesReference species="M_h_c" stoichiometry="1" constant="true"/>
+        </listOfProducts>
+        <fbc:geneProductAssociation>
+          <fbc:and>
+            <fbc:and>
+              <fbc:geneProductRef fbc:geneProduct="G_b1252"/>
+              <fbc:geneProductRef fbc:geneProduct="G_b3005"/>
+              <fbc:geneProductRef fbc:geneProduct="G_b3006"/>
+            </fbc:and>
+            <fbc:geneProductRef fbc:geneProduct="G_b0150"/>
+          </fbc:and>
+        </fbc:geneProductAssociation>
+      </reaction>
+      <reaction id="R_ARBTNtonex" fast="false" reversible="false" name="Aerobactin transport via ton system (extracellular)" metaid="R_ARBTNtonex" sboTerm="SBO:0000185" fbc:upperFluxBound="cobra_default_ub" fbc:lowerFluxBound="cobra_0_bound">
+        <sbml:annotation xmlns:sbml="http://www.sbml.org/sbml/level3/version1/core">
+          <rdf:RDF xmlns:rdf="http://www.w3.org/1999/02/22-rdf-syntax-ns#">
+            <rdf:Description rdf:about="#R_ARBTNtonex">
+              <bqbiol:is xmlns:bqbiol="http://biomodels.net/biology-qualifiers/">
+                <rdf:Bag>
+                  <rdf:li rdf:resource="http://identifiers.org/bigg.reaction/ARBTNtonex"/>
+                  <rdf:li rdf:resource="http://identifiers.org/metanetx.reaction/MNXR95930"/>
+                  <rdf:li rdf:resource="http://identifiers.org/seed.reaction/rxn08149"/>
+                </rdf:Bag>
+              </bqbiol:is>
+            </rdf:Description>
+          </rdf:RDF>
+        </sbml:annotation>
+        <listOfReactants>
+          <speciesReference species="M_arbtn_fe3_e" stoichiometry="1" constant="true"/>
+          <speciesReference species="M_h_p" stoichiometry="1" constant="true"/>
+        </listOfReactants>
+        <listOfProducts>
+          <speciesReference species="M_arbtn_fe3_p" stoichiometry="1" constant="true"/>
+          <speciesReference species="M_h_c" stoichiometry="1" constant="true"/>
+        </listOfProducts>
+      </reaction>
+      <reaction id="R_ADOCBLabcpp" fast="false" reversible="false" name="Adenosylcobalamin transport via ABC system (periplasm)" metaid="R_ADOCBLabcpp" sboTerm="SBO:0000185" fbc:upperFluxBound="cobra_default_ub" fbc:lowerFluxBound="cobra_0_bound">
+        <sbml:annotation xmlns:sbml="http://www.sbml.org/sbml/level3/version1/core">
+          <rdf:RDF xmlns:rdf="http://www.w3.org/1999/02/22-rdf-syntax-ns#">
+            <rdf:Description rdf:about="#R_ADOCBLabcpp">
+              <bqbiol:is xmlns:bqbiol="http://biomodels.net/biology-qualifiers/">
+                <rdf:Bag>
+                  <rdf:li rdf:resource="http://identifiers.org/bigg.reaction/ADOCBLabcpp"/>
+                  <rdf:li rdf:resource="http://identifiers.org/metanetx.reaction/MNXR95471"/>
+                  <rdf:li rdf:resource="http://identifiers.org/seed.reaction/rxn08070"/>
+                </rdf:Bag>
+              </bqbiol:is>
+            </rdf:Description>
+          </rdf:RDF>
+        </sbml:annotation>
+        <listOfReactants>
+          <speciesReference species="M_adocbl_p" stoichiometry="1" constant="true"/>
+          <speciesReference species="M_atp_c" stoichiometry="1" constant="true"/>
+          <speciesReference species="M_h2o_c" stoichiometry="1" constant="true"/>
+        </listOfReactants>
+        <listOfProducts>
+          <speciesReference species="M_adocbl_c" stoichiometry="1" constant="true"/>
+          <speciesReference species="M_adp_c" stoichiometry="1" constant="true"/>
+          <speciesReference species="M_h_c" stoichiometry="1" constant="true"/>
+          <speciesReference species="M_pi_c" stoichiometry="1" constant="true"/>
+        </listOfProducts>
+        <fbc:geneProductAssociation>
+          <fbc:and>
+            <fbc:geneProductRef fbc:geneProduct="G_b1709"/>
+            <fbc:geneProductRef fbc:geneProduct="G_b0158"/>
+            <fbc:geneProductRef fbc:geneProduct="G_b1711"/>
+          </fbc:and>
+        </fbc:geneProductAssociation>
+      </reaction>
+      <reaction id="R_EX_enter_e" fast="false" reversible="false" name="Enterochelin exchange" metaid="R_EX_enter_e" sboTerm="SBO:0000627" fbc:upperFluxBound="cobra_default_ub" fbc:lowerFluxBound="cobra_0_bound">
+        <sbml:annotation xmlns:sbml="http://www.sbml.org/sbml/level3/version1/core">
+          <rdf:RDF xmlns:rdf="http://www.w3.org/1999/02/22-rdf-syntax-ns#">
+            <rdf:Description rdf:about="#R_EX_enter_e">
+              <bqbiol:is xmlns:bqbiol="http://biomodels.net/biology-qualifiers/">
+                <rdf:Bag>
+                  <rdf:li rdf:resource="http://identifiers.org/bigg.reaction/EX_enter_e"/>
+                  <rdf:li rdf:resource="http://identifiers.org/biocyc/META:RXN0-8"/>
+                  <rdf:li rdf:resource="http://identifiers.org/biocyc/META:TRANS-RXN0-496"/>
+                  <rdf:li rdf:resource="http://identifiers.org/metanetx.reaction/MNXR123417"/>
+                </rdf:Bag>
+              </bqbiol:is>
+            </rdf:Description>
+          </rdf:RDF>
+        </sbml:annotation>
+        <listOfReactants>
+          <speciesReference species="M_enter_e" stoichiometry="1" constant="true"/>
+        </listOfReactants>
+      </reaction>
+      <reaction id="R_EX_fecrm_un_e" fast="false" reversible="false" name="Ferrichrome minus Fe(III) exchange" metaid="R_EX_fecrm_un_e" sboTerm="SBO:0000627" fbc:upperFluxBound="cobra_default_ub" fbc:lowerFluxBound="cobra_0_bound">
+        <sbml:annotation xmlns:sbml="http://www.sbml.org/sbml/level3/version1/core">
+          <rdf:RDF xmlns:rdf="http://www.w3.org/1999/02/22-rdf-syntax-ns#">
+            <rdf:Description rdf:about="#R_EX_fecrm_un_e">
+              <bqbiol:is xmlns:bqbiol="http://biomodels.net/biology-qualifiers/">
+                <rdf:Bag>
+                  <rdf:li rdf:resource="http://identifiers.org/bigg.reaction/EX_fecrm_un_e"/>
+                  <rdf:li rdf:resource="http://identifiers.org/metanetx.reaction/MNXR142964"/>
+                </rdf:Bag>
+              </bqbiol:is>
+            </rdf:Description>
+          </rdf:RDF>
+        </sbml:annotation>
+        <listOfReactants>
+          <speciesReference species="M_fecrm_un_e" stoichiometry="1" constant="true"/>
+        </listOfReactants>
+      </reaction>
+      <reaction id="R_EX_cgly_e" fast="false" reversible="false" name="Cys-Gly exchange" metaid="R_EX_cgly_e" sboTerm="SBO:0000627" fbc:upperFluxBound="cobra_default_ub" fbc:lowerFluxBound="cobra_0_bound">
+        <sbml:annotation xmlns:sbml="http://www.sbml.org/sbml/level3/version1/core">
+          <rdf:RDF xmlns:rdf="http://www.w3.org/1999/02/22-rdf-syntax-ns#">
+            <rdf:Description rdf:about="#R_EX_cgly_e">
+              <bqbiol:is xmlns:bqbiol="http://biomodels.net/biology-qualifiers/">
+                <rdf:Bag>
+                  <rdf:li rdf:resource="http://identifiers.org/bigg.reaction/EX_cgly_e"/>
+                  <rdf:li rdf:resource="http://identifiers.org/metanetx.reaction/MNXR96658"/>
+                  <rdf:li rdf:resource="http://identifiers.org/seed.reaction/rxn08211"/>
+                </rdf:Bag>
+              </bqbiol:is>
+            </rdf:Description>
+          </rdf:RDF>
+        </sbml:annotation>
+        <listOfReactants>
+          <speciesReference species="M_cgly_e" stoichiometry="1" constant="true"/>
+        </listOfReactants>
+      </reaction>
+      <reaction id="R_NI2tex" fast="false" reversible="true" name="Nickel transport via diffusion (extracellular to periplasm)" metaid="R_NI2tex" sboTerm="SBO:0000185" fbc:upperFluxBound="cobra_default_ub" fbc:lowerFluxBound="cobra_default_lb">
+        <sbml:annotation xmlns:sbml="http://www.sbml.org/sbml/level3/version1/core">
+          <rdf:RDF xmlns:rdf="http://www.w3.org/1999/02/22-rdf-syntax-ns#">
+            <rdf:Description rdf:about="#R_NI2tex">
+              <bqbiol:is xmlns:bqbiol="http://biomodels.net/biology-qualifiers/">
+                <rdf:Bag>
+                  <rdf:li rdf:resource="http://identifiers.org/bigg.reaction/NI2tex"/>
+                  <rdf:li rdf:resource="http://identifiers.org/biocyc/META:TRANS-RXN-141B"/>
+                  <rdf:li rdf:resource="http://identifiers.org/metanetx.reaction/MNXR101958"/>
+                  <rdf:li rdf:resource="http://identifiers.org/rhea/29833"/>
+                  <rdf:li rdf:resource="http://identifiers.org/rhea/29831"/>
+                  <rdf:li rdf:resource="http://identifiers.org/rhea/29834"/>
+                  <rdf:li rdf:resource="http://identifiers.org/rhea/29832"/>
+                </rdf:Bag>
+              </bqbiol:is>
+            </rdf:Description>
+          </rdf:RDF>
+        </sbml:annotation>
+        <listOfReactants>
+          <speciesReference species="M_ni2_e" stoichiometry="1" constant="true"/>
+        </listOfReactants>
+        <listOfProducts>
+          <speciesReference species="M_ni2_p" stoichiometry="1" constant="true"/>
+        </listOfProducts>
+        <fbc:geneProductAssociation>
+          <fbc:or>
+            <fbc:geneProductRef fbc:geneProduct="G_b0241"/>
+            <fbc:geneProductRef fbc:geneProduct="G_b0929"/>
+            <fbc:geneProductRef fbc:geneProduct="G_b1377"/>
+            <fbc:geneProductRef fbc:geneProduct="G_b2215"/>
+          </fbc:or>
+        </fbc:geneProductAssociation>
+      </reaction>
+      <reaction id="R_NTD10pp" fast="false" reversible="false" name="5'-nucleotidase (XMP)" metaid="R_NTD10pp" sboTerm="SBO:0000176" fbc:upperFluxBound="cobra_default_ub" fbc:lowerFluxBound="cobra_0_bound">
+        <sbml:annotation xmlns:sbml="http://www.sbml.org/sbml/level3/version1/core">
+          <rdf:RDF xmlns:rdf="http://www.w3.org/1999/02/22-rdf-syntax-ns#">
+            <rdf:Description rdf:about="#R_NTD10pp">
+              <bqbiol:is xmlns:bqbiol="http://biomodels.net/biology-qualifiers/">
+                <rdf:Bag>
+                  <rdf:li rdf:resource="http://identifiers.org/bigg.reaction/NTD10pp"/>
+                  <rdf:li rdf:resource="http://identifiers.org/biocyc/META:XMPXAN-RXN"/>
+                  <rdf:li rdf:resource="http://identifiers.org/ec-code/3.1.3.5"/>
+                  <rdf:li rdf:resource="http://identifiers.org/kegg.reaction/R02719"/>
+                  <rdf:li rdf:resource="http://identifiers.org/metanetx.reaction/MNXR102029"/>
+                  <rdf:li rdf:resource="http://identifiers.org/rhea/28532"/>
+                  <rdf:li rdf:resource="http://identifiers.org/rhea/28530"/>
+                  <rdf:li rdf:resource="http://identifiers.org/rhea/28531"/>
+                  <rdf:li rdf:resource="http://identifiers.org/rhea/28533"/>
+                  <rdf:li rdf:resource="http://identifiers.org/sabiork/129"/>
+                  <rdf:li rdf:resource="http://identifiers.org/seed.reaction/rxn01961"/>
+                </rdf:Bag>
+              </bqbiol:is>
+            </rdf:Description>
+          </rdf:RDF>
+        </sbml:annotation>
+        <listOfReactants>
+          <speciesReference species="M_h2o_p" stoichiometry="1" constant="true"/>
+          <speciesReference species="M_xmp_p" stoichiometry="1" constant="true"/>
+        </listOfReactants>
+        <listOfProducts>
+          <speciesReference species="M_pi_p" stoichiometry="1" constant="true"/>
+          <speciesReference species="M_xtsn_p" stoichiometry="1" constant="true"/>
+        </listOfProducts>
+        <fbc:geneProductAssociation>
+          <fbc:or>
+            <fbc:geneProductRef fbc:geneProduct="G_b4055"/>
+            <fbc:geneProductRef fbc:geneProduct="G_b0480"/>
+          </fbc:or>
+        </fbc:geneProductAssociation>
+      </reaction>
+      <reaction id="R_NTD1pp" fast="false" reversible="false" name="5'-nucleotidase (dUMP)" metaid="R_NTD1pp" sboTerm="SBO:0000176" fbc:upperFluxBound="cobra_default_ub" fbc:lowerFluxBound="cobra_0_bound">
+        <sbml:annotation xmlns:sbml="http://www.sbml.org/sbml/level3/version1/core">
+          <rdf:RDF xmlns:rdf="http://www.w3.org/1999/02/22-rdf-syntax-ns#">
+            <rdf:Description rdf:about="#R_NTD1pp">
+              <bqbiol:is xmlns:bqbiol="http://biomodels.net/biology-qualifiers/">
+                <rdf:Bag>
+                  <rdf:li rdf:resource="http://identifiers.org/bigg.reaction/NTD1pp"/>
+                  <rdf:li rdf:resource="http://identifiers.org/biocyc/META:RXN-14143"/>
+                  <rdf:li rdf:resource="http://identifiers.org/ec-code/3.1.3.5"/>
+                  <rdf:li rdf:resource="http://identifiers.org/ec-code/3.1.3.89"/>
+                  <rdf:li rdf:resource="http://identifiers.org/kegg.reaction/R02102"/>
+                  <rdf:li rdf:resource="http://identifiers.org/metanetx.reaction/MNXR102028"/>
+                  <rdf:li rdf:resource="http://identifiers.org/rhea/29358"/>
+                  <rdf:li rdf:resource="http://identifiers.org/rhea/29355"/>
+                  <rdf:li rdf:resource="http://identifiers.org/rhea/29357"/>
+                  <rdf:li rdf:resource="http://identifiers.org/rhea/29356"/>
+                  <rdf:li rdf:resource="http://identifiers.org/sabiork/501"/>
+                  <rdf:li rdf:resource="http://identifiers.org/seed.reaction/rxn01521"/>
+                </rdf:Bag>
+              </bqbiol:is>
+            </rdf:Description>
+          </rdf:RDF>
+        </sbml:annotation>
+        <listOfReactants>
+          <speciesReference species="M_dump_p" stoichiometry="1" constant="true"/>
+          <speciesReference species="M_h2o_p" stoichiometry="1" constant="true"/>
+        </listOfReactants>
+        <listOfProducts>
+          <speciesReference species="M_duri_p" stoichiometry="1" constant="true"/>
+          <speciesReference species="M_pi_p" stoichiometry="1" constant="true"/>
+        </listOfProducts>
+        <fbc:geneProductAssociation>
+          <fbc:or>
+            <fbc:geneProductRef fbc:geneProduct="G_b0480"/>
+            <fbc:geneProductRef fbc:geneProduct="G_b4055"/>
+          </fbc:or>
+        </fbc:geneProductAssociation>
+      </reaction>
+      <reaction id="R_EX_chtbs_e" fast="false" reversible="false" name="Chitobiose exchange" metaid="R_EX_chtbs_e" sboTerm="SBO:0000627" fbc:upperFluxBound="cobra_default_ub" fbc:lowerFluxBound="cobra_0_bound">
+        <sbml:annotation xmlns:sbml="http://www.sbml.org/sbml/level3/version1/core">
+          <rdf:RDF xmlns:rdf="http://www.w3.org/1999/02/22-rdf-syntax-ns#">
+            <rdf:Description rdf:about="#R_EX_chtbs_e">
+              <bqbiol:is xmlns:bqbiol="http://biomodels.net/biology-qualifiers/">
+                <rdf:Bag>
+                  <rdf:li rdf:resource="http://identifiers.org/bigg.reaction/EX_chtbs_e"/>
+                  <rdf:li rdf:resource="http://identifiers.org/metanetx.reaction/MNXR138171"/>
+                </rdf:Bag>
+              </bqbiol:is>
+            </rdf:Description>
+          </rdf:RDF>
+        </sbml:annotation>
+        <listOfReactants>
+          <speciesReference species="M_chtbs_e" stoichiometry="1" constant="true"/>
+        </listOfReactants>
+      </reaction>
+      <reaction id="R_EX_gmp_e" fast="false" reversible="false" name="GMP exchange" metaid="R_EX_gmp_e" sboTerm="SBO:0000627" fbc:upperFluxBound="cobra_default_ub" fbc:lowerFluxBound="cobra_0_bound">
+        <sbml:annotation xmlns:sbml="http://www.sbml.org/sbml/level3/version1/core">
+          <rdf:RDF xmlns:rdf="http://www.w3.org/1999/02/22-rdf-syntax-ns#">
+            <rdf:Description rdf:about="#R_EX_gmp_e">
+              <bqbiol:is xmlns:bqbiol="http://biomodels.net/biology-qualifiers/">
+                <rdf:Bag>
+                  <rdf:li rdf:resource="http://identifiers.org/bigg.reaction/EX_gmp_e"/>
+                  <rdf:li rdf:resource="http://identifiers.org/biocyc/META:TRANS-RXN0-565"/>
+                  <rdf:li rdf:resource="http://identifiers.org/metanetx.reaction/MNXR100386"/>
+                  <rdf:li rdf:resource="http://identifiers.org/seed.reaction/rxn08664"/>
+                </rdf:Bag>
+              </bqbiol:is>
+            </rdf:Description>
+          </rdf:RDF>
+        </sbml:annotation>
+        <listOfReactants>
+          <speciesReference species="M_gmp_e" stoichiometry="1" constant="true"/>
+        </listOfReactants>
+      </reaction>
+      <reaction id="R_NTD2pp" fast="false" reversible="false" name="5'-nucleotidase (UMP)" metaid="R_NTD2pp" sboTerm="SBO:0000176" fbc:upperFluxBound="cobra_default_ub" fbc:lowerFluxBound="cobra_0_bound">
+        <sbml:annotation xmlns:sbml="http://www.sbml.org/sbml/level3/version1/core">
+          <rdf:RDF xmlns:rdf="http://www.w3.org/1999/02/22-rdf-syntax-ns#">
+            <rdf:Description rdf:about="#R_NTD2pp">
+              <bqbiol:is xmlns:bqbiol="http://biomodels.net/biology-qualifiers/">
+                <rdf:Bag>
+                  <rdf:li rdf:resource="http://identifiers.org/bigg.reaction/NTD2pp"/>
+                  <rdf:li rdf:resource="http://identifiers.org/biocyc/META:RXN-14025"/>
+                  <rdf:li rdf:resource="http://identifiers.org/ec-code/3.1.3.5"/>
+                  <rdf:li rdf:resource="http://identifiers.org/kegg.reaction/R00963"/>
+                  <rdf:li rdf:resource="http://identifiers.org/metanetx.reaction/MNXR102032"/>
+                  <rdf:li rdf:resource="http://identifiers.org/rhea/29362"/>
+                  <rdf:li rdf:resource="http://identifiers.org/rhea/29360"/>
+                  <rdf:li rdf:resource="http://identifiers.org/rhea/29361"/>
+                  <rdf:li rdf:resource="http://identifiers.org/rhea/29359"/>
+                  <rdf:li rdf:resource="http://identifiers.org/sabiork/210"/>
+                  <rdf:li rdf:resource="http://identifiers.org/seed.reaction/rxn00708"/>
+                </rdf:Bag>
+              </bqbiol:is>
+            </rdf:Description>
+          </rdf:RDF>
+        </sbml:annotation>
+        <listOfReactants>
+          <speciesReference species="M_h2o_p" stoichiometry="1" constant="true"/>
+          <speciesReference species="M_ump_p" stoichiometry="1" constant="true"/>
+        </listOfReactants>
+        <listOfProducts>
+          <speciesReference species="M_pi_p" stoichiometry="1" constant="true"/>
+          <speciesReference species="M_uri_p" stoichiometry="1" constant="true"/>
+        </listOfProducts>
+        <fbc:geneProductAssociation>
+          <fbc:or>
+            <fbc:geneProductRef fbc:geneProduct="G_b4055"/>
+            <fbc:geneProductRef fbc:geneProduct="G_b0480"/>
+            <fbc:geneProductRef fbc:geneProduct="G_b0383"/>
+          </fbc:or>
+        </fbc:geneProductAssociation>
+      </reaction>
+      <reaction id="R_NACtex" fast="false" reversible="true" name="Nicotinic acid transport via diffusion (extracellular to periplasm)" metaid="R_NACtex" sboTerm="SBO:0000185" fbc:upperFluxBound="cobra_default_ub" fbc:lowerFluxBound="cobra_default_lb">
+        <sbml:annotation xmlns:sbml="http://www.sbml.org/sbml/level3/version1/core">
+          <rdf:RDF xmlns:rdf="http://www.w3.org/1999/02/22-rdf-syntax-ns#">
+            <rdf:Description rdf:about="#R_NACtex">
+              <bqbiol:is xmlns:bqbiol="http://biomodels.net/biology-qualifiers/">
+                <rdf:Bag>
+                  <rdf:li rdf:resource="http://identifiers.org/bigg.reaction/NACtex"/>
+                  <rdf:li rdf:resource="http://identifiers.org/metanetx.reaction/MNXR101808"/>
+                  <rdf:li rdf:resource="http://identifiers.org/reactome.reaction/R-TGU-8869603"/>
+                  <rdf:li rdf:resource="http://identifiers.org/reactome.reaction/R-BTA-8869603"/>
+                  <rdf:li rdf:resource="http://identifiers.org/reactome.reaction/R-XTR-8869603"/>
+                  <rdf:li rdf:resource="http://identifiers.org/reactome.reaction/R-CFA-8869603"/>
+                  <rdf:li rdf:resource="http://identifiers.org/reactome.reaction/R-GGA-8869603"/>
+                  <rdf:li rdf:resource="http://identifiers.org/reactome.reaction/R-RNO-8869603"/>
+                  <rdf:li rdf:resource="http://identifiers.org/reactome.reaction/R-HSA-8869603"/>
+                  <rdf:li rdf:resource="http://identifiers.org/reactome.reaction/R-DME-8869603"/>
+                  <rdf:li rdf:resource="http://identifiers.org/reactome.reaction/R-SSC-8869603"/>
+                  <rdf:li rdf:resource="http://identifiers.org/reactome.reaction/R-MMU-8869603"/>
+                  <rdf:li rdf:resource="http://identifiers.org/reactome.reaction/R-DRE-8869603"/>
+                  <rdf:li rdf:resource="http://identifiers.org/seed.reaction/rxn08970"/>
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+                  <rdf:li rdf:resource="http://identifiers.org/seed.reaction/rxn08969"/>
+                </rdf:Bag>
+              </bqbiol:is>
+            </rdf:Description>
+          </rdf:RDF>
+        </sbml:annotation>
+        <listOfReactants>
+          <speciesReference species="M_nac_e" stoichiometry="1" constant="true"/>
+        </listOfReactants>
+        <listOfProducts>
+          <speciesReference species="M_nac_p" stoichiometry="1" constant="true"/>
+        </listOfProducts>
+        <fbc:geneProductAssociation>
+          <fbc:or>
+            <fbc:geneProductRef fbc:geneProduct="G_b0241"/>
+            <fbc:geneProductRef fbc:geneProduct="G_b0929"/>
+            <fbc:geneProductRef fbc:geneProduct="G_b1377"/>
+            <fbc:geneProductRef fbc:geneProduct="G_b2215"/>
+          </fbc:or>
+        </fbc:geneProductAssociation>
+      </reaction>
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+                  <rdf:li rdf:resource="http://identifiers.org/rhea/29365"/>
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+                  <rdf:li rdf:resource="http://identifiers.org/seed.reaction/rxn01218"/>
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+          <speciesReference species="M_h2o_p" stoichiometry="1" constant="true"/>
+        </listOfReactants>
+        <listOfProducts>
+          <speciesReference species="M_dcyt_p" stoichiometry="1" constant="true"/>
+          <speciesReference species="M_pi_p" stoichiometry="1" constant="true"/>
+        </listOfProducts>
+        <fbc:geneProductAssociation>
+          <fbc:or>
+            <fbc:geneProductRef fbc:geneProduct="G_b0480"/>
+            <fbc:geneProductRef fbc:geneProduct="G_b4055"/>
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+        </fbc:geneProductAssociation>
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+                  <rdf:li rdf:resource="http://identifiers.org/rhea/29370"/>
+                  <rdf:li rdf:resource="http://identifiers.org/rhea/29368"/>
+                  <rdf:li rdf:resource="http://identifiers.org/rhea/29369"/>
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+                  <rdf:li rdf:resource="http://identifiers.org/sabiork/211"/>
+                  <rdf:li rdf:resource="http://identifiers.org/seed.reaction/rxn00363"/>
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+            </rdf:Description>
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+        </sbml:annotation>
+        <listOfReactants>
+          <speciesReference species="M_cmp_p" stoichiometry="1" constant="true"/>
+          <speciesReference species="M_h2o_p" stoichiometry="1" constant="true"/>
+        </listOfReactants>
+        <listOfProducts>
+          <speciesReference species="M_cytd_p" stoichiometry="1" constant="true"/>
+          <speciesReference species="M_pi_p" stoichiometry="1" constant="true"/>
+        </listOfProducts>
+        <fbc:geneProductAssociation>
+          <fbc:or>
+            <fbc:geneProductRef fbc:geneProduct="G_b0480"/>
+            <fbc:geneProductRef fbc:geneProduct="G_b4055"/>
+            <fbc:geneProductRef fbc:geneProduct="G_b0383"/>
+          </fbc:or>
+        </fbc:geneProductAssociation>
+      </reaction>
+      <reaction id="R_NTD5pp" fast="false" reversible="false" name="5'-nucleotidase (dTMP)" metaid="R_NTD5pp" sboTerm="SBO:0000176" fbc:upperFluxBound="cobra_default_ub" fbc:lowerFluxBound="cobra_0_bound">
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+                  <rdf:li rdf:resource="http://identifiers.org/biocyc/META:THYMIDYLATE-5-PHOSPHATASE-RXN"/>
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+                  <rdf:li rdf:resource="http://identifiers.org/rhea/11081"/>
+                  <rdf:li rdf:resource="http://identifiers.org/rhea/11083"/>
+                  <rdf:li rdf:resource="http://identifiers.org/rhea/11082"/>
+                  <rdf:li rdf:resource="http://identifiers.org/rhea/11080"/>
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+                  <rdf:li rdf:resource="http://identifiers.org/seed.reaction/rxn01145"/>
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+        </sbml:annotation>
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+          <speciesReference species="M_h2o_p" stoichiometry="1" constant="true"/>
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+        <listOfProducts>
+          <speciesReference species="M_pi_p" stoichiometry="1" constant="true"/>
+          <speciesReference species="M_thymd_p" stoichiometry="1" constant="true"/>
+        </listOfProducts>
+        <fbc:geneProductAssociation>
+          <fbc:or>
+            <fbc:geneProductRef fbc:geneProduct="G_b4055"/>
+            <fbc:geneProductRef fbc:geneProduct="G_b0480"/>
+          </fbc:or>
+        </fbc:geneProductAssociation>
+      </reaction>
+      <reaction id="R_EX_h2o2_e" fast="false" reversible="false" name="Hydrogen peroxide exchange" metaid="R_EX_h2o2_e" sboTerm="SBO:0000627" fbc:upperFluxBound="cobra_default_ub" fbc:lowerFluxBound="cobra_0_bound">
+        <sbml:annotation xmlns:sbml="http://www.sbml.org/sbml/level3/version1/core">
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+              <bqbiol:is xmlns:bqbiol="http://biomodels.net/biology-qualifiers/">
+                <rdf:Bag>
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+                  <rdf:li rdf:resource="http://identifiers.org/biocyc/META:TRANS-RXN-284"/>
+                  <rdf:li rdf:resource="http://identifiers.org/biocyc/META:TRANS-RXN0-572"/>
+                  <rdf:li rdf:resource="http://identifiers.org/metanetx.reaction/MNXR98640"/>
+                  <rdf:li rdf:resource="http://identifiers.org/reactome.reaction/R-RNO-3779389"/>
+                  <rdf:li rdf:resource="http://identifiers.org/reactome.reaction/R-HSA-3779381"/>
+                  <rdf:li rdf:resource="http://identifiers.org/seed.reaction/rxn13308"/>
+                  <rdf:li rdf:resource="http://identifiers.org/seed.reaction/rxn08685"/>
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+        </listOfReactants>
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+      <reaction id="R_EX_ump_e" fast="false" reversible="false" name="UMP exchange" metaid="R_EX_ump_e" sboTerm="SBO:0000627" fbc:upperFluxBound="cobra_default_ub" fbc:lowerFluxBound="cobra_0_bound">
+        <sbml:annotation xmlns:sbml="http://www.sbml.org/sbml/level3/version1/core">
+          <rdf:RDF xmlns:rdf="http://www.w3.org/1999/02/22-rdf-syntax-ns#">
+            <rdf:Description rdf:about="#R_EX_ump_e">
+              <bqbiol:is xmlns:bqbiol="http://biomodels.net/biology-qualifiers/">
+                <rdf:Bag>
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+                  <rdf:li rdf:resource="http://identifiers.org/metanetx.reaction/MNXR105127"/>
+                  <rdf:li rdf:resource="http://identifiers.org/rhea/27927"/>
+                  <rdf:li rdf:resource="http://identifiers.org/rhea/27929"/>
+                  <rdf:li rdf:resource="http://identifiers.org/rhea/27926"/>
+                  <rdf:li rdf:resource="http://identifiers.org/rhea/27928"/>
+                  <rdf:li rdf:resource="http://identifiers.org/seed.reaction/rxn09808"/>
+                  <rdf:li rdf:resource="http://identifiers.org/seed.reaction/rxn09361"/>
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+        </sbml:annotation>
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+          <speciesReference species="M_ump_e" stoichiometry="1" constant="true"/>
+        </listOfReactants>
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+      <reaction id="R_EX_pydam_e" fast="false" reversible="false" name="Pyridoxamine exchange" metaid="R_EX_pydam_e" sboTerm="SBO:0000627" fbc:upperFluxBound="cobra_default_ub" fbc:lowerFluxBound="cobra_0_bound">
+        <sbml:annotation xmlns:sbml="http://www.sbml.org/sbml/level3/version1/core">
+          <rdf:RDF xmlns:rdf="http://www.w3.org/1999/02/22-rdf-syntax-ns#">
+            <rdf:Description rdf:about="#R_EX_pydam_e">
+              <bqbiol:is xmlns:bqbiol="http://biomodels.net/biology-qualifiers/">
+                <rdf:Bag>
+                  <rdf:li rdf:resource="http://identifiers.org/bigg.reaction/EX_pydam_e"/>
+                  <rdf:li rdf:resource="http://identifiers.org/biocyc/META:TRANS-RXN0-213"/>
+                  <rdf:li rdf:resource="http://identifiers.org/metanetx.reaction/MNXR103358"/>
+                  <rdf:li rdf:resource="http://identifiers.org/rhea/28468"/>
+                  <rdf:li rdf:resource="http://identifiers.org/rhea/28467"/>
+                  <rdf:li rdf:resource="http://identifiers.org/rhea/28469"/>
+                  <rdf:li rdf:resource="http://identifiers.org/rhea/28466"/>
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+        <listOfReactants>
+          <speciesReference species="M_pydam_e" stoichiometry="1" constant="true"/>
+        </listOfReactants>
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+        <sbml:annotation xmlns:sbml="http://www.sbml.org/sbml/level3/version1/core">
+          <rdf:RDF xmlns:rdf="http://www.w3.org/1999/02/22-rdf-syntax-ns#">
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+              <bqbiol:is xmlns:bqbiol="http://biomodels.net/biology-qualifiers/">
+                <rdf:Bag>
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+                  <rdf:li rdf:resource="http://identifiers.org/metanetx.reaction/MNXR96905"/>
+                  <rdf:li rdf:resource="http://identifiers.org/rhea/38719#1"/>
+                  <rdf:li rdf:resource="http://identifiers.org/rhea/38722#1"/>
+                  <rdf:li rdf:resource="http://identifiers.org/rhea/38720#1"/>
+                  <rdf:li rdf:resource="http://identifiers.org/rhea/38721#1"/>
+                  <rdf:li rdf:resource="http://identifiers.org/seed.reaction/rxn05180"/>
+                  <rdf:li rdf:resource="http://identifiers.org/seed.reaction/rxn08253"/>
+                </rdf:Bag>
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+            </rdf:Description>
+          </rdf:RDF>
+        </sbml:annotation>
+        <listOfReactants>
+          <speciesReference species="M_atp_c" stoichiometry="1" constant="true"/>
+          <speciesReference species="M_crn_p" stoichiometry="1" constant="true"/>
+          <speciesReference species="M_h2o_c" stoichiometry="1" constant="true"/>
+        </listOfReactants>
+        <listOfProducts>
+          <speciesReference species="M_adp_c" stoichiometry="1" constant="true"/>
+          <speciesReference species="M_crn_c" stoichiometry="1" constant="true"/>
+          <speciesReference species="M_h_c" stoichiometry="1" constant="true"/>
+          <speciesReference species="M_pi_c" stoichiometry="1" constant="true"/>
+        </listOfProducts>
+        <fbc:geneProductAssociation>
+          <fbc:and>
+            <fbc:geneProductRef fbc:geneProduct="G_b2679"/>
+            <fbc:geneProductRef fbc:geneProduct="G_b2677"/>
+            <fbc:geneProductRef fbc:geneProduct="G_b2678"/>
+          </fbc:and>
+        </fbc:geneProductAssociation>
+      </reaction>
+      <reaction id="R_CRNDabcpp" fast="false" reversible="false" name="D-carnitine transport via ABC system (periplasm)" metaid="R_CRNDabcpp" sboTerm="SBO:0000185" fbc:upperFluxBound="cobra_default_ub" fbc:lowerFluxBound="cobra_0_bound">
+        <sbml:annotation xmlns:sbml="http://www.sbml.org/sbml/level3/version1/core">
+          <rdf:RDF xmlns:rdf="http://www.w3.org/1999/02/22-rdf-syntax-ns#">
+            <rdf:Description rdf:about="#R_CRNDabcpp">
+              <bqbiol:is xmlns:bqbiol="http://biomodels.net/biology-qualifiers/">
+                <rdf:Bag>
+                  <rdf:li rdf:resource="http://identifiers.org/bigg.reaction/CRNDabcpp"/>
+                  <rdf:li rdf:resource="http://identifiers.org/metanetx.reaction/MNXR96902"/>
+                  <rdf:li rdf:resource="http://identifiers.org/seed.reaction/rxn08259"/>
+                </rdf:Bag>
+              </bqbiol:is>
+            </rdf:Description>
+          </rdf:RDF>
+        </sbml:annotation>
+        <listOfReactants>
+          <speciesReference species="M_atp_c" stoichiometry="1" constant="true"/>
+          <speciesReference species="M_crn__D_p" stoichiometry="1" constant="true"/>
+          <speciesReference species="M_h2o_c" stoichiometry="1" constant="true"/>
+        </listOfReactants>
+        <listOfProducts>
+          <speciesReference species="M_adp_c" stoichiometry="1" constant="true"/>
+          <speciesReference species="M_crn__D_c" stoichiometry="1" constant="true"/>
+          <speciesReference species="M_h_c" stoichiometry="1" constant="true"/>
+          <speciesReference species="M_pi_c" stoichiometry="1" constant="true"/>
+        </listOfProducts>
+        <fbc:geneProductAssociation>
+          <fbc:and>
+            <fbc:geneProductRef fbc:geneProduct="G_b2679"/>
+            <fbc:geneProductRef fbc:geneProduct="G_b2677"/>
+            <fbc:geneProductRef fbc:geneProduct="G_b2678"/>
+          </fbc:and>
+        </fbc:geneProductAssociation>
+      </reaction>
+      <reaction id="R_DNTPPA" fast="false" reversible="false" name="Dihydroneopterin triphosphate pyrophosphatase" metaid="R_DNTPPA" sboTerm="SBO:0000176" fbc:upperFluxBound="cobra_default_ub" fbc:lowerFluxBound="cobra_0_bound">
+        <sbml:annotation xmlns:sbml="http://www.sbml.org/sbml/level3/version1/core">
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+              <bqbiol:is xmlns:bqbiol="http://biomodels.net/biology-qualifiers/">
+                <rdf:Bag>
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+                  <rdf:li rdf:resource="http://identifiers.org/biocyc/META:H2NEOPTERINP3PYROPHOSPHOHYDRO-RXN"/>
+                  <rdf:li rdf:resource="http://identifiers.org/ec-code/3.6.1.67"/>
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+                  <rdf:li rdf:resource="http://identifiers.org/metanetx.reaction/MNXR97680"/>
+                  <rdf:li rdf:resource="http://identifiers.org/rhea/25302"/>
+                  <rdf:li rdf:resource="http://identifiers.org/rhea/25305"/>
+                  <rdf:li rdf:resource="http://identifiers.org/rhea/25303"/>
+                  <rdf:li rdf:resource="http://identifiers.org/rhea/25304"/>
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+                  <rdf:li rdf:resource="http://identifiers.org/seed.reaction/rxn03173"/>
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+        </sbml:annotation>
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+          <speciesReference species="M_ahdt_c" stoichiometry="1" constant="true"/>
+          <speciesReference species="M_h2o_c" stoichiometry="1" constant="true"/>
+        </listOfReactants>
+        <listOfProducts>
+          <speciesReference species="M_dhpmp_c" stoichiometry="1" constant="true"/>
+          <speciesReference species="M_h_c" stoichiometry="1" constant="true"/>
+          <speciesReference species="M_ppi_c" stoichiometry="1" constant="true"/>
+        </listOfProducts>
+        <fbc:geneProductAssociation>
+          <fbc:or>
+            <fbc:geneProductRef fbc:geneProduct="G_b1865"/>
+            <fbc:geneProductRef fbc:geneProduct="G_b0099"/>
+          </fbc:or>
+        </fbc:geneProductAssociation>
+      </reaction>
+      <reaction id="R_NTD6pp" fast="false" reversible="false" name="5'-nucleotidase (dAMP)" metaid="R_NTD6pp" sboTerm="SBO:0000176" fbc:upperFluxBound="cobra_default_ub" fbc:lowerFluxBound="cobra_0_bound">
+        <sbml:annotation xmlns:sbml="http://www.sbml.org/sbml/level3/version1/core">
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+                  <rdf:li rdf:resource="http://identifiers.org/kegg.reaction/R02088"/>
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+                  <rdf:li rdf:resource="http://identifiers.org/rhea/29371"/>
+                  <rdf:li rdf:resource="http://identifiers.org/rhea/29374"/>
+                  <rdf:li rdf:resource="http://identifiers.org/rhea/29372"/>
+                  <rdf:li rdf:resource="http://identifiers.org/rhea/29373"/>
+                  <rdf:li rdf:resource="http://identifiers.org/sabiork/282"/>
+                  <rdf:li rdf:resource="http://identifiers.org/seed.reaction/rxn13134"/>
+                  <rdf:li rdf:resource="http://identifiers.org/seed.reaction/rxn01507"/>
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+        </sbml:annotation>
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+          <speciesReference species="M_damp_p" stoichiometry="1" constant="true"/>
+          <speciesReference species="M_h2o_p" stoichiometry="1" constant="true"/>
+        </listOfReactants>
+        <listOfProducts>
+          <speciesReference species="M_dad_2_p" stoichiometry="1" constant="true"/>
+          <speciesReference species="M_pi_p" stoichiometry="1" constant="true"/>
+        </listOfProducts>
+        <fbc:geneProductAssociation>
+          <fbc:or>
+            <fbc:geneProductRef fbc:geneProduct="G_b0480"/>
+            <fbc:geneProductRef fbc:geneProduct="G_b4055"/>
+          </fbc:or>
+        </fbc:geneProductAssociation>
+      </reaction>
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+          <speciesReference species="M_h2o_p" stoichiometry="1" constant="true"/>
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+          <speciesReference species="M_pi_p" stoichiometry="1" constant="true"/>
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+            <fbc:geneProductRef fbc:geneProduct="G_b4055"/>
+            <fbc:geneProductRef fbc:geneProduct="G_b0383"/>
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+                  <rdf:li rdf:resource="http://identifiers.org/metanetx.reaction/MNXR96938"/>
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+          <speciesReference species="M_ctbt_p" stoichiometry="1" constant="true"/>
+          <speciesReference species="M_h2o_c" stoichiometry="1" constant="true"/>
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+        <listOfProducts>
+          <speciesReference species="M_adp_c" stoichiometry="1" constant="true"/>
+          <speciesReference species="M_ctbt_c" stoichiometry="1" constant="true"/>
+          <speciesReference species="M_h_c" stoichiometry="1" constant="true"/>
+          <speciesReference species="M_pi_c" stoichiometry="1" constant="true"/>
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+        <fbc:geneProductAssociation>
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+            <fbc:geneProductRef fbc:geneProduct="G_b2677"/>
+            <fbc:geneProductRef fbc:geneProduct="G_b2679"/>
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+        </fbc:geneProductAssociation>
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+                  <rdf:li rdf:resource="http://identifiers.org/rhea/27716"/>
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+                  <rdf:li rdf:resource="http://identifiers.org/rhea/27714"/>
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+          <speciesReference species="M_h2o_p" stoichiometry="1" constant="true"/>
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+        <listOfProducts>
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+          <speciesReference species="M_pi_p" stoichiometry="1" constant="true"/>
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+            <fbc:geneProductRef fbc:geneProduct="G_b4055"/>
+            <fbc:geneProductRef fbc:geneProduct="G_b0383"/>
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+        </fbc:geneProductAssociation>
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+          <speciesReference species="M_nh4_p" stoichiometry="1" constant="true"/>
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+            <fbc:geneProductRef fbc:geneProduct="G_b2215"/>
+            <fbc:geneProductRef fbc:geneProduct="G_b0241"/>
+            <fbc:geneProductRef fbc:geneProduct="G_b0929"/>
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+        </fbc:geneProductAssociation>
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+          <speciesReference species="M_peamn_p" stoichiometry="1" constant="true"/>
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+          <speciesReference species="M_nh4_p" stoichiometry="1" constant="true"/>
+          <speciesReference species="M_pacald_p" stoichiometry="1" constant="true"/>
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+          <fbc:geneProductRef fbc:geneProduct="G_b1386"/>
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+        <sbml:annotation xmlns:sbml="http://www.sbml.org/sbml/level3/version1/core">
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+        <fbc:geneProductAssociation>
+          <fbc:geneProductRef fbc:geneProduct="G_b1002"/>
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+          <speciesReference species="M_imp_c" stoichiometry="1" constant="true"/>
+          <speciesReference species="M_ppi_c" stoichiometry="1" constant="true"/>
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+          <fbc:geneProductRef fbc:geneProduct="G_b2954"/>
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+          <speciesReference species="M_h2o_c" stoichiometry="1" constant="true"/>
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+        <listOfProducts>
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+          <speciesReference species="M_h_c" stoichiometry="1" constant="true"/>
+          <speciesReference species="M_ppi_c" stoichiometry="1" constant="true"/>
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+          <fbc:geneProductRef fbc:geneProduct="G_b2954"/>
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+          <speciesReference species="M_ppi_c" stoichiometry="1" constant="true"/>
+          <speciesReference species="M_xmp_c" stoichiometry="1" constant="true"/>
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+          <fbc:geneProductRef fbc:geneProduct="G_b2954"/>
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+            <fbc:geneProductRef fbc:geneProduct="G_b1377"/>
+            <fbc:geneProductRef fbc:geneProduct="G_b2215"/>
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+          <speciesReference species="M_ura_c" stoichiometry="1" constant="true"/>
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+            <fbc:geneProductRef fbc:geneProduct="G_b0651"/>
+            <fbc:geneProductRef fbc:geneProduct="G_b0030"/>
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+        </fbc:geneProductAssociation>
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+        <listOfProducts>
+          <speciesReference species="M_allul6p_c" stoichiometry="1" constant="true"/>
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+        <fbc:geneProductAssociation>
+          <fbc:geneProductRef fbc:geneProduct="G_b4090"/>
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+                  <rdf:li rdf:resource="http://identifiers.org/seed.reaction/rxn02552"/>
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+          <speciesReference species="M_atp_c" stoichiometry="1" constant="true"/>
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+          <fbc:geneProductRef fbc:geneProduct="G_b4085"/>
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+                  <rdf:li rdf:resource="http://identifiers.org/seed.reaction/rxn09786"/>
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+          <speciesReference species="M_ade_p" stoichiometry="1" constant="true"/>
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+            <fbc:geneProductRef fbc:geneProduct="G_b1377"/>
+            <fbc:geneProductRef fbc:geneProduct="G_b2215"/>
+          </fbc:or>
+        </fbc:geneProductAssociation>
+      </reaction>
+      <reaction id="R_ADNtex" fast="false" reversible="true" name="Adenosine transport via diffusion (extracellular to periplasm)" metaid="R_ADNtex" sboTerm="SBO:0000185" fbc:upperFluxBound="cobra_default_ub" fbc:lowerFluxBound="cobra_default_lb">
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+              <bqbiol:is xmlns:bqbiol="http://biomodels.net/biology-qualifiers/">
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+                  <rdf:li rdf:resource="http://identifiers.org/seed.reaction/rxn08069"/>
+                  <rdf:li rdf:resource="http://identifiers.org/seed.reaction/rxn11000"/>
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+        <listOfProducts>
+          <speciesReference species="M_adn_p" stoichiometry="1" constant="true"/>
+        </listOfProducts>
+        <fbc:geneProductAssociation>
+          <fbc:geneProductRef fbc:geneProduct="G_b0411"/>
+        </fbc:geneProductAssociation>
+      </reaction>
+      <reaction id="R_NADPHQR2" fast="false" reversible="false" name="NADPH Quinone Reductase (Ubiquinone-8)" metaid="R_NADPHQR2" sboTerm="SBO:0000176" fbc:upperFluxBound="cobra_default_ub" fbc:lowerFluxBound="cobra_0_bound">
+        <sbml:annotation xmlns:sbml="http://www.sbml.org/sbml/level3/version1/core">
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+                  <rdf:li rdf:resource="http://identifiers.org/rhea/29112"/>
+                  <rdf:li rdf:resource="http://identifiers.org/rhea/29113"/>
+                  <rdf:li rdf:resource="http://identifiers.org/rhea/29111"/>
+                  <rdf:li rdf:resource="http://identifiers.org/seed.reaction/rxn08977"/>
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+          <speciesReference species="M_nadph_c" stoichiometry="1" constant="true"/>
+          <speciesReference species="M_q8_c" stoichiometry="1" constant="true"/>
+        </listOfReactants>
+        <listOfProducts>
+          <speciesReference species="M_nadp_c" stoichiometry="1" constant="true"/>
+          <speciesReference species="M_q8h2_c" stoichiometry="1" constant="true"/>
+        </listOfProducts>
+        <fbc:geneProductAssociation>
+          <fbc:geneProductRef fbc:geneProduct="G_b3028"/>
+        </fbc:geneProductAssociation>
+      </reaction>
+      <reaction id="R_NADPHQR3" fast="false" reversible="false" name="NADPH Quinone Reductase (Menaquinone-8)" metaid="R_NADPHQR3" sboTerm="SBO:0000176" fbc:upperFluxBound="cobra_default_ub" fbc:lowerFluxBound="cobra_0_bound">
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+                  <rdf:li rdf:resource="http://identifiers.org/rhea/29115"/>
+                  <rdf:li rdf:resource="http://identifiers.org/rhea/29117"/>
+                  <rdf:li rdf:resource="http://identifiers.org/rhea/29118"/>
+                  <rdf:li rdf:resource="http://identifiers.org/seed.reaction/rxn08978"/>
+                </rdf:Bag>
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+            </rdf:Description>
+          </rdf:RDF>
+        </sbml:annotation>
+        <listOfReactants>
+          <speciesReference species="M_h_c" stoichiometry="1" constant="true"/>
+          <speciesReference species="M_mqn8_c" stoichiometry="1" constant="true"/>
+          <speciesReference species="M_nadph_c" stoichiometry="1" constant="true"/>
+        </listOfReactants>
+        <listOfProducts>
+          <speciesReference species="M_mql8_c" stoichiometry="1" constant="true"/>
+          <speciesReference species="M_nadp_c" stoichiometry="1" constant="true"/>
+        </listOfProducts>
+        <fbc:geneProductAssociation>
+          <fbc:geneProductRef fbc:geneProduct="G_b3028"/>
+        </fbc:geneProductAssociation>
+      </reaction>
+      <reaction id="R_NADPHQR4" fast="false" reversible="false" name="NADPH Quinone Reductase (2-Demethylmenaquinone-8)" metaid="R_NADPHQR4" sboTerm="SBO:0000176" fbc:upperFluxBound="cobra_default_ub" fbc:lowerFluxBound="cobra_0_bound">
+        <sbml:annotation xmlns:sbml="http://www.sbml.org/sbml/level3/version1/core">
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+                <rdf:Bag>
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+                  <rdf:li rdf:resource="http://identifiers.org/metanetx.reaction/MNXR101893"/>
+                  <rdf:li rdf:resource="http://identifiers.org/rhea/30511"/>
+                  <rdf:li rdf:resource="http://identifiers.org/rhea/30513"/>
+                  <rdf:li rdf:resource="http://identifiers.org/rhea/30514"/>
+                  <rdf:li rdf:resource="http://identifiers.org/rhea/30512"/>
+                  <rdf:li rdf:resource="http://identifiers.org/seed.reaction/rxn08979"/>
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+            </rdf:Description>
+          </rdf:RDF>
+        </sbml:annotation>
+        <listOfReactants>
+          <speciesReference species="M_2dmmq8_c" stoichiometry="1" constant="true"/>
+          <speciesReference species="M_h_c" stoichiometry="1" constant="true"/>
+          <speciesReference species="M_nadph_c" stoichiometry="1" constant="true"/>
+        </listOfReactants>
+        <listOfProducts>
+          <speciesReference species="M_2dmmql8_c" stoichiometry="1" constant="true"/>
+          <speciesReference species="M_nadp_c" stoichiometry="1" constant="true"/>
+        </listOfProducts>
+        <fbc:geneProductAssociation>
+          <fbc:geneProductRef fbc:geneProduct="G_b3028"/>
+        </fbc:geneProductAssociation>
+      </reaction>
+      <reaction id="R_GLBRAN2" fast="false" reversible="false" name="1,4-alpha-glucan branching enzyme (glycogen -&gt; bglycogen)" metaid="R_GLBRAN2" sboTerm="SBO:0000176" fbc:upperFluxBound="cobra_default_ub" fbc:lowerFluxBound="cobra_0_bound">
+        <sbml:annotation xmlns:sbml="http://www.sbml.org/sbml/level3/version1/core">
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+            <rdf:Description rdf:about="#R_GLBRAN2">
+              <bqbiol:is xmlns:bqbiol="http://biomodels.net/biology-qualifiers/">
+                <rdf:Bag>
+                  <rdf:li rdf:resource="http://identifiers.org/bigg.reaction/GLBRAN2"/>
+                  <rdf:li rdf:resource="http://identifiers.org/ec-code/2.4.1.18"/>
+                  <rdf:li rdf:resource="http://identifiers.org/metanetx.reaction/MNXR100155"/>
+                  <rdf:li rdf:resource="http://identifiers.org/seed.reaction/rxn08605"/>
+                </rdf:Bag>
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+            </rdf:Description>
+          </rdf:RDF>
+        </sbml:annotation>
+        <listOfReactants>
+          <speciesReference species="M_glycogen_c" stoichiometry="1" constant="true"/>
+        </listOfReactants>
+        <listOfProducts>
+          <speciesReference species="M_bglycogen_c" stoichiometry="1" constant="true"/>
+        </listOfProducts>
+        <fbc:geneProductAssociation>
+          <fbc:geneProductRef fbc:geneProduct="G_b3432"/>
+        </fbc:geneProductAssociation>
+      </reaction>
+      <reaction id="R_ASR" fast="false" reversible="false" name="Arsenate reductase" metaid="R_ASR" sboTerm="SBO:0000176" fbc:upperFluxBound="cobra_default_ub" fbc:lowerFluxBound="cobra_0_bound">
+        <sbml:annotation xmlns:sbml="http://www.sbml.org/sbml/level3/version1/core">
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+              <bqbiol:is xmlns:bqbiol="http://biomodels.net/biology-qualifiers/">
+                <rdf:Bag>
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+                  <rdf:li rdf:resource="http://identifiers.org/ec-code/1.20.4.1"/>
+                  <rdf:li rdf:resource="http://identifiers.org/metanetx.reaction/MNXR96113"/>
+                  <rdf:li rdf:resource="http://identifiers.org/seed.reaction/rxn08171"/>
+                </rdf:Bag>
+              </bqbiol:is>
+            </rdf:Description>
+          </rdf:RDF>
+        </sbml:annotation>
+        <listOfReactants>
+          <speciesReference species="M_aso4_c" stoichiometry="1" constant="true"/>
+          <speciesReference species="M_gthrd_c" stoichiometry="2" constant="true"/>
+        </listOfReactants>
+        <listOfProducts>
+          <speciesReference species="M_aso3_c" stoichiometry="1" constant="true"/>
+          <speciesReference species="M_gthox_c" stoichiometry="1" constant="true"/>
+          <speciesReference species="M_h2o_c" stoichiometry="1" constant="true"/>
+        </listOfProducts>
+        <fbc:geneProductAssociation>
+          <fbc:and>
+            <fbc:geneProductRef fbc:geneProduct="G_b1064"/>
+            <fbc:geneProductRef fbc:geneProduct="G_b3503"/>
+          </fbc:and>
+        </fbc:geneProductAssociation>
+      </reaction>
+      <reaction id="R_ASO3tex" fast="false" reversible="true" name="Arsenite transport via diffusion (extracellular to periplasm)" metaid="R_ASO3tex" sboTerm="SBO:0000185" fbc:upperFluxBound="cobra_default_ub" fbc:lowerFluxBound="cobra_default_lb">
+        <sbml:annotation xmlns:sbml="http://www.sbml.org/sbml/level3/version1/core">
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+            <rdf:Description rdf:about="#R_ASO3tex">
+              <bqbiol:is xmlns:bqbiol="http://biomodels.net/biology-qualifiers/">
+                <rdf:Bag>
+                  <rdf:li rdf:resource="http://identifiers.org/bigg.reaction/ASO3tex"/>
+                  <rdf:li rdf:resource="http://identifiers.org/biocyc/META:TRANS-RXN0-551"/>
+                  <rdf:li rdf:resource="http://identifiers.org/metanetx.reaction/MNXR96073"/>
+                  <rdf:li rdf:resource="http://identifiers.org/seed.reaction/rxn05507"/>
+                  <rdf:li rdf:resource="http://identifiers.org/seed.reaction/rxn08164"/>
+                </rdf:Bag>
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+            </rdf:Description>
+          </rdf:RDF>
+        </sbml:annotation>
+        <listOfReactants>
+          <speciesReference species="M_aso3_e" stoichiometry="1" constant="true"/>
+        </listOfReactants>
+        <listOfProducts>
+          <speciesReference species="M_aso3_p" stoichiometry="1" constant="true"/>
+        </listOfProducts>
+        <fbc:geneProductAssociation>
+          <fbc:or>
+            <fbc:geneProductRef fbc:geneProduct="G_b0241"/>
+            <fbc:geneProductRef fbc:geneProduct="G_b0929"/>
+            <fbc:geneProductRef fbc:geneProduct="G_b1377"/>
+            <fbc:geneProductRef fbc:geneProduct="G_b2215"/>
+          </fbc:or>
+        </fbc:geneProductAssociation>
+      </reaction>
+      <reaction id="R_AGMtex" fast="false" reversible="true" name="Agmatine transport via diffusion (extracellular to periplasm)" metaid="R_AGMtex" sboTerm="SBO:0000185" fbc:upperFluxBound="cobra_default_ub" fbc:lowerFluxBound="cobra_default_lb">
+        <sbml:annotation xmlns:sbml="http://www.sbml.org/sbml/level3/version1/core">
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+            <rdf:Description rdf:about="#R_AGMtex">
+              <bqbiol:is xmlns:bqbiol="http://biomodels.net/biology-qualifiers/">
+                <rdf:Bag>
+                  <rdf:li rdf:resource="http://identifiers.org/bigg.reaction/AGMtex"/>
+                  <rdf:li rdf:resource="http://identifiers.org/metanetx.reaction/MNXR95556"/>
+                  <rdf:li rdf:resource="http://identifiers.org/seed.reaction/rxn08082"/>
+                </rdf:Bag>
+              </bqbiol:is>
+            </rdf:Description>
+          </rdf:RDF>
+        </sbml:annotation>
+        <listOfReactants>
+          <speciesReference species="M_agm_e" stoichiometry="1" constant="true"/>
+        </listOfReactants>
+        <listOfProducts>
+          <speciesReference species="M_agm_p" stoichiometry="1" constant="true"/>
+        </listOfProducts>
+        <fbc:geneProductAssociation>
+          <fbc:or>
+            <fbc:geneProductRef fbc:geneProduct="G_b0241"/>
+            <fbc:geneProductRef fbc:geneProduct="G_b0929"/>
+            <fbc:geneProductRef fbc:geneProduct="G_b1377"/>
+            <fbc:geneProductRef fbc:geneProduct="G_b2215"/>
+          </fbc:or>
+        </fbc:geneProductAssociation>
+      </reaction>
+      <reaction id="R_ALAtex" fast="false" reversible="true" name="L-alanine transport via diffusion (extracellular to periplasm)" metaid="R_ALAtex" sboTerm="SBO:0000185" fbc:upperFluxBound="cobra_default_ub" fbc:lowerFluxBound="cobra_default_lb">
+        <sbml:annotation xmlns:sbml="http://www.sbml.org/sbml/level3/version1/core">
+          <rdf:RDF xmlns:rdf="http://www.w3.org/1999/02/22-rdf-syntax-ns#">
+            <rdf:Description rdf:about="#R_ALAtex">
+              <bqbiol:is xmlns:bqbiol="http://biomodels.net/biology-qualifiers/">
+                <rdf:Bag>
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+                  <rdf:li rdf:resource="http://identifiers.org/metanetx.reaction/MNXR95706"/>
+                  <rdf:li rdf:resource="http://identifiers.org/sabiork/10375"/>
+                  <rdf:li rdf:resource="http://identifiers.org/seed.reaction/rxn08104"/>
+                  <rdf:li rdf:resource="http://identifiers.org/seed.reaction/rxn10921"/>
+                  <rdf:li rdf:resource="http://identifiers.org/seed.reaction/rxn13221"/>
+                </rdf:Bag>
+              </bqbiol:is>
+            </rdf:Description>
+          </rdf:RDF>
+        </sbml:annotation>
+        <listOfReactants>
+          <speciesReference species="M_ala__L_e" stoichiometry="1" constant="true"/>
+        </listOfReactants>
+        <listOfProducts>
+          <speciesReference species="M_ala__L_p" stoichiometry="1" constant="true"/>
+        </listOfProducts>
+        <fbc:geneProductAssociation>
+          <fbc:or>
+            <fbc:geneProductRef fbc:geneProduct="G_b0241"/>
+            <fbc:geneProductRef fbc:geneProduct="G_b1377"/>
+            <fbc:geneProductRef fbc:geneProduct="G_b2215"/>
+            <fbc:geneProductRef fbc:geneProduct="G_b0929"/>
+          </fbc:or>
+        </fbc:geneProductAssociation>
+      </reaction>
+      <reaction id="R_BALAtex" fast="false" reversible="true" name="Beta-alanine transport via diffusion (extracellular to periplasm)" metaid="R_BALAtex" sboTerm="SBO:0000185" fbc:upperFluxBound="cobra_default_ub" fbc:lowerFluxBound="cobra_default_lb">
+        <sbml:annotation xmlns:sbml="http://www.sbml.org/sbml/level3/version1/core">
+          <rdf:RDF xmlns:rdf="http://www.w3.org/1999/02/22-rdf-syntax-ns#">
+            <rdf:Description rdf:about="#R_BALAtex">
+              <bqbiol:is xmlns:bqbiol="http://biomodels.net/biology-qualifiers/">
+                <rdf:Bag>
+                  <rdf:li rdf:resource="http://identifiers.org/bigg.reaction/BALAtex"/>
+                  <rdf:li rdf:resource="http://identifiers.org/metanetx.reaction/MNXR95682"/>
+                  <rdf:li rdf:resource="http://identifiers.org/reactome.reaction/R-RNO-909763"/>
+                  <rdf:li rdf:resource="http://identifiers.org/reactome.reaction/R-HSA-909765"/>
+                  <rdf:li rdf:resource="http://identifiers.org/seed.reaction/rxn08175"/>
+                </rdf:Bag>
+              </bqbiol:is>
+            </rdf:Description>
+          </rdf:RDF>
+        </sbml:annotation>
+        <listOfReactants>
+          <speciesReference species="M_ala_B_e" stoichiometry="1" constant="true"/>
+        </listOfReactants>
+        <listOfProducts>
+          <speciesReference species="M_ala_B_p" stoichiometry="1" constant="true"/>
+        </listOfProducts>
+        <fbc:geneProductAssociation>
+          <fbc:or>
+            <fbc:geneProductRef fbc:geneProduct="G_b0241"/>
+            <fbc:geneProductRef fbc:geneProduct="G_b0929"/>
+            <fbc:geneProductRef fbc:geneProduct="G_b1377"/>
+            <fbc:geneProductRef fbc:geneProduct="G_b2215"/>
+          </fbc:or>
+        </fbc:geneProductAssociation>
+      </reaction>
+      <reaction id="R_DALAtex" fast="false" reversible="true" name="D-Alanine transport via diffusion (extracellular to periplasm)" metaid="R_DALAtex" sboTerm="SBO:0000185" fbc:upperFluxBound="cobra_default_ub" fbc:lowerFluxBound="cobra_default_lb">
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+            <rdf:Description rdf:about="#R_DALAtex">
+              <bqbiol:is xmlns:bqbiol="http://biomodels.net/biology-qualifiers/">
+                <rdf:Bag>
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+                  <rdf:li rdf:resource="http://identifiers.org/metanetx.reaction/MNXR95702"/>
+                  <rdf:li rdf:resource="http://identifiers.org/seed.reaction/rxn08302"/>
+                  <rdf:li rdf:resource="http://identifiers.org/seed.reaction/rxn10991"/>
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+            </rdf:Description>
+          </rdf:RDF>
+        </sbml:annotation>
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+          <speciesReference species="M_ala__D_e" stoichiometry="1" constant="true"/>
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+        <listOfProducts>
+          <speciesReference species="M_ala__D_p" stoichiometry="1" constant="true"/>
+        </listOfProducts>
+        <fbc:geneProductAssociation>
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+            <fbc:geneProductRef fbc:geneProduct="G_b0929"/>
+            <fbc:geneProductRef fbc:geneProduct="G_b1377"/>
+            <fbc:geneProductRef fbc:geneProduct="G_b2215"/>
+          </fbc:or>
+        </fbc:geneProductAssociation>
+      </reaction>
+      <reaction id="R_MANGLYCtex" fast="false" reversible="true" name="2-O-alpha-mannosyl-D-glycerate transport via diffusion (extracellular to periplasm)" metaid="R_MANGLYCtex" sboTerm="SBO:0000185" fbc:upperFluxBound="cobra_default_ub" fbc:lowerFluxBound="cobra_default_lb">
+        <sbml:annotation xmlns:sbml="http://www.sbml.org/sbml/level3/version1/core">
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+              <bqbiol:is xmlns:bqbiol="http://biomodels.net/biology-qualifiers/">
+                <rdf:Bag>
+                  <rdf:li rdf:resource="http://identifiers.org/bigg.reaction/MANGLYCtex"/>
+                  <rdf:li rdf:resource="http://identifiers.org/metanetx.reaction/MNXR101395"/>
+                  <rdf:li rdf:resource="http://identifiers.org/seed.reaction/rxn08883"/>
+                </rdf:Bag>
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+            </rdf:Description>
+          </rdf:RDF>
+        </sbml:annotation>
+        <listOfReactants>
+          <speciesReference species="M_manglyc_e" stoichiometry="1" constant="true"/>
+        </listOfReactants>
+        <listOfProducts>
+          <speciesReference species="M_manglyc_p" stoichiometry="1" constant="true"/>
+        </listOfProducts>
+        <fbc:geneProductAssociation>
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+            <fbc:geneProductRef fbc:geneProduct="G_b0929"/>
+            <fbc:geneProductRef fbc:geneProduct="G_b1377"/>
+            <fbc:geneProductRef fbc:geneProduct="G_b2215"/>
+          </fbc:or>
+        </fbc:geneProductAssociation>
+      </reaction>
+      <reaction id="R_EX_frulys_e" fast="false" reversible="false" name="Fructoselysine exchange" metaid="R_EX_frulys_e" sboTerm="SBO:0000627" fbc:upperFluxBound="cobra_default_ub" fbc:lowerFluxBound="cobra_0_bound">
+        <sbml:annotation xmlns:sbml="http://www.sbml.org/sbml/level3/version1/core">
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+            <rdf:Description rdf:about="#R_EX_frulys_e">
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+                  <rdf:li rdf:resource="http://identifiers.org/rhea/28455"/>
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+                  <rdf:li rdf:resource="http://identifiers.org/rhea/28454"/>
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+        </sbml:annotation>
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+        </listOfReactants>
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+                  <rdf:li rdf:resource="http://identifiers.org/seed.reaction/rxn13227"/>
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+            <fbc:geneProductRef fbc:geneProduct="G_b0241"/>
+            <fbc:geneProductRef fbc:geneProduct="G_b0929"/>
+            <fbc:geneProductRef fbc:geneProduct="G_b1377"/>
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+        </fbc:geneProductAssociation>
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+      <reaction id="R_METOX1s" fast="false" reversible="false" name="Methionine oxidation (spontaneous)" metaid="R_METOX1s" sboTerm="SBO:0000176" fbc:upperFluxBound="cobra_default_ub" fbc:lowerFluxBound="cobra_0_bound">
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+                  <rdf:li rdf:resource="http://identifiers.org/seed.reaction/rxn09942"/>
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+          <speciesReference species="M_met__L_c" stoichiometry="1" constant="true"/>
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+        <listOfProducts>
+          <speciesReference species="M_h2o_c" stoichiometry="1" constant="true"/>
+          <speciesReference species="M_metsox_S__L_c" stoichiometry="1" constant="true"/>
+        </listOfProducts>
+        <fbc:geneProductAssociation>
+          <fbc:geneProductRef fbc:geneProduct="G_s0001"/>
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+      <reaction id="R_XTSNH" fast="false" reversible="false" name="Xanthosine hydrolase" metaid="R_XTSNH" sboTerm="SBO:0000176" fbc:upperFluxBound="cobra_default_ub" fbc:lowerFluxBound="cobra_0_bound">
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+                  <rdf:li rdf:resource="http://identifiers.org/rhea/27994"/>
+                  <rdf:li rdf:resource="http://identifiers.org/rhea/27995"/>
+                  <rdf:li rdf:resource="http://identifiers.org/rhea/27997"/>
+                  <rdf:li rdf:resource="http://identifiers.org/rhea/27996"/>
+                  <rdf:li rdf:resource="http://identifiers.org/seed.reaction/rxn01545"/>
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+          <speciesReference species="M_xtsn_c" stoichiometry="1" constant="true"/>
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+        <listOfProducts>
+          <speciesReference species="M_rib__D_c" stoichiometry="1" constant="true"/>
+          <speciesReference species="M_xan_c" stoichiometry="1" constant="true"/>
+        </listOfProducts>
+        <fbc:geneProductAssociation>
+          <fbc:geneProductRef fbc:geneProduct="G_b0030"/>
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+      <reaction id="R_METOX2s" fast="false" reversible="false" name="Methionine oxidation 2 (spontaneous)" metaid="R_METOX2s" sboTerm="SBO:0000176" fbc:upperFluxBound="cobra_default_ub" fbc:lowerFluxBound="cobra_0_bound">
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+                  <rdf:li rdf:resource="http://identifiers.org/seed.reaction/rxn08913"/>
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+          <speciesReference species="M_met__L_c" stoichiometry="1" constant="true"/>
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+        <listOfProducts>
+          <speciesReference species="M_h2o_c" stoichiometry="1" constant="true"/>
+          <speciesReference species="M_metsox_R__L_c" stoichiometry="1" constant="true"/>
+        </listOfProducts>
+        <fbc:geneProductAssociation>
+          <fbc:geneProductRef fbc:geneProduct="G_s0001"/>
+        </fbc:geneProductAssociation>
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+      <reaction id="R_FRUURt2rpp" fast="false" reversible="true" name="D-fructuronate transport via proton symport, reversible (periplasm)" metaid="R_FRUURt2rpp" sboTerm="SBO:0000185" fbc:upperFluxBound="cobra_default_ub" fbc:lowerFluxBound="cobra_default_lb">
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+                  <rdf:li rdf:resource="http://identifiers.org/rhea/28871"/>
+                  <rdf:li rdf:resource="http://identifiers.org/rhea/28873"/>
+                  <rdf:li rdf:resource="http://identifiers.org/rhea/28872"/>
+                  <rdf:li rdf:resource="http://identifiers.org/rhea/28874"/>
+                  <rdf:li rdf:resource="http://identifiers.org/seed.reaction/rxn08538"/>
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+        <listOfProducts>
+          <speciesReference species="M_fruur_c" stoichiometry="1" constant="true"/>
+          <speciesReference species="M_h_c" stoichiometry="1" constant="true"/>
+        </listOfProducts>
+        <fbc:geneProductAssociation>
+          <fbc:geneProductRef fbc:geneProduct="G_b4321"/>
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+        <sbml:annotation xmlns:sbml="http://www.sbml.org/sbml/level3/version1/core">
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+                  <rdf:li rdf:resource="http://identifiers.org/metanetx.reaction/MNXR99659"/>
+                  <rdf:li rdf:resource="http://identifiers.org/seed.reaction/rxn08539"/>
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+        <listOfProducts>
+          <speciesReference species="M_fruur_p" stoichiometry="1" constant="true"/>
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+            <fbc:geneProductRef fbc:geneProduct="G_b0241"/>
+            <fbc:geneProductRef fbc:geneProduct="G_b0929"/>
+            <fbc:geneProductRef fbc:geneProduct="G_b1377"/>
+            <fbc:geneProductRef fbc:geneProduct="G_b2215"/>
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+        </fbc:geneProductAssociation>
+      </reaction>
+      <reaction id="R_ARBtex" fast="false" reversible="true" name="L-arabinose transport via diffusion (extracellular to periplasm)" metaid="R_ARBtex" sboTerm="SBO:0000185" fbc:upperFluxBound="cobra_default_ub" fbc:lowerFluxBound="cobra_default_lb">
+        <sbml:annotation xmlns:sbml="http://www.sbml.org/sbml/level3/version1/core">
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+              <bqbiol:is xmlns:bqbiol="http://biomodels.net/biology-qualifiers/">
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+                  <rdf:li rdf:resource="http://identifiers.org/metanetx.reaction/MNXR95913"/>
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+          <speciesReference species="M_arab__L_e" stoichiometry="1" constant="true"/>
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+        <listOfProducts>
+          <speciesReference species="M_arab__L_p" stoichiometry="1" constant="true"/>
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+            <fbc:geneProductRef fbc:geneProduct="G_b2215"/>
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+        </fbc:geneProductAssociation>
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+        <sbml:annotation xmlns:sbml="http://www.sbml.org/sbml/level3/version1/core">
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+                  <rdf:li rdf:resource="http://identifiers.org/rhea/32143"/>
+                  <rdf:li rdf:resource="http://identifiers.org/rhea/32144"/>
+                  <rdf:li rdf:resource="http://identifiers.org/rhea/32146"/>
+                  <rdf:li rdf:resource="http://identifiers.org/sabiork/7983"/>
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+        <listOfProducts>
+          <speciesReference species="M_arg__L_p" stoichiometry="1" constant="true"/>
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+            <fbc:geneProductRef fbc:geneProduct="G_b0929"/>
+            <fbc:geneProductRef fbc:geneProduct="G_b1377"/>
+            <fbc:geneProductRef fbc:geneProduct="G_b2215"/>
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+        </fbc:geneProductAssociation>
+      </reaction>
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+          <speciesReference species="M_ins_c" stoichiometry="1" constant="true"/>
+        </listOfReactants>
+        <listOfProducts>
+          <speciesReference species="M_hxan_c" stoichiometry="1" constant="true"/>
+          <speciesReference species="M_rib__D_c" stoichiometry="1" constant="true"/>
+        </listOfProducts>
+        <fbc:geneProductAssociation>
+          <fbc:geneProductRef fbc:geneProduct="G_b0030"/>
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+          <speciesReference species="M_ascb__L_p" stoichiometry="1" constant="true"/>
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+            <fbc:geneProductRef fbc:geneProduct="G_b1377"/>
+            <fbc:geneProductRef fbc:geneProduct="G_b2215"/>
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+        </fbc:geneProductAssociation>
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+                <rdf:Bag>
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+          <speciesReference species="M_coa_c" stoichiometry="1" constant="true"/>
+          <speciesReference species="M_dca_p" stoichiometry="1" constant="true"/>
+          <speciesReference species="M_h_p" stoichiometry="1" constant="true"/>
+        </listOfReactants>
+        <listOfProducts>
+          <speciesReference species="M_amp_c" stoichiometry="1" constant="true"/>
+          <speciesReference species="M_dcacoa_c" stoichiometry="1" constant="true"/>
+          <speciesReference species="M_h_c" stoichiometry="1" constant="true"/>
+          <speciesReference species="M_ppi_c" stoichiometry="1" constant="true"/>
+        </listOfProducts>
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+            <fbc:geneProductRef fbc:geneProduct="G_b1805"/>
+            <fbc:geneProductRef fbc:geneProduct="G_b1701"/>
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+        </fbc:geneProductAssociation>
+      </reaction>
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+                  <rdf:li rdf:resource="http://identifiers.org/rhea/29904#1"/>
+                  <rdf:li rdf:resource="http://identifiers.org/rhea/29905#1"/>
+                  <rdf:li rdf:resource="http://identifiers.org/rhea/29903#1"/>
+                  <rdf:li rdf:resource="http://identifiers.org/rhea/29906#1"/>
+                  <rdf:li rdf:resource="http://identifiers.org/seed.reaction/rxn05160"/>
+                  <rdf:li rdf:resource="http://identifiers.org/seed.reaction/rxn09227"/>
+                </rdf:Bag>
+              </bqbiol:is>
+            </rdf:Description>
+          </rdf:RDF>
+        </sbml:annotation>
+        <listOfReactants>
+          <speciesReference species="M_atp_c" stoichiometry="1" constant="true"/>
+          <speciesReference species="M_h2o_c" stoichiometry="1" constant="true"/>
+          <speciesReference species="M_rib__D_p" stoichiometry="1" constant="true"/>
+        </listOfReactants>
+        <listOfProducts>
+          <speciesReference species="M_adp_c" stoichiometry="1" constant="true"/>
+          <speciesReference species="M_h_c" stoichiometry="1" constant="true"/>
+          <speciesReference species="M_pi_c" stoichiometry="1" constant="true"/>
+          <speciesReference species="M_rib__D_c" stoichiometry="1" constant="true"/>
+        </listOfProducts>
+        <fbc:geneProductAssociation>
+          <fbc:or>
+            <fbc:and>
+              <fbc:geneProductRef fbc:geneProduct="G_b4230"/>
+              <fbc:geneProductRef fbc:geneProduct="G_b4227"/>
+              <fbc:geneProductRef fbc:geneProduct="G_b4485"/>
+              <fbc:geneProductRef fbc:geneProduct="G_b4231"/>
+            </fbc:and>
+            <fbc:and>
+              <fbc:geneProductRef fbc:geneProduct="G_b3750"/>
+              <fbc:geneProductRef fbc:geneProduct="G_b3751"/>
+              <fbc:geneProductRef fbc:geneProduct="G_b3749"/>
+              <fbc:geneProductRef fbc:geneProduct="G_b3748"/>
+            </fbc:and>
+            <fbc:and>
+              <fbc:geneProductRef fbc:geneProduct="G_b4088"/>
+              <fbc:geneProductRef fbc:geneProduct="G_b4086"/>
+              <fbc:geneProductRef fbc:geneProduct="G_b4087"/>
+            </fbc:and>
+          </fbc:or>
+        </fbc:geneProductAssociation>
+      </reaction>
+      <reaction id="R_ECAtpp" fast="false" reversible="false" name="Enterobacterial common antigen transferase (flippase, cytoplasm to periplasm)" metaid="R_ECAtpp" sboTerm="SBO:0000185" fbc:upperFluxBound="cobra_default_ub" fbc:lowerFluxBound="cobra_0_bound">
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+              <bqbiol:is xmlns:bqbiol="http://biomodels.net/biology-qualifiers/">
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+                  <rdf:li rdf:resource="http://identifiers.org/biocyc/META:TRANS-RXN0-279"/>
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+                  <rdf:li rdf:resource="http://identifiers.org/seed.reaction/rxn08411"/>
+                </rdf:Bag>
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+            </rdf:Description>
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+        </sbml:annotation>
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+          <speciesReference species="M_unagamuf_c" stoichiometry="1" constant="true"/>
+        </listOfReactants>
+        <listOfProducts>
+          <speciesReference species="M_unagamuf_p" stoichiometry="1" constant="true"/>
+        </listOfProducts>
+        <fbc:geneProductAssociation>
+          <fbc:geneProductRef fbc:geneProduct="G_b3792"/>
+        </fbc:geneProductAssociation>
+      </reaction>
+      <reaction id="R_O16AT" fast="false" reversible="false" name="Rhamanosyl-N-acetylglucosamyl-undecaprenyl diphosphate O-acetyltransferase (LPS O16 antigen biosynthesis)" metaid="R_O16AT" sboTerm="SBO:0000176" fbc:upperFluxBound="cobra_default_ub" fbc:lowerFluxBound="cobra_0_bound">
+        <sbml:annotation xmlns:sbml="http://www.sbml.org/sbml/level3/version1/core">
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+            <rdf:Description rdf:about="#R_O16AT">
+              <bqbiol:is xmlns:bqbiol="http://biomodels.net/biology-qualifiers/">
+                <rdf:Bag>
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+                  <rdf:li rdf:resource="http://identifiers.org/metanetx.reaction/MNXR102081"/>
+                  <rdf:li rdf:resource="http://identifiers.org/seed.reaction/rxn09025"/>
+                </rdf:Bag>
+              </bqbiol:is>
+            </rdf:Description>
+          </rdf:RDF>
+        </sbml:annotation>
+        <listOfReactants>
+          <speciesReference species="M_accoa_c" stoichiometry="1" constant="true"/>
+          <speciesReference species="M_ragund_c" stoichiometry="1" constant="true"/>
+        </listOfReactants>
+        <listOfProducts>
+          <speciesReference species="M_aragund_c" stoichiometry="1" constant="true"/>
+          <speciesReference species="M_coa_c" stoichiometry="1" constant="true"/>
+        </listOfProducts>
+        <fbc:geneProductAssociation>
+          <fbc:geneProductRef fbc:geneProduct="G_b2033"/>
+        </fbc:geneProductAssociation>
+      </reaction>
+      <reaction id="R_O16GALFT" fast="false" reversible="false" name="Galactofuranosyltransferase (LPS O16 antigen biosynthesis)" metaid="R_O16GALFT" sboTerm="SBO:0000176" fbc:upperFluxBound="cobra_default_ub" fbc:lowerFluxBound="cobra_0_bound">
+        <sbml:annotation xmlns:sbml="http://www.sbml.org/sbml/level3/version1/core">
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+            <rdf:Description rdf:about="#R_O16GALFT">
+              <bqbiol:is xmlns:bqbiol="http://biomodels.net/biology-qualifiers/">
+                <rdf:Bag>
+                  <rdf:li rdf:resource="http://identifiers.org/bigg.reaction/O16GALFT"/>
+                  <rdf:li rdf:resource="http://identifiers.org/metanetx.reaction/MNXR102085"/>
+                  <rdf:li rdf:resource="http://identifiers.org/seed.reaction/rxn09027"/>
+                </rdf:Bag>
+              </bqbiol:is>
+            </rdf:Description>
+          </rdf:RDF>
+        </sbml:annotation>
+        <listOfReactants>
+          <speciesReference species="M_garagund_c" stoichiometry="1" constant="true"/>
+          <speciesReference species="M_udpgalfur_c" stoichiometry="1" constant="true"/>
+        </listOfReactants>
+        <listOfProducts>
+          <speciesReference species="M_gfgaragund_c" stoichiometry="1" constant="true"/>
+          <speciesReference species="M_h_c" stoichiometry="1" constant="true"/>
+          <speciesReference species="M_udp_c" stoichiometry="1" constant="true"/>
+        </listOfProducts>
+        <fbc:geneProductAssociation>
+          <fbc:geneProductRef fbc:geneProduct="G_b2034"/>
+        </fbc:geneProductAssociation>
+      </reaction>
+      <reaction id="R_O16GLCT2" fast="false" reversible="false" name="Glucosyltransferase II (LPS O16 antigen biosynthesis)" metaid="R_O16GLCT2" sboTerm="SBO:0000176" fbc:upperFluxBound="cobra_default_ub" fbc:lowerFluxBound="cobra_0_bound">
+        <sbml:annotation xmlns:sbml="http://www.sbml.org/sbml/level3/version1/core">
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+            <rdf:Description rdf:about="#R_O16GLCT2">
+              <bqbiol:is xmlns:bqbiol="http://biomodels.net/biology-qualifiers/">
+                <rdf:Bag>
+                  <rdf:li rdf:resource="http://identifiers.org/bigg.reaction/O16GLCT2"/>
+                  <rdf:li rdf:resource="http://identifiers.org/metanetx.reaction/MNXR143259"/>
+                  <rdf:li rdf:resource="http://identifiers.org/seed.reaction/rxn09029"/>
+                </rdf:Bag>
+              </bqbiol:is>
+            </rdf:Description>
+          </rdf:RDF>
+        </sbml:annotation>
+        <listOfReactants>
+          <speciesReference species="M_gfgaragund_c" stoichiometry="1" constant="true"/>
+          <speciesReference species="M_udpg_c" stoichiometry="1" constant="true"/>
+        </listOfReactants>
+        <listOfProducts>
+          <speciesReference species="M_h_c" stoichiometry="1" constant="true"/>
+          <speciesReference species="M_o16aund_c" stoichiometry="1" constant="true"/>
+          <speciesReference species="M_udp_c" stoichiometry="1" constant="true"/>
+        </listOfProducts>
+      </reaction>
+      <reaction id="R_O16AUNDtpp" fast="false" reversible="false" name="O16 antigen (flippase, cytoplasm to periplasm)" metaid="R_O16AUNDtpp" sboTerm="SBO:0000185" fbc:upperFluxBound="cobra_default_ub" fbc:lowerFluxBound="cobra_0_bound">
+        <sbml:annotation xmlns:sbml="http://www.sbml.org/sbml/level3/version1/core">
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+            <rdf:Description rdf:about="#R_O16AUNDtpp">
+              <bqbiol:is xmlns:bqbiol="http://biomodels.net/biology-qualifiers/">
+                <rdf:Bag>
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+                  <rdf:li rdf:resource="http://identifiers.org/metanetx.reaction/MNXR102082"/>
+                  <rdf:li rdf:resource="http://identifiers.org/seed.reaction/rxn09026"/>
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+              </bqbiol:is>
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+        </sbml:annotation>
+        <listOfReactants>
+          <speciesReference species="M_o16aund_c" stoichiometry="1" constant="true"/>
+        </listOfReactants>
+        <listOfProducts>
+          <speciesReference species="M_o16aund_p" stoichiometry="1" constant="true"/>
+        </listOfProducts>
+        <fbc:geneProductAssociation>
+          <fbc:geneProductRef fbc:geneProduct="G_b2037"/>
+        </fbc:geneProductAssociation>
+      </reaction>
+      <reaction id="R_O16AP1pp" fast="false" reversible="false" name="O16 antigen polymerase (periplasm)" metaid="R_O16AP1pp" sboTerm="SBO:0000176" fbc:upperFluxBound="cobra_default_ub" fbc:lowerFluxBound="cobra_0_bound">
+        <sbml:annotation xmlns:sbml="http://www.sbml.org/sbml/level3/version1/core">
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+            <rdf:Description rdf:about="#R_O16AP1pp">
+              <bqbiol:is xmlns:bqbiol="http://biomodels.net/biology-qualifiers/">
+                <rdf:Bag>
+                  <rdf:li rdf:resource="http://identifiers.org/bigg.reaction/O16AP1pp"/>
+                  <rdf:li rdf:resource="http://identifiers.org/metanetx.reaction/MNXR102078"/>
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+            </rdf:Description>
+          </rdf:RDF>
+        </sbml:annotation>
+        <listOfReactants>
+          <speciesReference species="M_o16aund_p" stoichiometry="2" constant="true"/>
+        </listOfReactants>
+        <listOfProducts>
+          <speciesReference species="M_h_p" stoichiometry="1" constant="true"/>
+          <speciesReference species="M_o16a2und_p" stoichiometry="1" constant="true"/>
+          <speciesReference species="M_udcpdp_p" stoichiometry="1" constant="true"/>
+        </listOfProducts>
+        <fbc:geneProductAssociation>
+          <fbc:and>
+            <fbc:geneProductRef fbc:geneProduct="G_b2027"/>
+            <fbc:geneProductRef fbc:geneProduct="G_b2035"/>
+          </fbc:and>
+        </fbc:geneProductAssociation>
+      </reaction>
+      <reaction id="R_GPDDA3pp" fast="false" reversible="false" name="Glycerophosphodiester phosphodiesterase (Glycerophosphoserine)" metaid="R_GPDDA3pp" sboTerm="SBO:0000176" fbc:upperFluxBound="cobra_default_ub" fbc:lowerFluxBound="cobra_0_bound">
+        <sbml:annotation xmlns:sbml="http://www.sbml.org/sbml/level3/version1/core">
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+            <rdf:Description rdf:about="#R_GPDDA3pp">
+              <bqbiol:is xmlns:bqbiol="http://biomodels.net/biology-qualifiers/">
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+                  <rdf:li rdf:resource="http://identifiers.org/biocyc/META:RXN-14136"/>
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+                  <rdf:li rdf:resource="http://identifiers.org/rhea/29877"/>
+                  <rdf:li rdf:resource="http://identifiers.org/rhea/29875"/>
+                  <rdf:li rdf:resource="http://identifiers.org/rhea/29878"/>
+                  <rdf:li rdf:resource="http://identifiers.org/rhea/29876"/>
+                  <rdf:li rdf:resource="http://identifiers.org/seed.reaction/rxn08668"/>
+                </rdf:Bag>
+              </bqbiol:is>
+            </rdf:Description>
+          </rdf:RDF>
+        </sbml:annotation>
+        <listOfReactants>
+          <speciesReference species="M_g3ps_p" stoichiometry="1" constant="true"/>
+          <speciesReference species="M_h2o_p" stoichiometry="1" constant="true"/>
+        </listOfReactants>
+        <listOfProducts>
+          <speciesReference species="M_glyc3p_p" stoichiometry="1" constant="true"/>
+          <speciesReference species="M_h_p" stoichiometry="1" constant="true"/>
+          <speciesReference species="M_ser__L_p" stoichiometry="1" constant="true"/>
+        </listOfProducts>
+        <fbc:geneProductAssociation>
+          <fbc:geneProductRef fbc:geneProduct="G_b2239"/>
+        </fbc:geneProductAssociation>
+      </reaction>
+      <reaction id="R_GPDDA4pp" fast="false" reversible="false" name="Glycerophosphodiester phosphodiesterase (Glycerophosphoglycerol)" metaid="R_GPDDA4pp" sboTerm="SBO:0000176" fbc:upperFluxBound="cobra_default_ub" fbc:lowerFluxBound="cobra_0_bound">
+        <sbml:annotation xmlns:sbml="http://www.sbml.org/sbml/level3/version1/core">
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+              <bqbiol:is xmlns:bqbiol="http://biomodels.net/biology-qualifiers/">
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+                  <rdf:li rdf:resource="http://identifiers.org/biocyc/META:RXN-14073"/>
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+                  <rdf:li rdf:resource="http://identifiers.org/metanetx.reaction/MNXR100413"/>
+                  <rdf:li rdf:resource="http://identifiers.org/sabiork/13035"/>
+                  <rdf:li rdf:resource="http://identifiers.org/seed.reaction/rxn08669"/>
+                </rdf:Bag>
+              </bqbiol:is>
+            </rdf:Description>
+          </rdf:RDF>
+        </sbml:annotation>
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+          <speciesReference species="M_g3pg_p" stoichiometry="1" constant="true"/>
+          <speciesReference species="M_h2o_p" stoichiometry="1" constant="true"/>
+        </listOfReactants>
+        <listOfProducts>
+          <speciesReference species="M_glyc3p_p" stoichiometry="1" constant="true"/>
+          <speciesReference species="M_glyc_p" stoichiometry="1" constant="true"/>
+          <speciesReference species="M_h_p" stoichiometry="1" constant="true"/>
+        </listOfProducts>
+        <fbc:geneProductAssociation>
+          <fbc:geneProductRef fbc:geneProduct="G_b2239"/>
+        </fbc:geneProductAssociation>
+      </reaction>
+      <reaction id="R_GPDDA2pp" fast="false" reversible="false" name="Glycerophosphodiester phosphodiesterase (Glycerophosphoethanolamine)" metaid="R_GPDDA2pp" sboTerm="SBO:0000176" fbc:upperFluxBound="cobra_default_ub" fbc:lowerFluxBound="cobra_0_bound">
+        <sbml:annotation xmlns:sbml="http://www.sbml.org/sbml/level3/version1/core">
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+              <bqbiol:is xmlns:bqbiol="http://biomodels.net/biology-qualifiers/">
+                <rdf:Bag>
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+                  <rdf:li rdf:resource="http://identifiers.org/kegg.reaction/R01470"/>
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+                  <rdf:li rdf:resource="http://identifiers.org/rhea/29322"/>
+                  <rdf:li rdf:resource="http://identifiers.org/rhea/29321"/>
+                  <rdf:li rdf:resource="http://identifiers.org/rhea/29319"/>
+                  <rdf:li rdf:resource="http://identifiers.org/sabiork/397"/>
+                  <rdf:li rdf:resource="http://identifiers.org/seed.reaction/rxn01073"/>
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+        </sbml:annotation>
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+          <speciesReference species="M_g3pe_p" stoichiometry="1" constant="true"/>
+          <speciesReference species="M_h2o_p" stoichiometry="1" constant="true"/>
+        </listOfReactants>
+        <listOfProducts>
+          <speciesReference species="M_etha_p" stoichiometry="1" constant="true"/>
+          <speciesReference species="M_glyc3p_p" stoichiometry="1" constant="true"/>
+          <speciesReference species="M_h_p" stoichiometry="1" constant="true"/>
+        </listOfProducts>
+        <fbc:geneProductAssociation>
+          <fbc:geneProductRef fbc:geneProduct="G_b2239"/>
+        </fbc:geneProductAssociation>
+      </reaction>
+      <reaction id="R_FACOAL120t2pp" fast="false" reversible="false" name="Fatty-acid-CoA ligase (dodecanoate transport via vectoral Co-A coupling)" metaid="R_FACOAL120t2pp" sboTerm="SBO:0000185" fbc:upperFluxBound="cobra_default_ub" fbc:lowerFluxBound="cobra_0_bound">
+        <sbml:annotation xmlns:sbml="http://www.sbml.org/sbml/level3/version1/core">
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+              <bqbiol:is xmlns:bqbiol="http://biomodels.net/biology-qualifiers/">
+                <rdf:Bag>
+                  <rdf:li rdf:resource="http://identifiers.org/bigg.reaction/FACOAL120t2pp"/>
+                  <rdf:li rdf:resource="http://identifiers.org/metanetx.reaction/MNXR99144"/>
+                </rdf:Bag>
+              </bqbiol:is>
+            </rdf:Description>
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+        </sbml:annotation>
+        <listOfReactants>
+          <speciesReference species="M_atp_c" stoichiometry="1" constant="true"/>
+          <speciesReference species="M_coa_c" stoichiometry="1" constant="true"/>
+          <speciesReference species="M_ddca_p" stoichiometry="1" constant="true"/>
+          <speciesReference species="M_h_p" stoichiometry="1" constant="true"/>
+        </listOfReactants>
+        <listOfProducts>
+          <speciesReference species="M_amp_c" stoichiometry="1" constant="true"/>
+          <speciesReference species="M_ddcacoa_c" stoichiometry="1" constant="true"/>
+          <speciesReference species="M_h_c" stoichiometry="1" constant="true"/>
+          <speciesReference species="M_ppi_c" stoichiometry="1" constant="true"/>
+        </listOfProducts>
+        <fbc:geneProductAssociation>
+          <fbc:or>
+            <fbc:geneProductRef fbc:geneProduct="G_b1701"/>
+            <fbc:geneProductRef fbc:geneProduct="G_b1805"/>
+          </fbc:or>
+        </fbc:geneProductAssociation>
+      </reaction>
+      <reaction id="R_GLYCAt2rpp" fast="false" reversible="true" name="D-glycerate transport via proton symport, reversible (periplasm)" metaid="R_GLYCAt2rpp" sboTerm="SBO:0000185" fbc:upperFluxBound="cobra_default_ub" fbc:lowerFluxBound="cobra_default_lb">
+        <sbml:annotation xmlns:sbml="http://www.sbml.org/sbml/level3/version1/core">
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+          <speciesReference species="M_h_p" stoichiometry="1" constant="true"/>
+        </listOfReactants>
+        <listOfProducts>
+          <speciesReference species="M_glyc__R_c" stoichiometry="1" constant="true"/>
+          <speciesReference species="M_h_c" stoichiometry="1" constant="true"/>
+        </listOfProducts>
+        <fbc:geneProductAssociation>
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+            <fbc:geneProductRef fbc:geneProduct="G_b3127"/>
+            <fbc:geneProductRef fbc:geneProduct="G_b2789"/>
+          </fbc:or>
+        </fbc:geneProductAssociation>
+      </reaction>
+      <reaction id="R_GLYCAtex" fast="false" reversible="true" name="D-glycerate transport via diffusion (extracellular to periplasm)" metaid="R_GLYCAtex" sboTerm="SBO:0000185" fbc:upperFluxBound="cobra_default_ub" fbc:lowerFluxBound="cobra_default_lb">
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+              <bqbiol:is xmlns:bqbiol="http://biomodels.net/biology-qualifiers/">
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+                  <rdf:li rdf:resource="http://identifiers.org/seed.reaction/rxn08645"/>
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+            </rdf:Description>
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+        </sbml:annotation>
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+        </listOfReactants>
+        <listOfProducts>
+          <speciesReference species="M_glyc__R_p" stoichiometry="1" constant="true"/>
+        </listOfProducts>
+        <fbc:geneProductAssociation>
+          <fbc:or>
+            <fbc:geneProductRef fbc:geneProduct="G_b0241"/>
+            <fbc:geneProductRef fbc:geneProduct="G_b0929"/>
+            <fbc:geneProductRef fbc:geneProduct="G_b1377"/>
+            <fbc:geneProductRef fbc:geneProduct="G_b2215"/>
+          </fbc:or>
+        </fbc:geneProductAssociation>
+      </reaction>
+      <reaction id="R_FACOAL140t2pp" fast="false" reversible="false" name="Fatty-acid-CoA ligase (tetradecanoate transport via vectoral Co-A coupling)" metaid="R_FACOAL140t2pp" sboTerm="SBO:0000185" fbc:upperFluxBound="cobra_default_ub" fbc:lowerFluxBound="cobra_0_bound">
+        <sbml:annotation xmlns:sbml="http://www.sbml.org/sbml/level3/version1/core">
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+              <bqbiol:is xmlns:bqbiol="http://biomodels.net/biology-qualifiers/">
+                <rdf:Bag>
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+                  <rdf:li rdf:resource="http://identifiers.org/metanetx.reaction/MNXR99147"/>
+                </rdf:Bag>
+              </bqbiol:is>
+            </rdf:Description>
+          </rdf:RDF>
+        </sbml:annotation>
+        <listOfReactants>
+          <speciesReference species="M_atp_c" stoichiometry="1" constant="true"/>
+          <speciesReference species="M_coa_c" stoichiometry="1" constant="true"/>
+          <speciesReference species="M_h_p" stoichiometry="1" constant="true"/>
+          <speciesReference species="M_ttdca_p" stoichiometry="1" constant="true"/>
+        </listOfReactants>
+        <listOfProducts>
+          <speciesReference species="M_amp_c" stoichiometry="1" constant="true"/>
+          <speciesReference species="M_h_c" stoichiometry="1" constant="true"/>
+          <speciesReference species="M_ppi_c" stoichiometry="1" constant="true"/>
+          <speciesReference species="M_tdcoa_c" stoichiometry="1" constant="true"/>
+        </listOfProducts>
+        <fbc:geneProductAssociation>
+          <fbc:or>
+            <fbc:geneProductRef fbc:geneProduct="G_b1701"/>
+            <fbc:geneProductRef fbc:geneProduct="G_b1805"/>
+          </fbc:or>
+        </fbc:geneProductAssociation>
+      </reaction>
+      <reaction id="R_EX_enlipa_e" fast="false" reversible="false" name="Phosphoethanolamine KDO(2)-lipid (A) exchange" metaid="R_EX_enlipa_e" sboTerm="SBO:0000627" fbc:upperFluxBound="cobra_default_ub" fbc:lowerFluxBound="cobra_0_bound">
+        <sbml:annotation xmlns:sbml="http://www.sbml.org/sbml/level3/version1/core">
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+            <rdf:Description rdf:about="#R_EX_enlipa_e">
+              <bqbiol:is xmlns:bqbiol="http://biomodels.net/biology-qualifiers/">
+                <rdf:Bag>
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+                  <rdf:li rdf:resource="http://identifiers.org/metanetx.reaction/MNXR97923"/>
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+            </rdf:Description>
+          </rdf:RDF>
+        </sbml:annotation>
+        <listOfReactants>
+          <speciesReference species="M_enlipa_e" stoichiometry="1" constant="true"/>
+        </listOfReactants>
+      </reaction>
+      <reaction id="R_BUTtex" fast="false" reversible="true" name="Butyrate transport via diffusion (extracellular to periplasm)" metaid="R_BUTtex" sboTerm="SBO:0000185" fbc:upperFluxBound="cobra_default_ub" fbc:lowerFluxBound="cobra_default_lb">
+        <sbml:annotation xmlns:sbml="http://www.sbml.org/sbml/level3/version1/core">
+          <rdf:RDF xmlns:rdf="http://www.w3.org/1999/02/22-rdf-syntax-ns#">
+            <rdf:Description rdf:about="#R_BUTtex">
+              <bqbiol:is xmlns:bqbiol="http://biomodels.net/biology-qualifiers/">
+                <rdf:Bag>
+                  <rdf:li rdf:resource="http://identifiers.org/bigg.reaction/BUTtex"/>
+                  <rdf:li rdf:resource="http://identifiers.org/metanetx.reaction/MNXR96352"/>
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+              </bqbiol:is>
+            </rdf:Description>
+          </rdf:RDF>
+        </sbml:annotation>
+        <listOfReactants>
+          <speciesReference species="M_but_e" stoichiometry="1" constant="true"/>
+        </listOfReactants>
+        <listOfProducts>
+          <speciesReference species="M_but_p" stoichiometry="1" constant="true"/>
+        </listOfProducts>
+        <fbc:geneProductAssociation>
+          <fbc:or>
+            <fbc:geneProductRef fbc:geneProduct="G_b0241"/>
+            <fbc:geneProductRef fbc:geneProduct="G_b0929"/>
+            <fbc:geneProductRef fbc:geneProduct="G_b1377"/>
+            <fbc:geneProductRef fbc:geneProduct="G_b2215"/>
+          </fbc:or>
+        </fbc:geneProductAssociation>
+      </reaction>
+      <reaction id="R_EX_hacolipa_e" fast="false" reversible="false" name="Hepta-acylated core oligosaccharide lipid A (E. coli) exchange" metaid="R_EX_hacolipa_e" sboTerm="SBO:0000627" fbc:upperFluxBound="cobra_default_ub" fbc:lowerFluxBound="cobra_0_bound">
+        <sbml:annotation xmlns:sbml="http://www.sbml.org/sbml/level3/version1/core">
+          <rdf:RDF xmlns:rdf="http://www.w3.org/1999/02/22-rdf-syntax-ns#">
+            <rdf:Description rdf:about="#R_EX_hacolipa_e">
+              <bqbiol:is xmlns:bqbiol="http://biomodels.net/biology-qualifiers/">
+                <rdf:Bag>
+                  <rdf:li rdf:resource="http://identifiers.org/bigg.reaction/EX_hacolipa_e"/>
+                  <rdf:li rdf:resource="http://identifiers.org/metanetx.reaction/MNXR143008"/>
+                </rdf:Bag>
+              </bqbiol:is>
+            </rdf:Description>
+          </rdf:RDF>
+        </sbml:annotation>
+        <listOfReactants>
+          <speciesReference species="M_hacolipa_e" stoichiometry="1" constant="true"/>
+        </listOfReactants>
+      </reaction>
+      <reaction id="R_AGM4PCP" fast="false" reversible="false" name="N-Acetyl-D-glucosamine(anhydrous)N-Acetylmuramyl-tetrapeptide L,D-carboxypeptidase" metaid="R_AGM4PCP" sboTerm="SBO:0000176" fbc:upperFluxBound="cobra_default_ub" fbc:lowerFluxBound="cobra_0_bound">
+        <sbml:annotation xmlns:sbml="http://www.sbml.org/sbml/level3/version1/core">
+          <rdf:RDF xmlns:rdf="http://www.w3.org/1999/02/22-rdf-syntax-ns#">
+            <rdf:Description rdf:about="#R_AGM4PCP">
+              <bqbiol:is xmlns:bqbiol="http://biomodels.net/biology-qualifiers/">
+                <rdf:Bag>
+                  <rdf:li rdf:resource="http://identifiers.org/bigg.reaction/AGM4PCP"/>
+                  <rdf:li rdf:resource="http://identifiers.org/metanetx.reaction/MNXR95547"/>
+                  <rdf:li rdf:resource="http://identifiers.org/seed.reaction/rxn08077"/>
+                </rdf:Bag>
+              </bqbiol:is>
+            </rdf:Description>
+          </rdf:RDF>
+        </sbml:annotation>
+        <listOfReactants>
+          <speciesReference species="M_anhgm4p_c" stoichiometry="1" constant="true"/>
+          <speciesReference species="M_h2o_c" stoichiometry="1" constant="true"/>
+        </listOfReactants>
+        <listOfProducts>
+          <speciesReference species="M_ala__D_c" stoichiometry="1" constant="true"/>
+          <speciesReference species="M_anhgm3p_c" stoichiometry="1" constant="true"/>
+        </listOfProducts>
+        <fbc:geneProductAssociation>
+          <fbc:geneProductRef fbc:geneProduct="G_b1192"/>
+        </fbc:geneProductAssociation>
+      </reaction>
+      <reaction id="R_4PCP" fast="false" reversible="false" name="Tetrapeptide L,D-carboxypeptidase" metaid="R_4PCP" sboTerm="SBO:0000176" fbc:upperFluxBound="cobra_default_ub" fbc:lowerFluxBound="cobra_0_bound">
+        <sbml:annotation xmlns:sbml="http://www.sbml.org/sbml/level3/version1/core">
+          <rdf:RDF xmlns:rdf="http://www.w3.org/1999/02/22-rdf-syntax-ns#">
+            <rdf:Description rdf:about="#R_4PCP">
+              <bqbiol:is xmlns:bqbiol="http://biomodels.net/biology-qualifiers/">
+                <rdf:Bag>
+                  <rdf:li rdf:resource="http://identifiers.org/bigg.reaction/4PCP"/>
+                  <rdf:li rdf:resource="http://identifiers.org/metanetx.reaction/MNXR95049"/>
+                  <rdf:li rdf:resource="http://identifiers.org/seed.reaction/rxn08007"/>
+                </rdf:Bag>
+              </bqbiol:is>
+            </rdf:Description>
+          </rdf:RDF>
+        </sbml:annotation>
+        <listOfReactants>
+          <speciesReference species="M_LalaDgluMdapDala_c" stoichiometry="1" constant="true"/>
+          <speciesReference species="M_h2o_c" stoichiometry="1" constant="true"/>
+        </listOfReactants>
+        <listOfProducts>
+          <speciesReference species="M_LalaDgluMdap_c" stoichiometry="1" constant="true"/>
+          <speciesReference species="M_ala__D_c" stoichiometry="1" constant="true"/>
+        </listOfProducts>
+        <fbc:geneProductAssociation>
+          <fbc:geneProductRef fbc:geneProduct="G_b1192"/>
+        </fbc:geneProductAssociation>
+      </reaction>
+      <reaction id="R_FE3HOXtonex" fast="false" reversible="false" name="Fe(III)hydroxamine transport via ton system (extracellular)" metaid="R_FE3HOXtonex" sboTerm="SBO:0000185" fbc:upperFluxBound="cobra_default_ub" fbc:lowerFluxBound="cobra_0_bound">
+        <sbml:annotation xmlns:sbml="http://www.sbml.org/sbml/level3/version1/core">
+          <rdf:RDF xmlns:rdf="http://www.w3.org/1999/02/22-rdf-syntax-ns#">
+            <rdf:Description rdf:about="#R_FE3HOXtonex">
+              <bqbiol:is xmlns:bqbiol="http://biomodels.net/biology-qualifiers/">
+                <rdf:Bag>
+                  <rdf:li rdf:resource="http://identifiers.org/bigg.reaction/FE3HOXtonex"/>
+                  <rdf:li rdf:resource="http://identifiers.org/metanetx.reaction/MNXR99521"/>
+                  <rdf:li rdf:resource="http://identifiers.org/seed.reaction/rxn08488"/>
+                </rdf:Bag>
+              </bqbiol:is>
+            </rdf:Description>
+          </rdf:RDF>
+        </sbml:annotation>
+        <listOfReactants>
+          <speciesReference species="M_fe3hox_e" stoichiometry="1" constant="true"/>
+          <speciesReference species="M_h_p" stoichiometry="1" constant="true"/>
+        </listOfReactants>
+        <listOfProducts>
+          <speciesReference species="M_fe3hox_p" stoichiometry="1" constant="true"/>
+          <speciesReference species="M_h_c" stoichiometry="1" constant="true"/>
+        </listOfProducts>
+        <fbc:geneProductAssociation>
+          <fbc:and>
+            <fbc:and>
+              <fbc:geneProductRef fbc:geneProduct="G_b1252"/>
+              <fbc:geneProductRef fbc:geneProduct="G_b3005"/>
+              <fbc:geneProductRef fbc:geneProduct="G_b3006"/>
+            </fbc:and>
+            <fbc:geneProductRef fbc:geneProduct="G_b0150"/>
+          </fbc:and>
+        </fbc:geneProductAssociation>
+      </reaction>
+      <reaction id="R_CU2abcpp" fast="false" reversible="false" name="Copper (Cu+2) ABC transporter (periplasm)" metaid="R_CU2abcpp" sboTerm="SBO:0000185" fbc:upperFluxBound="cobra_default_ub" fbc:lowerFluxBound="cobra_0_bound">
+        <sbml:annotation xmlns:sbml="http://www.sbml.org/sbml/level3/version1/core">
+          <rdf:RDF xmlns:rdf="http://www.w3.org/1999/02/22-rdf-syntax-ns#">
+            <rdf:Description rdf:about="#R_CU2abcpp">
+              <bqbiol:is xmlns:bqbiol="http://biomodels.net/biology-qualifiers/">
+                <rdf:Bag>
+                  <rdf:li rdf:resource="http://identifiers.org/bigg.reaction/CU2abcpp"/>
+                  <rdf:li rdf:resource="http://identifiers.org/biocyc/META:TRANS-RXN-178"/>
+                  <rdf:li rdf:resource="http://identifiers.org/biocyc/META:3.6.3.4-RXN"/>
+                  <rdf:li rdf:resource="http://identifiers.org/ec-code/3.6.3.4"/>
+                  <rdf:li rdf:resource="http://identifiers.org/ec-code/3.6.3"/>
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+                  <rdf:li rdf:resource="http://identifiers.org/reactome.reaction/R-BTA-936802"/>
+                  <rdf:li rdf:resource="http://identifiers.org/reactome.reaction/R-RNO-936895"/>
+                  <rdf:li rdf:resource="http://identifiers.org/reactome.reaction/R-SPO-936895"/>
+                  <rdf:li rdf:resource="http://identifiers.org/reactome.reaction/R-GGA-936895"/>
+                  <rdf:li rdf:resource="http://identifiers.org/reactome.reaction/R-TGU-936802"/>
+                  <rdf:li rdf:resource="http://identifiers.org/reactome.reaction/R-RNO-936802"/>
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+                  <rdf:li rdf:resource="http://identifiers.org/reactome.reaction/R-TGU-936895"/>
+                  <rdf:li rdf:resource="http://identifiers.org/reactome.reaction/R-DME-936802"/>
+                  <rdf:li rdf:resource="http://identifiers.org/reactome.reaction/R-MMU-936802"/>
+                  <rdf:li rdf:resource="http://identifiers.org/reactome.reaction/R-HSA-936802"/>
+                  <rdf:li rdf:resource="http://identifiers.org/reactome.reaction/R-SSC-936802"/>
+                  <rdf:li rdf:resource="http://identifiers.org/reactome.reaction/R-DRE-936802"/>
+                  <rdf:li rdf:resource="http://identifiers.org/reactome.reaction/R-CFA-936895"/>
+                  <rdf:li rdf:resource="http://identifiers.org/reactome.reaction/R-DRE-936895"/>
+                  <rdf:li rdf:resource="http://identifiers.org/reactome.reaction/R-BTA-936895"/>
+                  <rdf:li rdf:resource="http://identifiers.org/reactome.reaction/R-CEL-936895"/>
+                  <rdf:li rdf:resource="http://identifiers.org/reactome.reaction/R-OSA-936895"/>
+                  <rdf:li rdf:resource="http://identifiers.org/reactome.reaction/R-DME-936895"/>
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+                  <rdf:li rdf:resource="http://identifiers.org/reactome.reaction/R-HSA-936895"/>
+                  <rdf:li rdf:resource="http://identifiers.org/reactome.reaction/R-CEL-936802"/>
+                  <rdf:li rdf:resource="http://identifiers.org/reactome.reaction/R-SCE-936895"/>
+                  <rdf:li rdf:resource="http://identifiers.org/reactome.reaction/R-ATH-936895"/>
+                  <rdf:li rdf:resource="http://identifiers.org/rhea/10376#1"/>
+                  <rdf:li rdf:resource="http://identifiers.org/rhea/10377#1"/>
+                  <rdf:li rdf:resource="http://identifiers.org/rhea/10379#1"/>
+                  <rdf:li rdf:resource="http://identifiers.org/rhea/10378#1"/>
+                  <rdf:li rdf:resource="http://identifiers.org/seed.reaction/rxn08271"/>
+                  <rdf:li rdf:resource="http://identifiers.org/seed.reaction/rxn05528"/>
+                </rdf:Bag>
+              </bqbiol:is>
+            </rdf:Description>
+          </rdf:RDF>
+        </sbml:annotation>
+        <listOfReactants>
+          <speciesReference species="M_atp_c" stoichiometry="1" constant="true"/>
+          <speciesReference species="M_cu2_c" stoichiometry="1" constant="true"/>
+          <speciesReference species="M_h2o_c" stoichiometry="1" constant="true"/>
+        </listOfReactants>
+        <listOfProducts>
+          <speciesReference species="M_adp_c" stoichiometry="1" constant="true"/>
+          <speciesReference species="M_cu2_p" stoichiometry="1" constant="true"/>
+          <speciesReference species="M_h_c" stoichiometry="1" constant="true"/>
+          <speciesReference species="M_pi_c" stoichiometry="1" constant="true"/>
+        </listOfProducts>
+        <fbc:geneProductAssociation>
+          <fbc:geneProductRef fbc:geneProduct="G_b3469"/>
+        </fbc:geneProductAssociation>
+      </reaction>
+      <reaction id="R_COBALT2abcpp" fast="false" reversible="false" name="Cobalt (Co+2) ABC transporter (periplasm)" metaid="R_COBALT2abcpp" sboTerm="SBO:0000185" fbc:upperFluxBound="cobra_default_ub" fbc:lowerFluxBound="cobra_0_bound">
+        <sbml:annotation xmlns:sbml="http://www.sbml.org/sbml/level3/version1/core">
+          <rdf:RDF xmlns:rdf="http://www.w3.org/1999/02/22-rdf-syntax-ns#">
+            <rdf:Description rdf:about="#R_COBALT2abcpp">
+              <bqbiol:is xmlns:bqbiol="http://biomodels.net/biology-qualifiers/">
+                <rdf:Bag>
+                  <rdf:li rdf:resource="http://identifiers.org/bigg.reaction/COBALT2abcpp"/>
+                  <rdf:li rdf:resource="http://identifiers.org/metanetx.reaction/MNXR96819"/>
+                  <rdf:li rdf:resource="http://identifiers.org/rhea/32782#2"/>
+                  <rdf:li rdf:resource="http://identifiers.org/rhea/32779#2"/>
+                  <rdf:li rdf:resource="http://identifiers.org/rhea/32780#2"/>
+                  <rdf:li rdf:resource="http://identifiers.org/rhea/32781#2"/>
+                  <rdf:li rdf:resource="http://identifiers.org/seed.reaction/rxn08239"/>
+                </rdf:Bag>
+              </bqbiol:is>
+            </rdf:Description>
+          </rdf:RDF>
+        </sbml:annotation>
+        <listOfReactants>
+          <speciesReference species="M_atp_c" stoichiometry="1" constant="true"/>
+          <speciesReference species="M_cobalt2_c" stoichiometry="1" constant="true"/>
+          <speciesReference species="M_h2o_c" stoichiometry="1" constant="true"/>
+        </listOfReactants>
+        <listOfProducts>
+          <speciesReference species="M_adp_c" stoichiometry="1" constant="true"/>
+          <speciesReference species="M_cobalt2_p" stoichiometry="1" constant="true"/>
+          <speciesReference species="M_h_c" stoichiometry="1" constant="true"/>
+          <speciesReference species="M_pi_c" stoichiometry="1" constant="true"/>
+        </listOfProducts>
+        <fbc:geneProductAssociation>
+          <fbc:geneProductRef fbc:geneProduct="G_b3469"/>
+        </fbc:geneProductAssociation>
+      </reaction>
+      <reaction id="R_NI2abcpp" fast="false" reversible="false" name="Nickle (Ni+2) ABC transporter (periplasm)" metaid="R_NI2abcpp" sboTerm="SBO:0000185" fbc:upperFluxBound="cobra_default_ub" fbc:lowerFluxBound="cobra_0_bound">
+        <sbml:annotation xmlns:sbml="http://www.sbml.org/sbml/level3/version1/core">
+          <rdf:RDF xmlns:rdf="http://www.w3.org/1999/02/22-rdf-syntax-ns#">
+            <rdf:Description rdf:about="#R_NI2abcpp">
+              <bqbiol:is xmlns:bqbiol="http://biomodels.net/biology-qualifiers/">
+                <rdf:Bag>
+                  <rdf:li rdf:resource="http://identifiers.org/bigg.reaction/NI2abcpp"/>
+                  <rdf:li rdf:resource="http://identifiers.org/ec-code/3.6.3.24"/>
+                  <rdf:li rdf:resource="http://identifiers.org/metanetx.reaction/MNXR101955"/>
+                  <rdf:li rdf:resource="http://identifiers.org/rhea/15560#2"/>
+                  <rdf:li rdf:resource="http://identifiers.org/rhea/15559#2"/>
+                  <rdf:li rdf:resource="http://identifiers.org/rhea/15557#2"/>
+                  <rdf:li rdf:resource="http://identifiers.org/rhea/15558#2"/>
+                </rdf:Bag>
+              </bqbiol:is>
+            </rdf:Description>
+          </rdf:RDF>
+        </sbml:annotation>
+        <listOfReactants>
+          <speciesReference species="M_atp_c" stoichiometry="1" constant="true"/>
+          <speciesReference species="M_h2o_c" stoichiometry="1" constant="true"/>
+          <speciesReference species="M_ni2_c" stoichiometry="1" constant="true"/>
+        </listOfReactants>
+        <listOfProducts>
+          <speciesReference species="M_adp_c" stoichiometry="1" constant="true"/>
+          <speciesReference species="M_h_c" stoichiometry="1" constant="true"/>
+          <speciesReference species="M_ni2_p" stoichiometry="1" constant="true"/>
+          <speciesReference species="M_pi_c" stoichiometry="1" constant="true"/>
+        </listOfProducts>
+        <fbc:geneProductAssociation>
+          <fbc:geneProductRef fbc:geneProduct="G_b3469"/>
+        </fbc:geneProductAssociation>
+      </reaction>
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+        <listOfProducts>
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+          <speciesReference species="M_ala__D_p" stoichiometry="1" constant="true"/>
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+          <fbc:geneProductRef fbc:geneProduct="G_b2175"/>
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+          <speciesReference species="M_mmet_c" stoichiometry="1" constant="true"/>
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+          <speciesReference species="M_h_c" stoichiometry="1" constant="true"/>
+          <speciesReference species="M_met__L_c" stoichiometry="2" constant="true"/>
+        </listOfProducts>
+        <fbc:geneProductAssociation>
+          <fbc:geneProductRef fbc:geneProduct="G_b0261"/>
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+          <speciesReference species="M_nad_c" stoichiometry="1" constant="true"/>
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+        <listOfProducts>
+          <speciesReference species="M_Sfglutth_c" stoichiometry="1" constant="true"/>
+          <speciesReference species="M_h_c" stoichiometry="1" constant="true"/>
+          <speciesReference species="M_nadh_c" stoichiometry="1" constant="true"/>
+        </listOfProducts>
+        <fbc:geneProductAssociation>
+          <fbc:geneProductRef fbc:geneProduct="G_b0356"/>
+        </fbc:geneProductAssociation>
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+        <sbml:annotation xmlns:sbml="http://www.sbml.org/sbml/level3/version1/core">
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+        <listOfProducts>
+          <speciesReference species="M_chol_p" stoichiometry="1" constant="true"/>
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+        <fbc:geneProductAssociation>
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+            <fbc:geneProductRef fbc:geneProduct="G_b0929"/>
+            <fbc:geneProductRef fbc:geneProduct="G_b1377"/>
+            <fbc:geneProductRef fbc:geneProduct="G_b2215"/>
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+        <sbml:annotation xmlns:sbml="http://www.sbml.org/sbml/level3/version1/core">
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+          <speciesReference species="M_h2o_c" stoichiometry="1" constant="true"/>
+        </listOfReactants>
+        <listOfProducts>
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+          <speciesReference species="M_h_c" stoichiometry="1" constant="true"/>
+          <speciesReference species="M_pi_c" stoichiometry="1" constant="true"/>
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+              <fbc:geneProductRef fbc:geneProduct="G_b2129"/>
+              <fbc:geneProductRef fbc:geneProduct="G_b2130"/>
+              <fbc:geneProductRef fbc:geneProduct="G_b2128"/>
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+              <fbc:geneProductRef fbc:geneProduct="G_b2679"/>
+              <fbc:geneProductRef fbc:geneProduct="G_b2678"/>
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+        </fbc:geneProductAssociation>
+      </reaction>
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+        </listOfProducts>
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+          <fbc:geneProductRef fbc:geneProduct="G_b2240"/>
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+          <speciesReference species="M_4abut_p" stoichiometry="1" constant="true"/>
+          <speciesReference species="M_glu__L_c" stoichiometry="1" constant="true"/>
+        </listOfProducts>
+        <fbc:geneProductAssociation>
+          <fbc:geneProductRef fbc:geneProduct="G_b1492"/>
+        </fbc:geneProductAssociation>
+      </reaction>
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+                  <rdf:li rdf:resource="http://identifiers.org/seed.reaction/rxn13303"/>
+                  <rdf:li rdf:resource="http://identifiers.org/seed.reaction/rxn09751"/>
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+          <speciesReference species="M_h_p" stoichiometry="1" constant="true"/>
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+          <speciesReference species="M_glu__L_c" stoichiometry="1" constant="true"/>
+          <speciesReference species="M_h_c" stoichiometry="1" constant="true"/>
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+          <fbc:geneProductRef fbc:geneProduct="G_b4077"/>
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+      <reaction id="R_HCINNMt2rpp" fast="false" reversible="true" name="3-hydroxycinnamic acid transport via proton symport, reversible (periplasm)" metaid="R_HCINNMt2rpp" sboTerm="SBO:0000185" fbc:upperFluxBound="cobra_default_ub" fbc:lowerFluxBound="cobra_default_lb">
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+                <rdf:Bag>
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+                  <rdf:li rdf:resource="http://identifiers.org/biocyc/META:TRANS-RXN0-457"/>
+                  <rdf:li rdf:resource="http://identifiers.org/metanetx.reaction/MNXR100570"/>
+                  <rdf:li rdf:resource="http://identifiers.org/seed.reaction/rxn08701"/>
+                  <rdf:li rdf:resource="http://identifiers.org/seed.reaction/rxn10135"/>
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+            </rdf:Description>
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+        </sbml:annotation>
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+          <speciesReference species="M_3hcinnm_p" stoichiometry="1" constant="true"/>
+          <speciesReference species="M_h_p" stoichiometry="1" constant="true"/>
+        </listOfReactants>
+        <listOfProducts>
+          <speciesReference species="M_3hcinnm_c" stoichiometry="1" constant="true"/>
+          <speciesReference species="M_h_c" stoichiometry="1" constant="true"/>
+        </listOfProducts>
+        <fbc:geneProductAssociation>
+          <fbc:geneProductRef fbc:geneProduct="G_b0353"/>
+        </fbc:geneProductAssociation>
+      </reaction>
+      <reaction id="R_HISabcpp" fast="false" reversible="false" name="L-histidine transport via ABC system (periplasm)" metaid="R_HISabcpp" sboTerm="SBO:0000185" fbc:upperFluxBound="cobra_default_ub" fbc:lowerFluxBound="cobra_0_bound">
+        <sbml:annotation xmlns:sbml="http://www.sbml.org/sbml/level3/version1/core">
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+                  <rdf:li rdf:resource="http://identifiers.org/biocyc/META:ABC-14-RXN"/>
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+                  <rdf:li rdf:resource="http://identifiers.org/rhea/29893#1"/>
+                  <rdf:li rdf:resource="http://identifiers.org/rhea/29894#1"/>
+                  <rdf:li rdf:resource="http://identifiers.org/rhea/29891#1"/>
+                  <rdf:li rdf:resource="http://identifiers.org/rhea/29892#1"/>
+                  <rdf:li rdf:resource="http://identifiers.org/seed.reaction/rxn08718"/>
+                  <rdf:li rdf:resource="http://identifiers.org/seed.reaction/rxn05164"/>
+                </rdf:Bag>
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+        <listOfReactants>
+          <speciesReference species="M_atp_c" stoichiometry="1" constant="true"/>
+          <speciesReference species="M_h2o_c" stoichiometry="1" constant="true"/>
+          <speciesReference species="M_his__L_p" stoichiometry="1" constant="true"/>
+        </listOfReactants>
+        <listOfProducts>
+          <speciesReference species="M_adp_c" stoichiometry="1" constant="true"/>
+          <speciesReference species="M_h_c" stoichiometry="1" constant="true"/>
+          <speciesReference species="M_his__L_c" stoichiometry="1" constant="true"/>
+          <speciesReference species="M_pi_c" stoichiometry="1" constant="true"/>
+        </listOfProducts>
+        <fbc:geneProductAssociation>
+          <fbc:and>
+            <fbc:geneProductRef fbc:geneProduct="G_b2307"/>
+            <fbc:geneProductRef fbc:geneProduct="G_b2306"/>
+            <fbc:geneProductRef fbc:geneProduct="G_b2308"/>
+            <fbc:geneProductRef fbc:geneProduct="G_b2309"/>
+          </fbc:and>
+        </fbc:geneProductAssociation>
+      </reaction>
+      <reaction id="R_HISt2rpp" fast="false" reversible="true" name="L-histidine reversible transport via proton symport (periplasm)" metaid="R_HISt2rpp" sboTerm="SBO:0000185" fbc:upperFluxBound="cobra_default_ub" fbc:lowerFluxBound="cobra_default_lb">
+        <sbml:annotation xmlns:sbml="http://www.sbml.org/sbml/level3/version1/core">
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+              <bqbiol:is xmlns:bqbiol="http://biomodels.net/biology-qualifiers/">
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+                  <rdf:li rdf:resource="http://identifiers.org/metanetx.reaction/MNXR100645"/>
+                  <rdf:li rdf:resource="http://identifiers.org/rhea/37049"/>
+                  <rdf:li rdf:resource="http://identifiers.org/rhea/37050"/>
+                  <rdf:li rdf:resource="http://identifiers.org/rhea/37048"/>
+                  <rdf:li rdf:resource="http://identifiers.org/rhea/37047"/>
+                  <rdf:li rdf:resource="http://identifiers.org/seed.reaction/rxn09744"/>
+                  <rdf:li rdf:resource="http://identifiers.org/seed.reaction/rxn05299"/>
+                  <rdf:li rdf:resource="http://identifiers.org/seed.reaction/rxn11327"/>
+                  <rdf:li rdf:resource="http://identifiers.org/seed.reaction/rxn08719"/>
+                </rdf:Bag>
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+            </rdf:Description>
+          </rdf:RDF>
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+          <speciesReference species="M_h_p" stoichiometry="1" constant="true"/>
+          <speciesReference species="M_his__L_p" stoichiometry="1" constant="true"/>
+        </listOfReactants>
+        <listOfProducts>
+          <speciesReference species="M_h_c" stoichiometry="1" constant="true"/>
+          <speciesReference species="M_his__L_c" stoichiometry="1" constant="true"/>
+        </listOfProducts>
+        <fbc:geneProductAssociation>
+          <fbc:geneProductRef fbc:geneProduct="G_b0112"/>
+        </fbc:geneProductAssociation>
+      </reaction>
+      <reaction id="R_CBIAT" fast="false" reversible="true" name="Cobinamide adenyltransferase" metaid="R_CBIAT" sboTerm="SBO:0000176" fbc:upperFluxBound="cobra_default_ub" fbc:lowerFluxBound="cobra_default_lb">
+        <sbml:annotation xmlns:sbml="http://www.sbml.org/sbml/level3/version1/core">
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+            <rdf:Description rdf:about="#R_CBIAT">
+              <bqbiol:is xmlns:bqbiol="http://biomodels.net/biology-qualifiers/">
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+                  <rdf:li rdf:resource="http://identifiers.org/biocyc/META:BTUR2-RXN"/>
+                  <rdf:li rdf:resource="http://identifiers.org/ec-code/2.5.1.17"/>
+                  <rdf:li rdf:resource="http://identifiers.org/metanetx.reaction/MNXR96465"/>
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+        </sbml:annotation>
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+          <speciesReference species="M_atp_c" stoichiometry="1" constant="true"/>
+          <speciesReference species="M_cbi_c" stoichiometry="1" constant="true"/>
+          <speciesReference species="M_h_c" stoichiometry="1" constant="true"/>
+        </listOfReactants>
+        <listOfProducts>
+          <speciesReference species="M_adocbi_c" stoichiometry="1" constant="true"/>
+          <speciesReference species="M_pppi_c" stoichiometry="1" constant="true"/>
+        </listOfProducts>
+        <fbc:geneProductAssociation>
+          <fbc:geneProductRef fbc:geneProduct="G_b1270"/>
+        </fbc:geneProductAssociation>
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+        <sbml:annotation xmlns:sbml="http://www.sbml.org/sbml/level3/version1/core">
+          <rdf:RDF xmlns:rdf="http://www.w3.org/1999/02/22-rdf-syntax-ns#">
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+              <bqbiol:is xmlns:bqbiol="http://biomodels.net/biology-qualifiers/">
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+                  <rdf:li rdf:resource="http://identifiers.org/rhea/29033"/>
+                  <rdf:li rdf:resource="http://identifiers.org/rhea/29032"/>
+                  <rdf:li rdf:resource="http://identifiers.org/rhea/29031"/>
+                  <rdf:li rdf:resource="http://identifiers.org/seed.reaction/rxn05298"/>
+                  <rdf:li rdf:resource="http://identifiers.org/seed.reaction/rxn08632"/>
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+          <speciesReference species="M_glu__L_p" stoichiometry="1" constant="true"/>
+          <speciesReference species="M_na1_p" stoichiometry="1" constant="true"/>
+        </listOfReactants>
+        <listOfProducts>
+          <speciesReference species="M_glu__L_c" stoichiometry="1" constant="true"/>
+          <speciesReference species="M_na1_c" stoichiometry="1" constant="true"/>
+        </listOfProducts>
+        <fbc:geneProductAssociation>
+          <fbc:geneProductRef fbc:geneProduct="G_b3653"/>
+        </fbc:geneProductAssociation>
+      </reaction>
+      <reaction id="R_GLYALDtpp" fast="false" reversible="true" name="Glyceraldehyde facilitated diffusion (periplasm)" metaid="R_GLYALDtpp" sboTerm="SBO:0000185" fbc:upperFluxBound="cobra_default_ub" fbc:lowerFluxBound="cobra_default_lb">
+        <sbml:annotation xmlns:sbml="http://www.sbml.org/sbml/level3/version1/core">
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+            <rdf:Description rdf:about="#R_GLYALDtpp">
+              <bqbiol:is xmlns:bqbiol="http://biomodels.net/biology-qualifiers/">
+                <rdf:Bag>
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+                  <rdf:li rdf:resource="http://identifiers.org/metanetx.reaction/MNXR100311"/>
+                  <rdf:li rdf:resource="http://identifiers.org/seed.reaction/rxn08636"/>
+                  <rdf:li rdf:resource="http://identifiers.org/seed.reaction/rxn08635"/>
+                  <rdf:li rdf:resource="http://identifiers.org/seed.reaction/rxn10164"/>
+                </rdf:Bag>
+              </bqbiol:is>
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+          <speciesReference species="M_glyald_p" stoichiometry="1" constant="true"/>
+        </listOfReactants>
+        <listOfProducts>
+          <speciesReference species="M_glyald_c" stoichiometry="1" constant="true"/>
+        </listOfProducts>
+        <fbc:geneProductAssociation>
+          <fbc:geneProductRef fbc:geneProduct="G_b3927"/>
+        </fbc:geneProductAssociation>
+      </reaction>
+      <reaction id="R_CRNtex" fast="false" reversible="true" name="L-carnitine transport via diffusion (extracellular to periplasm)" metaid="R_CRNtex" sboTerm="SBO:0000185" fbc:upperFluxBound="cobra_default_ub" fbc:lowerFluxBound="cobra_default_lb">
+        <sbml:annotation xmlns:sbml="http://www.sbml.org/sbml/level3/version1/core">
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+              <bqbiol:is xmlns:bqbiol="http://biomodels.net/biology-qualifiers/">
+                <rdf:Bag>
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+                  <rdf:li rdf:resource="http://identifiers.org/metanetx.reaction/MNXR96906"/>
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+                  <rdf:li rdf:resource="http://identifiers.org/rhea/34960"/>
+                  <rdf:li rdf:resource="http://identifiers.org/rhea/34959"/>
+                  <rdf:li rdf:resource="http://identifiers.org/rhea/34961"/>
+                  <rdf:li rdf:resource="http://identifiers.org/seed.reaction/rxn09773"/>
+                  <rdf:li rdf:resource="http://identifiers.org/seed.reaction/rxn09858"/>
+                  <rdf:li rdf:resource="http://identifiers.org/seed.reaction/rxn09691"/>
+                  <rdf:li rdf:resource="http://identifiers.org/seed.reaction/rxn08265"/>
+                </rdf:Bag>
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+          </rdf:RDF>
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+          <speciesReference species="M_crn_e" stoichiometry="1" constant="true"/>
+        </listOfReactants>
+        <listOfProducts>
+          <speciesReference species="M_crn_p" stoichiometry="1" constant="true"/>
+        </listOfProducts>
+        <fbc:geneProductAssociation>
+          <fbc:or>
+            <fbc:geneProductRef fbc:geneProduct="G_b0241"/>
+            <fbc:geneProductRef fbc:geneProduct="G_b0929"/>
+            <fbc:geneProductRef fbc:geneProduct="G_b1377"/>
+            <fbc:geneProductRef fbc:geneProduct="G_b2215"/>
+          </fbc:or>
+        </fbc:geneProductAssociation>
+      </reaction>
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+        <sbml:annotation xmlns:sbml="http://www.sbml.org/sbml/level3/version1/core">
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+              <bqbiol:is xmlns:bqbiol="http://biomodels.net/biology-qualifiers/">
+                <rdf:Bag>
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+                  <rdf:li rdf:resource="http://identifiers.org/metanetx.reaction/MNXR97974"/>
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+                  <rdf:li rdf:resource="http://identifiers.org/rhea/32749"/>
+                  <rdf:li rdf:resource="http://identifiers.org/rhea/32747"/>
+                  <rdf:li rdf:resource="http://identifiers.org/rhea/32748"/>
+                  <rdf:li rdf:resource="http://identifiers.org/seed.reaction/rxn08424"/>
+                  <rdf:li rdf:resource="http://identifiers.org/seed.reaction/rxn10841"/>
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+          <speciesReference species="M_etha_e" stoichiometry="1" constant="true"/>
+        </listOfReactants>
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+                  <rdf:li rdf:resource="http://identifiers.org/kegg.reaction/R02649"/>
+                  <rdf:li rdf:resource="http://identifiers.org/metanetx.reaction/MNXR95256"/>
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+                  <rdf:li rdf:resource="http://identifiers.org/rhea/14629"/>
+                  <rdf:li rdf:resource="http://identifiers.org/sabiork/2545"/>
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+          <speciesReference species="M_atp_c" stoichiometry="1" constant="true"/>
+        </listOfReactants>
+        <listOfProducts>
+          <speciesReference species="M_acg5p_c" stoichiometry="1" constant="true"/>
+          <speciesReference species="M_adp_c" stoichiometry="1" constant="true"/>
+        </listOfProducts>
+        <fbc:geneProductAssociation>
+          <fbc:geneProductRef fbc:geneProduct="G_b3959"/>
+        </fbc:geneProductAssociation>
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+        <sbml:annotation xmlns:sbml="http://www.sbml.org/sbml/level3/version1/core">
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+                  <rdf:li rdf:resource="http://identifiers.org/rhea/29888#1"/>
+                  <rdf:li rdf:resource="http://identifiers.org/rhea/29890#1"/>
+                  <rdf:li rdf:resource="http://identifiers.org/rhea/29889#1"/>
+                  <rdf:li rdf:resource="http://identifiers.org/seed.reaction/rxn05151"/>
+                  <rdf:li rdf:resource="http://identifiers.org/seed.reaction/rxn08853"/>
+                </rdf:Bag>
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+            </rdf:Description>
+          </rdf:RDF>
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+          <speciesReference species="M_h2o_c" stoichiometry="1" constant="true"/>
+          <speciesReference species="M_lys__L_p" stoichiometry="1" constant="true"/>
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+        <listOfProducts>
+          <speciesReference species="M_adp_c" stoichiometry="1" constant="true"/>
+          <speciesReference species="M_h_c" stoichiometry="1" constant="true"/>
+          <speciesReference species="M_lys__L_c" stoichiometry="1" constant="true"/>
+          <speciesReference species="M_pi_c" stoichiometry="1" constant="true"/>
+        </listOfProducts>
+        <fbc:geneProductAssociation>
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+            <fbc:geneProductRef fbc:geneProduct="G_b2308"/>
+            <fbc:geneProductRef fbc:geneProduct="G_b2306"/>
+            <fbc:geneProductRef fbc:geneProduct="G_b2310"/>
+            <fbc:geneProductRef fbc:geneProduct="G_b2307"/>
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+        </fbc:geneProductAssociation>
+      </reaction>
+      <reaction id="R_COBALT2tex" fast="false" reversible="true" name="Cobalt (Co+2) transport via diffusion (extracellular to periplasm)" metaid="R_COBALT2tex" sboTerm="SBO:0000185" fbc:upperFluxBound="cobra_default_ub" fbc:lowerFluxBound="cobra_default_lb">
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+                  <rdf:li rdf:resource="http://identifiers.org/rhea/28580"/>
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+                  <rdf:li rdf:resource="http://identifiers.org/rhea/28578"/>
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+                  <rdf:li rdf:resource="http://identifiers.org/seed.reaction/rxn08242"/>
+                  <rdf:li rdf:resource="http://identifiers.org/seed.reaction/rxn10474"/>
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+        <listOfProducts>
+          <speciesReference species="M_cobalt2_p" stoichiometry="1" constant="true"/>
+        </listOfProducts>
+        <fbc:geneProductAssociation>
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+            <fbc:geneProductRef fbc:geneProduct="G_b0241"/>
+            <fbc:geneProductRef fbc:geneProduct="G_b0929"/>
+            <fbc:geneProductRef fbc:geneProduct="G_b1377"/>
+            <fbc:geneProductRef fbc:geneProduct="G_b2215"/>
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+        </fbc:geneProductAssociation>
+      </reaction>
+      <reaction id="R_LCTSt3ipp" fast="false" reversible="false" name="Lactose transport via proton aniport (periplasm)" metaid="R_LCTSt3ipp" sboTerm="SBO:0000185" fbc:upperFluxBound="cobra_default_ub" fbc:lowerFluxBound="cobra_0_bound">
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+                  <rdf:li rdf:resource="http://identifiers.org/rhea/28866"/>
+                  <rdf:li rdf:resource="http://identifiers.org/rhea/28865"/>
+                  <rdf:li rdf:resource="http://identifiers.org/rhea/28863"/>
+                  <rdf:li rdf:resource="http://identifiers.org/seed.reaction/rxn08779"/>
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+          <speciesReference species="M_lcts_c" stoichiometry="1" constant="true"/>
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+        <listOfProducts>
+          <speciesReference species="M_h_c" stoichiometry="1" constant="true"/>
+          <speciesReference species="M_lcts_p" stoichiometry="1" constant="true"/>
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+        <fbc:geneProductAssociation>
+          <fbc:or>
+            <fbc:geneProductRef fbc:geneProduct="G_b1528"/>
+            <fbc:geneProductRef fbc:geneProduct="G_b2170"/>
+            <fbc:geneProductRef fbc:geneProduct="G_b0070"/>
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+        </fbc:geneProductAssociation>
+      </reaction>
+      <reaction id="R_PPK2" fast="false" reversible="false" name="Polyphosphate kinase" metaid="R_PPK2" sboTerm="SBO:0000176" fbc:upperFluxBound="cobra_default_ub" fbc:lowerFluxBound="cobra_0_bound">
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+        </sbml:annotation>
+        <listOfReactants>
+          <speciesReference species="M_atp_c" stoichiometry="1" constant="true"/>
+          <speciesReference species="M_ppi_c" stoichiometry="1" constant="true"/>
+        </listOfReactants>
+        <listOfProducts>
+          <speciesReference species="M_adp_c" stoichiometry="1" constant="true"/>
+          <speciesReference species="M_pppi_c" stoichiometry="1" constant="true"/>
+        </listOfProducts>
+        <fbc:geneProductAssociation>
+          <fbc:geneProductRef fbc:geneProduct="G_b2501"/>
+        </fbc:geneProductAssociation>
+      </reaction>
+      <reaction id="R_ARBt3ipp" fast="false" reversible="false" name="L-arabinose transport via proton antiport (periplasm)" metaid="R_ARBt3ipp" sboTerm="SBO:0000185" fbc:upperFluxBound="cobra_default_ub" fbc:lowerFluxBound="cobra_0_bound">
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+                  <rdf:li rdf:resource="http://identifiers.org/metanetx.reaction/MNXR95937"/>
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+            </rdf:Description>
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+          <speciesReference species="M_arab__L_c" stoichiometry="1" constant="true"/>
+          <speciesReference species="M_h_p" stoichiometry="1" constant="true"/>
+        </listOfReactants>
+        <listOfProducts>
+          <speciesReference species="M_arab__L_p" stoichiometry="1" constant="true"/>
+          <speciesReference species="M_h_c" stoichiometry="1" constant="true"/>
+        </listOfProducts>
+        <fbc:geneProductAssociation>
+          <fbc:geneProductRef fbc:geneProduct="G_b1528"/>
+        </fbc:geneProductAssociation>
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+      <reaction id="R_14GLUCANabcpp" fast="false" reversible="false" name="1,4-alpha-D-glucan transport via ABC system (periplasm)" metaid="R_14GLUCANabcpp" sboTerm="SBO:0000185" fbc:upperFluxBound="cobra_default_ub" fbc:lowerFluxBound="cobra_0_bound">
+        <sbml:annotation xmlns:sbml="http://www.sbml.org/sbml/level3/version1/core">
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+                  <rdf:li rdf:resource="http://identifiers.org/metanetx.reaction/MNXR94693"/>
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+        </sbml:annotation>
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+          <speciesReference species="M_atp_c" stoichiometry="1" constant="true"/>
+          <speciesReference species="M_h2o_c" stoichiometry="1" constant="true"/>
+        </listOfReactants>
+        <listOfProducts>
+          <speciesReference species="M_14glucan_c" stoichiometry="1" constant="true"/>
+          <speciesReference species="M_adp_c" stoichiometry="1" constant="true"/>
+          <speciesReference species="M_h_c" stoichiometry="1" constant="true"/>
+          <speciesReference species="M_pi_c" stoichiometry="1" constant="true"/>
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+            <fbc:geneProductRef fbc:geneProduct="G_b4032"/>
+            <fbc:geneProductRef fbc:geneProduct="G_b4034"/>
+            <fbc:geneProductRef fbc:geneProduct="G_b4035"/>
+            <fbc:geneProductRef fbc:geneProduct="G_b4033"/>
+          </fbc:and>
+        </fbc:geneProductAssociation>
+      </reaction>
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+              <bqbiol:is xmlns:bqbiol="http://biomodels.net/biology-qualifiers/">
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+                  <rdf:li rdf:resource="http://identifiers.org/ec-code/2.4.1.161"/>
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+        </listOfReactants>
+        <listOfProducts>
+          <speciesReference species="M_14glucan_p" stoichiometry="1" constant="true"/>
+        </listOfProducts>
+        <fbc:geneProductAssociation>
+          <fbc:geneProductRef fbc:geneProduct="G_b4036"/>
+        </fbc:geneProductAssociation>
+      </reaction>
+      <reaction id="R_DINStex" fast="false" reversible="true" name="Deoxyinosine transport via diffusion (extracellular to periplasm)" metaid="R_DINStex" sboTerm="SBO:0000185" fbc:upperFluxBound="cobra_default_ub" fbc:lowerFluxBound="cobra_default_lb">
+        <sbml:annotation xmlns:sbml="http://www.sbml.org/sbml/level3/version1/core">
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+              <bqbiol:is xmlns:bqbiol="http://biomodels.net/biology-qualifiers/">
+                <rdf:Bag>
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+                  <rdf:li rdf:resource="http://identifiers.org/metanetx.reaction/MNXR97466"/>
+                  <rdf:li rdf:resource="http://identifiers.org/seed.reaction/rxn08344"/>
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+          <speciesReference species="M_din_e" stoichiometry="1" constant="true"/>
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+        <listOfProducts>
+          <speciesReference species="M_din_p" stoichiometry="1" constant="true"/>
+        </listOfProducts>
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+            <fbc:geneProductRef fbc:geneProduct="G_b0929"/>
+            <fbc:geneProductRef fbc:geneProduct="G_b1377"/>
+            <fbc:geneProductRef fbc:geneProduct="G_b2215"/>
+          </fbc:or>
+        </fbc:geneProductAssociation>
+      </reaction>
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+        <sbml:annotation xmlns:sbml="http://www.sbml.org/sbml/level3/version1/core">
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+              <bqbiol:is xmlns:bqbiol="http://biomodels.net/biology-qualifiers/">
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+                  <rdf:li rdf:resource="http://identifiers.org/ec-code/5.1.99.d"/>
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+                  <rdf:li rdf:resource="http://identifiers.org/seed.reaction/rxn08341"/>
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+        <listOfProducts>
+          <speciesReference species="M_dhmptp_c" stoichiometry="1" constant="true"/>
+        </listOfProducts>
+        <fbc:geneProductAssociation>
+          <fbc:geneProductRef fbc:geneProduct="G_b2303"/>
+        </fbc:geneProductAssociation>
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+      <reaction id="R_PPDOy" fast="false" reversible="false" name="Propane-1,2-diol:NADP+ 1-oxidoreductase" metaid="R_PPDOy" sboTerm="SBO:0000176" fbc:upperFluxBound="cobra_default_ub" fbc:lowerFluxBound="cobra_0_bound">
+        <sbml:annotation xmlns:sbml="http://www.sbml.org/sbml/level3/version1/core">
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+              <bqbiol:is xmlns:bqbiol="http://biomodels.net/biology-qualifiers/">
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+          <speciesReference species="M_h_c" stoichiometry="1" constant="true"/>
+          <speciesReference species="M_lald__D_c" stoichiometry="1" constant="true"/>
+          <speciesReference species="M_nadph_c" stoichiometry="1" constant="true"/>
+        </listOfReactants>
+        <listOfProducts>
+          <speciesReference species="M_12ppd__R_c" stoichiometry="1" constant="true"/>
+          <speciesReference species="M_nadp_c" stoichiometry="1" constant="true"/>
+        </listOfProducts>
+        <fbc:geneProductAssociation>
+          <fbc:geneProductRef fbc:geneProduct="G_b0325"/>
+        </fbc:geneProductAssociation>
+      </reaction>
+      <reaction id="R_FALGTHLs" fast="false" reversible="true" name="Formaldehyde glutathione ligase (spontaneous)" metaid="R_FALGTHLs" sboTerm="SBO:0000176" fbc:upperFluxBound="cobra_default_ub" fbc:lowerFluxBound="cobra_default_lb">
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+                  <rdf:li rdf:resource="http://identifiers.org/rhea/22489"/>
+                  <rdf:li rdf:resource="http://identifiers.org/sabiork/7488"/>
+                  <rdf:li rdf:resource="http://identifiers.org/seed.reaction/rxn08463"/>
+                  <rdf:li rdf:resource="http://identifiers.org/seed.reaction/rxn04791"/>
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+          <speciesReference species="M_gthrd_c" stoichiometry="1" constant="true"/>
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+        <listOfProducts>
+          <speciesReference species="M_hmgth_c" stoichiometry="1" constant="true"/>
+        </listOfProducts>
+        <fbc:geneProductAssociation>
+          <fbc:geneProductRef fbc:geneProduct="G_s0001"/>
+        </fbc:geneProductAssociation>
+      </reaction>
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+                  <rdf:li rdf:resource="http://identifiers.org/rhea/29383"/>
+                  <rdf:li rdf:resource="http://identifiers.org/rhea/29385"/>
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+          <speciesReference species="M_h2o_p" stoichiometry="1" constant="true"/>
+        </listOfReactants>
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+          <speciesReference species="M_din_p" stoichiometry="1" constant="true"/>
+          <speciesReference species="M_pi_p" stoichiometry="1" constant="true"/>
+        </listOfProducts>
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+            <fbc:geneProductRef fbc:geneProduct="G_b4055"/>
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+        </fbc:geneProductAssociation>
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+                  <rdf:li rdf:resource="http://identifiers.org/rhea/14160"/>
+                  <rdf:li rdf:resource="http://identifiers.org/rhea/14157"/>
+                  <rdf:li rdf:resource="http://identifiers.org/rhea/14159"/>
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+          </rdf:RDF>
+        </sbml:annotation>
+        <listOfReactants>
+          <speciesReference species="M_h2o_c" stoichiometry="1" constant="true"/>
+          <speciesReference species="M_pppi_c" stoichiometry="1" constant="true"/>
+        </listOfReactants>
+        <listOfProducts>
+          <speciesReference species="M_h_c" stoichiometry="1" constant="true"/>
+          <speciesReference species="M_pi_c" stoichiometry="1" constant="true"/>
+          <speciesReference species="M_ppi_c" stoichiometry="1" constant="true"/>
+        </listOfProducts>
+        <fbc:geneProductAssociation>
+          <fbc:or>
+            <fbc:geneProductRef fbc:geneProduct="G_b2502"/>
+            <fbc:geneProductRef fbc:geneProduct="G_b2744"/>
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+        </fbc:geneProductAssociation>
+      </reaction>
+      <reaction id="R_DIMPtex" fast="false" reversible="true" name="DIMP transport via diffusion (extracellular to periplasm)" metaid="R_DIMPtex" sboTerm="SBO:0000185" fbc:upperFluxBound="cobra_default_ub" fbc:lowerFluxBound="cobra_default_lb">
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+                  <rdf:li rdf:resource="http://identifiers.org/seed.reaction/rxn08342"/>
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+        <listOfProducts>
+          <speciesReference species="M_dimp_p" stoichiometry="1" constant="true"/>
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+        <fbc:geneProductAssociation>
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+            <fbc:geneProductRef fbc:geneProduct="G_b0929"/>
+            <fbc:geneProductRef fbc:geneProduct="G_b1377"/>
+            <fbc:geneProductRef fbc:geneProduct="G_b2215"/>
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+        </fbc:geneProductAssociation>
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+      <reaction id="R_EX_hdca_e" fast="false" reversible="false" name="Hexadecanoate (n-C16:0) exchange" metaid="R_EX_hdca_e" sboTerm="SBO:0000627" fbc:upperFluxBound="cobra_default_ub" fbc:lowerFluxBound="cobra_0_bound">
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+                  <rdf:li rdf:resource="http://identifiers.org/rhea/45256"/>
+                  <rdf:li rdf:resource="http://identifiers.org/rhea/45258"/>
+                  <rdf:li rdf:resource="http://identifiers.org/rhea/45259"/>
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+                  <rdf:li rdf:resource="http://identifiers.org/seed.reaction/rxn09848"/>
+                  <rdf:li rdf:resource="http://identifiers.org/seed.reaction/rxn09676"/>
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+        <sbml:annotation xmlns:sbml="http://www.sbml.org/sbml/level3/version1/core">
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+                  <rdf:li rdf:resource="http://identifiers.org/rhea/28476"/>
+                  <rdf:li rdf:resource="http://identifiers.org/rhea/28474"/>
+                  <rdf:li rdf:resource="http://identifiers.org/rhea/28475"/>
+                  <rdf:li rdf:resource="http://identifiers.org/seed.reaction/rxn12442"/>
+                  <rdf:li rdf:resource="http://identifiers.org/seed.reaction/rxn08614"/>
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+        <sbml:annotation xmlns:sbml="http://www.sbml.org/sbml/level3/version1/core">
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+                  <rdf:li rdf:resource="http://identifiers.org/biocyc/META:GLUCONOKIN-RXN"/>
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+                  <rdf:li rdf:resource="http://identifiers.org/kegg.reaction/R01737"/>
+                  <rdf:li rdf:resource="http://identifiers.org/metanetx.reaction/MNXR100390"/>
+                  <rdf:li rdf:resource="http://identifiers.org/rhea/19434"/>
+                  <rdf:li rdf:resource="http://identifiers.org/rhea/19436"/>
+                  <rdf:li rdf:resource="http://identifiers.org/rhea/19433"/>
+                  <rdf:li rdf:resource="http://identifiers.org/rhea/19435"/>
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+          <speciesReference species="M_glcn_c" stoichiometry="1" constant="true"/>
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+        <listOfProducts>
+          <speciesReference species="M_6pgc_c" stoichiometry="1" constant="true"/>
+          <speciesReference species="M_adp_c" stoichiometry="1" constant="true"/>
+          <speciesReference species="M_h_c" stoichiometry="1" constant="true"/>
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+          <fbc:or>
+            <fbc:geneProductRef fbc:geneProduct="G_b3437"/>
+            <fbc:geneProductRef fbc:geneProduct="G_b4268"/>
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+        </fbc:geneProductAssociation>
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+                  <rdf:li rdf:resource="http://identifiers.org/seed.reaction/rxn00060"/>
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+        </listOfReactants>
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+          <speciesReference species="M_hmbil_c" stoichiometry="1" constant="true"/>
+          <speciesReference species="M_nh4_c" stoichiometry="4" constant="true"/>
+        </listOfProducts>
+        <fbc:geneProductAssociation>
+          <fbc:geneProductRef fbc:geneProduct="G_b3805"/>
+        </fbc:geneProductAssociation>
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+          <speciesReference species="M_h2o_p" stoichiometry="1" constant="true"/>
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+        <listOfProducts>
+          <speciesReference species="M_adn_p" stoichiometry="1" constant="true"/>
+          <speciesReference species="M_pi_p" stoichiometry="1" constant="true"/>
+        </listOfProducts>
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+            <fbc:geneProductRef fbc:geneProduct="G_b0383"/>
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+        </fbc:geneProductAssociation>
+      </reaction>
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+                  <rdf:li rdf:resource="http://identifiers.org/seed.reaction/rxn10500"/>
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+        <listOfProducts>
+          <speciesReference species="M_dms_p" stoichiometry="1" constant="true"/>
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+        <fbc:geneProductAssociation>
+          <fbc:or>
+            <fbc:geneProductRef fbc:geneProduct="G_b0241"/>
+            <fbc:geneProductRef fbc:geneProduct="G_b0929"/>
+            <fbc:geneProductRef fbc:geneProduct="G_b1377"/>
+            <fbc:geneProductRef fbc:geneProduct="G_b2215"/>
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+        </fbc:geneProductAssociation>
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+          <speciesReference species="M_h2o_p" stoichiometry="1" constant="true"/>
+        </listOfReactants>
+        <listOfProducts>
+          <speciesReference species="M_cytd_p" stoichiometry="1" constant="true"/>
+          <speciesReference species="M_pi_p" stoichiometry="1" constant="true"/>
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+        <fbc:geneProductAssociation>
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+            <fbc:geneProductRef fbc:geneProduct="G_b4213"/>
+            <fbc:geneProductRef fbc:geneProduct="G_b0383"/>
+            <fbc:geneProductRef fbc:geneProduct="G_b0383"/>
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+          <speciesReference species="M_h2o_p" stoichiometry="1" constant="true"/>
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+        <listOfProducts>
+          <speciesReference species="M_pi_p" stoichiometry="1" constant="true"/>
+          <speciesReference species="M_uri_p" stoichiometry="1" constant="true"/>
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+            <fbc:geneProductRef fbc:geneProduct="G_b0383"/>
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+              <bqbiol:is xmlns:bqbiol="http://biomodels.net/biology-qualifiers/">
+                <rdf:Bag>
+                  <rdf:li rdf:resource="http://identifiers.org/bigg.reaction/3NTD9pp"/>
+                  <rdf:li rdf:resource="http://identifiers.org/biocyc/META:RXN-14124"/>
+                  <rdf:li rdf:resource="http://identifiers.org/ec-code/3.1.3.6"/>
+                  <rdf:li rdf:resource="http://identifiers.org/kegg.reaction/R02148"/>
+                  <rdf:li rdf:resource="http://identifiers.org/metanetx.reaction/MNXR94936"/>
+                  <rdf:li rdf:resource="http://identifiers.org/rhea/27864"/>
+                  <rdf:li rdf:resource="http://identifiers.org/rhea/27865"/>
+                  <rdf:li rdf:resource="http://identifiers.org/rhea/27862"/>
+                  <rdf:li rdf:resource="http://identifiers.org/rhea/27863"/>
+                  <rdf:li rdf:resource="http://identifiers.org/sabiork/309"/>
+                  <rdf:li rdf:resource="http://identifiers.org/seed.reaction/rxn01549"/>
+                </rdf:Bag>
+              </bqbiol:is>
+            </rdf:Description>
+          </rdf:RDF>
+        </sbml:annotation>
+        <listOfReactants>
+          <speciesReference species="M_3gmp_p" stoichiometry="1" constant="true"/>
+          <speciesReference species="M_h2o_p" stoichiometry="1" constant="true"/>
+        </listOfReactants>
+        <listOfProducts>
+          <speciesReference species="M_gsn_p" stoichiometry="1" constant="true"/>
+          <speciesReference species="M_pi_p" stoichiometry="1" constant="true"/>
+        </listOfProducts>
+        <fbc:geneProductAssociation>
+          <fbc:or>
+            <fbc:geneProductRef fbc:geneProduct="G_b4213"/>
+            <fbc:geneProductRef fbc:geneProduct="G_b0383"/>
+          </fbc:or>
+        </fbc:geneProductAssociation>
+      </reaction>
+      <reaction id="R_RMK" fast="false" reversible="false" name="Rhamnulokinase" metaid="R_RMK" sboTerm="SBO:0000176" fbc:upperFluxBound="cobra_default_ub" fbc:lowerFluxBound="cobra_0_bound">
+        <sbml:annotation xmlns:sbml="http://www.sbml.org/sbml/level3/version1/core">
+          <rdf:RDF xmlns:rdf="http://www.w3.org/1999/02/22-rdf-syntax-ns#">
+            <rdf:Description rdf:about="#R_RMK">
+              <bqbiol:is xmlns:bqbiol="http://biomodels.net/biology-qualifiers/">
+                <rdf:Bag>
+                  <rdf:li rdf:resource="http://identifiers.org/bigg.reaction/RMK"/>
+                  <rdf:li rdf:resource="http://identifiers.org/ec-code/2.7.1.5"/>
+                  <rdf:li rdf:resource="http://identifiers.org/kegg.reaction/R03014"/>
+                  <rdf:li rdf:resource="http://identifiers.org/metanetx.reaction/MNXR104039"/>
+                  <rdf:li rdf:resource="http://identifiers.org/rhea/20119"/>
+                  <rdf:li rdf:resource="http://identifiers.org/rhea/20117"/>
+                  <rdf:li rdf:resource="http://identifiers.org/rhea/20118"/>
+                  <rdf:li rdf:resource="http://identifiers.org/rhea/20120"/>
+                  <rdf:li rdf:resource="http://identifiers.org/sabiork/2864"/>
+                  <rdf:li rdf:resource="http://identifiers.org/seed.reaction/rxn02161"/>
+                </rdf:Bag>
+              </bqbiol:is>
+            </rdf:Description>
+          </rdf:RDF>
+        </sbml:annotation>
+        <listOfReactants>
+          <speciesReference species="M_atp_c" stoichiometry="1" constant="true"/>
+          <speciesReference species="M_rml_c" stoichiometry="1" constant="true"/>
+        </listOfReactants>
+        <listOfProducts>
+          <speciesReference species="M_adp_c" stoichiometry="1" constant="true"/>
+          <speciesReference species="M_h_c" stoichiometry="1" constant="true"/>
+          <speciesReference species="M_rml1p_c" stoichiometry="1" constant="true"/>
+        </listOfProducts>
+        <fbc:geneProductAssociation>
+          <fbc:geneProductRef fbc:geneProduct="G_b3904"/>
+        </fbc:geneProductAssociation>
+      </reaction>
+      <reaction id="R_FHL" fast="false" reversible="false" name="Formate-hydrogen lyase" metaid="R_FHL" sboTerm="SBO:0000176" fbc:upperFluxBound="cobra_0_bound" fbc:lowerFluxBound="cobra_0_bound">
+        <sbml:annotation xmlns:sbml="http://www.sbml.org/sbml/level3/version1/core">
+          <rdf:RDF xmlns:rdf="http://www.w3.org/1999/02/22-rdf-syntax-ns#">
+            <rdf:Description rdf:about="#R_FHL">
+              <bqbiol:is xmlns:bqbiol="http://biomodels.net/biology-qualifiers/">
+                <rdf:Bag>
+                  <rdf:li rdf:resource="http://identifiers.org/bigg.reaction/FHL"/>
+                  <rdf:li rdf:resource="http://identifiers.org/biocyc/META:FHLMULTI-RXN"/>
+                  <rdf:li rdf:resource="http://identifiers.org/metanetx.reaction/MNXR99594"/>
+                  <rdf:li rdf:resource="http://identifiers.org/rhea/27611"/>
+                  <rdf:li rdf:resource="http://identifiers.org/rhea/27610"/>
+                  <rdf:li rdf:resource="http://identifiers.org/rhea/27613"/>
+                  <rdf:li rdf:resource="http://identifiers.org/rhea/27612"/>
+                  <rdf:li rdf:resource="http://identifiers.org/seed.reaction/rxn08518"/>
+                </rdf:Bag>
+              </bqbiol:is>
+            </rdf:Description>
+          </rdf:RDF>
+        </sbml:annotation>
+        <listOfReactants>
+          <speciesReference species="M_for_c" stoichiometry="1" constant="true"/>
+          <speciesReference species="M_h_c" stoichiometry="1" constant="true"/>
+        </listOfReactants>
+        <listOfProducts>
+          <speciesReference species="M_co2_c" stoichiometry="1" constant="true"/>
+          <speciesReference species="M_h2_c" stoichiometry="1" constant="true"/>
+        </listOfProducts>
+        <fbc:geneProductAssociation>
+          <fbc:or>
+            <fbc:and>
+              <fbc:geneProductRef fbc:geneProduct="G_b4079"/>
+              <fbc:and>
+                <fbc:geneProductRef fbc:geneProduct="G_b2489"/>
+                <fbc:geneProductRef fbc:geneProduct="G_b2487"/>
+                <fbc:geneProductRef fbc:geneProduct="G_b2485"/>
+                <fbc:geneProductRef fbc:geneProduct="G_b2482"/>
+                <fbc:geneProductRef fbc:geneProduct="G_b2483"/>
+                <fbc:geneProductRef fbc:geneProduct="G_b2486"/>
+                <fbc:geneProductRef fbc:geneProduct="G_b2490"/>
+                <fbc:geneProductRef fbc:geneProduct="G_b2488"/>
+                <fbc:geneProductRef fbc:geneProduct="G_b2484"/>
+                <fbc:geneProductRef fbc:geneProduct="G_b2481"/>
+              </fbc:and>
+            </fbc:and>
+            <fbc:and>
+              <fbc:geneProductRef fbc:geneProduct="G_b4079"/>
+              <fbc:and>
+                <fbc:geneProductRef fbc:geneProduct="G_b2722"/>
+                <fbc:geneProductRef fbc:geneProduct="G_b2723"/>
+                <fbc:geneProductRef fbc:geneProduct="G_b2724"/>
+                <fbc:geneProductRef fbc:geneProduct="G_b2720"/>
+                <fbc:geneProductRef fbc:geneProduct="G_b2721"/>
+                <fbc:geneProductRef fbc:geneProduct="G_b2719"/>
+              </fbc:and>
+            </fbc:and>
+          </fbc:or>
+        </fbc:geneProductAssociation>
+      </reaction>
+      <reaction id="R_HYPOE" fast="false" reversible="false" name="Hypothetical enyme" metaid="R_HYPOE" sboTerm="SBO:0000176" fbc:upperFluxBound="cobra_default_ub" fbc:lowerFluxBound="cobra_0_bound">
+        <sbml:annotation xmlns:sbml="http://www.sbml.org/sbml/level3/version1/core">
+          <rdf:RDF xmlns:rdf="http://www.w3.org/1999/02/22-rdf-syntax-ns#">
+            <rdf:Description rdf:about="#R_HYPOE">
+              <bqbiol:is xmlns:bqbiol="http://biomodels.net/biology-qualifiers/">
+                <rdf:Bag>
+                  <rdf:li rdf:resource="http://identifiers.org/bigg.reaction/HYPOE"/>
+                  <rdf:li rdf:resource="http://identifiers.org/biocyc/META:RXN-14046"/>
+                  <rdf:li rdf:resource="http://identifiers.org/ec-code/3.1.3.74"/>
+                  <rdf:li rdf:resource="http://identifiers.org/kegg.reaction/R02494"/>
+                  <rdf:li rdf:resource="http://identifiers.org/metanetx.reaction/MNXR100763"/>
+                  <rdf:li rdf:resource="http://identifiers.org/rhea/25135"/>
+                  <rdf:li rdf:resource="http://identifiers.org/rhea/25138"/>
+                  <rdf:li rdf:resource="http://identifiers.org/rhea/25137"/>
+                  <rdf:li rdf:resource="http://identifiers.org/rhea/25136"/>
+                  <rdf:li rdf:resource="http://identifiers.org/sabiork/2424"/>
+                  <rdf:li rdf:resource="http://identifiers.org/seed.reaction/rxn01808"/>
+                </rdf:Bag>
+              </bqbiol:is>
+            </rdf:Description>
+          </rdf:RDF>
+        </sbml:annotation>
+        <listOfReactants>
+          <speciesReference species="M_h2o_c" stoichiometry="1" constant="true"/>
+          <speciesReference species="M_pyam5p_c" stoichiometry="1" constant="true"/>
+        </listOfReactants>
+        <listOfProducts>
+          <speciesReference species="M_pi_c" stoichiometry="1" constant="true"/>
+          <speciesReference species="M_pydam_c" stoichiometry="1" constant="true"/>
+        </listOfProducts>
+      </reaction>
+      <reaction id="R_MEPCT" fast="false" reversible="false" name="2-C-methyl-D-erythritol 4-phosphate cytidylyltransferase" metaid="R_MEPCT" sboTerm="SBO:0000176" fbc:upperFluxBound="cobra_default_ub" fbc:lowerFluxBound="cobra_0_bound">
+        <sbml:annotation xmlns:sbml="http://www.sbml.org/sbml/level3/version1/core">
+          <rdf:RDF xmlns:rdf="http://www.w3.org/1999/02/22-rdf-syntax-ns#">
+            <rdf:Description rdf:about="#R_MEPCT">
+              <bqbiol:is xmlns:bqbiol="http://biomodels.net/biology-qualifiers/">
+                <rdf:Bag>
+                  <rdf:li rdf:resource="http://identifiers.org/bigg.reaction/MEPCT"/>
+                  <rdf:li rdf:resource="http://identifiers.org/biocyc/META:2.7.7.60-RXN"/>
+                  <rdf:li rdf:resource="http://identifiers.org/ec-code/2.7.7.60"/>
+                  <rdf:li rdf:resource="http://identifiers.org/kegg.reaction/R05633"/>
+                  <rdf:li rdf:resource="http://identifiers.org/metanetx.reaction/MNXR96807"/>
+                  <rdf:li rdf:resource="http://identifiers.org/rhea/13430"/>
+                  <rdf:li rdf:resource="http://identifiers.org/rhea/13429"/>
+                  <rdf:li rdf:resource="http://identifiers.org/rhea/13432"/>
+                  <rdf:li rdf:resource="http://identifiers.org/rhea/13431"/>
+                  <rdf:li rdf:resource="http://identifiers.org/sabiork/5231"/>
+                  <rdf:li rdf:resource="http://identifiers.org/seed.reaction/rxn03907"/>
+                </rdf:Bag>
+              </bqbiol:is>
+            </rdf:Description>
+          </rdf:RDF>
+        </sbml:annotation>
+        <listOfReactants>
+          <speciesReference species="M_2me4p_c" stoichiometry="1" constant="true"/>
+          <speciesReference species="M_ctp_c" stoichiometry="1" constant="true"/>
+          <speciesReference species="M_h_c" stoichiometry="1" constant="true"/>
+        </listOfReactants>
+        <listOfProducts>
+          <speciesReference species="M_4c2me_c" stoichiometry="1" constant="true"/>
+          <speciesReference species="M_ppi_c" stoichiometry="1" constant="true"/>
+        </listOfProducts>
+        <fbc:geneProductAssociation>
+          <fbc:geneProductRef fbc:geneProduct="G_b2747"/>
+        </fbc:geneProductAssociation>
+      </reaction>
+      <reaction id="R_GLUDy" fast="false" reversible="true" name="Glutamate dehydrogenase (NADP)" metaid="R_GLUDy" sboTerm="SBO:0000176" fbc:upperFluxBound="cobra_default_ub" fbc:lowerFluxBound="cobra_default_lb">
+        <sbml:annotation xmlns:sbml="http://www.sbml.org/sbml/level3/version1/core">
+          <rdf:RDF xmlns:rdf="http://www.w3.org/1999/02/22-rdf-syntax-ns#">
+            <rdf:Description rdf:about="#R_GLUDy">
+              <bqbiol:is xmlns:bqbiol="http://biomodels.net/biology-qualifiers/">
+                <rdf:Bag>
+                  <rdf:li rdf:resource="http://identifiers.org/bigg.reaction/GLUDy"/>
+                  <rdf:li rdf:resource="http://identifiers.org/biocyc/META:GLUTDEHYD-RXN"/>
+                  <rdf:li rdf:resource="http://identifiers.org/ec-code/1.4.1.13"/>
+                  <rdf:li rdf:resource="http://identifiers.org/ec-code/1.4.1.3"/>
+                  <rdf:li rdf:resource="http://identifiers.org/ec-code/1.4.1.4"/>
+                  <rdf:li rdf:resource="http://identifiers.org/kegg.reaction/R00248"/>
+                  <rdf:li rdf:resource="http://identifiers.org/metanetx.reaction/MNXR100086"/>
+                  <rdf:li rdf:resource="http://identifiers.org/rhea/11613"/>
+                  <rdf:li rdf:resource="http://identifiers.org/rhea/11614"/>
+                  <rdf:li rdf:resource="http://identifiers.org/rhea/11612"/>
+                  <rdf:li rdf:resource="http://identifiers.org/rhea/11615"/>
+                  <rdf:li rdf:resource="http://identifiers.org/sabiork/757"/>
+                  <rdf:li rdf:resource="http://identifiers.org/seed.reaction/rxn00184"/>
+                </rdf:Bag>
+              </bqbiol:is>
+            </rdf:Description>
+          </rdf:RDF>
+        </sbml:annotation>
+        <listOfReactants>
+          <speciesReference species="M_glu__L_c" stoichiometry="1" constant="true"/>
+          <speciesReference species="M_h2o_c" stoichiometry="1" constant="true"/>
+          <speciesReference species="M_nadp_c" stoichiometry="1" constant="true"/>
+        </listOfReactants>
+        <listOfProducts>
+          <speciesReference species="M_akg_c" stoichiometry="1" constant="true"/>
+          <speciesReference species="M_h_c" stoichiometry="1" constant="true"/>
+          <speciesReference species="M_nadph_c" stoichiometry="1" constant="true"/>
+          <speciesReference species="M_nh4_c" stoichiometry="1" constant="true"/>
+        </listOfProducts>
+        <fbc:geneProductAssociation>
+          <fbc:or>
+            <fbc:geneProductRef fbc:geneProduct="G_b1761"/>
+            <fbc:and>
+              <fbc:geneProductRef fbc:geneProduct="G_b3213"/>
+              <fbc:geneProductRef fbc:geneProduct="G_b3212"/>
+            </fbc:and>
+          </fbc:or>
+        </fbc:geneProductAssociation>
+      </reaction>
+      <reaction id="R_23PDE7pp" fast="false" reversible="false" name="2',3'-cyclic-nucleotide phosphodiesterase (AMP) (periplasm)" metaid="R_23PDE7pp" sboTerm="SBO:0000176" fbc:upperFluxBound="cobra_default_ub" fbc:lowerFluxBound="cobra_0_bound">
+        <sbml:annotation xmlns:sbml="http://www.sbml.org/sbml/level3/version1/core">
+          <rdf:RDF xmlns:rdf="http://www.w3.org/1999/02/22-rdf-syntax-ns#">
+            <rdf:Description rdf:about="#R_23PDE7pp">
+              <bqbiol:is xmlns:bqbiol="http://biomodels.net/biology-qualifiers/">
+                <rdf:Bag>
+                  <rdf:li rdf:resource="http://identifiers.org/bigg.reaction/23PDE7pp"/>
+                  <rdf:li rdf:resource="http://identifiers.org/biocyc/META:RXN-14113"/>
+                  <rdf:li rdf:resource="http://identifiers.org/ec-code/3.1.4.16"/>
+                  <rdf:li rdf:resource="http://identifiers.org/kegg.reaction/R03537"/>
+                  <rdf:li rdf:resource="http://identifiers.org/metanetx.reaction/MNXR94722"/>
+                  <rdf:li rdf:resource="http://identifiers.org/rhea/27886"/>
+                  <rdf:li rdf:resource="http://identifiers.org/rhea/27887"/>
+                  <rdf:li rdf:resource="http://identifiers.org/rhea/27889"/>
+                  <rdf:li rdf:resource="http://identifiers.org/rhea/27888"/>
+                  <rdf:li rdf:resource="http://identifiers.org/sabiork/3322"/>
+                  <rdf:li rdf:resource="http://identifiers.org/seed.reaction/rxn02521"/>
+                </rdf:Bag>
+              </bqbiol:is>
+            </rdf:Description>
+          </rdf:RDF>
+        </sbml:annotation>
+        <listOfReactants>
+          <speciesReference species="M_23camp_p" stoichiometry="1" constant="true"/>
+          <speciesReference species="M_h2o_p" stoichiometry="1" constant="true"/>
+        </listOfReactants>
+        <listOfProducts>
+          <speciesReference species="M_3amp_p" stoichiometry="1" constant="true"/>
+          <speciesReference species="M_h_p" stoichiometry="1" constant="true"/>
+        </listOfProducts>
+        <fbc:geneProductAssociation>
+          <fbc:geneProductRef fbc:geneProduct="G_b4213"/>
+        </fbc:geneProductAssociation>
+      </reaction>
+      <reaction id="R_GALTptspp" fast="false" reversible="false" name="Galactitol transport via PEP:Pyr PTS (periplasm)" metaid="R_GALTptspp" sboTerm="SBO:0000185" fbc:upperFluxBound="cobra_default_ub" fbc:lowerFluxBound="cobra_0_bound">
+        <sbml:annotation xmlns:sbml="http://www.sbml.org/sbml/level3/version1/core">
+          <rdf:RDF xmlns:rdf="http://www.w3.org/1999/02/22-rdf-syntax-ns#">
+            <rdf:Description rdf:about="#R_GALTptspp">
+              <bqbiol:is xmlns:bqbiol="http://biomodels.net/biology-qualifiers/">
+                <rdf:Bag>
+                  <rdf:li rdf:resource="http://identifiers.org/bigg.reaction/GALTptspp"/>
+                  <rdf:li rdf:resource="http://identifiers.org/metanetx.reaction/MNXR100018"/>
+                  <rdf:li rdf:resource="http://identifiers.org/seed.reaction/rxn08586"/>
+                  <rdf:li rdf:resource="http://identifiers.org/seed.reaction/rxn05567"/>
+                </rdf:Bag>
+              </bqbiol:is>
+            </rdf:Description>
+          </rdf:RDF>
+        </sbml:annotation>
+        <listOfReactants>
+          <speciesReference species="M_galt_p" stoichiometry="1" constant="true"/>
+          <speciesReference species="M_pep_c" stoichiometry="1" constant="true"/>
+        </listOfReactants>
+        <listOfProducts>
+          <speciesReference species="M_galt1p_c" stoichiometry="1" constant="true"/>
+          <speciesReference species="M_pyr_c" stoichiometry="1" constant="true"/>
+        </listOfProducts>
+        <fbc:geneProductAssociation>
+          <fbc:and>
+            <fbc:geneProductRef fbc:geneProduct="G_b2092"/>
+            <fbc:geneProductRef fbc:geneProduct="G_b2415"/>
+            <fbc:geneProductRef fbc:geneProduct="G_b2094"/>
+            <fbc:geneProductRef fbc:geneProduct="G_b2093"/>
+            <fbc:geneProductRef fbc:geneProduct="G_b2416"/>
+          </fbc:and>
+        </fbc:geneProductAssociation>
+      </reaction>
+      <reaction id="R_GALURt2rpp" fast="false" reversible="true" name="D-galacturonate transport via proton symport, reversible (periplasm)" metaid="R_GALURt2rpp" sboTerm="SBO:0000185" fbc:upperFluxBound="cobra_default_ub" fbc:lowerFluxBound="cobra_default_lb">
+        <sbml:annotation xmlns:sbml="http://www.sbml.org/sbml/level3/version1/core">
+          <rdf:RDF xmlns:rdf="http://www.w3.org/1999/02/22-rdf-syntax-ns#">
+            <rdf:Description rdf:about="#R_GALURt2rpp">
+              <bqbiol:is xmlns:bqbiol="http://biomodels.net/biology-qualifiers/">
+                <rdf:Bag>
+                  <rdf:li rdf:resource="http://identifiers.org/bigg.reaction/GALURt2rpp"/>
+                  <rdf:li rdf:resource="http://identifiers.org/metanetx.reaction/MNXR100020"/>
+                  <rdf:li rdf:resource="http://identifiers.org/seed.reaction/rxn08588"/>
+                  <rdf:li rdf:resource="http://identifiers.org/seed.reaction/rxn05673"/>
+                </rdf:Bag>
+              </bqbiol:is>
+            </rdf:Description>
+          </rdf:RDF>
+        </sbml:annotation>
+        <listOfReactants>
+          <speciesReference species="M_galur_p" stoichiometry="1" constant="true"/>
+          <speciesReference species="M_h_p" stoichiometry="1" constant="true"/>
+        </listOfReactants>
+        <listOfProducts>
+          <speciesReference species="M_galur_c" stoichiometry="1" constant="true"/>
+          <speciesReference species="M_h_c" stoichiometry="1" constant="true"/>
+        </listOfProducts>
+        <fbc:geneProductAssociation>
+          <fbc:geneProductRef fbc:geneProduct="G_b3093"/>
+        </fbc:geneProductAssociation>
+      </reaction>
+      <reaction id="R_ZN2abcpp" fast="false" reversible="false" name="Zinc (Zn+2) ABC transporter, efflux (periplasm)" metaid="R_ZN2abcpp" sboTerm="SBO:0000185" fbc:upperFluxBound="cobra_default_ub" fbc:lowerFluxBound="cobra_0_bound">
+        <sbml:annotation xmlns:sbml="http://www.sbml.org/sbml/level3/version1/core">
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+            <rdf:Description rdf:about="#R_ZN2abcpp">
+              <bqbiol:is xmlns:bqbiol="http://biomodels.net/biology-qualifiers/">
+                <rdf:Bag>
+                  <rdf:li rdf:resource="http://identifiers.org/bigg.reaction/ZN2abcpp"/>
+                  <rdf:li rdf:resource="http://identifiers.org/biocyc/META:RXN0-5205"/>
+                  <rdf:li rdf:resource="http://identifiers.org/ec-code/3.6.3.5"/>
+                  <rdf:li rdf:resource="http://identifiers.org/metanetx.reaction/MNXR105277"/>
+                  <rdf:li rdf:resource="http://identifiers.org/rhea/20622"/>
+                  <rdf:li rdf:resource="http://identifiers.org/rhea/20624"/>
+                  <rdf:li rdf:resource="http://identifiers.org/rhea/20623"/>
+                  <rdf:li rdf:resource="http://identifiers.org/rhea/20621"/>
+                  <rdf:li rdf:resource="http://identifiers.org/sabiork/13430#1"/>
+                  <rdf:li rdf:resource="http://identifiers.org/seed.reaction/rxn13918"/>
+                  <rdf:li rdf:resource="http://identifiers.org/seed.reaction/rxn09388"/>
+                </rdf:Bag>
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+          </rdf:RDF>
+        </sbml:annotation>
+        <listOfReactants>
+          <speciesReference species="M_atp_c" stoichiometry="1" constant="true"/>
+          <speciesReference species="M_h2o_c" stoichiometry="1" constant="true"/>
+          <speciesReference species="M_zn2_c" stoichiometry="1" constant="true"/>
+        </listOfReactants>
+        <listOfProducts>
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+          <speciesReference species="M_pi_c" stoichiometry="1" constant="true"/>
+          <speciesReference species="M_zn2_p" stoichiometry="1" constant="true"/>
+        </listOfProducts>
+        <fbc:geneProductAssociation>
+          <fbc:geneProductRef fbc:geneProduct="G_b3469"/>
+        </fbc:geneProductAssociation>
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+            <fbc:geneProductRef fbc:geneProduct="G_b0929"/>
+            <fbc:geneProductRef fbc:geneProduct="G_b1377"/>
+            <fbc:geneProductRef fbc:geneProduct="G_b2215"/>
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+        </fbc:geneProductAssociation>
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+          <speciesReference species="M_h_c" stoichiometry="1" constant="true"/>
+          <speciesReference species="M_nadph_c" stoichiometry="1" constant="true"/>
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+          <speciesReference species="M_nadp_c" stoichiometry="1" constant="true"/>
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+            <fbc:geneProductRef fbc:geneProduct="G_b3553"/>
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+        </fbc:geneProductAssociation>
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+                  <rdf:li rdf:resource="http://identifiers.org/rhea/22354"/>
+                  <rdf:li rdf:resource="http://identifiers.org/rhea/22352"/>
+                  <rdf:li rdf:resource="http://identifiers.org/rhea/22355"/>
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+        <listOfProducts>
+          <speciesReference species="M_15dap_c" stoichiometry="1" constant="true"/>
+          <speciesReference species="M_co2_c" stoichiometry="1" constant="true"/>
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+            <fbc:geneProductRef fbc:geneProduct="G_b4131"/>
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+        </fbc:geneProductAssociation>
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+          <speciesReference species="M_fad_c" stoichiometry="1" constant="true"/>
+          <speciesReference species="M_h2o_c" stoichiometry="1" constant="true"/>
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+        <listOfProducts>
+          <speciesReference species="M_fadh2_c" stoichiometry="1" constant="true"/>
+          <speciesReference species="M_nh4_c" stoichiometry="1" constant="true"/>
+          <speciesReference species="M_pyr_c" stoichiometry="1" constant="true"/>
+        </listOfProducts>
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+          <fbc:geneProductRef fbc:geneProduct="G_b1189"/>
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+            <fbc:geneProductRef fbc:geneProduct="G_b4476"/>
+            <fbc:geneProductRef fbc:geneProduct="G_b3415"/>
+            <fbc:geneProductRef fbc:geneProduct="G_b4265"/>
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+        </fbc:geneProductAssociation>
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+          <speciesReference species="M_pyr_c" stoichiometry="1" constant="true"/>
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+        <fbc:geneProductAssociation>
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+            <fbc:and>
+              <fbc:geneProductRef fbc:geneProduct="G_b1621"/>
+              <fbc:geneProductRef fbc:geneProduct="G_b2415"/>
+              <fbc:geneProductRef fbc:geneProduct="G_b2417"/>
+              <fbc:geneProductRef fbc:geneProduct="G_b2416"/>
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+            <fbc:and>
+              <fbc:geneProductRef fbc:geneProduct="G_b1101"/>
+              <fbc:geneProductRef fbc:geneProduct="G_b2416"/>
+              <fbc:geneProductRef fbc:geneProduct="G_b2415"/>
+              <fbc:geneProductRef fbc:geneProduct="G_b2417"/>
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+            <fbc:and>
+              <fbc:geneProductRef fbc:geneProduct="G_b1819"/>
+              <fbc:geneProductRef fbc:geneProduct="G_b2415"/>
+              <fbc:geneProductRef fbc:geneProduct="G_b1818"/>
+              <fbc:geneProductRef fbc:geneProduct="G_b1817"/>
+              <fbc:geneProductRef fbc:geneProduct="G_b2416"/>
+            </fbc:and>
+          </fbc:or>
+        </fbc:geneProductAssociation>
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+          <speciesReference species="M_h_c" stoichiometry="1" constant="true"/>
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+            <fbc:geneProductRef fbc:geneProduct="G_b2789"/>
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+          <speciesReference species="M_h_c" stoichiometry="1" constant="true"/>
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+        <fbc:geneProductAssociation>
+          <fbc:geneProductRef fbc:geneProduct="G_b2943"/>
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+        <listOfReactants>
+          <speciesReference species="M_xtsn_e" stoichiometry="1" constant="true"/>
+        </listOfReactants>
+        <listOfProducts>
+          <speciesReference species="M_xtsn_p" stoichiometry="1" constant="true"/>
+        </listOfProducts>
+        <fbc:geneProductAssociation>
+          <fbc:or>
+            <fbc:geneProductRef fbc:geneProduct="G_b0241"/>
+            <fbc:geneProductRef fbc:geneProduct="G_b0929"/>
+            <fbc:geneProductRef fbc:geneProduct="G_b1377"/>
+            <fbc:geneProductRef fbc:geneProduct="G_b2215"/>
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+        </fbc:geneProductAssociation>
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+                  <rdf:li rdf:resource="http://identifiers.org/rhea/13066"/>
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+                  <rdf:li rdf:resource="http://identifiers.org/rhea/13068"/>
+                  <rdf:li rdf:resource="http://identifiers.org/rhea/13067"/>
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+                  <rdf:li rdf:resource="http://identifiers.org/seed.reaction/rxn09694"/>
+                  <rdf:li rdf:resource="http://identifiers.org/seed.reaction/rxn00062"/>
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+          <speciesReference species="M_h2o_c" stoichiometry="1" constant="true"/>
+        </listOfReactants>
+        <listOfProducts>
+          <speciesReference species="M_adp_c" stoichiometry="1" constant="true"/>
+          <speciesReference species="M_h_c" stoichiometry="1" constant="true"/>
+          <speciesReference species="M_pi_c" stoichiometry="1" constant="true"/>
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+                  <rdf:li rdf:resource="http://identifiers.org/rhea/29656"/>
+                  <rdf:li rdf:resource="http://identifiers.org/rhea/29658"/>
+                  <rdf:li rdf:resource="http://identifiers.org/rhea/29657"/>
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+                  <rdf:li rdf:resource="http://identifiers.org/seed.reaction/rxn08286"/>
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+        <listOfProducts>
+          <speciesReference species="M_cys__L_p" stoichiometry="1" constant="true"/>
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+        <fbc:geneProductAssociation>
+          <fbc:or>
+            <fbc:geneProductRef fbc:geneProduct="G_b0241"/>
+            <fbc:geneProductRef fbc:geneProduct="G_b0929"/>
+            <fbc:geneProductRef fbc:geneProduct="G_b1377"/>
+            <fbc:geneProductRef fbc:geneProduct="G_b2215"/>
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+        </fbc:geneProductAssociation>
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+        <sbml:annotation xmlns:sbml="http://www.sbml.org/sbml/level3/version1/core">
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+                  <rdf:li rdf:resource="http://identifiers.org/seed.reaction/rxn00088"/>
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+          <speciesReference species="M_nadp_c" stoichiometry="1" constant="true"/>
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+        <listOfProducts>
+          <speciesReference species="M_nad_c" stoichiometry="1" constant="true"/>
+          <speciesReference species="M_pi_c" stoichiometry="1" constant="true"/>
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+        <sbml:annotation xmlns:sbml="http://www.sbml.org/sbml/level3/version1/core">
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+                  <rdf:li rdf:resource="http://identifiers.org/sabiork/1290"/>
+                  <rdf:li rdf:resource="http://identifiers.org/seed.reaction/rxn00737"/>
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+          <speciesReference species="M_2obut_c" stoichiometry="1" constant="true"/>
+          <speciesReference species="M_nh4_c" stoichiometry="1" constant="true"/>
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+            <fbc:geneProductRef fbc:geneProduct="G_b3117"/>
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+        <sbml:annotation xmlns:sbml="http://www.sbml.org/sbml/level3/version1/core">
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+                  <rdf:li rdf:resource="http://identifiers.org/seed.reaction/rxn01218"/>
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+          <speciesReference species="M_h2o_c" stoichiometry="1" constant="true"/>
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+          <speciesReference species="M_dcyt_c" stoichiometry="1" constant="true"/>
+          <speciesReference species="M_pi_c" stoichiometry="1" constant="true"/>
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+        <fbc:geneProductAssociation>
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+            <fbc:geneProductRef fbc:geneProduct="G_b2744"/>
+            <fbc:geneProductRef fbc:geneProduct="G_b2291"/>
+            <fbc:geneProductRef fbc:geneProduct="G_b2361"/>
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+        </fbc:geneProductAssociation>
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+            <fbc:geneProductRef fbc:geneProduct="G_b0929"/>
+            <fbc:geneProductRef fbc:geneProduct="G_b1377"/>
+            <fbc:geneProductRef fbc:geneProduct="G_b2215"/>
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+        </fbc:geneProductAssociation>
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+                  <rdf:li rdf:resource="http://identifiers.org/rhea/25247"/>
+                  <rdf:li rdf:resource="http://identifiers.org/rhea/25245"/>
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+          <speciesReference species="M_lgt__S_c" stoichiometry="1" constant="true"/>
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+        <listOfProducts>
+          <speciesReference species="M_gthrd_c" stoichiometry="1" constant="true"/>
+          <speciesReference species="M_h_c" stoichiometry="1" constant="true"/>
+          <speciesReference species="M_lac__D_c" stoichiometry="1" constant="true"/>
+        </listOfProducts>
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+          <fbc:geneProductRef fbc:geneProduct="G_b0212"/>
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+        <listOfProducts>
+          <speciesReference species="M_dad_2_p" stoichiometry="1" constant="true"/>
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+      <reaction id="R_4PEPTtex" fast="false" reversible="true" name="LalaDgluMdapDala (pentapeptide) transport via diffusion (extracellular to periplasm)" metaid="R_4PEPTtex" sboTerm="SBO:0000185" fbc:upperFluxBound="cobra_default_ub" fbc:lowerFluxBound="cobra_default_lb">
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+        <listOfProducts>
+          <speciesReference species="M_LalaDgluMdapDala_p" stoichiometry="1" constant="true"/>
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+            <fbc:geneProductRef fbc:geneProduct="G_b1377"/>
+            <fbc:geneProductRef fbc:geneProduct="G_b2215"/>
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+        </fbc:geneProductAssociation>
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+          <speciesReference species="M_nac_c" stoichiometry="1" constant="true"/>
+          <speciesReference species="M_prpp_c" stoichiometry="1" constant="true"/>
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+          <speciesReference species="M_adp_c" stoichiometry="1" constant="true"/>
+          <speciesReference species="M_nicrnt_c" stoichiometry="1" constant="true"/>
+          <speciesReference species="M_pi_c" stoichiometry="1" constant="true"/>
+          <speciesReference species="M_ppi_c" stoichiometry="1" constant="true"/>
+        </listOfProducts>
+        <fbc:geneProductAssociation>
+          <fbc:geneProductRef fbc:geneProduct="G_b0931"/>
+        </fbc:geneProductAssociation>
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+                  <rdf:li rdf:resource="http://identifiers.org/rhea/34976"/>
+                  <rdf:li rdf:resource="http://identifiers.org/rhea/34977"/>
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+                  <rdf:li rdf:resource="http://identifiers.org/rhea/18738"/>
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+          <speciesReference species="M_seln_c" stoichiometry="1" constant="true"/>
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+        <listOfProducts>
+          <speciesReference species="M_amp_c" stoichiometry="1" constant="true"/>
+          <speciesReference species="M_pi_c" stoichiometry="1" constant="true"/>
+          <speciesReference species="M_selnp_c" stoichiometry="1" constant="true"/>
+        </listOfProducts>
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+          <fbc:geneProductRef fbc:geneProduct="G_b1764"/>
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+                  <rdf:li rdf:resource="http://identifiers.org/seed.reaction/rxn08326"/>
+                  <rdf:li rdf:resource="http://identifiers.org/seed.reaction/rxn05532"/>
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+        <listOfProducts>
+          <speciesReference species="M_dha_p" stoichiometry="1" constant="true"/>
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+            <fbc:geneProductRef fbc:geneProduct="G_b0929"/>
+            <fbc:geneProductRef fbc:geneProduct="G_b1377"/>
+            <fbc:geneProductRef fbc:geneProduct="G_b2215"/>
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+        </fbc:geneProductAssociation>
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+                  <rdf:li rdf:resource="http://identifiers.org/rhea/35267"/>
+                  <rdf:li rdf:resource="http://identifiers.org/rhea/35270"/>
+                  <rdf:li rdf:resource="http://identifiers.org/rhea/35268"/>
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+                  <rdf:li rdf:resource="http://identifiers.org/seed.reaction/rxn09764"/>
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+          <speciesReference species="M_etoh_e" stoichiometry="1" constant="true"/>
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+        <listOfProducts>
+          <speciesReference species="M_etoh_p" stoichiometry="1" constant="true"/>
+        </listOfProducts>
+        <fbc:geneProductAssociation>
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+            <fbc:geneProductRef fbc:geneProduct="G_b0929"/>
+            <fbc:geneProductRef fbc:geneProduct="G_b1377"/>
+            <fbc:geneProductRef fbc:geneProduct="G_b2215"/>
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+        </fbc:geneProductAssociation>
+      </reaction>
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+                  <rdf:li rdf:resource="http://identifiers.org/rhea/28006"/>
+                  <rdf:li rdf:resource="http://identifiers.org/rhea/28007"/>
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+          <speciesReference species="M_h2o_c" stoichiometry="1" constant="true"/>
+          <speciesReference species="M_o2_c" stoichiometry="1" constant="true"/>
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+        <listOfProducts>
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+          <speciesReference species="M_h2o2_c" stoichiometry="1" constant="true"/>
+          <speciesReference species="M_trp__L_c" stoichiometry="1" constant="true"/>
+        </listOfProducts>
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+          <fbc:geneProductRef fbc:geneProduct="G_b1059"/>
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+          <speciesReference species="M_anhgm3p_p" stoichiometry="1" constant="true"/>
+        </listOfProducts>
+        <fbc:geneProductAssociation>
+          <fbc:geneProductRef fbc:geneProduct="G_b2175"/>
+        </fbc:geneProductAssociation>
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+                  <rdf:li rdf:resource="http://identifiers.org/rhea/13073"/>
+                  <rdf:li rdf:resource="http://identifiers.org/rhea/13075"/>
+                  <rdf:li rdf:resource="http://identifiers.org/rhea/13076"/>
+                  <rdf:li rdf:resource="http://identifiers.org/seed.reaction/rxn02449"/>
+                </rdf:Bag>
+              </bqbiol:is>
+            </rdf:Description>
+          </rdf:RDF>
+        </sbml:annotation>
+        <listOfReactants>
+          <speciesReference species="M_gdptp_c" stoichiometry="1" constant="true"/>
+          <speciesReference species="M_h2o_c" stoichiometry="1" constant="true"/>
+        </listOfReactants>
+        <listOfProducts>
+          <speciesReference species="M_h_c" stoichiometry="1" constant="true"/>
+          <speciesReference species="M_pi_c" stoichiometry="1" constant="true"/>
+          <speciesReference species="M_ppgpp_c" stoichiometry="1" constant="true"/>
+        </listOfProducts>
+        <fbc:geneProductAssociation>
+          <fbc:geneProductRef fbc:geneProduct="G_b3779"/>
+        </fbc:geneProductAssociation>
+      </reaction>
+      <reaction id="R_CRNCAR" fast="false" reversible="true" name="Carnitine-CoA racemase" metaid="R_CRNCAR" sboTerm="SBO:0000176" fbc:upperFluxBound="cobra_default_ub" fbc:lowerFluxBound="cobra_default_lb">
+        <sbml:annotation xmlns:sbml="http://www.sbml.org/sbml/level3/version1/core">
+          <rdf:RDF xmlns:rdf="http://www.w3.org/1999/02/22-rdf-syntax-ns#">
+            <rdf:Description rdf:about="#R_CRNCAR">
+              <bqbiol:is xmlns:bqbiol="http://biomodels.net/biology-qualifiers/">
+                <rdf:Bag>
+                  <rdf:li rdf:resource="http://identifiers.org/bigg.reaction/CRNCAR"/>
+                  <rdf:li rdf:resource="http://identifiers.org/biocyc/META:CARNCOARACE-RXN"/>
+                  <rdf:li rdf:resource="http://identifiers.org/ec-code/5.1.1"/>
+                  <rdf:li rdf:resource="http://identifiers.org/metanetx.reaction/MNXR96896"/>
+                  <rdf:li rdf:resource="http://identifiers.org/rhea/30541"/>
+                  <rdf:li rdf:resource="http://identifiers.org/rhea/30542"/>
+                  <rdf:li rdf:resource="http://identifiers.org/rhea/30539"/>
+                  <rdf:li rdf:resource="http://identifiers.org/rhea/30540"/>
+                </rdf:Bag>
+              </bqbiol:is>
+            </rdf:Description>
+          </rdf:RDF>
+        </sbml:annotation>
+        <listOfReactants>
+          <speciesReference species="M_crncoa_c" stoichiometry="1" constant="true"/>
+        </listOfReactants>
+        <listOfProducts>
+          <speciesReference species="M_crnDcoa_c" stoichiometry="1" constant="true"/>
+        </listOfProducts>
+        <fbc:geneProductAssociation>
+          <fbc:geneProductRef fbc:geneProduct="G_b0036"/>
+        </fbc:geneProductAssociation>
+      </reaction>
+      <reaction id="R_GALabcpp" fast="false" reversible="false" name="D-galactose transport via ABC system (periplasm)" metaid="R_GALabcpp" sboTerm="SBO:0000185" fbc:upperFluxBound="cobra_default_ub" fbc:lowerFluxBound="cobra_0_bound">
+        <sbml:annotation xmlns:sbml="http://www.sbml.org/sbml/level3/version1/core">
+          <rdf:RDF xmlns:rdf="http://www.w3.org/1999/02/22-rdf-syntax-ns#">
+            <rdf:Description rdf:about="#R_GALabcpp">
+              <bqbiol:is xmlns:bqbiol="http://biomodels.net/biology-qualifiers/">
+                <rdf:Bag>
+                  <rdf:li rdf:resource="http://identifiers.org/bigg.reaction/GALabcpp"/>
+                  <rdf:li rdf:resource="http://identifiers.org/biocyc/META:ABC-18-RXN"/>
+                  <rdf:li rdf:resource="http://identifiers.org/ec-code/3.6.3.17"/>
+                  <rdf:li rdf:resource="http://identifiers.org/metanetx.reaction/MNXR100023"/>
+                  <rdf:li rdf:resource="http://identifiers.org/seed.reaction/rxn08573"/>
+                  <rdf:li rdf:resource="http://identifiers.org/seed.reaction/rxn05162"/>
+                </rdf:Bag>
+              </bqbiol:is>
+            </rdf:Description>
+          </rdf:RDF>
+        </sbml:annotation>
+        <listOfReactants>
+          <speciesReference species="M_atp_c" stoichiometry="1" constant="true"/>
+          <speciesReference species="M_gal_p" stoichiometry="1" constant="true"/>
+          <speciesReference species="M_h2o_c" stoichiometry="1" constant="true"/>
+        </listOfReactants>
+        <listOfProducts>
+          <speciesReference species="M_adp_c" stoichiometry="1" constant="true"/>
+          <speciesReference species="M_gal_c" stoichiometry="1" constant="true"/>
+          <speciesReference species="M_h_c" stoichiometry="1" constant="true"/>
+          <speciesReference species="M_pi_c" stoichiometry="1" constant="true"/>
+        </listOfProducts>
+        <fbc:geneProductAssociation>
+          <fbc:or>
+            <fbc:and>
+              <fbc:geneProductRef fbc:geneProduct="G_b2148"/>
+              <fbc:geneProductRef fbc:geneProduct="G_b2149"/>
+              <fbc:geneProductRef fbc:geneProduct="G_b2150"/>
+            </fbc:and>
+            <fbc:and>
+              <fbc:geneProductRef fbc:geneProduct="G_b4227"/>
+              <fbc:geneProductRef fbc:geneProduct="G_b4230"/>
+              <fbc:geneProductRef fbc:geneProduct="G_b4485"/>
+              <fbc:geneProductRef fbc:geneProduct="G_b4231"/>
+            </fbc:and>
+          </fbc:or>
+        </fbc:geneProductAssociation>
+      </reaction>
+      <reaction id="R_GLYCLTt2rpp" fast="false" reversible="true" name="Glycolate transport via proton symport, reversible (periplasm)" metaid="R_GLYCLTt2rpp" sboTerm="SBO:0000185" fbc:upperFluxBound="cobra_default_ub" fbc:lowerFluxBound="cobra_default_lb">
+        <sbml:annotation xmlns:sbml="http://www.sbml.org/sbml/level3/version1/core">
+          <rdf:RDF xmlns:rdf="http://www.w3.org/1999/02/22-rdf-syntax-ns#">
+            <rdf:Description rdf:about="#R_GLYCLTt2rpp">
+              <bqbiol:is xmlns:bqbiol="http://biomodels.net/biology-qualifiers/">
+                <rdf:Bag>
+                  <rdf:li rdf:resource="http://identifiers.org/bigg.reaction/GLYCLTt2rpp"/>
+                  <rdf:li rdf:resource="http://identifiers.org/biocyc/META:TRANS-RXN-105"/>
+                  <rdf:li rdf:resource="http://identifiers.org/metanetx.reaction/MNXR100334"/>
+                  <rdf:li rdf:resource="http://identifiers.org/rhea/29414"/>
+                  <rdf:li rdf:resource="http://identifiers.org/rhea/29413"/>
+                  <rdf:li rdf:resource="http://identifiers.org/rhea/29411"/>
+                  <rdf:li rdf:resource="http://identifiers.org/rhea/29412"/>
+                  <rdf:li rdf:resource="http://identifiers.org/seed.reaction/rxn05470"/>
+                  <rdf:li rdf:resource="http://identifiers.org/seed.reaction/rxn08651"/>
+                </rdf:Bag>
+              </bqbiol:is>
+            </rdf:Description>
+          </rdf:RDF>
+        </sbml:annotation>
+        <listOfReactants>
+          <speciesReference species="M_glyclt_p" stoichiometry="1" constant="true"/>
+          <speciesReference species="M_h_p" stoichiometry="1" constant="true"/>
+        </listOfReactants>
+        <listOfProducts>
+          <speciesReference species="M_glyclt_c" stoichiometry="1" constant="true"/>
+          <speciesReference species="M_h_c" stoichiometry="1" constant="true"/>
+        </listOfProducts>
+        <fbc:geneProductAssociation>
+          <fbc:or>
+            <fbc:geneProductRef fbc:geneProduct="G_b3603"/>
+            <fbc:geneProductRef fbc:geneProduct="G_b2975"/>
+          </fbc:or>
+        </fbc:geneProductAssociation>
+      </reaction>
+      <reaction id="R_GUAt2pp" fast="false" reversible="false" name="Guanine transport in via proton symport (periplasm)" metaid="R_GUAt2pp" sboTerm="SBO:0000185" fbc:upperFluxBound="cobra_default_ub" fbc:lowerFluxBound="cobra_0_bound">
+        <sbml:annotation xmlns:sbml="http://www.sbml.org/sbml/level3/version1/core">
+          <rdf:RDF xmlns:rdf="http://www.w3.org/1999/02/22-rdf-syntax-ns#">
+            <rdf:Description rdf:about="#R_GUAt2pp">
+              <bqbiol:is xmlns:bqbiol="http://biomodels.net/biology-qualifiers/">
+                <rdf:Bag>
+                  <rdf:li rdf:resource="http://identifiers.org/bigg.reaction/GUAt2pp"/>
+                  <rdf:li rdf:resource="http://identifiers.org/metanetx.reaction/MNXR100466"/>
+                  <rdf:li rdf:resource="http://identifiers.org/seed.reaction/rxn08681"/>
+                  <rdf:li rdf:resource="http://identifiers.org/seed.reaction/rxn05203"/>
+                </rdf:Bag>
+              </bqbiol:is>
+            </rdf:Description>
+          </rdf:RDF>
+        </sbml:annotation>
+        <listOfReactants>
+          <speciesReference species="M_gua_p" stoichiometry="1" constant="true"/>
+          <speciesReference species="M_h_p" stoichiometry="1" constant="true"/>
+        </listOfReactants>
+        <listOfProducts>
+          <speciesReference species="M_gua_c" stoichiometry="1" constant="true"/>
+          <speciesReference species="M_h_c" stoichiometry="1" constant="true"/>
+        </listOfProducts>
+        <fbc:geneProductAssociation>
+          <fbc:geneProductRef fbc:geneProduct="G_b3654"/>
+        </fbc:geneProductAssociation>
+      </reaction>
+      <reaction id="R_HPPPNt2rpp" fast="false" reversible="true" name="3-(3-hydroxyphenyl)propionate transport via proton symport, reversible (periplasm)" metaid="R_HPPPNt2rpp" sboTerm="SBO:0000185" fbc:upperFluxBound="cobra_default_ub" fbc:lowerFluxBound="cobra_default_lb">
+        <sbml:annotation xmlns:sbml="http://www.sbml.org/sbml/level3/version1/core">
+          <rdf:RDF xmlns:rdf="http://www.w3.org/1999/02/22-rdf-syntax-ns#">
+            <rdf:Description rdf:about="#R_HPPPNt2rpp">
+              <bqbiol:is xmlns:bqbiol="http://biomodels.net/biology-qualifiers/">
+                <rdf:Bag>
+                  <rdf:li rdf:resource="http://identifiers.org/bigg.reaction/HPPPNt2rpp"/>
+                  <rdf:li rdf:resource="http://identifiers.org/biocyc/META:TRANS-RXN-61"/>
+                  <rdf:li rdf:resource="http://identifiers.org/metanetx.reaction/MNXR100696"/>
+                  <rdf:li rdf:resource="http://identifiers.org/rhea/28910"/>
+                  <rdf:li rdf:resource="http://identifiers.org/rhea/28907"/>
+                  <rdf:li rdf:resource="http://identifiers.org/rhea/28909"/>
+                  <rdf:li rdf:resource="http://identifiers.org/rhea/28908"/>
+                  <rdf:li rdf:resource="http://identifiers.org/seed.reaction/rxn08725"/>
+                  <rdf:li rdf:resource="http://identifiers.org/seed.reaction/rxn10134"/>
+                </rdf:Bag>
+              </bqbiol:is>
+            </rdf:Description>
+          </rdf:RDF>
+        </sbml:annotation>
+        <listOfReactants>
+          <speciesReference species="M_3hpppn_p" stoichiometry="1" constant="true"/>
+          <speciesReference species="M_h_p" stoichiometry="1" constant="true"/>
+        </listOfReactants>
+        <listOfProducts>
+          <speciesReference species="M_3hpppn_c" stoichiometry="1" constant="true"/>
+          <speciesReference species="M_h_c" stoichiometry="1" constant="true"/>
+        </listOfProducts>
+        <fbc:geneProductAssociation>
+          <fbc:geneProductRef fbc:geneProduct="G_b0353"/>
+        </fbc:geneProductAssociation>
+      </reaction>
+      <reaction id="R_RNDR2" fast="false" reversible="false" name="Ribonucleoside-diphosphate reductase (GDP)" metaid="R_RNDR2" sboTerm="SBO:0000176" fbc:upperFluxBound="cobra_default_ub" fbc:lowerFluxBound="cobra_0_bound">
+        <sbml:annotation xmlns:sbml="http://www.sbml.org/sbml/level3/version1/core">
+          <rdf:RDF xmlns:rdf="http://www.w3.org/1999/02/22-rdf-syntax-ns#">
+            <rdf:Description rdf:about="#R_RNDR2">
+              <bqbiol:is xmlns:bqbiol="http://biomodels.net/biology-qualifiers/">
+                <rdf:Bag>
+                  <rdf:li rdf:resource="http://identifiers.org/bigg.reaction/RNDR2"/>
+                  <rdf:li rdf:resource="http://identifiers.org/biocyc/META:GDPREDUCT-RXN"/>
+                  <rdf:li rdf:resource="http://identifiers.org/ec-code/1.17.4.1"/>
+                  <rdf:li rdf:resource="http://identifiers.org/kegg.reaction/R02019"/>
+                  <rdf:li rdf:resource="http://identifiers.org/metanetx.reaction/MNXR104062"/>
+                  <rdf:li rdf:resource="http://identifiers.org/seed.reaction/rxn05233"/>
+                </rdf:Bag>
+              </bqbiol:is>
+            </rdf:Description>
+          </rdf:RDF>
+        </sbml:annotation>
+        <listOfReactants>
+          <speciesReference species="M_gdp_c" stoichiometry="1" constant="true"/>
+          <speciesReference species="M_trdrd_c" stoichiometry="1" constant="true"/>
+        </listOfReactants>
+        <listOfProducts>
+          <speciesReference species="M_dgdp_c" stoichiometry="1" constant="true"/>
+          <speciesReference species="M_h2o_c" stoichiometry="1" constant="true"/>
+          <speciesReference species="M_trdox_c" stoichiometry="1" constant="true"/>
+        </listOfProducts>
+        <fbc:geneProductAssociation>
+          <fbc:or>
+            <fbc:and>
+              <fbc:geneProductRef fbc:geneProduct="G_b3781"/>
+              <fbc:and>
+                <fbc:geneProductRef fbc:geneProduct="G_b2234"/>
+                <fbc:geneProductRef fbc:geneProduct="G_b2235"/>
+              </fbc:and>
+            </fbc:and>
+            <fbc:and>
+              <fbc:geneProductRef fbc:geneProduct="G_b2582"/>
+              <fbc:and>
+                <fbc:geneProductRef fbc:geneProduct="G_b2234"/>
+                <fbc:geneProductRef fbc:geneProduct="G_b2235"/>
+              </fbc:and>
+            </fbc:and>
+          </fbc:or>
+        </fbc:geneProductAssociation>
+      </reaction>
+      <reaction id="R_EX_asn__L_e" fast="false" reversible="false" name="L-Asparagine exchange" metaid="R_EX_asn__L_e" sboTerm="SBO:0000627" fbc:upperFluxBound="cobra_default_ub" fbc:lowerFluxBound="cobra_0_bound">
+        <sbml:annotation xmlns:sbml="http://www.sbml.org/sbml/level3/version1/core">
+          <rdf:RDF xmlns:rdf="http://www.w3.org/1999/02/22-rdf-syntax-ns#">
+            <rdf:Description rdf:about="#R_EX_asn__L_e">
+              <bqbiol:is xmlns:bqbiol="http://biomodels.net/biology-qualifiers/">
+                <rdf:Bag>
+                  <rdf:li rdf:resource="http://identifiers.org/bigg.reaction/EX_asn__L_e"/>
+                  <rdf:li rdf:resource="http://identifiers.org/metanetx.reaction/MNXR96069"/>
+                  <rdf:li rdf:resource="http://identifiers.org/sabiork/13466"/>
+                  <rdf:li rdf:resource="http://identifiers.org/seed.reaction/rxn05220"/>
+                  <rdf:li rdf:resource="http://identifiers.org/seed.reaction/rxn08162"/>
+                </rdf:Bag>
+              </bqbiol:is>
+            </rdf:Description>
+          </rdf:RDF>
+        </sbml:annotation>
+        <listOfReactants>
+          <speciesReference species="M_asn__L_e" stoichiometry="1" constant="true"/>
+        </listOfReactants>
+      </reaction>
+      <reaction id="R_ANHMK" fast="false" reversible="false" name="1,6-anhydrous-N-Acetylmuramate kinase" metaid="R_ANHMK" sboTerm="SBO:0000176" fbc:upperFluxBound="cobra_default_ub" fbc:lowerFluxBound="cobra_0_bound">
+        <sbml:annotation xmlns:sbml="http://www.sbml.org/sbml/level3/version1/core">
+          <rdf:RDF xmlns:rdf="http://www.w3.org/1999/02/22-rdf-syntax-ns#">
+            <rdf:Description rdf:about="#R_ANHMK">
+              <bqbiol:is xmlns:bqbiol="http://biomodels.net/biology-qualifiers/">
+                <rdf:Bag>
+                  <rdf:li rdf:resource="http://identifiers.org/bigg.reaction/ANHMK"/>
+                  <rdf:li rdf:resource="http://identifiers.org/metanetx.reaction/MNXR95840"/>
+                  <rdf:li rdf:resource="http://identifiers.org/seed.reaction/rxn08136"/>
+                </rdf:Bag>
+              </bqbiol:is>
+            </rdf:Description>
+          </rdf:RDF>
+        </sbml:annotation>
+        <listOfReactants>
+          <speciesReference species="M_anhm_c" stoichiometry="1" constant="true"/>
+          <speciesReference species="M_atp_c" stoichiometry="1" constant="true"/>
+          <speciesReference species="M_h2o_c" stoichiometry="1" constant="true"/>
+        </listOfReactants>
+        <listOfProducts>
+          <speciesReference species="M_acmum6p_c" stoichiometry="1" constant="true"/>
+          <speciesReference species="M_adp_c" stoichiometry="1" constant="true"/>
+          <speciesReference species="M_h_c" stoichiometry="1" constant="true"/>
+        </listOfProducts>
+        <fbc:geneProductAssociation>
+          <fbc:geneProductRef fbc:geneProduct="G_b1640"/>
+        </fbc:geneProductAssociation>
+      </reaction>
+      <reaction id="R_DCAtex" fast="false" reversible="true" name="Decanoate transport via diffusion (extracellular to periplasm)" metaid="R_DCAtex" sboTerm="SBO:0000185" fbc:upperFluxBound="cobra_default_ub" fbc:lowerFluxBound="cobra_default_lb">
+        <sbml:annotation xmlns:sbml="http://www.sbml.org/sbml/level3/version1/core">
+          <rdf:RDF xmlns:rdf="http://www.w3.org/1999/02/22-rdf-syntax-ns#">
+            <rdf:Description rdf:about="#R_DCAtex">
+              <bqbiol:is xmlns:bqbiol="http://biomodels.net/biology-qualifiers/">
+                <rdf:Bag>
+                  <rdf:li rdf:resource="http://identifiers.org/bigg.reaction/DCAtex"/>
+                  <rdf:li rdf:resource="http://identifiers.org/metanetx.reaction/MNXR97181"/>
+                </rdf:Bag>
+              </bqbiol:is>
+            </rdf:Description>
+          </rdf:RDF>
+        </sbml:annotation>
+        <listOfReactants>
+          <speciesReference species="M_dca_e" stoichiometry="1" constant="true"/>
+        </listOfReactants>
+        <listOfProducts>
+          <speciesReference species="M_dca_p" stoichiometry="1" constant="true"/>
+        </listOfProducts>
+        <fbc:geneProductAssociation>
+          <fbc:or>
+            <fbc:geneProductRef fbc:geneProduct="G_b0241"/>
+            <fbc:geneProductRef fbc:geneProduct="G_b0929"/>
+            <fbc:geneProductRef fbc:geneProduct="G_b1377"/>
+            <fbc:geneProductRef fbc:geneProduct="G_b2215"/>
+          </fbc:or>
+        </fbc:geneProductAssociation>
+      </reaction>
+      <reaction id="R_DHFR" fast="false" reversible="true" name="Dihydrofolate reductase" metaid="R_DHFR" sboTerm="SBO:0000176" fbc:upperFluxBound="cobra_default_ub" fbc:lowerFluxBound="cobra_default_lb">
+        <sbml:annotation xmlns:sbml="http://www.sbml.org/sbml/level3/version1/core">
+          <rdf:RDF xmlns:rdf="http://www.w3.org/1999/02/22-rdf-syntax-ns#">
+            <rdf:Description rdf:about="#R_DHFR">
+              <bqbiol:is xmlns:bqbiol="http://biomodels.net/biology-qualifiers/">
+                <rdf:Bag>
+                  <rdf:li rdf:resource="http://identifiers.org/bigg.reaction/DHFR"/>
+                  <rdf:li rdf:resource="http://identifiers.org/ec-code/1.5.1.3"/>
+                  <rdf:li rdf:resource="http://identifiers.org/kegg.reaction/R00939"/>
+                  <rdf:li rdf:resource="http://identifiers.org/metanetx.reaction/MNXR97401"/>
+                  <rdf:li rdf:resource="http://identifiers.org/reactome.reaction/R-SCE-197972"/>
+                  <rdf:li rdf:resource="http://identifiers.org/reactome.reaction/R-HSA-197972"/>
+                  <rdf:li rdf:resource="http://identifiers.org/reactome.reaction/R-RNO-197972"/>
+                  <rdf:li rdf:resource="http://identifiers.org/reactome.reaction/R-CEL-197972"/>
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+                  <rdf:li rdf:resource="http://identifiers.org/reactome.reaction/R-XTR-197972"/>
+                  <rdf:li rdf:resource="http://identifiers.org/reactome.reaction/R-SPO-197972"/>
+                  <rdf:li rdf:resource="http://identifiers.org/reactome.reaction/R-SSC-197972"/>
+                  <rdf:li rdf:resource="http://identifiers.org/reactome.reaction/R-CFA-197972"/>
+                  <rdf:li rdf:resource="http://identifiers.org/reactome.reaction/R-GGA-197972"/>
+                  <rdf:li rdf:resource="http://identifiers.org/reactome.reaction/R-BTA-197972"/>
+                  <rdf:li rdf:resource="http://identifiers.org/reactome.reaction/R-DRE-197972"/>
+                  <rdf:li rdf:resource="http://identifiers.org/reactome.reaction/R-DDI-197972"/>
+                  <rdf:li rdf:resource="http://identifiers.org/reactome.reaction/R-MMU-197972"/>
+                  <rdf:li rdf:resource="http://identifiers.org/reactome.reaction/R-DME-197972"/>
+                  <rdf:li rdf:resource="http://identifiers.org/rhea/15010"/>
+                  <rdf:li rdf:resource="http://identifiers.org/rhea/15009"/>
+                  <rdf:li rdf:resource="http://identifiers.org/rhea/15012"/>
+                  <rdf:li rdf:resource="http://identifiers.org/rhea/15011"/>
+                  <rdf:li rdf:resource="http://identifiers.org/sabiork/100"/>
+                </rdf:Bag>
+              </bqbiol:is>
+            </rdf:Description>
+          </rdf:RDF>
+        </sbml:annotation>
+        <listOfReactants>
+          <speciesReference species="M_dhf_c" stoichiometry="1" constant="true"/>
+          <speciesReference species="M_h_c" stoichiometry="1" constant="true"/>
+          <speciesReference species="M_nadph_c" stoichiometry="1" constant="true"/>
+        </listOfReactants>
+        <listOfProducts>
+          <speciesReference species="M_nadp_c" stoichiometry="1" constant="true"/>
+          <speciesReference species="M_thf_c" stoichiometry="1" constant="true"/>
+        </listOfProducts>
+        <fbc:geneProductAssociation>
+          <fbc:or>
+            <fbc:geneProductRef fbc:geneProduct="G_b1606"/>
+            <fbc:geneProductRef fbc:geneProduct="G_b0048"/>
+          </fbc:or>
+        </fbc:geneProductAssociation>
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+          <speciesReference species="M_skm5p_c" stoichiometry="1" constant="true"/>
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+            <fbc:geneProductRef fbc:geneProduct="G_b0388"/>
+          </fbc:or>
+        </fbc:geneProductAssociation>
+      </reaction>
+      <reaction id="R_DCYTtex" fast="false" reversible="true" name="Deoxycytidine transport via diffusion (extracellular to periplasm)" metaid="R_DCYTtex" sboTerm="SBO:0000185" fbc:upperFluxBound="cobra_default_ub" fbc:lowerFluxBound="cobra_default_lb">
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+          <speciesReference species="M_dcyt_p" stoichiometry="1" constant="true"/>
+        </listOfProducts>
+        <fbc:geneProductAssociation>
+          <fbc:geneProductRef fbc:geneProduct="G_b0411"/>
+        </fbc:geneProductAssociation>
+      </reaction>
+      <reaction id="R_EX_gam_e" fast="false" reversible="false" name="D-Glucosamine exchange" metaid="R_EX_gam_e" sboTerm="SBO:0000627" fbc:upperFluxBound="cobra_default_ub" fbc:lowerFluxBound="cobra_0_bound">
+        <sbml:annotation xmlns:sbml="http://www.sbml.org/sbml/level3/version1/core">
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+      <reaction id="R_ACACtex" fast="false" reversible="true" name="Acetoacetate transport via diffusion (extracellular to periplasm)" metaid="R_ACACtex" sboTerm="SBO:0000185" fbc:upperFluxBound="cobra_default_ub" fbc:lowerFluxBound="cobra_default_lb">
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+                  <rdf:li rdf:resource="http://identifiers.org/rhea/29752"/>
+                  <rdf:li rdf:resource="http://identifiers.org/rhea/29754"/>
+                  <rdf:li rdf:resource="http://identifiers.org/rhea/29751"/>
+                  <rdf:li rdf:resource="http://identifiers.org/sabiork/12476"/>
+                  <rdf:li rdf:resource="http://identifiers.org/seed.reaction/rxn08030"/>
+                  <rdf:li rdf:resource="http://identifiers.org/seed.reaction/rxn10960"/>
+                  <rdf:li rdf:resource="http://identifiers.org/seed.reaction/rxn13115"/>
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+          <speciesReference species="M_acac_e" stoichiometry="1" constant="true"/>
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+        <listOfProducts>
+          <speciesReference species="M_acac_p" stoichiometry="1" constant="true"/>
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+        <fbc:geneProductAssociation>
+          <fbc:or>
+            <fbc:geneProductRef fbc:geneProduct="G_b0241"/>
+            <fbc:geneProductRef fbc:geneProduct="G_b0929"/>
+            <fbc:geneProductRef fbc:geneProduct="G_b1377"/>
+            <fbc:geneProductRef fbc:geneProduct="G_b2215"/>
+          </fbc:or>
+        </fbc:geneProductAssociation>
+      </reaction>
+      <reaction id="R_ACNAMtex" fast="false" reversible="true" name="N-acetylneuraminate transport via diffusion (extracellular to periplasm)" metaid="R_ACNAMtex" sboTerm="SBO:0000185" fbc:upperFluxBound="cobra_default_ub" fbc:lowerFluxBound="cobra_default_lb">
+        <sbml:annotation xmlns:sbml="http://www.sbml.org/sbml/level3/version1/core">
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+                  <rdf:li rdf:resource="http://identifiers.org/metanetx.reaction/MNXR95292"/>
+                  <rdf:li rdf:resource="http://identifiers.org/rhea/28994"/>
+                  <rdf:li rdf:resource="http://identifiers.org/rhea/28993"/>
+                  <rdf:li rdf:resource="http://identifiers.org/rhea/28992"/>
+                  <rdf:li rdf:resource="http://identifiers.org/rhea/28991"/>
+                  <rdf:li rdf:resource="http://identifiers.org/seed.reaction/rxn08051"/>
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+          <speciesReference species="M_acnam_e" stoichiometry="1" constant="true"/>
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+        <listOfProducts>
+          <speciesReference species="M_acnam_p" stoichiometry="1" constant="true"/>
+        </listOfProducts>
+        <fbc:geneProductAssociation>
+          <fbc:or>
+            <fbc:geneProductRef fbc:geneProduct="G_b4311"/>
+            <fbc:geneProductRef fbc:geneProduct="G_b0929"/>
+            <fbc:geneProductRef fbc:geneProduct="G_b2215"/>
+          </fbc:or>
+        </fbc:geneProductAssociation>
+      </reaction>
+      <reaction id="R_ARBTNabcpp" fast="false" reversible="false" name="Aerobactin transport via ABC system (periplasm)" metaid="R_ARBTNabcpp" sboTerm="SBO:0000185" fbc:upperFluxBound="cobra_default_ub" fbc:lowerFluxBound="cobra_0_bound">
+        <sbml:annotation xmlns:sbml="http://www.sbml.org/sbml/level3/version1/core">
+          <rdf:RDF xmlns:rdf="http://www.w3.org/1999/02/22-rdf-syntax-ns#">
+            <rdf:Description rdf:about="#R_ARBTNabcpp">
+              <bqbiol:is xmlns:bqbiol="http://biomodels.net/biology-qualifiers/">
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+                  <rdf:li rdf:resource="http://identifiers.org/metanetx.reaction/MNXR95927"/>
+                  <rdf:li rdf:resource="http://identifiers.org/seed.reaction/rxn13800"/>
+                  <rdf:li rdf:resource="http://identifiers.org/seed.reaction/rxn08143"/>
+                </rdf:Bag>
+              </bqbiol:is>
+            </rdf:Description>
+          </rdf:RDF>
+        </sbml:annotation>
+        <listOfReactants>
+          <speciesReference species="M_arbtn_fe3_p" stoichiometry="1" constant="true"/>
+          <speciesReference species="M_atp_c" stoichiometry="1" constant="true"/>
+          <speciesReference species="M_h2o_c" stoichiometry="1" constant="true"/>
+        </listOfReactants>
+        <listOfProducts>
+          <speciesReference species="M_adp_c" stoichiometry="1" constant="true"/>
+          <speciesReference species="M_arbtn_fe3_c" stoichiometry="1" constant="true"/>
+          <speciesReference species="M_h_c" stoichiometry="1" constant="true"/>
+          <speciesReference species="M_pi_c" stoichiometry="1" constant="true"/>
+        </listOfProducts>
+        <fbc:geneProductAssociation>
+          <fbc:and>
+            <fbc:geneProductRef fbc:geneProduct="G_b0151"/>
+            <fbc:geneProductRef fbc:geneProduct="G_b0153"/>
+            <fbc:geneProductRef fbc:geneProduct="G_b0152"/>
+          </fbc:and>
+        </fbc:geneProductAssociation>
+      </reaction>
+      <reaction id="R_EX_inost_e" fast="false" reversible="false" name="Myo-Inositol exchange" metaid="R_EX_inost_e" sboTerm="SBO:0000627" fbc:upperFluxBound="cobra_default_ub" fbc:lowerFluxBound="cobra_0_bound">
+        <sbml:annotation xmlns:sbml="http://www.sbml.org/sbml/level3/version1/core">
+          <rdf:RDF xmlns:rdf="http://www.w3.org/1999/02/22-rdf-syntax-ns#">
+            <rdf:Description rdf:about="#R_EX_inost_e">
+              <bqbiol:is xmlns:bqbiol="http://biomodels.net/biology-qualifiers/">
+                <rdf:Bag>
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+                  <rdf:li rdf:resource="http://identifiers.org/metanetx.reaction/MNXR100848"/>
+                  <rdf:li rdf:resource="http://identifiers.org/rhea/32867"/>
+                  <rdf:li rdf:resource="http://identifiers.org/rhea/32869"/>
+                  <rdf:li rdf:resource="http://identifiers.org/rhea/32870"/>
+                  <rdf:li rdf:resource="http://identifiers.org/rhea/32868"/>
+                  <rdf:li rdf:resource="http://identifiers.org/seed.reaction/rxn08755"/>
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+        </sbml:annotation>
+        <listOfReactants>
+          <speciesReference species="M_inost_e" stoichiometry="1" constant="true"/>
+        </listOfReactants>
+      </reaction>
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+        <sbml:annotation xmlns:sbml="http://www.sbml.org/sbml/level3/version1/core">
+          <rdf:RDF xmlns:rdf="http://www.w3.org/1999/02/22-rdf-syntax-ns#">
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+              <bqbiol:is xmlns:bqbiol="http://biomodels.net/biology-qualifiers/">
+                <rdf:Bag>
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+                  <rdf:li rdf:resource="http://identifiers.org/metanetx.reaction/MNXR101690"/>
+                  <rdf:li rdf:resource="http://identifiers.org/rhea/34909"/>
+                  <rdf:li rdf:resource="http://identifiers.org/rhea/34907"/>
+                  <rdf:li rdf:resource="http://identifiers.org/rhea/34910"/>
+                  <rdf:li rdf:resource="http://identifiers.org/rhea/34908"/>
+                  <rdf:li rdf:resource="http://identifiers.org/seed.reaction/rxn08956"/>
+                </rdf:Bag>
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+        </sbml:annotation>
+        <listOfReactants>
+          <speciesReference species="M_mobd_e" stoichiometry="1" constant="true"/>
+        </listOfReactants>
+      </reaction>
+      <reaction id="R_NNDMBRT" fast="false" reversible="false" name="Nicotinate-nucleotide dimethylbenzimidazole phosphoribosyltransferase" metaid="R_NNDMBRT" sboTerm="SBO:0000176" fbc:upperFluxBound="cobra_default_ub" fbc:lowerFluxBound="cobra_0_bound">
+        <sbml:annotation xmlns:sbml="http://www.sbml.org/sbml/level3/version1/core">
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+            <rdf:Description rdf:about="#R_NNDMBRT">
+              <bqbiol:is xmlns:bqbiol="http://biomodels.net/biology-qualifiers/">
+                <rdf:Bag>
+                  <rdf:li rdf:resource="http://identifiers.org/bigg.reaction/NNDMBRT"/>
+                  <rdf:li rdf:resource="http://identifiers.org/biocyc/META:DMBPPRIBOSYLTRANS-RXN"/>
+                  <rdf:li rdf:resource="http://identifiers.org/ec-code/2.4.2.21"/>
+                  <rdf:li rdf:resource="http://identifiers.org/kegg.reaction/R04148"/>
+                  <rdf:li rdf:resource="http://identifiers.org/metanetx.reaction/MNXR101979"/>
+                  <rdf:li rdf:resource="http://identifiers.org/rhea/11196"/>
+                  <rdf:li rdf:resource="http://identifiers.org/rhea/11197"/>
+                  <rdf:li rdf:resource="http://identifiers.org/rhea/11199"/>
+                  <rdf:li rdf:resource="http://identifiers.org/rhea/11198"/>
+                  <rdf:li rdf:resource="http://identifiers.org/seed.reaction/rxn02897"/>
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+              </bqbiol:is>
+            </rdf:Description>
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+        </sbml:annotation>
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+          <speciesReference species="M_dmbzid_c" stoichiometry="1" constant="true"/>
+          <speciesReference species="M_nicrnt_c" stoichiometry="1" constant="true"/>
+        </listOfReactants>
+        <listOfProducts>
+          <speciesReference species="M_5prdmbz_c" stoichiometry="1" constant="true"/>
+          <speciesReference species="M_h_c" stoichiometry="1" constant="true"/>
+          <speciesReference species="M_nac_c" stoichiometry="1" constant="true"/>
+        </listOfProducts>
+        <fbc:geneProductAssociation>
+          <fbc:geneProductRef fbc:geneProduct="G_b1991"/>
+        </fbc:geneProductAssociation>
+      </reaction>
+      <reaction id="R_DGSNtex" fast="false" reversible="true" name="Deoxyguanosine transport via diffusion (extracellular to periplasm)" metaid="R_DGSNtex" sboTerm="SBO:0000185" fbc:upperFluxBound="cobra_default_ub" fbc:lowerFluxBound="cobra_default_lb">
+        <sbml:annotation xmlns:sbml="http://www.sbml.org/sbml/level3/version1/core">
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+              <bqbiol:is xmlns:bqbiol="http://biomodels.net/biology-qualifiers/">
+                <rdf:Bag>
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+                  <rdf:li rdf:resource="http://identifiers.org/metanetx.reaction/MNXR97324"/>
+                  <rdf:li rdf:resource="http://identifiers.org/seed.reaction/rxn08324"/>
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+          <speciesReference species="M_dgsn_e" stoichiometry="1" constant="true"/>
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+        <listOfProducts>
+          <speciesReference species="M_dgsn_p" stoichiometry="1" constant="true"/>
+        </listOfProducts>
+        <fbc:geneProductAssociation>
+          <fbc:or>
+            <fbc:geneProductRef fbc:geneProduct="G_b0241"/>
+            <fbc:geneProductRef fbc:geneProduct="G_b0929"/>
+            <fbc:geneProductRef fbc:geneProduct="G_b1377"/>
+            <fbc:geneProductRef fbc:geneProduct="G_b2215"/>
+          </fbc:or>
+        </fbc:geneProductAssociation>
+      </reaction>
+      <reaction id="R_THRA2" fast="false" reversible="false" name="L-allo-Threonine Aldolase" metaid="R_THRA2" sboTerm="SBO:0000176" fbc:upperFluxBound="cobra_default_ub" fbc:lowerFluxBound="cobra_0_bound">
+        <sbml:annotation xmlns:sbml="http://www.sbml.org/sbml/level3/version1/core">
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+            <rdf:Description rdf:about="#R_THRA2">
+              <bqbiol:is xmlns:bqbiol="http://biomodels.net/biology-qualifiers/">
+                <rdf:Bag>
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+        <listOfReactants>
+          <speciesReference species="M_athr__L_c" stoichiometry="1" constant="true"/>
+        </listOfReactants>
+        <listOfProducts>
+          <speciesReference species="M_acald_c" stoichiometry="1" constant="true"/>
+          <speciesReference species="M_gly_c" stoichiometry="1" constant="true"/>
+        </listOfProducts>
+        <fbc:geneProductAssociation>
+          <fbc:or>
+            <fbc:geneProductRef fbc:geneProduct="G_b2551"/>
+            <fbc:geneProductRef fbc:geneProduct="G_b0870"/>
+          </fbc:or>
+        </fbc:geneProductAssociation>
+      </reaction>
+      <reaction id="R_ASO3t8pp" fast="false" reversible="false" name="Arsenite efflux via ATP hydrolysis (periplasm)" metaid="R_ASO3t8pp" sboTerm="SBO:0000185" fbc:upperFluxBound="cobra_default_ub" fbc:lowerFluxBound="cobra_0_bound">
+        <sbml:annotation xmlns:sbml="http://www.sbml.org/sbml/level3/version1/core">
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+              <bqbiol:is xmlns:bqbiol="http://biomodels.net/biology-qualifiers/">
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+                  <rdf:li rdf:resource="http://identifiers.org/ec-code/3.6.3.16"/>
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+                  <rdf:li rdf:resource="http://identifiers.org/rhea/11351#1"/>
+                  <rdf:li rdf:resource="http://identifiers.org/rhea/11348#1"/>
+                  <rdf:li rdf:resource="http://identifiers.org/rhea/11350#1"/>
+                  <rdf:li rdf:resource="http://identifiers.org/rhea/11349#1"/>
+                  <rdf:li rdf:resource="http://identifiers.org/seed.reaction/rxn08163"/>
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+          <speciesReference species="M_atp_c" stoichiometry="1" constant="true"/>
+          <speciesReference species="M_h2o_c" stoichiometry="1" constant="true"/>
+        </listOfReactants>
+        <listOfProducts>
+          <speciesReference species="M_adp_c" stoichiometry="1" constant="true"/>
+          <speciesReference species="M_aso3_p" stoichiometry="1" constant="true"/>
+          <speciesReference species="M_h_c" stoichiometry="1" constant="true"/>
+          <speciesReference species="M_pi_c" stoichiometry="1" constant="true"/>
+        </listOfProducts>
+        <fbc:geneProductAssociation>
+          <fbc:geneProductRef fbc:geneProduct="G_b3502"/>
+        </fbc:geneProductAssociation>
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+      <reaction id="R_H2Stex" fast="false" reversible="true" name="H2s transport via diffusion (extracellular to periplasm)" metaid="R_H2Stex" sboTerm="SBO:0000185" fbc:upperFluxBound="cobra_default_ub" fbc:lowerFluxBound="cobra_default_lb">
+        <sbml:annotation xmlns:sbml="http://www.sbml.org/sbml/level3/version1/core">
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+                <rdf:Bag>
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+                  <rdf:li rdf:resource="http://identifiers.org/biocyc/META:TRANS-RXN-310"/>
+                  <rdf:li rdf:resource="http://identifiers.org/metanetx.reaction/MNXR100494"/>
+                  <rdf:li rdf:resource="http://identifiers.org/seed.reaction/rxn08690"/>
+                  <rdf:li rdf:resource="http://identifiers.org/seed.reaction/rxn08689"/>
+                  <rdf:li rdf:resource="http://identifiers.org/seed.reaction/rxn10541"/>
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+          <speciesReference species="M_h2s_e" stoichiometry="1" constant="true"/>
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+        <listOfProducts>
+          <speciesReference species="M_h2s_p" stoichiometry="1" constant="true"/>
+        </listOfProducts>
+        <fbc:geneProductAssociation>
+          <fbc:or>
+            <fbc:geneProductRef fbc:geneProduct="G_b1377"/>
+            <fbc:geneProductRef fbc:geneProduct="G_b2215"/>
+            <fbc:geneProductRef fbc:geneProduct="G_b0241"/>
+            <fbc:geneProductRef fbc:geneProduct="G_b0929"/>
+          </fbc:or>
+        </fbc:geneProductAssociation>
+      </reaction>
+      <reaction id="R_PPK" fast="false" reversible="false" name="Polyphosphate kinase" metaid="R_PPK" sboTerm="SBO:0000176" fbc:upperFluxBound="cobra_default_ub" fbc:lowerFluxBound="cobra_0_bound">
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+                  <rdf:li rdf:resource="http://identifiers.org/bigg.reaction/PPK"/>
+                </rdf:Bag>
+              </bqbiol:is>
+            </rdf:Description>
+          </rdf:RDF>
+        </sbml:annotation>
+        <listOfReactants>
+          <speciesReference species="M_atp_c" stoichiometry="1" constant="true"/>
+          <speciesReference species="M_pi_c" stoichiometry="1" constant="true"/>
+        </listOfReactants>
+        <listOfProducts>
+          <speciesReference species="M_adp_c" stoichiometry="1" constant="true"/>
+          <speciesReference species="M_ppi_c" stoichiometry="1" constant="true"/>
+        </listOfProducts>
+        <fbc:geneProductAssociation>
+          <fbc:geneProductRef fbc:geneProduct="G_b2501"/>
+        </fbc:geneProductAssociation>
+      </reaction>
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+              <bqbiol:is xmlns:bqbiol="http://biomodels.net/biology-qualifiers/">
+                <rdf:Bag>
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+                  <rdf:li rdf:resource="http://identifiers.org/reactome.reaction/R-TGU-8875871"/>
+                  <rdf:li rdf:resource="http://identifiers.org/reactome.reaction/R-DRE-8875871"/>
+                  <rdf:li rdf:resource="http://identifiers.org/reactome.reaction/R-GGA-8875871"/>
+                  <rdf:li rdf:resource="http://identifiers.org/reactome.reaction/R-BTA-8875871"/>
+                  <rdf:li rdf:resource="http://identifiers.org/reactome.reaction/R-SCE-8875871"/>
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+                  <rdf:li rdf:resource="http://identifiers.org/reactome.reaction/R-XTR-8875871"/>
+                  <rdf:li rdf:resource="http://identifiers.org/reactome.reaction/R-MMU-8875871"/>
+                  <rdf:li rdf:resource="http://identifiers.org/reactome.reaction/R-RNO-8875871"/>
+                  <rdf:li rdf:resource="http://identifiers.org/reactome.reaction/R-SSC-8875871"/>
+                  <rdf:li rdf:resource="http://identifiers.org/reactome.reaction/R-PFA-8875871"/>
+                  <rdf:li rdf:resource="http://identifiers.org/reactome.reaction/R-ATH-8875871"/>
+                  <rdf:li rdf:resource="http://identifiers.org/reactome.reaction/R-CFA-8875871"/>
+                  <rdf:li rdf:resource="http://identifiers.org/reactome.reaction/R-OSA-8875871"/>
+                  <rdf:li rdf:resource="http://identifiers.org/reactome.reaction/R-DME-8875871"/>
+                  <rdf:li rdf:resource="http://identifiers.org/rhea/34983"/>
+                  <rdf:li rdf:resource="http://identifiers.org/rhea/34984"/>
+                  <rdf:li rdf:resource="http://identifiers.org/rhea/34986"/>
+                  <rdf:li rdf:resource="http://identifiers.org/rhea/34985"/>
+                  <rdf:li rdf:resource="http://identifiers.org/seed.reaction/rxn09261"/>
+                  <rdf:li rdf:resource="http://identifiers.org/seed.reaction/rxn05238"/>
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+        </sbml:annotation>
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+          <speciesReference species="M_so4_e" stoichiometry="1" constant="true"/>
+        </listOfReactants>
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+        <sbml:annotation xmlns:sbml="http://www.sbml.org/sbml/level3/version1/core">
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+              <bqbiol:is xmlns:bqbiol="http://biomodels.net/biology-qualifiers/">
+                <rdf:Bag>
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+                  <rdf:li rdf:resource="http://identifiers.org/biocyc/META:SUCCARGDIHYDRO-RXN"/>
+                  <rdf:li rdf:resource="http://identifiers.org/ec-code/3.5.3.23"/>
+                  <rdf:li rdf:resource="http://identifiers.org/kegg.reaction/R04189"/>
+                  <rdf:li rdf:resource="http://identifiers.org/metanetx.reaction/MNXR104239"/>
+                  <rdf:li rdf:resource="http://identifiers.org/rhea/19534"/>
+                  <rdf:li rdf:resource="http://identifiers.org/rhea/19535"/>
+                  <rdf:li rdf:resource="http://identifiers.org/rhea/19533"/>
+                  <rdf:li rdf:resource="http://identifiers.org/rhea/19536"/>
+                  <rdf:li rdf:resource="http://identifiers.org/seed.reaction/rxn02927"/>
+                </rdf:Bag>
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+            </rdf:Description>
+          </rdf:RDF>
+        </sbml:annotation>
+        <listOfReactants>
+          <speciesReference species="M_h2o_c" stoichiometry="2" constant="true"/>
+          <speciesReference species="M_h_c" stoichiometry="2" constant="true"/>
+          <speciesReference species="M_sucarg_c" stoichiometry="1" constant="true"/>
+        </listOfReactants>
+        <listOfProducts>
+          <speciesReference species="M_co2_c" stoichiometry="1" constant="true"/>
+          <speciesReference species="M_nh4_c" stoichiometry="2" constant="true"/>
+          <speciesReference species="M_sucorn_c" stoichiometry="1" constant="true"/>
+        </listOfProducts>
+        <fbc:geneProductAssociation>
+          <fbc:geneProductRef fbc:geneProduct="G_b1745"/>
+        </fbc:geneProductAssociation>
+      </reaction>
+      <reaction id="R_GLUSy" fast="false" reversible="false" name="Glutamate synthase (NADPH)" metaid="R_GLUSy" sboTerm="SBO:0000176" fbc:upperFluxBound="cobra_default_ub" fbc:lowerFluxBound="cobra_0_bound">
+        <sbml:annotation xmlns:sbml="http://www.sbml.org/sbml/level3/version1/core">
+          <rdf:RDF xmlns:rdf="http://www.w3.org/1999/02/22-rdf-syntax-ns#">
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+              <bqbiol:is xmlns:bqbiol="http://biomodels.net/biology-qualifiers/">
+                <rdf:Bag>
+                  <rdf:li rdf:resource="http://identifiers.org/bigg.reaction/GLUSy"/>
+                  <rdf:li rdf:resource="http://identifiers.org/biocyc/META:GLUTAMATESYN-RXN"/>
+                  <rdf:li rdf:resource="http://identifiers.org/ec-code/1.4.1.13"/>
+                  <rdf:li rdf:resource="http://identifiers.org/kegg.reaction/R00114"/>
+                  <rdf:li rdf:resource="http://identifiers.org/metanetx.reaction/MNXR100291"/>
+                  <rdf:li rdf:resource="http://identifiers.org/rhea/15503"/>
+                  <rdf:li rdf:resource="http://identifiers.org/rhea/15501"/>
+                  <rdf:li rdf:resource="http://identifiers.org/rhea/15504"/>
+                  <rdf:li rdf:resource="http://identifiers.org/rhea/15502"/>
+                  <rdf:li rdf:resource="http://identifiers.org/sabiork/694"/>
+                  <rdf:li rdf:resource="http://identifiers.org/seed.reaction/rxn00085"/>
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+        </sbml:annotation>
+        <listOfReactants>
+          <speciesReference species="M_akg_c" stoichiometry="1" constant="true"/>
+          <speciesReference species="M_gln__L_c" stoichiometry="1" constant="true"/>
+          <speciesReference species="M_h_c" stoichiometry="1" constant="true"/>
+          <speciesReference species="M_nadph_c" stoichiometry="1" constant="true"/>
+        </listOfReactants>
+        <listOfProducts>
+          <speciesReference species="M_glu__L_c" stoichiometry="2" constant="true"/>
+          <speciesReference species="M_nadp_c" stoichiometry="1" constant="true"/>
+        </listOfProducts>
+        <fbc:geneProductAssociation>
+          <fbc:and>
+            <fbc:geneProductRef fbc:geneProduct="G_b3213"/>
+            <fbc:geneProductRef fbc:geneProduct="G_b3212"/>
+          </fbc:and>
+        </fbc:geneProductAssociation>
+      </reaction>
+      <reaction id="R_GUAPRT" fast="false" reversible="false" name="Guanine phosphoribosyltransferase" metaid="R_GUAPRT" sboTerm="SBO:0000176" fbc:upperFluxBound="cobra_default_ub" fbc:lowerFluxBound="cobra_0_bound">
+        <sbml:annotation xmlns:sbml="http://www.sbml.org/sbml/level3/version1/core">
+          <rdf:RDF xmlns:rdf="http://www.w3.org/1999/02/22-rdf-syntax-ns#">
+            <rdf:Description rdf:about="#R_GUAPRT">
+              <bqbiol:is xmlns:bqbiol="http://biomodels.net/biology-qualifiers/">
+                <rdf:Bag>
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+                  <rdf:li rdf:resource="http://identifiers.org/biocyc/META:GUANPRIBOSYLTRAN-RXN"/>
+                  <rdf:li rdf:resource="http://identifiers.org/ec-code/2.4.2.8"/>
+                  <rdf:li rdf:resource="http://identifiers.org/ec-code/2.4.2.7"/>
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+                  <rdf:li rdf:resource="http://identifiers.org/rhea/25427"/>
+                  <rdf:li rdf:resource="http://identifiers.org/rhea/25426"/>
+                  <rdf:li rdf:resource="http://identifiers.org/rhea/25424"/>
+                  <rdf:li rdf:resource="http://identifiers.org/rhea/25425"/>
+                  <rdf:li rdf:resource="http://identifiers.org/sabiork/195"/>
+                  <rdf:li rdf:resource="http://identifiers.org/seed.reaction/rxn00915"/>
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+            </rdf:Description>
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+        </sbml:annotation>
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+          <speciesReference species="M_gua_c" stoichiometry="1" constant="true"/>
+          <speciesReference species="M_prpp_c" stoichiometry="1" constant="true"/>
+        </listOfReactants>
+        <listOfProducts>
+          <speciesReference species="M_gmp_c" stoichiometry="1" constant="true"/>
+          <speciesReference species="M_ppi_c" stoichiometry="1" constant="true"/>
+        </listOfProducts>
+        <fbc:geneProductAssociation>
+          <fbc:or>
+            <fbc:geneProductRef fbc:geneProduct="G_b0125"/>
+            <fbc:geneProductRef fbc:geneProduct="G_b0238"/>
+          </fbc:or>
+        </fbc:geneProductAssociation>
+      </reaction>
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+        <sbml:annotation xmlns:sbml="http://www.sbml.org/sbml/level3/version1/core">
+          <rdf:RDF xmlns:rdf="http://www.w3.org/1999/02/22-rdf-syntax-ns#">
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+              <bqbiol:is xmlns:bqbiol="http://biomodels.net/biology-qualifiers/">
+                <rdf:Bag>
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+                  <rdf:li rdf:resource="http://identifiers.org/biocyc/META:RXN66-445"/>
+                  <rdf:li rdf:resource="http://identifiers.org/metanetx.reaction/MNXR102637"/>
+                  <rdf:li rdf:resource="http://identifiers.org/rhea/27952"/>
+                  <rdf:li rdf:resource="http://identifiers.org/rhea/27951"/>
+                  <rdf:li rdf:resource="http://identifiers.org/rhea/27950"/>
+                  <rdf:li rdf:resource="http://identifiers.org/rhea/27953"/>
+                  <rdf:li rdf:resource="http://identifiers.org/sabiork/13470"/>
+                  <rdf:li rdf:resource="http://identifiers.org/sabiork/14018"/>
+                  <rdf:li rdf:resource="http://identifiers.org/seed.reaction/rxn11018"/>
+                  <rdf:li rdf:resource="http://identifiers.org/seed.reaction/rxn09118"/>
+                </rdf:Bag>
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+            </rdf:Description>
+          </rdf:RDF>
+        </sbml:annotation>
+        <listOfReactants>
+          <speciesReference species="M_phe__L_e" stoichiometry="1" constant="true"/>
+        </listOfReactants>
+      </reaction>
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+        <sbml:annotation xmlns:sbml="http://www.sbml.org/sbml/level3/version1/core">
+          <rdf:RDF xmlns:rdf="http://www.w3.org/1999/02/22-rdf-syntax-ns#">
+            <rdf:Description rdf:about="#R_EX_thr__L_e">
+              <bqbiol:is xmlns:bqbiol="http://biomodels.net/biology-qualifiers/">
+                <rdf:Bag>
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+                  <rdf:li rdf:resource="http://identifiers.org/metanetx.reaction/MNXR104852"/>
+                  <rdf:li rdf:resource="http://identifiers.org/rhea/35022"/>
+                  <rdf:li rdf:resource="http://identifiers.org/rhea/35020"/>
+                  <rdf:li rdf:resource="http://identifiers.org/rhea/35019"/>
+                  <rdf:li rdf:resource="http://identifiers.org/rhea/35021"/>
+                  <rdf:li rdf:resource="http://identifiers.org/sabiork/13464"/>
+                  <rdf:li rdf:resource="http://identifiers.org/seed.reaction/rxn09307"/>
+                  <rdf:li rdf:resource="http://identifiers.org/seed.reaction/rxn13117"/>
+                  <rdf:li rdf:resource="http://identifiers.org/seed.reaction/rxn10898"/>
+                </rdf:Bag>
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+            </rdf:Description>
+          </rdf:RDF>
+        </sbml:annotation>
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+          <speciesReference species="M_thr__L_e" stoichiometry="1" constant="true"/>
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+        <sbml:annotation xmlns:sbml="http://www.sbml.org/sbml/level3/version1/core">
+          <rdf:RDF xmlns:rdf="http://www.w3.org/1999/02/22-rdf-syntax-ns#">
+            <rdf:Description rdf:about="#R_EX_uri_e">
+              <bqbiol:is xmlns:bqbiol="http://biomodels.net/biology-qualifiers/">
+                <rdf:Bag>
+                  <rdf:li rdf:resource="http://identifiers.org/bigg.reaction/EX_uri_e"/>
+                  <rdf:li rdf:resource="http://identifiers.org/metanetx.reaction/MNXR105165"/>
+                  <rdf:li rdf:resource="http://identifiers.org/seed.reaction/rxn10987"/>
+                  <rdf:li rdf:resource="http://identifiers.org/seed.reaction/rxn09372"/>
+                </rdf:Bag>
+              </bqbiol:is>
+            </rdf:Description>
+          </rdf:RDF>
+        </sbml:annotation>
+        <listOfReactants>
+          <speciesReference species="M_uri_e" stoichiometry="1" constant="true"/>
+        </listOfReactants>
+      </reaction>
+      <reaction id="R_OMCDC" fast="false" reversible="false" name="2-Oxo-4-methyl-3-carboxypentanoate decarboxylation" metaid="R_OMCDC" sboTerm="SBO:0000176" fbc:upperFluxBound="cobra_default_ub" fbc:lowerFluxBound="cobra_0_bound">
+        <sbml:annotation xmlns:sbml="http://www.sbml.org/sbml/level3/version1/core">
+          <rdf:RDF xmlns:rdf="http://www.w3.org/1999/02/22-rdf-syntax-ns#">
+            <rdf:Description rdf:about="#R_OMCDC">
+              <bqbiol:is xmlns:bqbiol="http://biomodels.net/biology-qualifiers/">
+                <rdf:Bag>
+                  <rdf:li rdf:resource="http://identifiers.org/bigg.reaction/OMCDC"/>
+                  <rdf:li rdf:resource="http://identifiers.org/biocyc/META:RXN-7800"/>
+                  <rdf:li rdf:resource="http://identifiers.org/ec-code/1.1.1.85"/>
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+                  <rdf:li rdf:resource="http://identifiers.org/metanetx.reaction/MNXR102180"/>
+                  <rdf:li rdf:resource="http://identifiers.org/rhea/25078"/>
+                  <rdf:li rdf:resource="http://identifiers.org/rhea/25080"/>
+                  <rdf:li rdf:resource="http://identifiers.org/rhea/25081"/>
+                  <rdf:li rdf:resource="http://identifiers.org/rhea/25079"/>
+                  <rdf:li rdf:resource="http://identifiers.org/seed.reaction/rxn01208"/>
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+            </rdf:Description>
+          </rdf:RDF>
+        </sbml:annotation>
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+          <speciesReference species="M_3c4mop_c" stoichiometry="1" constant="true"/>
+          <speciesReference species="M_h_c" stoichiometry="1" constant="true"/>
+        </listOfReactants>
+        <listOfProducts>
+          <speciesReference species="M_4mop_c" stoichiometry="1" constant="true"/>
+          <speciesReference species="M_co2_c" stoichiometry="1" constant="true"/>
+        </listOfProducts>
+        <fbc:geneProductAssociation>
+          <fbc:geneProductRef fbc:geneProduct="G_s0001"/>
+        </fbc:geneProductAssociation>
+      </reaction>
+      <reaction id="R_ABUTD" fast="false" reversible="false" name="Aminobutyraldehyde dehydrogenase" metaid="R_ABUTD" sboTerm="SBO:0000176" fbc:upperFluxBound="cobra_default_ub" fbc:lowerFluxBound="cobra_0_bound">
+        <sbml:annotation xmlns:sbml="http://www.sbml.org/sbml/level3/version1/core">
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+              <bqbiol:is xmlns:bqbiol="http://biomodels.net/biology-qualifiers/">
+                <rdf:Bag>
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+                  <rdf:li rdf:resource="http://identifiers.org/biocyc/META:AMINOBUTDEHYDROG-RXN"/>
+                  <rdf:li rdf:resource="http://identifiers.org/ec-code/1.2.1.19"/>
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+                  <rdf:li rdf:resource="http://identifiers.org/ec-code/1.2.1.-"/>
+                  <rdf:li rdf:resource="http://identifiers.org/kegg.reaction/R02549"/>
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+                  <rdf:li rdf:resource="http://identifiers.org/rhea/19105"/>
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+                  <rdf:li rdf:resource="http://identifiers.org/rhea/19106"/>
+                  <rdf:li rdf:resource="http://identifiers.org/sabiork/2464"/>
+                  <rdf:li rdf:resource="http://identifiers.org/seed.reaction/rxn01851"/>
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+          <speciesReference species="M_4abutn_c" stoichiometry="1" constant="true"/>
+          <speciesReference species="M_h2o_c" stoichiometry="1" constant="true"/>
+          <speciesReference species="M_nad_c" stoichiometry="1" constant="true"/>
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+        <listOfProducts>
+          <speciesReference species="M_4abut_c" stoichiometry="1" constant="true"/>
+          <speciesReference species="M_h_c" stoichiometry="2" constant="true"/>
+          <speciesReference species="M_nadh_c" stoichiometry="1" constant="true"/>
+        </listOfProducts>
+        <fbc:geneProductAssociation>
+          <fbc:geneProductRef fbc:geneProduct="G_b1444"/>
+        </fbc:geneProductAssociation>
+      </reaction>
+      <reaction id="R_E4PD" fast="false" reversible="true" name="Erythrose 4-phosphate dehydrogenase" metaid="R_E4PD" sboTerm="SBO:0000176" fbc:upperFluxBound="cobra_default_ub" fbc:lowerFluxBound="cobra_default_lb">
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+              <bqbiol:is xmlns:bqbiol="http://biomodels.net/biology-qualifiers/">
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+                  <rdf:li rdf:resource="http://identifiers.org/biocyc/META:ERYTH4PDEHYDROG-RXN"/>
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+                  <rdf:li rdf:resource="http://identifiers.org/kegg.reaction/R01825"/>
+                  <rdf:li rdf:resource="http://identifiers.org/metanetx.reaction/MNXR97842"/>
+                  <rdf:li rdf:resource="http://identifiers.org/rhea/12058"/>
+                  <rdf:li rdf:resource="http://identifiers.org/rhea/12057"/>
+                  <rdf:li rdf:resource="http://identifiers.org/rhea/12059"/>
+                  <rdf:li rdf:resource="http://identifiers.org/rhea/12056"/>
+                  <rdf:li rdf:resource="http://identifiers.org/sabiork/1909"/>
+                  <rdf:li rdf:resource="http://identifiers.org/seed.reaction/rxn01331"/>
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+                  <rdf:li rdf:resource="http://identifiers.org/rhea/10250"/>
+                  <rdf:li rdf:resource="http://identifiers.org/rhea/10248"/>
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+          <speciesReference species="M_h2o_c" stoichiometry="1" constant="true"/>
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+        <listOfProducts>
+          <speciesReference species="M_dump_c" stoichiometry="1" constant="true"/>
+          <speciesReference species="M_h_c" stoichiometry="1" constant="true"/>
+          <speciesReference species="M_ppi_c" stoichiometry="1" constant="true"/>
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+            <fbc:geneProductRef fbc:geneProduct="G_b3640"/>
+            <fbc:geneProductRef fbc:geneProduct="G_b2251"/>
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+        </fbc:geneProductAssociation>
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+          <speciesReference species="M_h_c" stoichiometry="2" constant="true"/>
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+        <listOfProducts>
+          <speciesReference species="M_2dmmql8_c" stoichiometry="1" constant="true"/>
+          <speciesReference species="M_h_p" stoichiometry="2" constant="true"/>
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+              <fbc:geneProductRef fbc:geneProduct="G_b0974"/>
+              <fbc:geneProductRef fbc:geneProduct="G_b0972"/>
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+            <fbc:and>
+              <fbc:geneProductRef fbc:geneProduct="G_b2994"/>
+              <fbc:geneProductRef fbc:geneProduct="G_b2997"/>
+              <fbc:geneProductRef fbc:geneProduct="G_b2996"/>
+              <fbc:geneProductRef fbc:geneProduct="G_b2995"/>
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+        </fbc:geneProductAssociation>
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+        <sbml:annotation xmlns:sbml="http://www.sbml.org/sbml/level3/version1/core">
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+                  <rdf:li rdf:resource="http://identifiers.org/rhea/29148#1"/>
+                  <rdf:li rdf:resource="http://identifiers.org/rhea/29150#1"/>
+                  <rdf:li rdf:resource="http://identifiers.org/rhea/29147#1"/>
+                  <rdf:li rdf:resource="http://identifiers.org/seed.reaction/rxn09001"/>
+                  <rdf:li rdf:resource="http://identifiers.org/seed.reaction/rxn10120"/>
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+          <speciesReference species="M_no3_c" stoichiometry="1" constant="true"/>
+          <speciesReference species="M_q8h2_c" stoichiometry="1" constant="true"/>
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+        <listOfProducts>
+          <speciesReference species="M_h2o_c" stoichiometry="1" constant="true"/>
+          <speciesReference species="M_h_p" stoichiometry="2" constant="true"/>
+          <speciesReference species="M_no2_c" stoichiometry="1" constant="true"/>
+          <speciesReference species="M_q8_c" stoichiometry="1" constant="true"/>
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+        <fbc:geneProductAssociation>
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+            <fbc:and>
+              <fbc:geneProductRef fbc:geneProduct="G_b1467"/>
+              <fbc:geneProductRef fbc:geneProduct="G_b1468"/>
+              <fbc:geneProductRef fbc:geneProduct="G_b1466"/>
+              <fbc:geneProductRef fbc:geneProduct="G_b1465"/>
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+            <fbc:and>
+              <fbc:geneProductRef fbc:geneProduct="G_b1224"/>
+              <fbc:geneProductRef fbc:geneProduct="G_b1227"/>
+              <fbc:geneProductRef fbc:geneProduct="G_b1226"/>
+              <fbc:geneProductRef fbc:geneProduct="G_b1225"/>
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+        </fbc:geneProductAssociation>
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+          <speciesReference species="M_h2o_c" stoichiometry="1" constant="true"/>
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+        <listOfProducts>
+          <speciesReference species="M_cdp_c" stoichiometry="1" constant="true"/>
+          <speciesReference species="M_h_c" stoichiometry="1" constant="true"/>
+          <speciesReference species="M_pi_c" stoichiometry="1" constant="true"/>
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+          <fbc:geneProductRef fbc:geneProduct="G_b4161"/>
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+        <sbml:annotation xmlns:sbml="http://www.sbml.org/sbml/level3/version1/core">
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+          <speciesReference species="M_6pgg_c" stoichiometry="1" constant="true"/>
+          <speciesReference species="M_pyr_c" stoichiometry="1" constant="true"/>
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+              <fbc:geneProductRef fbc:geneProduct="G_b2416"/>
+              <fbc:geneProductRef fbc:geneProduct="G_b2415"/>
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+            <fbc:and>
+              <fbc:geneProductRef fbc:geneProduct="G_b2416"/>
+              <fbc:and>
+                <fbc:geneProductRef fbc:geneProduct="G_b1738"/>
+                <fbc:geneProductRef fbc:geneProduct="G_b1737"/>
+                <fbc:geneProductRef fbc:geneProduct="G_b1736"/>
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+              <fbc:geneProductRef fbc:geneProduct="G_b2415"/>
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+        </fbc:geneProductAssociation>
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+          <speciesReference species="M_for_c" stoichiometry="1" constant="true"/>
+          <speciesReference species="M_h_c" stoichiometry="1" constant="true"/>
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+            <fbc:geneProductRef fbc:geneProduct="G_b0904"/>
+            <fbc:geneProductRef fbc:geneProduct="G_b2492"/>
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+        </fbc:geneProductAssociation>
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+        <sbml:annotation xmlns:sbml="http://www.sbml.org/sbml/level3/version1/core">
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+        <sbml:annotation xmlns:sbml="http://www.sbml.org/sbml/level3/version1/core">
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+          <speciesReference species="M_h2o_c" stoichiometry="1" constant="true"/>
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+          <speciesReference species="M_5mtr_c" stoichiometry="1" constant="true"/>
+          <speciesReference species="M_ade_c" stoichiometry="1" constant="true"/>
+        </listOfProducts>
+        <fbc:geneProductAssociation>
+          <fbc:geneProductRef fbc:geneProduct="G_b0159"/>
+        </fbc:geneProductAssociation>
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+                  <rdf:li rdf:resource="http://identifiers.org/rhea/16236"/>
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+                  <rdf:li rdf:resource="http://identifiers.org/seed.reaction/rxn01790"/>
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+            </rdf:Description>
+          </rdf:RDF>
+        </sbml:annotation>
+        <listOfReactants>
+          <speciesReference species="M_2dhp_c" stoichiometry="1" constant="true"/>
+          <speciesReference species="M_h_c" stoichiometry="1" constant="true"/>
+          <speciesReference species="M_nadph_c" stoichiometry="1" constant="true"/>
+        </listOfReactants>
+        <listOfProducts>
+          <speciesReference species="M_nadp_c" stoichiometry="1" constant="true"/>
+          <speciesReference species="M_pant__R_c" stoichiometry="1" constant="true"/>
+        </listOfProducts>
+        <fbc:geneProductAssociation>
+          <fbc:or>
+            <fbc:geneProductRef fbc:geneProduct="G_b0425"/>
+            <fbc:geneProductRef fbc:geneProduct="G_b3774"/>
+          </fbc:or>
+        </fbc:geneProductAssociation>
+      </reaction>
+      <reaction id="R_EX_halipa_e" fast="false" reversible="false" name="Hepta-acylated KDO(2)-lipid (A) exchange" metaid="R_EX_halipa_e" sboTerm="SBO:0000627" fbc:upperFluxBound="cobra_default_ub" fbc:lowerFluxBound="cobra_0_bound">
+        <sbml:annotation xmlns:sbml="http://www.sbml.org/sbml/level3/version1/core">
+          <rdf:RDF xmlns:rdf="http://www.w3.org/1999/02/22-rdf-syntax-ns#">
+            <rdf:Description rdf:about="#R_EX_halipa_e">
+              <bqbiol:is xmlns:bqbiol="http://biomodels.net/biology-qualifiers/">
+                <rdf:Bag>
+                  <rdf:li rdf:resource="http://identifiers.org/bigg.reaction/EX_halipa_e"/>
+                  <rdf:li rdf:resource="http://identifiers.org/metanetx.reaction/MNXR143009"/>
+                </rdf:Bag>
+              </bqbiol:is>
+            </rdf:Description>
+          </rdf:RDF>
+        </sbml:annotation>
+        <listOfReactants>
+          <speciesReference species="M_halipa_e" stoichiometry="1" constant="true"/>
+        </listOfReactants>
+      </reaction>
+      <reaction id="R_AACPS5" fast="false" reversible="false" name="Acyl-[acyl-carrier-protein] synthetase  (n-C18:1)" metaid="R_AACPS5" sboTerm="SBO:0000176" fbc:upperFluxBound="cobra_default_ub" fbc:lowerFluxBound="cobra_0_bound">
+        <sbml:annotation xmlns:sbml="http://www.sbml.org/sbml/level3/version1/core">
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+              <bqbiol:is xmlns:bqbiol="http://biomodels.net/biology-qualifiers/">
+                <rdf:Bag>
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+                  <rdf:li rdf:resource="http://identifiers.org/metanetx.reaction/MNXR95144"/>
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+              </bqbiol:is>
+            </rdf:Description>
+          </rdf:RDF>
+        </sbml:annotation>
+        <listOfReactants>
+          <speciesReference species="M_ACP_c" stoichiometry="1" constant="true"/>
+          <speciesReference species="M_atp_c" stoichiometry="1" constant="true"/>
+          <speciesReference species="M_ocdcea_c" stoichiometry="1" constant="true"/>
+        </listOfReactants>
+        <listOfProducts>
+          <speciesReference species="M_amp_c" stoichiometry="1" constant="true"/>
+          <speciesReference species="M_octeACP_c" stoichiometry="1" constant="true"/>
+          <speciesReference species="M_ppi_c" stoichiometry="1" constant="true"/>
+        </listOfProducts>
+        <fbc:geneProductAssociation>
+          <fbc:and>
+            <fbc:geneProductRef fbc:geneProduct="G_b1094"/>
+            <fbc:geneProductRef fbc:geneProduct="G_b2836"/>
+          </fbc:and>
+        </fbc:geneProductAssociation>
+      </reaction>
+      <reaction id="R_MANptspp" fast="false" reversible="false" name="D-mannose transport via PEP:Pyr PTS (periplasm)" metaid="R_MANptspp" sboTerm="SBO:0000185" fbc:upperFluxBound="cobra_default_ub" fbc:lowerFluxBound="cobra_0_bound">
+        <sbml:annotation xmlns:sbml="http://www.sbml.org/sbml/level3/version1/core">
+          <rdf:RDF xmlns:rdf="http://www.w3.org/1999/02/22-rdf-syntax-ns#">
+            <rdf:Description rdf:about="#R_MANptspp">
+              <bqbiol:is xmlns:bqbiol="http://biomodels.net/biology-qualifiers/">
+                <rdf:Bag>
+                  <rdf:li rdf:resource="http://identifiers.org/bigg.reaction/MANptspp"/>
+                  <rdf:li rdf:resource="http://identifiers.org/metanetx.reaction/MNXR101401"/>
+                  <rdf:li rdf:resource="http://identifiers.org/seed.reaction/rxn05610"/>
+                  <rdf:li rdf:resource="http://identifiers.org/seed.reaction/rxn08885"/>
+                </rdf:Bag>
+              </bqbiol:is>
+            </rdf:Description>
+          </rdf:RDF>
+        </sbml:annotation>
+        <listOfReactants>
+          <speciesReference species="M_man_p" stoichiometry="1" constant="true"/>
+          <speciesReference species="M_pep_c" stoichiometry="1" constant="true"/>
+        </listOfReactants>
+        <listOfProducts>
+          <speciesReference species="M_man6p_c" stoichiometry="1" constant="true"/>
+          <speciesReference species="M_pyr_c" stoichiometry="1" constant="true"/>
+        </listOfProducts>
+        <fbc:geneProductAssociation>
+          <fbc:and>
+            <fbc:geneProductRef fbc:geneProduct="G_b1819"/>
+            <fbc:geneProductRef fbc:geneProduct="G_b1818"/>
+            <fbc:geneProductRef fbc:geneProduct="G_b1817"/>
+            <fbc:geneProductRef fbc:geneProduct="G_b2416"/>
+            <fbc:geneProductRef fbc:geneProduct="G_b2415"/>
+          </fbc:and>
+        </fbc:geneProductAssociation>
+      </reaction>
+      <reaction id="R_EX_cmp_e" fast="false" reversible="false" name="CMP exchange" metaid="R_EX_cmp_e" sboTerm="SBO:0000627" fbc:upperFluxBound="cobra_default_ub" fbc:lowerFluxBound="cobra_0_bound">
+        <sbml:annotation xmlns:sbml="http://www.sbml.org/sbml/level3/version1/core">
+          <rdf:RDF xmlns:rdf="http://www.w3.org/1999/02/22-rdf-syntax-ns#">
+            <rdf:Description rdf:about="#R_EX_cmp_e">
+              <bqbiol:is xmlns:bqbiol="http://biomodels.net/biology-qualifiers/">
+                <rdf:Bag>
+                  <rdf:li rdf:resource="http://identifiers.org/bigg.reaction/EX_cmp_e"/>
+                  <rdf:li rdf:resource="http://identifiers.org/metanetx.reaction/MNXR96806"/>
+                  <rdf:li rdf:resource="http://identifiers.org/seed.reaction/rxn08236"/>
+                  <rdf:li rdf:resource="http://identifiers.org/seed.reaction/rxn09776"/>
+                </rdf:Bag>
+              </bqbiol:is>
+            </rdf:Description>
+          </rdf:RDF>
+        </sbml:annotation>
+        <listOfReactants>
+          <speciesReference species="M_cmp_e" stoichiometry="1" constant="true"/>
+        </listOfReactants>
+      </reaction>
+      <reaction id="R_NTD8" fast="false" reversible="false" name="5'-nucleotidase (dGMP)" metaid="R_NTD8" sboTerm="SBO:0000176" fbc:upperFluxBound="cobra_default_ub" fbc:lowerFluxBound="cobra_0_bound">
+        <sbml:annotation xmlns:sbml="http://www.sbml.org/sbml/level3/version1/core">
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+            <rdf:Description rdf:about="#R_NTD8">
+              <bqbiol:is xmlns:bqbiol="http://biomodels.net/biology-qualifiers/">
+                <rdf:Bag>
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+                  <rdf:li rdf:resource="http://identifiers.org/biocyc/META:RXN-14142"/>
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+                  <rdf:li rdf:resource="http://identifiers.org/kegg.reaction/R01968"/>
+                  <rdf:li rdf:resource="http://identifiers.org/metanetx.reaction/MNXR102038"/>
+                  <rdf:li rdf:resource="http://identifiers.org/rhea/29382"/>
+                  <rdf:li rdf:resource="http://identifiers.org/rhea/29380"/>
+                  <rdf:li rdf:resource="http://identifiers.org/rhea/29381"/>
+                  <rdf:li rdf:resource="http://identifiers.org/rhea/29379"/>
+                  <rdf:li rdf:resource="http://identifiers.org/sabiork/304"/>
+                  <rdf:li rdf:resource="http://identifiers.org/seed.reaction/rxn01445"/>
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+            </rdf:Description>
+          </rdf:RDF>
+        </sbml:annotation>
+        <listOfReactants>
+          <speciesReference species="M_dgmp_c" stoichiometry="1" constant="true"/>
+          <speciesReference species="M_h2o_c" stoichiometry="1" constant="true"/>
+        </listOfReactants>
+        <listOfProducts>
+          <speciesReference species="M_dgsn_c" stoichiometry="1" constant="true"/>
+          <speciesReference species="M_pi_c" stoichiometry="1" constant="true"/>
+        </listOfProducts>
+        <fbc:geneProductAssociation>
+          <fbc:or>
+            <fbc:geneProductRef fbc:geneProduct="G_b2744"/>
+            <fbc:geneProductRef fbc:geneProduct="G_b2291"/>
+            <fbc:geneProductRef fbc:geneProduct="G_b3399"/>
+            <fbc:geneProductRef fbc:geneProduct="G_b2361"/>
+          </fbc:or>
+        </fbc:geneProductAssociation>
+      </reaction>
+      <reaction id="R_GALCTD" fast="false" reversible="false" name="Galactarate dehydratase" metaid="R_GALCTD" sboTerm="SBO:0000176" fbc:upperFluxBound="cobra_default_ub" fbc:lowerFluxBound="cobra_0_bound">
+        <sbml:annotation xmlns:sbml="http://www.sbml.org/sbml/level3/version1/core">
+          <rdf:RDF xmlns:rdf="http://www.w3.org/1999/02/22-rdf-syntax-ns#">
+            <rdf:Description rdf:about="#R_GALCTD">
+              <bqbiol:is xmlns:bqbiol="http://biomodels.net/biology-qualifiers/">
+                <rdf:Bag>
+                  <rdf:li rdf:resource="http://identifiers.org/bigg.reaction/GALCTD"/>
+                  <rdf:li rdf:resource="http://identifiers.org/biocyc/META:GALACTARDEHYDRA-RXN"/>
+                  <rdf:li rdf:resource="http://identifiers.org/ec-code/4.2.1.42"/>
+                  <rdf:li rdf:resource="http://identifiers.org/kegg.reaction/R05608"/>
+                  <rdf:li rdf:resource="http://identifiers.org/metanetx.reaction/MNXR99955"/>
+                  <rdf:li rdf:resource="http://identifiers.org/rhea/16008"/>
+                  <rdf:li rdf:resource="http://identifiers.org/rhea/16006"/>
+                  <rdf:li rdf:resource="http://identifiers.org/rhea/16005"/>
+                  <rdf:li rdf:resource="http://identifiers.org/rhea/16007"/>
+                  <rdf:li rdf:resource="http://identifiers.org/seed.reaction/rxn03887"/>
+                </rdf:Bag>
+              </bqbiol:is>
+            </rdf:Description>
+          </rdf:RDF>
+        </sbml:annotation>
+        <listOfReactants>
+          <speciesReference species="M_galct__D_c" stoichiometry="1" constant="true"/>
+        </listOfReactants>
+        <listOfProducts>
+          <speciesReference species="M_5dh4dglc_c" stoichiometry="1" constant="true"/>
+          <speciesReference species="M_h2o_c" stoichiometry="1" constant="true"/>
+        </listOfProducts>
+        <fbc:geneProductAssociation>
+          <fbc:geneProductRef fbc:geneProduct="G_b3128"/>
+        </fbc:geneProductAssociation>
+      </reaction>
+      <reaction id="R_EX_malthx_e" fast="false" reversible="false" name="Maltohexaose exchange" metaid="R_EX_malthx_e" sboTerm="SBO:0000627" fbc:upperFluxBound="cobra_default_ub" fbc:lowerFluxBound="cobra_0_bound">
+        <sbml:annotation xmlns:sbml="http://www.sbml.org/sbml/level3/version1/core">
+          <rdf:RDF xmlns:rdf="http://www.w3.org/1999/02/22-rdf-syntax-ns#">
+            <rdf:Description rdf:about="#R_EX_malthx_e">
+              <bqbiol:is xmlns:bqbiol="http://biomodels.net/biology-qualifiers/">
+                <rdf:Bag>
+                  <rdf:li rdf:resource="http://identifiers.org/bigg.reaction/EX_malthx_e"/>
+                  <rdf:li rdf:resource="http://identifiers.org/metanetx.reaction/MNXR101354"/>
+                  <rdf:li rdf:resource="http://identifiers.org/seed.reaction/rxn08870"/>
+                </rdf:Bag>
+              </bqbiol:is>
+            </rdf:Description>
+          </rdf:RDF>
+        </sbml:annotation>
+        <listOfReactants>
+          <speciesReference species="M_malthx_e" stoichiometry="1" constant="true"/>
+        </listOfReactants>
+      </reaction>
+      <reaction id="R_MLTG4" fast="false" reversible="false" name="Maltodextrin glucosidase (maltohexaose)" metaid="R_MLTG4" sboTerm="SBO:0000176" fbc:upperFluxBound="cobra_default_ub" fbc:lowerFluxBound="cobra_0_bound">
+        <sbml:annotation xmlns:sbml="http://www.sbml.org/sbml/level3/version1/core">
+          <rdf:RDF xmlns:rdf="http://www.w3.org/1999/02/22-rdf-syntax-ns#">
+            <rdf:Description rdf:about="#R_MLTG4">
+              <bqbiol:is xmlns:bqbiol="http://biomodels.net/biology-qualifiers/">
+                <rdf:Bag>
+                  <rdf:li rdf:resource="http://identifiers.org/bigg.reaction/MLTG4"/>
+                  <rdf:li rdf:resource="http://identifiers.org/biocyc/META:RXN-14282"/>
+                  <rdf:li rdf:resource="http://identifiers.org/ec-code/3.2.1.20"/>
+                  <rdf:li rdf:resource="http://identifiers.org/metanetx.reaction/MNXR101622"/>
+                  <rdf:li rdf:resource="http://identifiers.org/seed.reaction/rxn08935"/>
+                </rdf:Bag>
+              </bqbiol:is>
+            </rdf:Description>
+          </rdf:RDF>
+        </sbml:annotation>
+        <listOfReactants>
+          <speciesReference species="M_h2o_c" stoichiometry="1" constant="true"/>
+          <speciesReference species="M_malthx_c" stoichiometry="1" constant="true"/>
+        </listOfReactants>
+        <listOfProducts>
+          <speciesReference species="M_glc__D_c" stoichiometry="1" constant="true"/>
+          <speciesReference species="M_maltpt_c" stoichiometry="1" constant="true"/>
+        </listOfProducts>
+        <fbc:geneProductAssociation>
+          <fbc:geneProductRef fbc:geneProduct="G_b0403"/>
+        </fbc:geneProductAssociation>
+      </reaction>
+      <reaction id="R_UDPGDC" fast="false" reversible="false" name="UDP-glucuronate C-4'' decarboxylase" metaid="R_UDPGDC" sboTerm="SBO:0000176" fbc:upperFluxBound="cobra_default_ub" fbc:lowerFluxBound="cobra_0_bound">
+        <sbml:annotation xmlns:sbml="http://www.sbml.org/sbml/level3/version1/core">
+          <rdf:RDF xmlns:rdf="http://www.w3.org/1999/02/22-rdf-syntax-ns#">
+            <rdf:Description rdf:about="#R_UDPGDC">
+              <bqbiol:is xmlns:bqbiol="http://biomodels.net/biology-qualifiers/">
+                <rdf:Bag>
+                  <rdf:li rdf:resource="http://identifiers.org/bigg.reaction/UDPGDC"/>
+                  <rdf:li rdf:resource="http://identifiers.org/biocyc/META:RXN0-1861"/>
+                  <rdf:li rdf:resource="http://identifiers.org/ec-code/1.1.1.305"/>
+                  <rdf:li rdf:resource="http://identifiers.org/kegg.reaction/R07658"/>
+                  <rdf:li rdf:resource="http://identifiers.org/metanetx.reaction/MNXR105064"/>
+                  <rdf:li rdf:resource="http://identifiers.org/rhea/24703"/>
+                  <rdf:li rdf:resource="http://identifiers.org/rhea/24705"/>
+                  <rdf:li rdf:resource="http://identifiers.org/rhea/24704"/>
+                  <rdf:li rdf:resource="http://identifiers.org/rhea/24702"/>
+                  <rdf:li rdf:resource="http://identifiers.org/sabiork/12883"/>
+                  <rdf:li rdf:resource="http://identifiers.org/seed.reaction/rxn07473"/>
+                  <rdf:li rdf:resource="http://identifiers.org/seed.reaction/rxn09351"/>
+                </rdf:Bag>
+              </bqbiol:is>
+            </rdf:Description>
+          </rdf:RDF>
+        </sbml:annotation>
+        <listOfReactants>
+          <speciesReference species="M_nad_c" stoichiometry="1" constant="true"/>
+          <speciesReference species="M_udpglcur_c" stoichiometry="1" constant="true"/>
+        </listOfReactants>
+        <listOfProducts>
+          <speciesReference species="M_co2_c" stoichiometry="1" constant="true"/>
+          <speciesReference species="M_nadh_c" stoichiometry="1" constant="true"/>
+          <speciesReference species="M_udpLa4o_c" stoichiometry="1" constant="true"/>
+        </listOfProducts>
+        <fbc:geneProductAssociation>
+          <fbc:geneProductRef fbc:geneProduct="G_b2255"/>
+        </fbc:geneProductAssociation>
+      </reaction>
+      <reaction id="R_PUNP4" fast="false" reversible="true" name="Purine-nucleoside phosphorylase (Deoxyguanosine)" metaid="R_PUNP4" sboTerm="SBO:0000176" fbc:upperFluxBound="cobra_default_ub" fbc:lowerFluxBound="cobra_default_lb">
+        <sbml:annotation xmlns:sbml="http://www.sbml.org/sbml/level3/version1/core">
+          <rdf:RDF xmlns:rdf="http://www.w3.org/1999/02/22-rdf-syntax-ns#">
+            <rdf:Description rdf:about="#R_PUNP4">
+              <bqbiol:is xmlns:bqbiol="http://biomodels.net/biology-qualifiers/">
+                <rdf:Bag>
+                  <rdf:li rdf:resource="http://identifiers.org/bigg.reaction/PUNP4"/>
+                  <rdf:li rdf:resource="http://identifiers.org/biocyc/META:DEOXYGUANPHOSPHOR-RXN"/>
+                  <rdf:li rdf:resource="http://identifiers.org/ec-code/2.4.2.1"/>
+                  <rdf:li rdf:resource="http://identifiers.org/ec-code/2.4.2.4"/>
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+                  <rdf:li rdf:resource="http://identifiers.org/metanetx.reaction/MNXR103346"/>
+                  <rdf:li rdf:resource="http://identifiers.org/rhea/27741"/>
+                  <rdf:li rdf:resource="http://identifiers.org/rhea/27738"/>
+                  <rdf:li rdf:resource="http://identifiers.org/rhea/27740"/>
+                  <rdf:li rdf:resource="http://identifiers.org/rhea/27739"/>
+                  <rdf:li rdf:resource="http://identifiers.org/sabiork/360"/>
+                  <rdf:li rdf:resource="http://identifiers.org/seed.reaction/rxn01446"/>
+                </rdf:Bag>
+              </bqbiol:is>
+            </rdf:Description>
+          </rdf:RDF>
+        </sbml:annotation>
+        <listOfReactants>
+          <speciesReference species="M_dgsn_c" stoichiometry="1" constant="true"/>
+          <speciesReference species="M_pi_c" stoichiometry="1" constant="true"/>
+        </listOfReactants>
+        <listOfProducts>
+          <speciesReference species="M_2dr1p_c" stoichiometry="1" constant="true"/>
+          <speciesReference species="M_gua_c" stoichiometry="1" constant="true"/>
+        </listOfProducts>
+        <fbc:geneProductAssociation>
+          <fbc:or>
+            <fbc:geneProductRef fbc:geneProduct="G_b2407"/>
+            <fbc:geneProductRef fbc:geneProduct="G_b4384"/>
+          </fbc:or>
+        </fbc:geneProductAssociation>
+      </reaction>
+      <reaction id="R_AMAOTr" fast="false" reversible="true" name="Adenosylmethionine-8-amino-7-oxononanoate transaminase" metaid="R_AMAOTr" sboTerm="SBO:0000176" fbc:upperFluxBound="cobra_default_ub" fbc:lowerFluxBound="cobra_default_lb">
+        <sbml:annotation xmlns:sbml="http://www.sbml.org/sbml/level3/version1/core">
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+              <bqbiol:is xmlns:bqbiol="http://biomodels.net/biology-qualifiers/">
+                <rdf:Bag>
+                  <rdf:li rdf:resource="http://identifiers.org/bigg.reaction/AMAOTr"/>
+                  <rdf:li rdf:resource="http://identifiers.org/biocyc/META:DAPASYN-RXN"/>
+                  <rdf:li rdf:resource="http://identifiers.org/ec-code/2.6.1.62"/>
+                  <rdf:li rdf:resource="http://identifiers.org/kegg.reaction/R03231"/>
+                  <rdf:li rdf:resource="http://identifiers.org/metanetx.reaction/MNXR95806"/>
+                  <rdf:li rdf:resource="http://identifiers.org/rhea/16863"/>
+                  <rdf:li rdf:resource="http://identifiers.org/rhea/16861"/>
+                  <rdf:li rdf:resource="http://identifiers.org/rhea/16862"/>
+                  <rdf:li rdf:resource="http://identifiers.org/rhea/16864"/>
+                  <rdf:li rdf:resource="http://identifiers.org/sabiork/3057"/>
+                  <rdf:li rdf:resource="http://identifiers.org/seed.reaction/rxn02312"/>
+                </rdf:Bag>
+              </bqbiol:is>
+            </rdf:Description>
+          </rdf:RDF>
+        </sbml:annotation>
+        <listOfReactants>
+          <speciesReference species="M_8aonn_c" stoichiometry="1" constant="true"/>
+          <speciesReference species="M_amet_c" stoichiometry="1" constant="true"/>
+        </listOfReactants>
+        <listOfProducts>
+          <speciesReference species="M_amob_c" stoichiometry="1" constant="true"/>
+          <speciesReference species="M_dann_c" stoichiometry="1" constant="true"/>
+        </listOfProducts>
+        <fbc:geneProductAssociation>
+          <fbc:geneProductRef fbc:geneProduct="G_b0774"/>
+        </fbc:geneProductAssociation>
+      </reaction>
+      <reaction id="R_EX_csn_e" fast="false" reversible="false" name="Cytosine exchange" metaid="R_EX_csn_e" sboTerm="SBO:0000627" fbc:upperFluxBound="cobra_default_ub" fbc:lowerFluxBound="cobra_0_bound">
+        <sbml:annotation xmlns:sbml="http://www.sbml.org/sbml/level3/version1/core">
+          <rdf:RDF xmlns:rdf="http://www.w3.org/1999/02/22-rdf-syntax-ns#">
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+              <bqbiol:is xmlns:bqbiol="http://biomodels.net/biology-qualifiers/">
+                <rdf:Bag>
+                  <rdf:li rdf:resource="http://identifiers.org/bigg.reaction/EX_csn_e"/>
+                  <rdf:li rdf:resource="http://identifiers.org/metanetx.reaction/MNXR96928"/>
+                  <rdf:li rdf:resource="http://identifiers.org/seed.reaction/rxn08267"/>
+                </rdf:Bag>
+              </bqbiol:is>
+            </rdf:Description>
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+        </sbml:annotation>
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+                  <rdf:li rdf:resource="http://identifiers.org/rhea/35267"/>
+                  <rdf:li rdf:resource="http://identifiers.org/rhea/35270"/>
+                  <rdf:li rdf:resource="http://identifiers.org/rhea/35268"/>
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+                  <rdf:li rdf:resource="http://identifiers.org/seed.reaction/rxn09764"/>
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+        <sbml:annotation xmlns:sbml="http://www.sbml.org/sbml/level3/version1/core">
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+          <speciesReference species="M_h2o_c" stoichiometry="1" constant="true"/>
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+        <listOfProducts>
+          <speciesReference species="M_glc__D_c" stoichiometry="1" constant="true"/>
+          <speciesReference species="M_pi_c" stoichiometry="1" constant="true"/>
+        </listOfProducts>
+        <fbc:geneProductAssociation>
+          <fbc:or>
+            <fbc:geneProductRef fbc:geneProduct="G_b0822"/>
+            <fbc:geneProductRef fbc:geneProduct="G_b3826"/>
+            <fbc:geneProductRef fbc:geneProduct="G_b2293"/>
+          </fbc:or>
+        </fbc:geneProductAssociation>
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+                  <rdf:li rdf:resource="http://identifiers.org/biocyc/META:METHYLMALONYL-COA-DECARBOXYLASE-RXN"/>
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+                  <rdf:li rdf:resource="http://identifiers.org/rhea/21399"/>
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+          <speciesReference species="M_mmcoa__S_c" stoichiometry="1" constant="true"/>
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+        <listOfProducts>
+          <speciesReference species="M_co2_c" stoichiometry="1" constant="true"/>
+          <speciesReference species="M_ppcoa_c" stoichiometry="1" constant="true"/>
+        </listOfProducts>
+        <fbc:geneProductAssociation>
+          <fbc:geneProductRef fbc:geneProduct="G_b2919"/>
+        </fbc:geneProductAssociation>
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+          <speciesReference species="M_gln__L_c" stoichiometry="1" constant="true"/>
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+        <sbml:annotation xmlns:sbml="http://www.sbml.org/sbml/level3/version1/core">
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+        <listOfProducts>
+          <speciesReference species="M_tym_p" stoichiometry="1" constant="true"/>
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+            <fbc:geneProductRef fbc:geneProduct="G_b0241"/>
+            <fbc:geneProductRef fbc:geneProduct="G_b0929"/>
+            <fbc:geneProductRef fbc:geneProduct="G_b1377"/>
+            <fbc:geneProductRef fbc:geneProduct="G_b2215"/>
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+        </fbc:geneProductAssociation>
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+          <speciesReference species="M_gly_c" stoichiometry="1" constant="true"/>
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+          <speciesReference species="M_adp_c" stoichiometry="1" constant="true"/>
+          <speciesReference species="M_gthrd_c" stoichiometry="1" constant="true"/>
+          <speciesReference species="M_h_c" stoichiometry="1" constant="true"/>
+          <speciesReference species="M_pi_c" stoichiometry="1" constant="true"/>
+        </listOfProducts>
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+          <fbc:geneProductRef fbc:geneProduct="G_b2947"/>
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+        <sbml:annotation xmlns:sbml="http://www.sbml.org/sbml/level3/version1/core">
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+          <speciesReference species="M_g3pe_e" stoichiometry="1" constant="true"/>
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+        <sbml:annotation xmlns:sbml="http://www.sbml.org/sbml/level3/version1/core">
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+                  <rdf:li rdf:resource="http://identifiers.org/seed.reaction/rxn13374"/>
+                  <rdf:li rdf:resource="http://identifiers.org/seed.reaction/rxn13373"/>
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+        <sbml:annotation xmlns:sbml="http://www.sbml.org/sbml/level3/version1/core">
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+                  <rdf:li rdf:resource="http://identifiers.org/seed.reaction/rxn10932"/>
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+                  <rdf:li rdf:resource="http://identifiers.org/metanetx.reaction/MNXR105231"/>
+                  <rdf:li rdf:resource="http://identifiers.org/seed.reaction/rxn09380"/>
+                </rdf:Bag>
+              </bqbiol:is>
+            </rdf:Description>
+          </rdf:RDF>
+        </sbml:annotation>
+        <listOfReactants>
+          <speciesReference species="M_xmp_e" stoichiometry="1" constant="true"/>
+        </listOfReactants>
+        <listOfProducts>
+          <speciesReference species="M_xmp_p" stoichiometry="1" constant="true"/>
+        </listOfProducts>
+        <fbc:geneProductAssociation>
+          <fbc:or>
+            <fbc:geneProductRef fbc:geneProduct="G_b0241"/>
+            <fbc:geneProductRef fbc:geneProduct="G_b0929"/>
+            <fbc:geneProductRef fbc:geneProduct="G_b1377"/>
+            <fbc:geneProductRef fbc:geneProduct="G_b2215"/>
+          </fbc:or>
+        </fbc:geneProductAssociation>
+      </reaction>
+      <reaction id="R_3PEPTtex" fast="false" reversible="true" name="LalaDgluMdap (tripeptide) transport via diffusion (extracellular to periplasm)" metaid="R_3PEPTtex" sboTerm="SBO:0000185" fbc:upperFluxBound="cobra_default_ub" fbc:lowerFluxBound="cobra_default_lb">
+        <sbml:annotation xmlns:sbml="http://www.sbml.org/sbml/level3/version1/core">
+          <rdf:RDF xmlns:rdf="http://www.w3.org/1999/02/22-rdf-syntax-ns#">
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+              <bqbiol:is xmlns:bqbiol="http://biomodels.net/biology-qualifiers/">
+                <rdf:Bag>
+                  <rdf:li rdf:resource="http://identifiers.org/bigg.reaction/3PEPTtex"/>
+                  <rdf:li rdf:resource="http://identifiers.org/metanetx.reaction/MNXR94971"/>
+                  <rdf:li rdf:resource="http://identifiers.org/seed.reaction/rxn08004"/>
+                </rdf:Bag>
+              </bqbiol:is>
+            </rdf:Description>
+          </rdf:RDF>
+        </sbml:annotation>
+        <listOfReactants>
+          <speciesReference species="M_LalaDgluMdap_e" stoichiometry="1" constant="true"/>
+        </listOfReactants>
+        <listOfProducts>
+          <speciesReference species="M_LalaDgluMdap_p" stoichiometry="1" constant="true"/>
+        </listOfProducts>
+        <fbc:geneProductAssociation>
+          <fbc:or>
+            <fbc:geneProductRef fbc:geneProduct="G_b0241"/>
+            <fbc:geneProductRef fbc:geneProduct="G_b0929"/>
+            <fbc:geneProductRef fbc:geneProduct="G_b1377"/>
+            <fbc:geneProductRef fbc:geneProduct="G_b2215"/>
+          </fbc:or>
+        </fbc:geneProductAssociation>
+      </reaction>
+      <reaction id="R_EX_12ppd__S_e" fast="false" reversible="false" name="(S)-Propane-1,2-diol exchange" metaid="R_EX_12ppd__S_e" sboTerm="SBO:0000627" fbc:upperFluxBound="cobra_default_ub" fbc:lowerFluxBound="cobra_0_bound">
+        <sbml:annotation xmlns:sbml="http://www.sbml.org/sbml/level3/version1/core">
+          <rdf:RDF xmlns:rdf="http://www.w3.org/1999/02/22-rdf-syntax-ns#">
+            <rdf:Description rdf:about="#R_EX_12ppd__S_e">
+              <bqbiol:is xmlns:bqbiol="http://biomodels.net/biology-qualifiers/">
+                <rdf:Bag>
+                  <rdf:li rdf:resource="http://identifiers.org/bigg.reaction/EX_12ppd__S_e"/>
+                  <rdf:li rdf:resource="http://identifiers.org/metanetx.reaction/MNXR94684"/>
+                </rdf:Bag>
+              </bqbiol:is>
+            </rdf:Description>
+          </rdf:RDF>
+        </sbml:annotation>
+        <listOfReactants>
+          <speciesReference species="M_12ppd__S_e" stoichiometry="1" constant="true"/>
+        </listOfReactants>
+      </reaction>
+      <reaction id="R_EX_pppn_e" fast="false" reversible="false" name="Phenylpropanoate exchange" metaid="R_EX_pppn_e" sboTerm="SBO:0000627" fbc:upperFluxBound="cobra_default_ub" fbc:lowerFluxBound="cobra_0_bound">
+        <sbml:annotation xmlns:sbml="http://www.sbml.org/sbml/level3/version1/core">
+          <rdf:RDF xmlns:rdf="http://www.w3.org/1999/02/22-rdf-syntax-ns#">
+            <rdf:Description rdf:about="#R_EX_pppn_e">
+              <bqbiol:is xmlns:bqbiol="http://biomodels.net/biology-qualifiers/">
+                <rdf:Bag>
+                  <rdf:li rdf:resource="http://identifiers.org/bigg.reaction/EX_pppn_e"/>
+                  <rdf:li rdf:resource="http://identifiers.org/biocyc/META:TRANS-RXN0-282"/>
+                  <rdf:li rdf:resource="http://identifiers.org/metanetx.reaction/MNXR103136"/>
+                  <rdf:li rdf:resource="http://identifiers.org/rhea/29748"/>
+                  <rdf:li rdf:resource="http://identifiers.org/rhea/29750"/>
+                  <rdf:li rdf:resource="http://identifiers.org/rhea/29749"/>
+                  <rdf:li rdf:resource="http://identifiers.org/rhea/29747"/>
+                  <rdf:li rdf:resource="http://identifiers.org/seed.reaction/rxn09183"/>
+                </rdf:Bag>
+              </bqbiol:is>
+            </rdf:Description>
+          </rdf:RDF>
+        </sbml:annotation>
+        <listOfReactants>
+          <speciesReference species="M_pppn_e" stoichiometry="1" constant="true"/>
+        </listOfReactants>
+      </reaction>
+      <reaction id="R_ANHGMtex" fast="false" reversible="true" name="GlcNAc-anhMurNAc transport via diffusion (extracellular to periplasm)" metaid="R_ANHGMtex" sboTerm="SBO:0000185" fbc:upperFluxBound="cobra_default_ub" fbc:lowerFluxBound="cobra_default_lb">
+        <sbml:annotation xmlns:sbml="http://www.sbml.org/sbml/level3/version1/core">
+          <rdf:RDF xmlns:rdf="http://www.w3.org/1999/02/22-rdf-syntax-ns#">
+            <rdf:Description rdf:about="#R_ANHGMtex">
+              <bqbiol:is xmlns:bqbiol="http://biomodels.net/biology-qualifiers/">
+                <rdf:Bag>
+                  <rdf:li rdf:resource="http://identifiers.org/bigg.reaction/ANHGMtex"/>
+                  <rdf:li rdf:resource="http://identifiers.org/metanetx.reaction/MNXR95839"/>
+                  <rdf:li rdf:resource="http://identifiers.org/seed.reaction/rxn08135"/>
+                </rdf:Bag>
+              </bqbiol:is>
+            </rdf:Description>
+          </rdf:RDF>
+        </sbml:annotation>
+        <listOfReactants>
+          <speciesReference species="M_anhgm_e" stoichiometry="1" constant="true"/>
+        </listOfReactants>
+        <listOfProducts>
+          <speciesReference species="M_anhgm_p" stoichiometry="1" constant="true"/>
+        </listOfProducts>
+        <fbc:geneProductAssociation>
+          <fbc:or>
+            <fbc:geneProductRef fbc:geneProduct="G_b0241"/>
+            <fbc:geneProductRef fbc:geneProduct="G_b0929"/>
+            <fbc:geneProductRef fbc:geneProduct="G_b1377"/>
+            <fbc:geneProductRef fbc:geneProduct="G_b2215"/>
+          </fbc:or>
+        </fbc:geneProductAssociation>
+      </reaction>
+      <reaction id="R_MALTptspp" fast="false" reversible="false" name="Maltose transport via PEP:Pyr PTS (periplasm)" metaid="R_MALTptspp" sboTerm="SBO:0000185" fbc:upperFluxBound="cobra_default_ub" fbc:lowerFluxBound="cobra_0_bound">
+        <sbml:annotation xmlns:sbml="http://www.sbml.org/sbml/level3/version1/core">
+          <rdf:RDF xmlns:rdf="http://www.w3.org/1999/02/22-rdf-syntax-ns#">
+            <rdf:Description rdf:about="#R_MALTptspp">
+              <bqbiol:is xmlns:bqbiol="http://biomodels.net/biology-qualifiers/">
+                <rdf:Bag>
+                  <rdf:li rdf:resource="http://identifiers.org/bigg.reaction/MALTptspp"/>
+                  <rdf:li rdf:resource="http://identifiers.org/metanetx.reaction/MNXR101363"/>
+                  <rdf:li rdf:resource="http://identifiers.org/seed.reaction/rxn08872"/>
+                  <rdf:li rdf:resource="http://identifiers.org/seed.reaction/rxn05607"/>
+                </rdf:Bag>
+              </bqbiol:is>
+            </rdf:Description>
+          </rdf:RDF>
+        </sbml:annotation>
+        <listOfReactants>
+          <speciesReference species="M_malt_p" stoichiometry="1" constant="true"/>
+          <speciesReference species="M_pep_c" stoichiometry="1" constant="true"/>
+        </listOfReactants>
+        <listOfProducts>
+          <speciesReference species="M_malt6p_c" stoichiometry="1" constant="true"/>
+          <speciesReference species="M_pyr_c" stoichiometry="1" constant="true"/>
+        </listOfProducts>
+        <fbc:geneProductAssociation>
+          <fbc:and>
+            <fbc:geneProductRef fbc:geneProduct="G_b1621"/>
+            <fbc:geneProductRef fbc:geneProduct="G_b2417"/>
+            <fbc:geneProductRef fbc:geneProduct="G_b2415"/>
+            <fbc:geneProductRef fbc:geneProduct="G_b2416"/>
+          </fbc:and>
+        </fbc:geneProductAssociation>
+      </reaction>
+      <reaction id="R_UDPKAAT" fast="false" reversible="true" name="UDP-4''-ketopentose:UDP-4-amino-4-deoxy-L-arabinose aminotransferase" metaid="R_UDPKAAT" sboTerm="SBO:0000176" fbc:upperFluxBound="cobra_default_ub" fbc:lowerFluxBound="cobra_default_lb">
+        <sbml:annotation xmlns:sbml="http://www.sbml.org/sbml/level3/version1/core">
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+              <bqbiol:is xmlns:bqbiol="http://biomodels.net/biology-qualifiers/">
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+                  <rdf:li rdf:resource="http://identifiers.org/biocyc/META:RXN0-1863"/>
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+                  <rdf:li rdf:resource="http://identifiers.org/metanetx.reaction/MNXR105074"/>
+                  <rdf:li rdf:resource="http://identifiers.org/rhea/24712"/>
+                  <rdf:li rdf:resource="http://identifiers.org/rhea/24710"/>
+                  <rdf:li rdf:resource="http://identifiers.org/rhea/24711"/>
+                  <rdf:li rdf:resource="http://identifiers.org/rhea/24713"/>
+                  <rdf:li rdf:resource="http://identifiers.org/seed.reaction/rxn07474"/>
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+              </bqbiol:is>
+            </rdf:Description>
+          </rdf:RDF>
+        </sbml:annotation>
+        <listOfReactants>
+          <speciesReference species="M_glu__L_c" stoichiometry="1" constant="true"/>
+          <speciesReference species="M_udpLa4o_c" stoichiometry="1" constant="true"/>
+        </listOfReactants>
+        <listOfProducts>
+          <speciesReference species="M_akg_c" stoichiometry="1" constant="true"/>
+          <speciesReference species="M_udpLa4n_c" stoichiometry="1" constant="true"/>
+        </listOfProducts>
+        <fbc:geneProductAssociation>
+          <fbc:geneProductRef fbc:geneProduct="G_b2253"/>
+        </fbc:geneProductAssociation>
+      </reaction>
+      <reaction id="R_ULA4NFT" fast="false" reversible="false" name="UDP-L-Ara4N formyltransferase" metaid="R_ULA4NFT" sboTerm="SBO:0000176" fbc:upperFluxBound="cobra_default_ub" fbc:lowerFluxBound="cobra_0_bound">
+        <sbml:annotation xmlns:sbml="http://www.sbml.org/sbml/level3/version1/core">
+          <rdf:RDF xmlns:rdf="http://www.w3.org/1999/02/22-rdf-syntax-ns#">
+            <rdf:Description rdf:about="#R_ULA4NFT">
+              <bqbiol:is xmlns:bqbiol="http://biomodels.net/biology-qualifiers/">
+                <rdf:Bag>
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+                  <rdf:li rdf:resource="http://identifiers.org/ec-code/2.1.2.13"/>
+                  <rdf:li rdf:resource="http://identifiers.org/kegg.reaction/R07660"/>
+                  <rdf:li rdf:resource="http://identifiers.org/metanetx.reaction/MNXR105113"/>
+                  <rdf:li rdf:resource="http://identifiers.org/rhea/24708"/>
+                  <rdf:li rdf:resource="http://identifiers.org/rhea/24706"/>
+                  <rdf:li rdf:resource="http://identifiers.org/rhea/24709"/>
+                  <rdf:li rdf:resource="http://identifiers.org/rhea/24707"/>
+                </rdf:Bag>
+              </bqbiol:is>
+            </rdf:Description>
+          </rdf:RDF>
+        </sbml:annotation>
+        <listOfReactants>
+          <speciesReference species="M_10fthf_c" stoichiometry="1" constant="true"/>
+          <speciesReference species="M_udpLa4n_c" stoichiometry="1" constant="true"/>
+        </listOfReactants>
+        <listOfProducts>
+          <speciesReference species="M_h_c" stoichiometry="1" constant="true"/>
+          <speciesReference species="M_thf_c" stoichiometry="1" constant="true"/>
+          <speciesReference species="M_udpLa4fn_c" stoichiometry="1" constant="true"/>
+        </listOfProducts>
+        <fbc:geneProductAssociation>
+          <fbc:geneProductRef fbc:geneProduct="G_b2255"/>
+        </fbc:geneProductAssociation>
+      </reaction>
+      <reaction id="R_EX_acgam1p_e" fast="false" reversible="false" name="N-Acetyl-D-glucosamine 1-phosphate exchange" metaid="R_EX_acgam1p_e" sboTerm="SBO:0000627" fbc:upperFluxBound="cobra_default_ub" fbc:lowerFluxBound="cobra_0_bound">
+        <sbml:annotation xmlns:sbml="http://www.sbml.org/sbml/level3/version1/core">
+          <rdf:RDF xmlns:rdf="http://www.w3.org/1999/02/22-rdf-syntax-ns#">
+            <rdf:Description rdf:about="#R_EX_acgam1p_e">
+              <bqbiol:is xmlns:bqbiol="http://biomodels.net/biology-qualifiers/">
+                <rdf:Bag>
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+                  <rdf:li rdf:resource="http://identifiers.org/metanetx.reaction/MNXR95246"/>
+                  <rdf:li rdf:resource="http://identifiers.org/seed.reaction/rxn08039"/>
+                </rdf:Bag>
+              </bqbiol:is>
+            </rdf:Description>
+          </rdf:RDF>
+        </sbml:annotation>
+        <listOfReactants>
+          <speciesReference species="M_acgam1p_e" stoichiometry="1" constant="true"/>
+        </listOfReactants>
+      </reaction>
+      <reaction id="R_NTD11pp" fast="false" reversible="false" name="5'-nucleotidase (IMP)" metaid="R_NTD11pp" sboTerm="SBO:0000176" fbc:upperFluxBound="cobra_default_ub" fbc:lowerFluxBound="cobra_0_bound">
+        <sbml:annotation xmlns:sbml="http://www.sbml.org/sbml/level3/version1/core">
+          <rdf:RDF xmlns:rdf="http://www.w3.org/1999/02/22-rdf-syntax-ns#">
+            <rdf:Description rdf:about="#R_NTD11pp">
+              <bqbiol:is xmlns:bqbiol="http://biomodels.net/biology-qualifiers/">
+                <rdf:Bag>
+                  <rdf:li rdf:resource="http://identifiers.org/bigg.reaction/NTD11pp"/>
+                  <rdf:li rdf:resource="http://identifiers.org/biocyc/META:RXN-7607"/>
+                  <rdf:li rdf:resource="http://identifiers.org/ec-code/3.1.3.5"/>
+                  <rdf:li rdf:resource="http://identifiers.org/ec-code/3.1.3.99"/>
+                  <rdf:li rdf:resource="http://identifiers.org/kegg.reaction/R01126"/>
+                  <rdf:li rdf:resource="http://identifiers.org/metanetx.reaction/MNXR102030"/>
+                  <rdf:li rdf:resource="http://identifiers.org/reactome.reaction/R-GGA-421179"/>
+                  <rdf:li rdf:resource="http://identifiers.org/rhea/27721"/>
+                  <rdf:li rdf:resource="http://identifiers.org/rhea/27718"/>
+                  <rdf:li rdf:resource="http://identifiers.org/rhea/27720"/>
+                  <rdf:li rdf:resource="http://identifiers.org/rhea/27719"/>
+                  <rdf:li rdf:resource="http://identifiers.org/sabiork/124"/>
+                  <rdf:li rdf:resource="http://identifiers.org/seed.reaction/rxn00831"/>
+                </rdf:Bag>
+              </bqbiol:is>
+            </rdf:Description>
+          </rdf:RDF>
+        </sbml:annotation>
+        <listOfReactants>
+          <speciesReference species="M_h2o_p" stoichiometry="1" constant="true"/>
+          <speciesReference species="M_imp_p" stoichiometry="1" constant="true"/>
+        </listOfReactants>
+        <listOfProducts>
+          <speciesReference species="M_ins_p" stoichiometry="1" constant="true"/>
+          <speciesReference species="M_pi_p" stoichiometry="1" constant="true"/>
+        </listOfProducts>
+        <fbc:geneProductAssociation>
+          <fbc:or>
+            <fbc:geneProductRef fbc:geneProduct="G_b0480"/>
+            <fbc:geneProductRef fbc:geneProduct="G_b4055"/>
+          </fbc:or>
+        </fbc:geneProductAssociation>
+      </reaction>
+      <reaction id="R_EX_galt_e" fast="false" reversible="false" name="Galactitol exchange" metaid="R_EX_galt_e" sboTerm="SBO:0000627" fbc:upperFluxBound="cobra_default_ub" fbc:lowerFluxBound="cobra_0_bound">
+        <sbml:annotation xmlns:sbml="http://www.sbml.org/sbml/level3/version1/core">
+          <rdf:RDF xmlns:rdf="http://www.w3.org/1999/02/22-rdf-syntax-ns#">
+            <rdf:Description rdf:about="#R_EX_galt_e">
+              <bqbiol:is xmlns:bqbiol="http://biomodels.net/biology-qualifiers/">
+                <rdf:Bag>
+                  <rdf:li rdf:resource="http://identifiers.org/bigg.reaction/EX_galt_e"/>
+                  <rdf:li rdf:resource="http://identifiers.org/metanetx.reaction/MNXR100019"/>
+                  <rdf:li rdf:resource="http://identifiers.org/rhea/33146"/>
+                  <rdf:li rdf:resource="http://identifiers.org/rhea/33144"/>
+                  <rdf:li rdf:resource="http://identifiers.org/rhea/33143"/>
+                  <rdf:li rdf:resource="http://identifiers.org/rhea/33145"/>
+                  <rdf:li rdf:resource="http://identifiers.org/seed.reaction/rxn08587"/>
+                </rdf:Bag>
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+            </rdf:Description>
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+        </sbml:annotation>
+        <listOfReactants>
+          <speciesReference species="M_galt_e" stoichiometry="1" constant="true"/>
+        </listOfReactants>
+      </reaction>
+      <reaction id="R_DKGLCNR2x" fast="false" reversible="false" name="2,5-diketo-D-gluconate reductase (NADH)" metaid="R_DKGLCNR2x" sboTerm="SBO:0000176" fbc:upperFluxBound="cobra_default_ub" fbc:lowerFluxBound="cobra_0_bound">
+        <sbml:annotation xmlns:sbml="http://www.sbml.org/sbml/level3/version1/core">
+          <rdf:RDF xmlns:rdf="http://www.w3.org/1999/02/22-rdf-syntax-ns#">
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+              <bqbiol:is xmlns:bqbiol="http://biomodels.net/biology-qualifiers/">
+                <rdf:Bag>
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+                  <rdf:li rdf:resource="http://identifiers.org/metanetx.reaction/MNXR97490"/>
+                  <rdf:li rdf:resource="http://identifiers.org/rhea/30103"/>
+                  <rdf:li rdf:resource="http://identifiers.org/rhea/30105"/>
+                  <rdf:li rdf:resource="http://identifiers.org/rhea/30106"/>
+                  <rdf:li rdf:resource="http://identifiers.org/rhea/30104"/>
+                  <rdf:li rdf:resource="http://identifiers.org/seed.reaction/rxn08346"/>
+                </rdf:Bag>
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+            </rdf:Description>
+          </rdf:RDF>
+        </sbml:annotation>
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+          <speciesReference species="M_25dkglcn_c" stoichiometry="1" constant="true"/>
+          <speciesReference species="M_h_c" stoichiometry="1" constant="true"/>
+          <speciesReference species="M_nadh_c" stoichiometry="1" constant="true"/>
+        </listOfReactants>
+        <listOfProducts>
+          <speciesReference species="M_5dglcn_c" stoichiometry="1" constant="true"/>
+          <speciesReference species="M_nad_c" stoichiometry="1" constant="true"/>
+        </listOfProducts>
+        <fbc:geneProductAssociation>
+          <fbc:geneProductRef fbc:geneProduct="G_b3553"/>
+        </fbc:geneProductAssociation>
+      </reaction>
+      <reaction id="R_ACGS" fast="false" reversible="false" name="N-acetylglutamate synthase" metaid="R_ACGS" sboTerm="SBO:0000176" fbc:upperFluxBound="cobra_default_ub" fbc:lowerFluxBound="cobra_0_bound">
+        <sbml:annotation xmlns:sbml="http://www.sbml.org/sbml/level3/version1/core">
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+                <rdf:Bag>
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+                  <rdf:li rdf:resource="http://identifiers.org/biocyc/META:N-ACETYLTRANSFER-RXN"/>
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+                  <rdf:li rdf:resource="http://identifiers.org/kegg.reaction/R00259"/>
+                  <rdf:li rdf:resource="http://identifiers.org/metanetx.reaction/MNXR95259"/>
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+                  <rdf:li rdf:resource="http://identifiers.org/reactome.reaction/R-DDI-70542"/>
+                  <rdf:li rdf:resource="http://identifiers.org/reactome.reaction/R-MMU-70542"/>
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+            <fbc:geneProductRef fbc:geneProduct="G_b0929"/>
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+        </fbc:geneProductAssociation>
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+          <speciesReference species="M_glc__D_c" stoichiometry="1" constant="true"/>
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+          <speciesReference species="M_coa_c" stoichiometry="1" constant="true"/>
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+          <speciesReference species="M_mthgxl_c" stoichiometry="1" constant="true"/>
+          <speciesReference species="M_nadph_c" stoichiometry="1" constant="true"/>
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+        <listOfProducts>
+          <speciesReference species="M_acetol_c" stoichiometry="1" constant="true"/>
+          <speciesReference species="M_nadp_c" stoichiometry="1" constant="true"/>
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+            <fbc:geneProductRef fbc:geneProduct="G_b3012"/>
+            <fbc:geneProductRef fbc:geneProduct="G_b0207"/>
+            <fbc:geneProductRef fbc:geneProduct="G_b1781"/>
+            <fbc:geneProductRef fbc:geneProduct="G_b3001"/>
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+        </fbc:geneProductAssociation>
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+          <speciesReference species="M_maltttr_c" stoichiometry="1" constant="true"/>
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+        <listOfProducts>
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+          <speciesReference species="M_maltpt_c" stoichiometry="1" constant="true"/>
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+          <speciesReference species="M_maltttr_c" stoichiometry="1" constant="true"/>
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+          <speciesReference species="M_hhlipa_c" stoichiometry="1" constant="true"/>
+        </listOfProducts>
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+          <fbc:geneProductRef fbc:geneProduct="G_b3620"/>
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+        <sbml:annotation xmlns:sbml="http://www.sbml.org/sbml/level3/version1/core">
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+          <speciesReference species="M_alaala_c" stoichiometry="1" constant="true"/>
+          <speciesReference species="M_h_c" stoichiometry="1" constant="true"/>
+          <speciesReference species="M_pi_c" stoichiometry="1" constant="true"/>
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+            <fbc:geneProductRef fbc:geneProduct="G_b0092"/>
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+            <fbc:geneProductRef fbc:geneProduct="G_b2215"/>
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+          <speciesReference species="M_h2o_c" stoichiometry="1" constant="true"/>
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+          <speciesReference species="M_cd2_p" stoichiometry="1" constant="true"/>
+          <speciesReference species="M_h_c" stoichiometry="1" constant="true"/>
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+          <fbc:geneProductRef fbc:geneProduct="G_b3469"/>
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+            <fbc:geneProductRef fbc:geneProduct="G_b2215"/>
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+          <speciesReference species="M_phphhlipa_c" stoichiometry="1" constant="true"/>
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+          <speciesReference species="M_h_c" stoichiometry="1" constant="true"/>
+          <speciesReference species="M_kphphhlipa_c" stoichiometry="1" constant="true"/>
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+            <fbc:geneProductRef fbc:geneProduct="G_b0241"/>
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+            <fbc:geneProductRef fbc:geneProduct="G_b2215"/>
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+            <fbc:geneProductRef fbc:geneProduct="G_b0573"/>
+            <fbc:geneProductRef fbc:geneProduct="G_b0575"/>
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+        </fbc:geneProductAssociation>
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+        </listOfReactants>
+        <listOfProducts>
+          <speciesReference species="M_h_c" stoichiometry="1" constant="true"/>
+          <speciesReference species="M_zn2_p" stoichiometry="1" constant="true"/>
+        </listOfProducts>
+        <fbc:geneProductAssociation>
+          <fbc:or>
+            <fbc:geneProductRef fbc:geneProduct="G_b3915"/>
+            <fbc:geneProductRef fbc:geneProduct="G_b0752"/>
+          </fbc:or>
+        </fbc:geneProductAssociation>
+      </reaction>
+      <reaction id="R_SKMtex" fast="false" reversible="true" name="Shikimate transport via diffusion (extracellular to periplasm)" metaid="R_SKMtex" sboTerm="SBO:0000185" fbc:upperFluxBound="cobra_default_ub" fbc:lowerFluxBound="cobra_default_lb">
+        <sbml:annotation xmlns:sbml="http://www.sbml.org/sbml/level3/version1/core">
+          <rdf:RDF xmlns:rdf="http://www.w3.org/1999/02/22-rdf-syntax-ns#">
+            <rdf:Description rdf:about="#R_SKMtex">
+              <bqbiol:is xmlns:bqbiol="http://biomodels.net/biology-qualifiers/">
+                <rdf:Bag>
+                  <rdf:li rdf:resource="http://identifiers.org/bigg.reaction/SKMtex"/>
+                  <rdf:li rdf:resource="http://identifiers.org/metanetx.reaction/MNXR104394"/>
+                  <rdf:li rdf:resource="http://identifiers.org/seed.reaction/rxn09257"/>
+                </rdf:Bag>
+              </bqbiol:is>
+            </rdf:Description>
+          </rdf:RDF>
+        </sbml:annotation>
+        <listOfReactants>
+          <speciesReference species="M_skm_e" stoichiometry="1" constant="true"/>
+        </listOfReactants>
+        <listOfProducts>
+          <speciesReference species="M_skm_p" stoichiometry="1" constant="true"/>
+        </listOfProducts>
+        <fbc:geneProductAssociation>
+          <fbc:or>
+            <fbc:geneProductRef fbc:geneProduct="G_b0241"/>
+            <fbc:geneProductRef fbc:geneProduct="G_b0929"/>
+            <fbc:geneProductRef fbc:geneProduct="G_b1377"/>
+            <fbc:geneProductRef fbc:geneProduct="G_b2215"/>
+          </fbc:or>
+        </fbc:geneProductAssociation>
+      </reaction>
+      <reaction id="R_MNt2pp" fast="false" reversible="false" name="Manganese (Mn+2) transport in via proton symport (periplasm)" metaid="R_MNt2pp" sboTerm="SBO:0000185" fbc:upperFluxBound="cobra_default_ub" fbc:lowerFluxBound="cobra_0_bound">
+        <sbml:annotation xmlns:sbml="http://www.sbml.org/sbml/level3/version1/core">
+          <rdf:RDF xmlns:rdf="http://www.w3.org/1999/02/22-rdf-syntax-ns#">
+            <rdf:Description rdf:about="#R_MNt2pp">
+              <bqbiol:is xmlns:bqbiol="http://biomodels.net/biology-qualifiers/">
+                <rdf:Bag>
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+                  <rdf:li rdf:resource="http://identifiers.org/biocyc/META:TRANS-RXN-241"/>
+                  <rdf:li rdf:resource="http://identifiers.org/metanetx.reaction/MNXR101681"/>
+                  <rdf:li rdf:resource="http://identifiers.org/rhea/29007"/>
+                  <rdf:li rdf:resource="http://identifiers.org/rhea/29010"/>
+                  <rdf:li rdf:resource="http://identifiers.org/rhea/29008"/>
+                  <rdf:li rdf:resource="http://identifiers.org/rhea/29009"/>
+                  <rdf:li rdf:resource="http://identifiers.org/seed.reaction/rxn05618"/>
+                  <rdf:li rdf:resource="http://identifiers.org/seed.reaction/rxn08951"/>
+                </rdf:Bag>
+              </bqbiol:is>
+            </rdf:Description>
+          </rdf:RDF>
+        </sbml:annotation>
+        <listOfReactants>
+          <speciesReference species="M_h_p" stoichiometry="1" constant="true"/>
+          <speciesReference species="M_mn2_p" stoichiometry="1" constant="true"/>
+        </listOfReactants>
+        <listOfProducts>
+          <speciesReference species="M_h_c" stoichiometry="1" constant="true"/>
+          <speciesReference species="M_mn2_c" stoichiometry="1" constant="true"/>
+        </listOfProducts>
+        <fbc:geneProductAssociation>
+          <fbc:geneProductRef fbc:geneProduct="G_b2392"/>
+        </fbc:geneProductAssociation>
+      </reaction>
+      <reaction id="R_RHAT1" fast="false" reversible="false" name="Rhamnosyltransferase I (LPS core biosynthesis)" metaid="R_RHAT1" sboTerm="SBO:0000176" fbc:upperFluxBound="cobra_default_ub" fbc:lowerFluxBound="cobra_0_bound">
+        <sbml:annotation xmlns:sbml="http://www.sbml.org/sbml/level3/version1/core">
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+            <rdf:Description rdf:about="#R_RHAT1">
+              <bqbiol:is xmlns:bqbiol="http://biomodels.net/biology-qualifiers/">
+                <rdf:Bag>
+                  <rdf:li rdf:resource="http://identifiers.org/bigg.reaction/RHAT1"/>
+                  <rdf:li rdf:resource="http://identifiers.org/metanetx.reaction/MNXR104025"/>
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+              </bqbiol:is>
+            </rdf:Description>
+          </rdf:RDF>
+        </sbml:annotation>
+        <listOfReactants>
+          <speciesReference species="M_dtdprmn_c" stoichiometry="1" constant="true"/>
+          <speciesReference species="M_kphphhlipa_c" stoichiometry="1" constant="true"/>
+        </listOfReactants>
+        <listOfProducts>
+          <speciesReference species="M_dtdp_c" stoichiometry="1" constant="true"/>
+          <speciesReference species="M_h_c" stoichiometry="1" constant="true"/>
+          <speciesReference species="M_icolipa_c" stoichiometry="1" constant="true"/>
+        </listOfProducts>
+        <fbc:geneProductAssociation>
+          <fbc:geneProductRef fbc:geneProduct="G_b3629"/>
+        </fbc:geneProductAssociation>
+      </reaction>
+      <reaction id="R_GLCabcpp" fast="false" reversible="false" name="D-glucose transport via ABC system (periplasm)" metaid="R_GLCabcpp" sboTerm="SBO:0000185" fbc:upperFluxBound="cobra_default_ub" fbc:lowerFluxBound="cobra_0_bound">
+        <sbml:annotation xmlns:sbml="http://www.sbml.org/sbml/level3/version1/core">
+          <rdf:RDF xmlns:rdf="http://www.w3.org/1999/02/22-rdf-syntax-ns#">
+            <rdf:Description rdf:about="#R_GLCabcpp">
+              <bqbiol:is xmlns:bqbiol="http://biomodels.net/biology-qualifiers/">
+                <rdf:Bag>
+                  <rdf:li rdf:resource="http://identifiers.org/bigg.reaction/GLCabcpp"/>
+                  <rdf:li rdf:resource="http://identifiers.org/biocyc/META:TRANS-RXN-320"/>
+                  <rdf:li rdf:resource="http://identifiers.org/ec-code/3.6.3.17"/>
+                  <rdf:li rdf:resource="http://identifiers.org/metanetx.reaction/MNXR100236"/>
+                  <rdf:li rdf:resource="http://identifiers.org/seed.reaction/rxn08606"/>
+                  <rdf:li rdf:resource="http://identifiers.org/seed.reaction/rxn05147"/>
+                </rdf:Bag>
+              </bqbiol:is>
+            </rdf:Description>
+          </rdf:RDF>
+        </sbml:annotation>
+        <listOfReactants>
+          <speciesReference species="M_atp_c" stoichiometry="1" constant="true"/>
+          <speciesReference species="M_glc__D_p" stoichiometry="1" constant="true"/>
+          <speciesReference species="M_h2o_c" stoichiometry="1" constant="true"/>
+        </listOfReactants>
+        <listOfProducts>
+          <speciesReference species="M_adp_c" stoichiometry="1" constant="true"/>
+          <speciesReference species="M_glc__D_c" stoichiometry="1" constant="true"/>
+          <speciesReference species="M_h_c" stoichiometry="1" constant="true"/>
+          <speciesReference species="M_pi_c" stoichiometry="1" constant="true"/>
+        </listOfProducts>
+        <fbc:geneProductAssociation>
+          <fbc:and>
+            <fbc:geneProductRef fbc:geneProduct="G_b2149"/>
+            <fbc:geneProductRef fbc:geneProduct="G_b2148"/>
+            <fbc:geneProductRef fbc:geneProduct="G_b2150"/>
+          </fbc:and>
+        </fbc:geneProductAssociation>
+      </reaction>
+      <reaction id="R_GALT1" fast="false" reversible="false" name="Galactosyltransferase I (LPS core synthesis)" metaid="R_GALT1" sboTerm="SBO:0000176" fbc:upperFluxBound="cobra_default_ub" fbc:lowerFluxBound="cobra_0_bound">
+        <sbml:annotation xmlns:sbml="http://www.sbml.org/sbml/level3/version1/core">
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+            <rdf:Description rdf:about="#R_GALT1">
+              <bqbiol:is xmlns:bqbiol="http://biomodels.net/biology-qualifiers/">
+                <rdf:Bag>
+                  <rdf:li rdf:resource="http://identifiers.org/bigg.reaction/GALT1"/>
+                  <rdf:li rdf:resource="http://identifiers.org/metanetx.reaction/MNXR143120"/>
+                  <rdf:li rdf:resource="http://identifiers.org/seed.reaction/rxn08583"/>
+                </rdf:Bag>
+              </bqbiol:is>
+            </rdf:Description>
+          </rdf:RDF>
+        </sbml:annotation>
+        <listOfReactants>
+          <speciesReference species="M_gicolipa_c" stoichiometry="1" constant="true"/>
+          <speciesReference species="M_udpg_c" stoichiometry="1" constant="true"/>
+        </listOfReactants>
+        <listOfProducts>
+          <speciesReference species="M_gagicolipa_c" stoichiometry="1" constant="true"/>
+          <speciesReference species="M_h_c" stoichiometry="1" constant="true"/>
+          <speciesReference species="M_udp_c" stoichiometry="1" constant="true"/>
+        </listOfProducts>
+        <fbc:geneProductAssociation>
+          <fbc:geneProductRef fbc:geneProduct="G_b3628"/>
+        </fbc:geneProductAssociation>
+      </reaction>
+      <reaction id="R_MNtex" fast="false" reversible="true" name="Manganese (Mn+2) transport via diffusion (extracellular to periplasm)" metaid="R_MNtex" sboTerm="SBO:0000185" fbc:upperFluxBound="cobra_default_ub" fbc:lowerFluxBound="cobra_default_lb">
+        <sbml:annotation xmlns:sbml="http://www.sbml.org/sbml/level3/version1/core">
+          <rdf:RDF xmlns:rdf="http://www.w3.org/1999/02/22-rdf-syntax-ns#">
+            <rdf:Description rdf:about="#R_MNtex">
+              <bqbiol:is xmlns:bqbiol="http://biomodels.net/biology-qualifiers/">
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+                  <rdf:li rdf:resource="http://identifiers.org/bigg.reaction/MNtex"/>
+                  <rdf:li rdf:resource="http://identifiers.org/biocyc/META:RXN0-16"/>
+                  <rdf:li rdf:resource="http://identifiers.org/biocyc/META:TRANS-RXN0-487"/>
+                  <rdf:li rdf:resource="http://identifiers.org/metanetx.reaction/MNXR101670"/>
+                  <rdf:li rdf:resource="http://identifiers.org/rhea/28702"/>
+                  <rdf:li rdf:resource="http://identifiers.org/rhea/28699"/>
+                  <rdf:li rdf:resource="http://identifiers.org/rhea/28700"/>
+                  <rdf:li rdf:resource="http://identifiers.org/rhea/28701"/>
+                  <rdf:li rdf:resource="http://identifiers.org/seed.reaction/rxn08952"/>
+                  <rdf:li rdf:resource="http://identifiers.org/seed.reaction/rxn08947"/>
+                </rdf:Bag>
+              </bqbiol:is>
+            </rdf:Description>
+          </rdf:RDF>
+        </sbml:annotation>
+        <listOfReactants>
+          <speciesReference species="M_mn2_e" stoichiometry="1" constant="true"/>
+        </listOfReactants>
+        <listOfProducts>
+          <speciesReference species="M_mn2_p" stoichiometry="1" constant="true"/>
+        </listOfProducts>
+        <fbc:geneProductAssociation>
+          <fbc:or>
+            <fbc:geneProductRef fbc:geneProduct="G_b0241"/>
+            <fbc:geneProductRef fbc:geneProduct="G_b0929"/>
+            <fbc:geneProductRef fbc:geneProduct="G_b1377"/>
+            <fbc:geneProductRef fbc:geneProduct="G_b2215"/>
+          </fbc:or>
+        </fbc:geneProductAssociation>
+      </reaction>
+      <reaction id="R_GAL1Ptex" fast="false" reversible="true" name="D-galactose 1-phosphate transport via diffusion (extracellular to periplasm)" metaid="R_GAL1Ptex" sboTerm="SBO:0000185" fbc:upperFluxBound="cobra_default_ub" fbc:lowerFluxBound="cobra_default_lb">
+        <sbml:annotation xmlns:sbml="http://www.sbml.org/sbml/level3/version1/core">
+          <rdf:RDF xmlns:rdf="http://www.w3.org/1999/02/22-rdf-syntax-ns#">
+            <rdf:Description rdf:about="#R_GAL1Ptex">
+              <bqbiol:is xmlns:bqbiol="http://biomodels.net/biology-qualifiers/">
+                <rdf:Bag>
+                  <rdf:li rdf:resource="http://identifiers.org/bigg.reaction/GAL1Ptex"/>
+                  <rdf:li rdf:resource="http://identifiers.org/metanetx.reaction/MNXR99923"/>
+                  <rdf:li rdf:resource="http://identifiers.org/seed.reaction/rxn08572"/>
+                </rdf:Bag>
+              </bqbiol:is>
+            </rdf:Description>
+          </rdf:RDF>
+        </sbml:annotation>
+        <listOfReactants>
+          <speciesReference species="M_gal1p_e" stoichiometry="1" constant="true"/>
+        </listOfReactants>
+        <listOfProducts>
+          <speciesReference species="M_gal1p_p" stoichiometry="1" constant="true"/>
+        </listOfProducts>
+        <fbc:geneProductAssociation>
+          <fbc:or>
+            <fbc:geneProductRef fbc:geneProduct="G_b0241"/>
+            <fbc:geneProductRef fbc:geneProduct="G_b0929"/>
+            <fbc:geneProductRef fbc:geneProduct="G_b1377"/>
+            <fbc:geneProductRef fbc:geneProduct="G_b2215"/>
+          </fbc:or>
+        </fbc:geneProductAssociation>
+      </reaction>
+      <reaction id="R_GLCTR2" fast="false" reversible="false" name="Glucosyltransferase II (LPS core synthesis)" metaid="R_GLCTR2" sboTerm="SBO:0000176" fbc:upperFluxBound="cobra_default_ub" fbc:lowerFluxBound="cobra_0_bound">
+        <sbml:annotation xmlns:sbml="http://www.sbml.org/sbml/level3/version1/core">
+          <rdf:RDF xmlns:rdf="http://www.w3.org/1999/02/22-rdf-syntax-ns#">
+            <rdf:Description rdf:about="#R_GLCTR2">
+              <bqbiol:is xmlns:bqbiol="http://biomodels.net/biology-qualifiers/">
+                <rdf:Bag>
+                  <rdf:li rdf:resource="http://identifiers.org/bigg.reaction/GLCTR2"/>
+                  <rdf:li rdf:resource="http://identifiers.org/metanetx.reaction/MNXR143138"/>
+                  <rdf:li rdf:resource="http://identifiers.org/seed.reaction/rxn08619"/>
+                </rdf:Bag>
+              </bqbiol:is>
+            </rdf:Description>
+          </rdf:RDF>
+        </sbml:annotation>
+        <listOfReactants>
+          <speciesReference species="M_gagicolipa_c" stoichiometry="1" constant="true"/>
+          <speciesReference species="M_udpg_c" stoichiometry="1" constant="true"/>
+        </listOfReactants>
+        <listOfProducts>
+          <speciesReference species="M_ggagicolipa_c" stoichiometry="1" constant="true"/>
+          <speciesReference species="M_h_c" stoichiometry="1" constant="true"/>
+          <speciesReference species="M_udp_c" stoichiometry="1" constant="true"/>
+        </listOfProducts>
+        <fbc:geneProductAssociation>
+          <fbc:geneProductRef fbc:geneProduct="G_b3627"/>
+        </fbc:geneProductAssociation>
+      </reaction>
+      <reaction id="R_G2PPpp" fast="false" reversible="false" name="Glycerol 2-phosphate phosphatase (periplasmic)" metaid="R_G2PPpp" sboTerm="SBO:0000176" fbc:upperFluxBound="cobra_default_ub" fbc:lowerFluxBound="cobra_0_bound">
+        <sbml:annotation xmlns:sbml="http://www.sbml.org/sbml/level3/version1/core">
+          <rdf:RDF xmlns:rdf="http://www.w3.org/1999/02/22-rdf-syntax-ns#">
+            <rdf:Description rdf:about="#R_G2PPpp">
+              <bqbiol:is xmlns:bqbiol="http://biomodels.net/biology-qualifiers/">
+                <rdf:Bag>
+                  <rdf:li rdf:resource="http://identifiers.org/bigg.reaction/G2PPpp"/>
+                  <rdf:li rdf:resource="http://identifiers.org/biocyc/META:GLYCEROL-2-PHOSPHATASE-RXN"/>
+                  <rdf:li rdf:resource="http://identifiers.org/ec-code/3.1.3.19"/>
+                  <rdf:li rdf:resource="http://identifiers.org/kegg.reaction/R01043"/>
+                  <rdf:li rdf:resource="http://identifiers.org/metanetx.reaction/MNXR99852"/>
+                  <rdf:li rdf:resource="http://identifiers.org/rhea/13106"/>
+                  <rdf:li rdf:resource="http://identifiers.org/rhea/13108"/>
+                  <rdf:li rdf:resource="http://identifiers.org/rhea/13107"/>
+                  <rdf:li rdf:resource="http://identifiers.org/rhea/13105"/>
+                  <rdf:li rdf:resource="http://identifiers.org/sabiork/1325"/>
+                  <rdf:li rdf:resource="http://identifiers.org/seed.reaction/rxn00766"/>
+                </rdf:Bag>
+              </bqbiol:is>
+            </rdf:Description>
+          </rdf:RDF>
+        </sbml:annotation>
+        <listOfReactants>
+          <speciesReference species="M_glyc2p_p" stoichiometry="1" constant="true"/>
+          <speciesReference species="M_h2o_p" stoichiometry="1" constant="true"/>
+        </listOfReactants>
+        <listOfProducts>
+          <speciesReference species="M_glyc_p" stoichiometry="1" constant="true"/>
+          <speciesReference species="M_pi_p" stoichiometry="1" constant="true"/>
+        </listOfProducts>
+        <fbc:geneProductAssociation>
+          <fbc:or>
+            <fbc:geneProductRef fbc:geneProduct="G_b4055"/>
+            <fbc:geneProductRef fbc:geneProduct="G_b0383"/>
+          </fbc:or>
+        </fbc:geneProductAssociation>
+      </reaction>
+      <reaction id="R_UDPGPpp" fast="false" reversible="false" name="UDPglucose pyrophosphohydrolase" metaid="R_UDPGPpp" sboTerm="SBO:0000176" fbc:upperFluxBound="cobra_default_ub" fbc:lowerFluxBound="cobra_0_bound">
+        <sbml:annotation xmlns:sbml="http://www.sbml.org/sbml/level3/version1/core">
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+            <rdf:Description rdf:about="#R_UDPGPpp">
+              <bqbiol:is xmlns:bqbiol="http://biomodels.net/biology-qualifiers/">
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+                  <rdf:li rdf:resource="http://identifiers.org/ec-code/3.6.1.8"/>
+                  <rdf:li rdf:resource="http://identifiers.org/ec-code/3.6.1.45"/>
+                  <rdf:li rdf:resource="http://identifiers.org/ec-code/3.6.1.9"/>
+                  <rdf:li rdf:resource="http://identifiers.org/kegg.reaction/R00287"/>
+                  <rdf:li rdf:resource="http://identifiers.org/metanetx.reaction/MNXR143430"/>
+                  <rdf:li rdf:resource="http://identifiers.org/reactome.reaction/R-CFA-6810464"/>
+                  <rdf:li rdf:resource="http://identifiers.org/reactome.reaction/R-CEL-6810464"/>
+                  <rdf:li rdf:resource="http://identifiers.org/reactome.reaction/R-GGA-6810464"/>
+                  <rdf:li rdf:resource="http://identifiers.org/reactome.reaction/R-DRE-6810464"/>
+                  <rdf:li rdf:resource="http://identifiers.org/reactome.reaction/R-MMU-6810464"/>
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+                  <rdf:li rdf:resource="http://identifiers.org/reactome.reaction/R-SSC-6810464"/>
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+                  <rdf:li rdf:resource="http://identifiers.org/reactome.reaction/R-DME-6810464"/>
+                  <rdf:li rdf:resource="http://identifiers.org/reactome.reaction/R-TGU-6810464"/>
+                  <rdf:li rdf:resource="http://identifiers.org/rhea/29558"/>
+                  <rdf:li rdf:resource="http://identifiers.org/rhea/29557"/>
+                  <rdf:li rdf:resource="http://identifiers.org/rhea/29555"/>
+                  <rdf:li rdf:resource="http://identifiers.org/rhea/29556"/>
+                  <rdf:li rdf:resource="http://identifiers.org/sabiork/446"/>
+                  <rdf:li rdf:resource="http://identifiers.org/seed.reaction/rxn00212"/>
+                </rdf:Bag>
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+        <listOfReactants>
+          <speciesReference species="M_h2o_p" stoichiometry="1" constant="true"/>
+          <speciesReference species="M_udpg_p" stoichiometry="1" constant="true"/>
+        </listOfReactants>
+        <listOfProducts>
+          <speciesReference species="M_g1p_p" stoichiometry="1" constant="true"/>
+          <speciesReference species="M_h_p" stoichiometry="2" constant="true"/>
+          <speciesReference species="M_ump_p" stoichiometry="1" constant="true"/>
+        </listOfProducts>
+        <fbc:geneProductAssociation>
+          <fbc:geneProductRef fbc:geneProduct="G_b0480"/>
+        </fbc:geneProductAssociation>
+      </reaction>
+      <reaction id="R_EX_acgal1p_e" fast="false" reversible="false" name="N-Acetyl-D-galactosamine 1-phosphate exchange" metaid="R_EX_acgal1p_e" sboTerm="SBO:0000627" fbc:upperFluxBound="cobra_default_ub" fbc:lowerFluxBound="cobra_0_bound">
+        <sbml:annotation xmlns:sbml="http://www.sbml.org/sbml/level3/version1/core">
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+            <rdf:Description rdf:about="#R_EX_acgal1p_e">
+              <bqbiol:is xmlns:bqbiol="http://biomodels.net/biology-qualifiers/">
+                <rdf:Bag>
+                  <rdf:li rdf:resource="http://identifiers.org/bigg.reaction/EX_acgal1p_e"/>
+                  <rdf:li rdf:resource="http://identifiers.org/metanetx.reaction/MNXR95234"/>
+                  <rdf:li rdf:resource="http://identifiers.org/seed.reaction/rxn08036"/>
+                </rdf:Bag>
+              </bqbiol:is>
+            </rdf:Description>
+          </rdf:RDF>
+        </sbml:annotation>
+        <listOfReactants>
+          <speciesReference species="M_acgal1p_e" stoichiometry="1" constant="true"/>
+        </listOfReactants>
+      </reaction>
+      <reaction id="R_EX_cyan_e" fast="false" reversible="false" name="Hydrogen cyanide exchange" metaid="R_EX_cyan_e" sboTerm="SBO:0000627" fbc:upperFluxBound="cobra_default_ub" fbc:lowerFluxBound="cobra_0_bound">
+        <sbml:annotation xmlns:sbml="http://www.sbml.org/sbml/level3/version1/core">
+          <rdf:RDF xmlns:rdf="http://www.w3.org/1999/02/22-rdf-syntax-ns#">
+            <rdf:Description rdf:about="#R_EX_cyan_e">
+              <bqbiol:is xmlns:bqbiol="http://biomodels.net/biology-qualifiers/">
+                <rdf:Bag>
+                  <rdf:li rdf:resource="http://identifiers.org/bigg.reaction/EX_cyan_e"/>
+                  <rdf:li rdf:resource="http://identifiers.org/metanetx.reaction/MNXR96957"/>
+                  <rdf:li rdf:resource="http://identifiers.org/seed.reaction/rxn08276"/>
+                </rdf:Bag>
+              </bqbiol:is>
+            </rdf:Description>
+          </rdf:RDF>
+        </sbml:annotation>
+        <listOfReactants>
+          <speciesReference species="M_cyan_e" stoichiometry="1" constant="true"/>
+        </listOfReactants>
+      </reaction>
+      <reaction id="R_EX_tyrp_e" fast="false" reversible="false" name="Phosphotyrosine exchange" metaid="R_EX_tyrp_e" sboTerm="SBO:0000627" fbc:upperFluxBound="cobra_default_ub" fbc:lowerFluxBound="cobra_0_bound">
+        <sbml:annotation xmlns:sbml="http://www.sbml.org/sbml/level3/version1/core">
+          <rdf:RDF xmlns:rdf="http://www.w3.org/1999/02/22-rdf-syntax-ns#">
+            <rdf:Description rdf:about="#R_EX_tyrp_e">
+              <bqbiol:is xmlns:bqbiol="http://biomodels.net/biology-qualifiers/">
+                <rdf:Bag>
+                  <rdf:li rdf:resource="http://identifiers.org/bigg.reaction/EX_tyrp_e"/>
+                  <rdf:li rdf:resource="http://identifiers.org/metanetx.reaction/MNXR104999"/>
+                  <rdf:li rdf:resource="http://identifiers.org/seed.reaction/rxn09337"/>
+                </rdf:Bag>
+              </bqbiol:is>
+            </rdf:Description>
+          </rdf:RDF>
+        </sbml:annotation>
+        <listOfReactants>
+          <speciesReference species="M_tyrp_e" stoichiometry="1" constant="true"/>
+        </listOfReactants>
+      </reaction>
+      <reaction id="R_O2Stex" fast="false" reversible="true" name="Superoxide anion transport via diffusion (extracellular to periplasm)" metaid="R_O2Stex" sboTerm="SBO:0000185" fbc:upperFluxBound="cobra_default_ub" fbc:lowerFluxBound="cobra_default_lb">
+        <sbml:annotation xmlns:sbml="http://www.sbml.org/sbml/level3/version1/core">
+          <rdf:RDF xmlns:rdf="http://www.w3.org/1999/02/22-rdf-syntax-ns#">
+            <rdf:Description rdf:about="#R_O2Stex">
+              <bqbiol:is xmlns:bqbiol="http://biomodels.net/biology-qualifiers/">
+                <rdf:Bag>
+                  <rdf:li rdf:resource="http://identifiers.org/bigg.reaction/O2Stex"/>
+                  <rdf:li rdf:resource="http://identifiers.org/metanetx.reaction/MNXR102089"/>
+                  <rdf:li rdf:resource="http://identifiers.org/reactome.reaction/R-HSA-1222342"/>
+                </rdf:Bag>
+              </bqbiol:is>
+            </rdf:Description>
+          </rdf:RDF>
+        </sbml:annotation>
+        <listOfReactants>
+          <speciesReference species="M_o2s_e" stoichiometry="1" constant="true"/>
+        </listOfReactants>
+        <listOfProducts>
+          <speciesReference species="M_o2s_p" stoichiometry="1" constant="true"/>
+        </listOfProducts>
+        <fbc:geneProductAssociation>
+          <fbc:or>
+            <fbc:geneProductRef fbc:geneProduct="G_b1377"/>
+            <fbc:geneProductRef fbc:geneProduct="G_b2215"/>
+            <fbc:geneProductRef fbc:geneProduct="G_b0241"/>
+            <fbc:geneProductRef fbc:geneProduct="G_b0929"/>
+          </fbc:or>
+        </fbc:geneProductAssociation>
+      </reaction>
+      <reaction id="R_HEPK1" fast="false" reversible="false" name="LPS heptose kinase I (LPS core synthesis)" metaid="R_HEPK1" sboTerm="SBO:0000176" fbc:upperFluxBound="cobra_default_ub" fbc:lowerFluxBound="cobra_0_bound">
+        <sbml:annotation xmlns:sbml="http://www.sbml.org/sbml/level3/version1/core">
+          <rdf:RDF xmlns:rdf="http://www.w3.org/1999/02/22-rdf-syntax-ns#">
+            <rdf:Description rdf:about="#R_HEPK1">
+              <bqbiol:is xmlns:bqbiol="http://biomodels.net/biology-qualifiers/">
+                <rdf:Bag>
+                  <rdf:li rdf:resource="http://identifiers.org/bigg.reaction/HEPK1"/>
+                  <rdf:li rdf:resource="http://identifiers.org/metanetx.reaction/MNXR138511"/>
+                  <rdf:li rdf:resource="http://identifiers.org/seed.reaction/rxn08708"/>
+                </rdf:Bag>
+              </bqbiol:is>
+            </rdf:Description>
+          </rdf:RDF>
+        </sbml:annotation>
+        <listOfReactants>
+          <speciesReference species="M_atp_c" stoichiometry="1" constant="true"/>
+          <speciesReference species="M_hhlipa_c" stoichiometry="1" constant="true"/>
+        </listOfReactants>
+        <listOfProducts>
+          <speciesReference species="M_adp_c" stoichiometry="1" constant="true"/>
+          <speciesReference species="M_h_c" stoichiometry="1" constant="true"/>
+          <speciesReference species="M_phhlipa_c" stoichiometry="1" constant="true"/>
+        </listOfProducts>
+        <fbc:geneProductAssociation>
+          <fbc:geneProductRef fbc:geneProduct="G_b3630"/>
+        </fbc:geneProductAssociation>
+      </reaction>
+      <reaction id="R_HEPT3" fast="false" reversible="false" name="Heptosyltransferase III (LPS core synthesis)" metaid="R_HEPT3" sboTerm="SBO:0000176" fbc:upperFluxBound="cobra_default_ub" fbc:lowerFluxBound="cobra_0_bound">
+        <sbml:annotation xmlns:sbml="http://www.sbml.org/sbml/level3/version1/core">
+          <rdf:RDF xmlns:rdf="http://www.w3.org/1999/02/22-rdf-syntax-ns#">
+            <rdf:Description rdf:about="#R_HEPT3">
+              <bqbiol:is xmlns:bqbiol="http://biomodels.net/biology-qualifiers/">
+                <rdf:Bag>
+                  <rdf:li rdf:resource="http://identifiers.org/bigg.reaction/HEPT3"/>
+                  <rdf:li rdf:resource="http://identifiers.org/metanetx.reaction/MNXR100606"/>
+                  <rdf:li rdf:resource="http://identifiers.org/seed.reaction/rxn08712"/>
+                </rdf:Bag>
+              </bqbiol:is>
+            </rdf:Description>
+          </rdf:RDF>
+        </sbml:annotation>
+        <listOfReactants>
+          <speciesReference species="M_adphep_LD_c" stoichiometry="1" constant="true"/>
+          <speciesReference species="M_phhlipa_c" stoichiometry="1" constant="true"/>
+        </listOfReactants>
+        <listOfProducts>
+          <speciesReference species="M_adp_c" stoichiometry="1" constant="true"/>
+          <speciesReference species="M_h_c" stoichiometry="1" constant="true"/>
+          <speciesReference species="M_hphhlipa_c" stoichiometry="1" constant="true"/>
+        </listOfProducts>
+        <fbc:geneProductAssociation>
+          <fbc:geneProductRef fbc:geneProduct="G_b3632"/>
+        </fbc:geneProductAssociation>
+      </reaction>
+      <reaction id="R_HEPK2" fast="false" reversible="false" name="LPS heptose kinase II (LPS core synthesis)" metaid="R_HEPK2" sboTerm="SBO:0000176" fbc:upperFluxBound="cobra_default_ub" fbc:lowerFluxBound="cobra_0_bound">
+        <sbml:annotation xmlns:sbml="http://www.sbml.org/sbml/level3/version1/core">
+          <rdf:RDF xmlns:rdf="http://www.w3.org/1999/02/22-rdf-syntax-ns#">
+            <rdf:Description rdf:about="#R_HEPK2">
+              <bqbiol:is xmlns:bqbiol="http://biomodels.net/biology-qualifiers/">
+                <rdf:Bag>
+                  <rdf:li rdf:resource="http://identifiers.org/bigg.reaction/HEPK2"/>
+                  <rdf:li rdf:resource="http://identifiers.org/metanetx.reaction/MNXR138512"/>
+                  <rdf:li rdf:resource="http://identifiers.org/seed.reaction/rxn08709"/>
+                </rdf:Bag>
+              </bqbiol:is>
+            </rdf:Description>
+          </rdf:RDF>
+        </sbml:annotation>
+        <listOfReactants>
+          <speciesReference species="M_atp_c" stoichiometry="1" constant="true"/>
+          <speciesReference species="M_hphhlipa_c" stoichiometry="1" constant="true"/>
+        </listOfReactants>
+        <listOfProducts>
+          <speciesReference species="M_adp_c" stoichiometry="1" constant="true"/>
+          <speciesReference species="M_h_c" stoichiometry="1" constant="true"/>
+          <speciesReference species="M_phphhlipa_c" stoichiometry="1" constant="true"/>
+        </listOfProducts>
+        <fbc:geneProductAssociation>
+          <fbc:geneProductRef fbc:geneProduct="G_b3625"/>
+        </fbc:geneProductAssociation>
+      </reaction>
+      <reaction id="R_ALDD3y" fast="false" reversible="false" name="Aldehyde dehydrogenase (propanal, NADP)" metaid="R_ALDD3y" sboTerm="SBO:0000176" fbc:upperFluxBound="cobra_default_ub" fbc:lowerFluxBound="cobra_0_bound">
+        <sbml:annotation xmlns:sbml="http://www.sbml.org/sbml/level3/version1/core">
+          <rdf:RDF xmlns:rdf="http://www.w3.org/1999/02/22-rdf-syntax-ns#">
+            <rdf:Description rdf:about="#R_ALDD3y">
+              <bqbiol:is xmlns:bqbiol="http://biomodels.net/biology-qualifiers/">
+                <rdf:Bag>
+                  <rdf:li rdf:resource="http://identifiers.org/bigg.reaction/ALDD3y"/>
+                  <rdf:li rdf:resource="http://identifiers.org/metanetx.reaction/MNXR95754"/>
+                </rdf:Bag>
+              </bqbiol:is>
+            </rdf:Description>
+          </rdf:RDF>
+        </sbml:annotation>
+        <listOfReactants>
+          <speciesReference species="M_h2o_c" stoichiometry="1" constant="true"/>
+          <speciesReference species="M_nadp_c" stoichiometry="1" constant="true"/>
+          <speciesReference species="M_ppal_c" stoichiometry="1" constant="true"/>
+        </listOfReactants>
+        <listOfProducts>
+          <speciesReference species="M_h_c" stoichiometry="2" constant="true"/>
+          <speciesReference species="M_nadph_c" stoichiometry="1" constant="true"/>
+          <speciesReference species="M_ppa_c" stoichiometry="1" constant="true"/>
+        </listOfProducts>
+        <fbc:geneProductAssociation>
+          <fbc:or>
+            <fbc:geneProductRef fbc:geneProduct="G_b3588"/>
+            <fbc:geneProductRef fbc:geneProduct="G_b4269"/>
+            <fbc:geneProductRef fbc:geneProduct="G_b3011"/>
+          </fbc:or>
+        </fbc:geneProductAssociation>
+      </reaction>
+      <reaction id="R_EX_uacgam_e" fast="false" reversible="false" name="UDP-N-acetyl-D-glucosamine exchange" metaid="R_EX_uacgam_e" sboTerm="SBO:0000627" fbc:upperFluxBound="cobra_default_ub" fbc:lowerFluxBound="cobra_0_bound">
+        <sbml:annotation xmlns:sbml="http://www.sbml.org/sbml/level3/version1/core">
+          <rdf:RDF xmlns:rdf="http://www.w3.org/1999/02/22-rdf-syntax-ns#">
+            <rdf:Description rdf:about="#R_EX_uacgam_e">
+              <bqbiol:is xmlns:bqbiol="http://biomodels.net/biology-qualifiers/">
+                <rdf:Bag>
+                  <rdf:li rdf:resource="http://identifiers.org/bigg.reaction/EX_uacgam_e"/>
+                  <rdf:li rdf:resource="http://identifiers.org/metanetx.reaction/MNXR105021"/>
+                  <rdf:li rdf:resource="http://identifiers.org/reactome.reaction/R-BTA-742354"/>
+                  <rdf:li rdf:resource="http://identifiers.org/reactome.reaction/R-SCE-742354"/>
+                  <rdf:li rdf:resource="http://identifiers.org/reactome.reaction/R-CEL-742354"/>
+                  <rdf:li rdf:resource="http://identifiers.org/reactome.reaction/R-SSC-742354"/>
+                  <rdf:li rdf:resource="http://identifiers.org/reactome.reaction/R-HSA-742354"/>
+                  <rdf:li rdf:resource="http://identifiers.org/reactome.reaction/R-CFA-742354"/>
+                  <rdf:li rdf:resource="http://identifiers.org/reactome.reaction/R-DDI-742354"/>
+                  <rdf:li rdf:resource="http://identifiers.org/reactome.reaction/R-MMU-742354"/>
+                  <rdf:li rdf:resource="http://identifiers.org/reactome.reaction/R-RNO-742354"/>
+                  <rdf:li rdf:resource="http://identifiers.org/reactome.reaction/R-SPO-742354"/>
+                  <rdf:li rdf:resource="http://identifiers.org/reactome.reaction/R-DME-742354"/>
+                  <rdf:li rdf:resource="http://identifiers.org/reactome.reaction/R-TGU-742354"/>
+                  <rdf:li rdf:resource="http://identifiers.org/reactome.reaction/R-GGA-742354"/>
+                  <rdf:li rdf:resource="http://identifiers.org/reactome.reaction/R-DRE-742354"/>
+                  <rdf:li rdf:resource="http://identifiers.org/seed.reaction/rxn09342"/>
+                </rdf:Bag>
+              </bqbiol:is>
+            </rdf:Description>
+          </rdf:RDF>
+        </sbml:annotation>
+        <listOfReactants>
+          <speciesReference species="M_uacgam_e" stoichiometry="1" constant="true"/>
+        </listOfReactants>
+      </reaction>
+      <reaction id="R_Kt3pp" fast="false" reversible="false" name="Potassium transport out via proton antiport (periplasm)" metaid="R_Kt3pp" sboTerm="SBO:0000185" fbc:upperFluxBound="cobra_default_ub" fbc:lowerFluxBound="cobra_0_bound">
+        <sbml:annotation xmlns:sbml="http://www.sbml.org/sbml/level3/version1/core">
+          <rdf:RDF xmlns:rdf="http://www.w3.org/1999/02/22-rdf-syntax-ns#">
+            <rdf:Description rdf:about="#R_Kt3pp">
+              <bqbiol:is xmlns:bqbiol="http://biomodels.net/biology-qualifiers/">
+                <rdf:Bag>
+                  <rdf:li rdf:resource="http://identifiers.org/bigg.reaction/Kt3pp"/>
+                  <rdf:li rdf:resource="http://identifiers.org/biocyc/META:TRANS-RXN-42"/>
+                  <rdf:li rdf:resource="http://identifiers.org/metanetx.reaction/MNXR100939"/>
+                  <rdf:li rdf:resource="http://identifiers.org/rhea/29470"/>
+                  <rdf:li rdf:resource="http://identifiers.org/rhea/29467"/>
+                  <rdf:li rdf:resource="http://identifiers.org/rhea/29468"/>
+                  <rdf:li rdf:resource="http://identifiers.org/rhea/29469"/>
+                  <rdf:li rdf:resource="http://identifiers.org/seed.reaction/rxn05596"/>
+                  <rdf:li rdf:resource="http://identifiers.org/seed.reaction/rxn08770"/>
+                </rdf:Bag>
+              </bqbiol:is>
+            </rdf:Description>
+          </rdf:RDF>
+        </sbml:annotation>
+        <listOfReactants>
+          <speciesReference species="M_h_p" stoichiometry="1" constant="true"/>
+          <speciesReference species="M_k_c" stoichiometry="1" constant="true"/>
+        </listOfReactants>
+        <listOfProducts>
+          <speciesReference species="M_h_c" stoichiometry="1" constant="true"/>
+          <speciesReference species="M_k_p" stoichiometry="1" constant="true"/>
+        </listOfProducts>
+        <fbc:geneProductAssociation>
+          <fbc:or>
+            <fbc:geneProductRef fbc:geneProduct="G_b3350"/>
+            <fbc:geneProductRef fbc:geneProduct="G_b0047"/>
+            <fbc:geneProductRef fbc:geneProduct="G_b1216"/>
+            <fbc:geneProductRef fbc:geneProduct="G_b0842"/>
+          </fbc:or>
+        </fbc:geneProductAssociation>
+      </reaction>
+      <reaction id="R_EX_udpacgal_e" fast="false" reversible="false" name="UDP-N-acetyl-D-galactosamine exchange" metaid="R_EX_udpacgal_e" sboTerm="SBO:0000627" fbc:upperFluxBound="cobra_default_ub" fbc:lowerFluxBound="cobra_0_bound">
+        <sbml:annotation xmlns:sbml="http://www.sbml.org/sbml/level3/version1/core">
+          <rdf:RDF xmlns:rdf="http://www.w3.org/1999/02/22-rdf-syntax-ns#">
+            <rdf:Description rdf:about="#R_EX_udpacgal_e">
+              <bqbiol:is xmlns:bqbiol="http://biomodels.net/biology-qualifiers/">
+                <rdf:Bag>
+                  <rdf:li rdf:resource="http://identifiers.org/bigg.reaction/EX_udpacgal_e"/>
+                  <rdf:li rdf:resource="http://identifiers.org/metanetx.reaction/MNXR105046"/>
+                  <rdf:li rdf:resource="http://identifiers.org/seed.reaction/rxn09347"/>
+                </rdf:Bag>
+              </bqbiol:is>
+            </rdf:Description>
+          </rdf:RDF>
+        </sbml:annotation>
+        <listOfReactants>
+          <speciesReference species="M_udpacgal_e" stoichiometry="1" constant="true"/>
+        </listOfReactants>
+      </reaction>
+      <reaction id="R_EX_udpg_e" fast="false" reversible="false" name="UDPglucose exchange" metaid="R_EX_udpg_e" sboTerm="SBO:0000627" fbc:upperFluxBound="cobra_default_ub" fbc:lowerFluxBound="cobra_0_bound">
+        <sbml:annotation xmlns:sbml="http://www.sbml.org/sbml/level3/version1/core">
+          <rdf:RDF xmlns:rdf="http://www.w3.org/1999/02/22-rdf-syntax-ns#">
+            <rdf:Description rdf:about="#R_EX_udpg_e">
+              <bqbiol:is xmlns:bqbiol="http://biomodels.net/biology-qualifiers/">
+                <rdf:Bag>
+                  <rdf:li rdf:resource="http://identifiers.org/bigg.reaction/EX_udpg_e"/>
+                  <rdf:li rdf:resource="http://identifiers.org/metanetx.reaction/MNXR143086"/>
+                  <rdf:li rdf:resource="http://identifiers.org/sabiork/11025"/>
+                  <rdf:li rdf:resource="http://identifiers.org/seed.reaction/rxn09353"/>
+                </rdf:Bag>
+              </bqbiol:is>
+            </rdf:Description>
+          </rdf:RDF>
+        </sbml:annotation>
+        <listOfReactants>
+          <speciesReference species="M_udpg_e" stoichiometry="1" constant="true"/>
+        </listOfReactants>
+      </reaction>
+      <reaction id="R_EX_udpgal_e" fast="false" reversible="false" name="UDPgalactose exchange" metaid="R_EX_udpgal_e" sboTerm="SBO:0000627" fbc:upperFluxBound="cobra_default_ub" fbc:lowerFluxBound="cobra_0_bound">
+        <sbml:annotation xmlns:sbml="http://www.sbml.org/sbml/level3/version1/core">
+          <rdf:RDF xmlns:rdf="http://www.w3.org/1999/02/22-rdf-syntax-ns#">
+            <rdf:Description rdf:about="#R_EX_udpgal_e">
+              <bqbiol:is xmlns:bqbiol="http://biomodels.net/biology-qualifiers/">
+                <rdf:Bag>
+                  <rdf:li rdf:resource="http://identifiers.org/bigg.reaction/EX_udpgal_e"/>
+                  <rdf:li rdf:resource="http://identifiers.org/metanetx.reaction/MNXR105061"/>
+                  <rdf:li rdf:resource="http://identifiers.org/seed.reaction/rxn09349"/>
+                  <rdf:li rdf:resource="http://identifiers.org/seed.reaction/rxn13413"/>
+                </rdf:Bag>
+              </bqbiol:is>
+            </rdf:Description>
+          </rdf:RDF>
+        </sbml:annotation>
+        <listOfReactants>
+          <speciesReference species="M_udpgal_e" stoichiometry="1" constant="true"/>
+        </listOfReactants>
+      </reaction>
+      <reaction id="R_EX_udpglcur_e" fast="false" reversible="false" name="UDP-D-glucuronate exchange" metaid="R_EX_udpglcur_e" sboTerm="SBO:0000627" fbc:upperFluxBound="cobra_default_ub" fbc:lowerFluxBound="cobra_0_bound">
+        <sbml:annotation xmlns:sbml="http://www.sbml.org/sbml/level3/version1/core">
+          <rdf:RDF xmlns:rdf="http://www.w3.org/1999/02/22-rdf-syntax-ns#">
+            <rdf:Description rdf:about="#R_EX_udpglcur_e">
+              <bqbiol:is xmlns:bqbiol="http://biomodels.net/biology-qualifiers/">
+                <rdf:Bag>
+                  <rdf:li rdf:resource="http://identifiers.org/bigg.reaction/EX_udpglcur_e"/>
+                  <rdf:li rdf:resource="http://identifiers.org/metanetx.reaction/MNXR105066"/>
+                  <rdf:li rdf:resource="http://identifiers.org/seed.reaction/rxn09352"/>
+                </rdf:Bag>
+              </bqbiol:is>
+            </rdf:Description>
+          </rdf:RDF>
+        </sbml:annotation>
+        <listOfReactants>
+          <speciesReference species="M_udpglcur_e" stoichiometry="1" constant="true"/>
+        </listOfReactants>
+      </reaction>
+      <reaction id="R_EX_14glucan_e" fast="false" reversible="false" name="1,4-alpha-D-glucan exchange" metaid="R_EX_14glucan_e" sboTerm="SBO:0000627" fbc:upperFluxBound="cobra_default_ub" fbc:lowerFluxBound="cobra_0_bound">
+        <sbml:annotation xmlns:sbml="http://www.sbml.org/sbml/level3/version1/core">
+          <rdf:RDF xmlns:rdf="http://www.w3.org/1999/02/22-rdf-syntax-ns#">
+            <rdf:Description rdf:about="#R_EX_14glucan_e">
+              <bqbiol:is xmlns:bqbiol="http://biomodels.net/biology-qualifiers/">
+                <rdf:Bag>
+                  <rdf:li rdf:resource="http://identifiers.org/bigg.reaction/EX_14glucan_e"/>
+                  <rdf:li rdf:resource="http://identifiers.org/ec-code/2.4.1.161"/>
+                  <rdf:li rdf:resource="http://identifiers.org/metanetx.reaction/MNXR94694"/>
+                </rdf:Bag>
+              </bqbiol:is>
+            </rdf:Description>
+          </rdf:RDF>
+        </sbml:annotation>
+        <listOfReactants>
+          <speciesReference species="M_14glucan_e" stoichiometry="1" constant="true"/>
+        </listOfReactants>
+      </reaction>
+      <reaction id="R_EX_pser__L_e" fast="false" reversible="false" name="O-Phospho-L-serine exchange" metaid="R_EX_pser__L_e" sboTerm="SBO:0000627" fbc:upperFluxBound="cobra_default_ub" fbc:lowerFluxBound="cobra_0_bound">
+        <sbml:annotation xmlns:sbml="http://www.sbml.org/sbml/level3/version1/core">
+          <rdf:RDF xmlns:rdf="http://www.w3.org/1999/02/22-rdf-syntax-ns#">
+            <rdf:Description rdf:about="#R_EX_pser__L_e">
+              <bqbiol:is xmlns:bqbiol="http://biomodels.net/biology-qualifiers/">
+                <rdf:Bag>
+                  <rdf:li rdf:resource="http://identifiers.org/bigg.reaction/EX_pser__L_e"/>
+                  <rdf:li rdf:resource="http://identifiers.org/metanetx.reaction/MNXR103246"/>
+                  <rdf:li rdf:resource="http://identifiers.org/seed.reaction/rxn09204"/>
+                </rdf:Bag>
+              </bqbiol:is>
+            </rdf:Description>
+          </rdf:RDF>
+        </sbml:annotation>
+        <listOfReactants>
+          <speciesReference species="M_pser__L_e" stoichiometry="1" constant="true"/>
+        </listOfReactants>
+      </reaction>
+      <reaction id="R_R5PP" fast="false" reversible="false" name="Ribose 5-phosphate phosphatase" metaid="R_R5PP" sboTerm="SBO:0000176" fbc:upperFluxBound="cobra_default_ub" fbc:lowerFluxBound="cobra_0_bound">
+        <sbml:annotation xmlns:sbml="http://www.sbml.org/sbml/level3/version1/core">
+          <rdf:RDF xmlns:rdf="http://www.w3.org/1999/02/22-rdf-syntax-ns#">
+            <rdf:Description rdf:about="#R_R5PP">
+              <bqbiol:is xmlns:bqbiol="http://biomodels.net/biology-qualifiers/">
+                <rdf:Bag>
+                  <rdf:li rdf:resource="http://identifiers.org/bigg.reaction/R5PP"/>
+                  <rdf:li rdf:resource="http://identifiers.org/metanetx.reaction/MNXR103410"/>
+                </rdf:Bag>
+              </bqbiol:is>
+            </rdf:Description>
+          </rdf:RDF>
+        </sbml:annotation>
+        <listOfReactants>
+          <speciesReference species="M_h2o_c" stoichiometry="1" constant="true"/>
+          <speciesReference species="M_r5p_c" stoichiometry="1" constant="true"/>
+        </listOfReactants>
+        <listOfProducts>
+          <speciesReference species="M_pi_c" stoichiometry="1" constant="true"/>
+          <speciesReference species="M_rib__D_c" stoichiometry="1" constant="true"/>
+        </listOfProducts>
+        <fbc:geneProductAssociation>
+          <fbc:or>
+            <fbc:geneProductRef fbc:geneProduct="G_b0822"/>
+            <fbc:geneProductRef fbc:geneProduct="G_b2690"/>
+            <fbc:geneProductRef fbc:geneProduct="G_b0675"/>
+            <fbc:geneProductRef fbc:geneProduct="G_b2293"/>
+            <fbc:geneProductRef fbc:geneProduct="G_b3697"/>
+          </fbc:or>
+        </fbc:geneProductAssociation>
+      </reaction>
+      <reaction id="R_EX_xmp_e" fast="false" reversible="false" name="Xanthosine 5'-phosphate exchange" metaid="R_EX_xmp_e" sboTerm="SBO:0000627" fbc:upperFluxBound="cobra_default_ub" fbc:lowerFluxBound="cobra_0_bound">
+        <sbml:annotation xmlns:sbml="http://www.sbml.org/sbml/level3/version1/core">
+          <rdf:RDF xmlns:rdf="http://www.w3.org/1999/02/22-rdf-syntax-ns#">
+            <rdf:Description rdf:about="#R_EX_xmp_e">
+              <bqbiol:is xmlns:bqbiol="http://biomodels.net/biology-qualifiers/">
+                <rdf:Bag>
+                  <rdf:li rdf:resource="http://identifiers.org/bigg.reaction/EX_xmp_e"/>
+                  <rdf:li rdf:resource="http://identifiers.org/metanetx.reaction/MNXR105231"/>
+                  <rdf:li rdf:resource="http://identifiers.org/seed.reaction/rxn09380"/>
+                </rdf:Bag>
+              </bqbiol:is>
+            </rdf:Description>
+          </rdf:RDF>
+        </sbml:annotation>
+        <listOfReactants>
+          <speciesReference species="M_xmp_e" stoichiometry="1" constant="true"/>
+        </listOfReactants>
+      </reaction>
+      <reaction id="R_EX_damp_e" fast="false" reversible="false" name="DAMP exchange" metaid="R_EX_damp_e" sboTerm="SBO:0000627" fbc:upperFluxBound="cobra_default_ub" fbc:lowerFluxBound="cobra_0_bound">
+        <sbml:annotation xmlns:sbml="http://www.sbml.org/sbml/level3/version1/core">
+          <rdf:RDF xmlns:rdf="http://www.w3.org/1999/02/22-rdf-syntax-ns#">
+            <rdf:Description rdf:about="#R_EX_damp_e">
+              <bqbiol:is xmlns:bqbiol="http://biomodels.net/biology-qualifiers/">
+                <rdf:Bag>
+                  <rdf:li rdf:resource="http://identifiers.org/bigg.reaction/EX_damp_e"/>
+                  <rdf:li rdf:resource="http://identifiers.org/metanetx.reaction/MNXR97136"/>
+                  <rdf:li rdf:resource="http://identifiers.org/seed.reaction/rxn08303"/>
+                </rdf:Bag>
+              </bqbiol:is>
+            </rdf:Description>
+          </rdf:RDF>
+        </sbml:annotation>
+        <listOfReactants>
+          <speciesReference species="M_damp_e" stoichiometry="1" constant="true"/>
+        </listOfReactants>
+      </reaction>
+      <reaction id="R_CYSSADS" fast="false" reversible="false" name="L-cysteine sulfinic acid desulfurase" metaid="R_CYSSADS" sboTerm="SBO:0000176" fbc:upperFluxBound="cobra_default_ub" fbc:lowerFluxBound="cobra_0_bound">
+        <sbml:annotation xmlns:sbml="http://www.sbml.org/sbml/level3/version1/core">
+          <rdf:RDF xmlns:rdf="http://www.w3.org/1999/02/22-rdf-syntax-ns#">
+            <rdf:Description rdf:about="#R_CYSSADS">
+              <bqbiol:is xmlns:bqbiol="http://biomodels.net/biology-qualifiers/">
+                <rdf:Bag>
+                  <rdf:li rdf:resource="http://identifiers.org/bigg.reaction/CYSSADS"/>
+                  <rdf:li rdf:resource="http://identifiers.org/ec-code/4.1.1.12"/>
+                  <rdf:li rdf:resource="http://identifiers.org/ec-code/4.4.1.1"/>
+                  <rdf:li rdf:resource="http://identifiers.org/kegg.reaction/R00863"/>
+                  <rdf:li rdf:resource="http://identifiers.org/metanetx.reaction/MNXR97008"/>
+                  <rdf:li rdf:resource="http://identifiers.org/sabiork/1198"/>
+                  <rdf:li rdf:resource="http://identifiers.org/seed.reaction/rxn00624"/>
+                </rdf:Bag>
+              </bqbiol:is>
+            </rdf:Description>
+          </rdf:RDF>
+        </sbml:annotation>
+        <listOfReactants>
+          <speciesReference species="M_3sala_c" stoichiometry="1" constant="true"/>
+          <speciesReference species="M_h_c" stoichiometry="2" constant="true"/>
+        </listOfReactants>
+        <listOfProducts>
+          <speciesReference species="M_ala__L_c" stoichiometry="1" constant="true"/>
+          <speciesReference species="M_so2_c" stoichiometry="1" constant="true"/>
+        </listOfProducts>
+        <fbc:geneProductAssociation>
+          <fbc:or>
+            <fbc:geneProductRef fbc:geneProduct="G_b2810"/>
+            <fbc:geneProductRef fbc:geneProduct="G_b1680"/>
+          </fbc:or>
+        </fbc:geneProductAssociation>
+      </reaction>
+      <reaction id="R_EX_dimp_e" fast="false" reversible="false" name="DIMP exchange" metaid="R_EX_dimp_e" sboTerm="SBO:0000627" fbc:upperFluxBound="cobra_default_ub" fbc:lowerFluxBound="cobra_0_bound">
+        <sbml:annotation xmlns:sbml="http://www.sbml.org/sbml/level3/version1/core">
+          <rdf:RDF xmlns:rdf="http://www.w3.org/1999/02/22-rdf-syntax-ns#">
+            <rdf:Description rdf:about="#R_EX_dimp_e">
+              <bqbiol:is xmlns:bqbiol="http://biomodels.net/biology-qualifiers/">
+                <rdf:Bag>
+                  <rdf:li rdf:resource="http://identifiers.org/bigg.reaction/EX_dimp_e"/>
+                  <rdf:li rdf:resource="http://identifiers.org/metanetx.reaction/MNXR97463"/>
+                  <rdf:li rdf:resource="http://identifiers.org/seed.reaction/rxn08342"/>
+                </rdf:Bag>
+              </bqbiol:is>
+            </rdf:Description>
+          </rdf:RDF>
+        </sbml:annotation>
+        <listOfReactants>
+          <speciesReference species="M_dimp_e" stoichiometry="1" constant="true"/>
+        </listOfReactants>
+      </reaction>
+      <reaction id="R_CPPPGO2" fast="false" reversible="false" name="Oxygen Independent coproporphyrinogen-III oxidase" metaid="R_CPPPGO2" sboTerm="SBO:0000176" fbc:upperFluxBound="cobra_default_ub" fbc:lowerFluxBound="cobra_0_bound">
+        <sbml:annotation xmlns:sbml="http://www.sbml.org/sbml/level3/version1/core">
+          <rdf:RDF xmlns:rdf="http://www.w3.org/1999/02/22-rdf-syntax-ns#">
+            <rdf:Description rdf:about="#R_CPPPGO2">
+              <bqbiol:is xmlns:bqbiol="http://biomodels.net/biology-qualifiers/">
+                <rdf:Bag>
+                  <rdf:li rdf:resource="http://identifiers.org/bigg.reaction/CPPPGO2"/>
+                  <rdf:li rdf:resource="http://identifiers.org/biocyc/META:HEMN-RXN"/>
+                  <rdf:li rdf:resource="http://identifiers.org/ec-code/1.3.98.3"/>
+                  <rdf:li rdf:resource="http://identifiers.org/ec-code/1.3.99.22"/>
+                  <rdf:li rdf:resource="http://identifiers.org/kegg.reaction/R06895"/>
+                  <rdf:li rdf:resource="http://identifiers.org/metanetx.reaction/MNXR96881"/>
+                  <rdf:li rdf:resource="http://identifiers.org/rhea/15425"/>
+                  <rdf:li rdf:resource="http://identifiers.org/rhea/15427"/>
+                  <rdf:li rdf:resource="http://identifiers.org/rhea/15428"/>
+                  <rdf:li rdf:resource="http://identifiers.org/rhea/15426"/>
+                  <rdf:li rdf:resource="http://identifiers.org/seed.reaction/rxn04704"/>
+                </rdf:Bag>
+              </bqbiol:is>
+            </rdf:Description>
+          </rdf:RDF>
+        </sbml:annotation>
+        <listOfReactants>
+          <speciesReference species="M_amet_c" stoichiometry="2" constant="true"/>
+          <speciesReference species="M_cpppg3_c" stoichiometry="1" constant="true"/>
+        </listOfReactants>
+        <listOfProducts>
+          <speciesReference species="M_co2_c" stoichiometry="2" constant="true"/>
+          <speciesReference species="M_dad_5_c" stoichiometry="2" constant="true"/>
+          <speciesReference species="M_met__L_c" stoichiometry="2" constant="true"/>
+          <speciesReference species="M_pppg9_c" stoichiometry="1" constant="true"/>
+        </listOfProducts>
+        <fbc:geneProductAssociation>
+          <fbc:geneProductRef fbc:geneProduct="G_b3867"/>
+        </fbc:geneProductAssociation>
+      </reaction>
+      <reaction id="R_EX_isetac_e" fast="false" reversible="false" name="Isethionic acid exchange" metaid="R_EX_isetac_e" sboTerm="SBO:0000627" fbc:upperFluxBound="cobra_default_ub" fbc:lowerFluxBound="cobra_0_bound">
+        <sbml:annotation xmlns:sbml="http://www.sbml.org/sbml/level3/version1/core">
+          <rdf:RDF xmlns:rdf="http://www.w3.org/1999/02/22-rdf-syntax-ns#">
+            <rdf:Description rdf:about="#R_EX_isetac_e">
+              <bqbiol:is xmlns:bqbiol="http://biomodels.net/biology-qualifiers/">
+                <rdf:Bag>
+                  <rdf:li rdf:resource="http://identifiers.org/bigg.reaction/EX_isetac_e"/>
+                  <rdf:li rdf:resource="http://identifiers.org/metanetx.reaction/MNXR100881"/>
+                  <rdf:li rdf:resource="http://identifiers.org/seed.reaction/rxn08759"/>
+                </rdf:Bag>
+              </bqbiol:is>
+            </rdf:Description>
+          </rdf:RDF>
+        </sbml:annotation>
+        <listOfReactants>
+          <speciesReference species="M_isetac_e" stoichiometry="1" constant="true"/>
+        </listOfReactants>
+      </reaction>
+      <reaction id="R_AGM3PH" fast="false" reversible="false" name="N-Acetyl-D-glucosamine(anhydrous)N-Acetylmuramyl-tripeptide beta -1,4-N-acetylglucosaminidase" metaid="R_AGM3PH" sboTerm="SBO:0000176" fbc:upperFluxBound="cobra_default_ub" fbc:lowerFluxBound="cobra_0_bound">
+        <sbml:annotation xmlns:sbml="http://www.sbml.org/sbml/level3/version1/core">
+          <rdf:RDF xmlns:rdf="http://www.w3.org/1999/02/22-rdf-syntax-ns#">
+            <rdf:Description rdf:about="#R_AGM3PH">
+              <bqbiol:is xmlns:bqbiol="http://biomodels.net/biology-qualifiers/">
+                <rdf:Bag>
+                  <rdf:li rdf:resource="http://identifiers.org/bigg.reaction/AGM3PH"/>
+                  <rdf:li rdf:resource="http://identifiers.org/metanetx.reaction/MNXR95544"/>
+                  <rdf:li rdf:resource="http://identifiers.org/seed.reaction/rxn08074"/>
+                </rdf:Bag>
+              </bqbiol:is>
+            </rdf:Description>
+          </rdf:RDF>
+        </sbml:annotation>
+        <listOfReactants>
+          <speciesReference species="M_anhgm3p_c" stoichiometry="1" constant="true"/>
+          <speciesReference species="M_h2o_c" stoichiometry="1" constant="true"/>
+        </listOfReactants>
+        <listOfProducts>
+          <speciesReference species="M_acgam_c" stoichiometry="1" constant="true"/>
+          <speciesReference species="M_anhm3p_c" stoichiometry="1" constant="true"/>
+        </listOfProducts>
+        <fbc:geneProductAssociation>
+          <fbc:geneProductRef fbc:geneProduct="G_b1107"/>
+        </fbc:geneProductAssociation>
+      </reaction>
+      <reaction id="R_HOMt2pp" fast="false" reversible="false" name="L-homoserineserine efflux via proton symport" metaid="R_HOMt2pp" sboTerm="SBO:0000185" fbc:upperFluxBound="cobra_default_ub" fbc:lowerFluxBound="cobra_0_bound">
+        <sbml:annotation xmlns:sbml="http://www.sbml.org/sbml/level3/version1/core">
+          <rdf:RDF xmlns:rdf="http://www.w3.org/1999/02/22-rdf-syntax-ns#">
+            <rdf:Description rdf:about="#R_HOMt2pp">
+              <bqbiol:is xmlns:bqbiol="http://biomodels.net/biology-qualifiers/">
+                <rdf:Bag>
+                  <rdf:li rdf:resource="http://identifiers.org/bigg.reaction/HOMt2pp"/>
+                  <rdf:li rdf:resource="http://identifiers.org/biocyc/META:TRANS-RXN-242"/>
+                  <rdf:li rdf:resource="http://identifiers.org/metanetx.reaction/MNXR100676"/>
+                  <rdf:li rdf:resource="http://identifiers.org/rhea/29004"/>
+                  <rdf:li rdf:resource="http://identifiers.org/rhea/29003"/>
+                  <rdf:li rdf:resource="http://identifiers.org/rhea/29005"/>
+                  <rdf:li rdf:resource="http://identifiers.org/rhea/29006"/>
+                  <rdf:li rdf:resource="http://identifiers.org/seed.reaction/rxn08722"/>
+                </rdf:Bag>
+              </bqbiol:is>
+            </rdf:Description>
+          </rdf:RDF>
+        </sbml:annotation>
+        <listOfReactants>
+          <speciesReference species="M_h_p" stoichiometry="1" constant="true"/>
+          <speciesReference species="M_hom__L_c" stoichiometry="1" constant="true"/>
+        </listOfReactants>
+        <listOfProducts>
+          <speciesReference species="M_h_c" stoichiometry="1" constant="true"/>
+          <speciesReference species="M_hom__L_p" stoichiometry="1" constant="true"/>
+        </listOfProducts>
+        <fbc:geneProductAssociation>
+          <fbc:or>
+            <fbc:geneProductRef fbc:geneProduct="G_b0813"/>
+            <fbc:geneProductRef fbc:geneProduct="G_b3824"/>
+          </fbc:or>
+        </fbc:geneProductAssociation>
+      </reaction>
+      <reaction id="R_EX_aso3_e" fast="false" reversible="false" name="Arsenite exchange" metaid="R_EX_aso3_e" sboTerm="SBO:0000627" fbc:upperFluxBound="cobra_default_ub" fbc:lowerFluxBound="cobra_0_bound">
+        <sbml:annotation xmlns:sbml="http://www.sbml.org/sbml/level3/version1/core">
+          <rdf:RDF xmlns:rdf="http://www.w3.org/1999/02/22-rdf-syntax-ns#">
+            <rdf:Description rdf:about="#R_EX_aso3_e">
+              <bqbiol:is xmlns:bqbiol="http://biomodels.net/biology-qualifiers/">
+                <rdf:Bag>
+                  <rdf:li rdf:resource="http://identifiers.org/bigg.reaction/EX_aso3_e"/>
+                  <rdf:li rdf:resource="http://identifiers.org/biocyc/META:TRANS-RXN0-551"/>
+                  <rdf:li rdf:resource="http://identifiers.org/metanetx.reaction/MNXR96073"/>
+                  <rdf:li rdf:resource="http://identifiers.org/seed.reaction/rxn05507"/>
+                  <rdf:li rdf:resource="http://identifiers.org/seed.reaction/rxn08164"/>
+                </rdf:Bag>
+              </bqbiol:is>
+            </rdf:Description>
+          </rdf:RDF>
+        </sbml:annotation>
+        <listOfReactants>
+          <speciesReference species="M_aso3_e" stoichiometry="1" constant="true"/>
+        </listOfReactants>
+      </reaction>
+      <reaction id="R_EX_tcynt_e" fast="false" reversible="false" name="Thiocyanate exchange" metaid="R_EX_tcynt_e" sboTerm="SBO:0000627" fbc:upperFluxBound="cobra_default_ub" fbc:lowerFluxBound="cobra_0_bound">
+        <sbml:annotation xmlns:sbml="http://www.sbml.org/sbml/level3/version1/core">
+          <rdf:RDF xmlns:rdf="http://www.w3.org/1999/02/22-rdf-syntax-ns#">
+            <rdf:Description rdf:about="#R_EX_tcynt_e">
+              <bqbiol:is xmlns:bqbiol="http://biomodels.net/biology-qualifiers/">
+                <rdf:Bag>
+                  <rdf:li rdf:resource="http://identifiers.org/bigg.reaction/EX_tcynt_e"/>
+                  <rdf:li rdf:resource="http://identifiers.org/metanetx.reaction/MNXR104749"/>
+                  <rdf:li rdf:resource="http://identifiers.org/seed.reaction/rxn09287"/>
+                </rdf:Bag>
+              </bqbiol:is>
+            </rdf:Description>
+          </rdf:RDF>
+        </sbml:annotation>
+        <listOfReactants>
+          <speciesReference species="M_tcynt_e" stoichiometry="1" constant="true"/>
+        </listOfReactants>
+      </reaction>
+      <reaction id="R_EX_fe3dhbzs_e" fast="false" reversible="false" name="Ferric 2,3-dihydroxybenzoylserine exchange" metaid="R_EX_fe3dhbzs_e" sboTerm="SBO:0000627" fbc:upperFluxBound="cobra_default_ub" fbc:lowerFluxBound="cobra_0_bound">
+        <sbml:annotation xmlns:sbml="http://www.sbml.org/sbml/level3/version1/core">
+          <rdf:RDF xmlns:rdf="http://www.w3.org/1999/02/22-rdf-syntax-ns#">
+            <rdf:Description rdf:about="#R_EX_fe3dhbzs_e">
+              <bqbiol:is xmlns:bqbiol="http://biomodels.net/biology-qualifiers/">
+                <rdf:Bag>
+                  <rdf:li rdf:resource="http://identifiers.org/bigg.reaction/EX_fe3dhbzs_e"/>
+                  <rdf:li rdf:resource="http://identifiers.org/metanetx.reaction/MNXR142960"/>
+                </rdf:Bag>
+              </bqbiol:is>
+            </rdf:Description>
+          </rdf:RDF>
+        </sbml:annotation>
+        <listOfReactants>
+          <speciesReference species="M_fe3dhbzs_e" stoichiometry="1" constant="true"/>
+        </listOfReactants>
+      </reaction>
+      <reaction id="R_AGM3PApp" fast="false" reversible="false" name="N-Acetyl-D-glucosamine(anhydrous)N-Acetylmuramyl-tripeptide amidase (periplasm)" metaid="R_AGM3PApp" sboTerm="SBO:0000176" fbc:upperFluxBound="cobra_default_ub" fbc:lowerFluxBound="cobra_0_bound">
+        <sbml:annotation xmlns:sbml="http://www.sbml.org/sbml/level3/version1/core">
+          <rdf:RDF xmlns:rdf="http://www.w3.org/1999/02/22-rdf-syntax-ns#">
+            <rdf:Description rdf:about="#R_AGM3PApp">
+              <bqbiol:is xmlns:bqbiol="http://biomodels.net/biology-qualifiers/">
+                <rdf:Bag>
+                  <rdf:li rdf:resource="http://identifiers.org/bigg.reaction/AGM3PApp"/>
+                  <rdf:li rdf:resource="http://identifiers.org/metanetx.reaction/MNXR95543"/>
+                  <rdf:li rdf:resource="http://identifiers.org/seed.reaction/rxn08073"/>
+                </rdf:Bag>
+              </bqbiol:is>
+            </rdf:Description>
+          </rdf:RDF>
+        </sbml:annotation>
+        <listOfReactants>
+          <speciesReference species="M_anhgm3p_p" stoichiometry="1" constant="true"/>
+          <speciesReference species="M_h2o_p" stoichiometry="1" constant="true"/>
+        </listOfReactants>
+        <listOfProducts>
+          <speciesReference species="M_LalaDgluMdap_p" stoichiometry="1" constant="true"/>
+          <speciesReference species="M_anhgm_p" stoichiometry="1" constant="true"/>
+        </listOfProducts>
+        <fbc:geneProductAssociation>
+          <fbc:or>
+            <fbc:geneProductRef fbc:geneProduct="G_b4169"/>
+            <fbc:geneProductRef fbc:geneProduct="G_b2435"/>
+            <fbc:geneProductRef fbc:geneProduct="G_b2817"/>
+            <fbc:geneProductRef fbc:geneProduct="G_b0867"/>
+          </fbc:or>
+        </fbc:geneProductAssociation>
+      </reaction>
+      <reaction id="R_PPPGO" fast="false" reversible="false" name="Protoporphyrinogen oxidase (aerobic)" metaid="R_PPPGO" sboTerm="SBO:0000176" fbc:upperFluxBound="cobra_default_ub" fbc:lowerFluxBound="cobra_0_bound">
+        <sbml:annotation xmlns:sbml="http://www.sbml.org/sbml/level3/version1/core">
+          <rdf:RDF xmlns:rdf="http://www.w3.org/1999/02/22-rdf-syntax-ns#">
+            <rdf:Description rdf:about="#R_PPPGO">
+              <bqbiol:is xmlns:bqbiol="http://biomodels.net/biology-qualifiers/">
+                <rdf:Bag>
+                  <rdf:li rdf:resource="http://identifiers.org/bigg.reaction/PPPGO"/>
+                  <rdf:li rdf:resource="http://identifiers.org/ec-code/1.3.3.4"/>
+                  <rdf:li rdf:resource="http://identifiers.org/metanetx.reaction/MNXR103128"/>
+                  <rdf:li rdf:resource="http://identifiers.org/reactome.reaction/R-GGA-421452"/>
+                  <rdf:li rdf:resource="http://identifiers.org/sabiork/3048"/>
+                  <rdf:li rdf:resource="http://identifiers.org/seed.reaction/rxn09179"/>
+                  <rdf:li rdf:resource="http://identifiers.org/seed.reaction/rxn02304"/>
+                </rdf:Bag>
+              </bqbiol:is>
+            </rdf:Description>
+          </rdf:RDF>
+        </sbml:annotation>
+        <listOfReactants>
+          <speciesReference species="M_o2_c" stoichiometry="1.5" constant="true"/>
+          <speciesReference species="M_pppg9_c" stoichiometry="1" constant="true"/>
+        </listOfReactants>
+        <listOfProducts>
+          <speciesReference species="M_h2o_c" stoichiometry="3" constant="true"/>
+          <speciesReference species="M_ppp9_c" stoichiometry="1" constant="true"/>
+        </listOfProducts>
+        <fbc:geneProductAssociation>
+          <fbc:geneProductRef fbc:geneProduct="G_b3850"/>
+        </fbc:geneProductAssociation>
+      </reaction>
+      <reaction id="R_EX_feoxam_un_e" fast="false" reversible="false" name="Ferroxamine minus Fe(3) exchange" metaid="R_EX_feoxam_un_e" sboTerm="SBO:0000627" fbc:upperFluxBound="cobra_default_ub" fbc:lowerFluxBound="cobra_0_bound">
+        <sbml:annotation xmlns:sbml="http://www.sbml.org/sbml/level3/version1/core">
+          <rdf:RDF xmlns:rdf="http://www.w3.org/1999/02/22-rdf-syntax-ns#">
+            <rdf:Description rdf:about="#R_EX_feoxam_un_e">
+              <bqbiol:is xmlns:bqbiol="http://biomodels.net/biology-qualifiers/">
+                <rdf:Bag>
+                  <rdf:li rdf:resource="http://identifiers.org/bigg.reaction/EX_feoxam_un_e"/>
+                  <rdf:li rdf:resource="http://identifiers.org/metanetx.reaction/MNXR142966"/>
+                </rdf:Bag>
+              </bqbiol:is>
+            </rdf:Description>
+          </rdf:RDF>
+        </sbml:annotation>
+        <listOfReactants>
+          <speciesReference species="M_feoxam_un_e" stoichiometry="1" constant="true"/>
+        </listOfReactants>
+      </reaction>
+      <reaction id="R_HOMtex" fast="false" reversible="true" name="L-homoserine transport via diffusion (extracellular to periplasm)" metaid="R_HOMtex" sboTerm="SBO:0000185" fbc:upperFluxBound="cobra_default_ub" fbc:lowerFluxBound="cobra_default_lb">
+        <sbml:annotation xmlns:sbml="http://www.sbml.org/sbml/level3/version1/core">
+          <rdf:RDF xmlns:rdf="http://www.w3.org/1999/02/22-rdf-syntax-ns#">
+            <rdf:Description rdf:about="#R_HOMtex">
+              <bqbiol:is xmlns:bqbiol="http://biomodels.net/biology-qualifiers/">
+                <rdf:Bag>
+                  <rdf:li rdf:resource="http://identifiers.org/bigg.reaction/HOMtex"/>
+                  <rdf:li rdf:resource="http://identifiers.org/metanetx.reaction/MNXR100678"/>
+                  <rdf:li rdf:resource="http://identifiers.org/seed.reaction/rxn08723"/>
+                </rdf:Bag>
+              </bqbiol:is>
+            </rdf:Description>
+          </rdf:RDF>
+        </sbml:annotation>
+        <listOfReactants>
+          <speciesReference species="M_hom__L_e" stoichiometry="1" constant="true"/>
+        </listOfReactants>
+        <listOfProducts>
+          <speciesReference species="M_hom__L_p" stoichiometry="1" constant="true"/>
+        </listOfProducts>
+        <fbc:geneProductAssociation>
+          <fbc:or>
+            <fbc:geneProductRef fbc:geneProduct="G_b0241"/>
+            <fbc:geneProductRef fbc:geneProduct="G_b0929"/>
+            <fbc:geneProductRef fbc:geneProduct="G_b1377"/>
+            <fbc:geneProductRef fbc:geneProduct="G_b2215"/>
+          </fbc:or>
+        </fbc:geneProductAssociation>
+      </reaction>
+      <reaction id="R_SO2tex" fast="false" reversible="true" name="SO2 transport via diffusion (extracellular to periplasm)" metaid="R_SO2tex" sboTerm="SBO:0000185" fbc:upperFluxBound="cobra_default_ub" fbc:lowerFluxBound="cobra_default_lb">
+        <sbml:annotation xmlns:sbml="http://www.sbml.org/sbml/level3/version1/core">
+          <rdf:RDF xmlns:rdf="http://www.w3.org/1999/02/22-rdf-syntax-ns#">
+            <rdf:Description rdf:about="#R_SO2tex">
+              <bqbiol:is xmlns:bqbiol="http://biomodels.net/biology-qualifiers/">
+                <rdf:Bag>
+                  <rdf:li rdf:resource="http://identifiers.org/bigg.reaction/SO2tex"/>
+                  <rdf:li rdf:resource="http://identifiers.org/metanetx.reaction/MNXR104456"/>
+                  <rdf:li rdf:resource="http://identifiers.org/seed.reaction/rxn09258"/>
+                  <rdf:li rdf:resource="http://identifiers.org/seed.reaction/rxn09259"/>
+                </rdf:Bag>
+              </bqbiol:is>
+            </rdf:Description>
+          </rdf:RDF>
+        </sbml:annotation>
+        <listOfReactants>
+          <speciesReference species="M_so2_e" stoichiometry="1" constant="true"/>
+        </listOfReactants>
+        <listOfProducts>
+          <speciesReference species="M_so2_p" stoichiometry="1" constant="true"/>
+        </listOfProducts>
+        <fbc:geneProductAssociation>
+          <fbc:or>
+            <fbc:geneProductRef fbc:geneProduct="G_b0241"/>
+            <fbc:geneProductRef fbc:geneProduct="G_b0929"/>
+            <fbc:geneProductRef fbc:geneProduct="G_b1377"/>
+            <fbc:geneProductRef fbc:geneProduct="G_b2215"/>
+          </fbc:or>
+        </fbc:geneProductAssociation>
+      </reaction>
+      <reaction id="R_SO2tpp" fast="false" reversible="true" name="SO2 transport via diffusion (periplasm)" metaid="R_SO2tpp" sboTerm="SBO:0000185" fbc:upperFluxBound="cobra_default_ub" fbc:lowerFluxBound="cobra_default_lb">
+        <sbml:annotation xmlns:sbml="http://www.sbml.org/sbml/level3/version1/core">
+          <rdf:RDF xmlns:rdf="http://www.w3.org/1999/02/22-rdf-syntax-ns#">
+            <rdf:Description rdf:about="#R_SO2tpp">
+              <bqbiol:is xmlns:bqbiol="http://biomodels.net/biology-qualifiers/">
+                <rdf:Bag>
+                  <rdf:li rdf:resource="http://identifiers.org/bigg.reaction/SO2tpp"/>
+                  <rdf:li rdf:resource="http://identifiers.org/metanetx.reaction/MNXR104456"/>
+                  <rdf:li rdf:resource="http://identifiers.org/seed.reaction/rxn09258"/>
+                  <rdf:li rdf:resource="http://identifiers.org/seed.reaction/rxn09259"/>
+                </rdf:Bag>
+              </bqbiol:is>
+            </rdf:Description>
+          </rdf:RDF>
+        </sbml:annotation>
+        <listOfReactants>
+          <speciesReference species="M_so2_p" stoichiometry="1" constant="true"/>
+        </listOfReactants>
+        <listOfProducts>
+          <speciesReference species="M_so2_c" stoichiometry="1" constant="true"/>
+        </listOfProducts>
+        <fbc:geneProductAssociation>
+          <fbc:geneProductRef fbc:geneProduct="G_s0001"/>
+        </fbc:geneProductAssociation>
+      </reaction>
+      <reaction id="R_LDH_D2" fast="false" reversible="false" name="D-lactate dehydrogenase" metaid="R_LDH_D2" sboTerm="SBO:0000176" fbc:upperFluxBound="cobra_default_ub" fbc:lowerFluxBound="cobra_0_bound">
+        <sbml:annotation xmlns:sbml="http://www.sbml.org/sbml/level3/version1/core">
+          <rdf:RDF xmlns:rdf="http://www.w3.org/1999/02/22-rdf-syntax-ns#">
+            <rdf:Description rdf:about="#R_LDH_D2">
+              <bqbiol:is xmlns:bqbiol="http://biomodels.net/biology-qualifiers/">
+                <rdf:Bag>
+                  <rdf:li rdf:resource="http://identifiers.org/bigg.reaction/LDH_D2"/>
+                  <rdf:li rdf:resource="http://identifiers.org/metanetx.reaction/MNXR101039"/>
+                  <rdf:li rdf:resource="http://identifiers.org/rhea/29081"/>
+                  <rdf:li rdf:resource="http://identifiers.org/rhea/29080"/>
+                  <rdf:li rdf:resource="http://identifiers.org/rhea/29082"/>
+                  <rdf:li rdf:resource="http://identifiers.org/rhea/29079"/>
+                  <rdf:li rdf:resource="http://identifiers.org/seed.reaction/rxn08783"/>
+                </rdf:Bag>
+              </bqbiol:is>
+            </rdf:Description>
+          </rdf:RDF>
+        </sbml:annotation>
+        <listOfReactants>
+          <speciesReference species="M_lac__D_c" stoichiometry="1" constant="true"/>
+          <speciesReference species="M_q8_c" stoichiometry="1" constant="true"/>
+        </listOfReactants>
+        <listOfProducts>
+          <speciesReference species="M_pyr_c" stoichiometry="1" constant="true"/>
+          <speciesReference species="M_q8h2_c" stoichiometry="1" constant="true"/>
+        </listOfProducts>
+        <fbc:geneProductAssociation>
+          <fbc:geneProductRef fbc:geneProduct="G_b2133"/>
+        </fbc:geneProductAssociation>
+      </reaction>
+      <reaction id="R_EX_g3pc_e" fast="false" reversible="false" name="Sn-Glycero-3-phosphocholine exchange" metaid="R_EX_g3pc_e" sboTerm="SBO:0000627" fbc:upperFluxBound="cobra_default_ub" fbc:lowerFluxBound="cobra_0_bound">
+        <sbml:annotation xmlns:sbml="http://www.sbml.org/sbml/level3/version1/core">
+          <rdf:RDF xmlns:rdf="http://www.w3.org/1999/02/22-rdf-syntax-ns#">
+            <rdf:Description rdf:about="#R_EX_g3pc_e">
+              <bqbiol:is xmlns:bqbiol="http://biomodels.net/biology-qualifiers/">
+                <rdf:Bag>
+                  <rdf:li rdf:resource="http://identifiers.org/bigg.reaction/EX_g3pc_e"/>
+                  <rdf:li rdf:resource="http://identifiers.org/metanetx.reaction/MNXR99874"/>
+                  <rdf:li rdf:resource="http://identifiers.org/rhea/32912"/>
+                  <rdf:li rdf:resource="http://identifiers.org/rhea/32911"/>
+                  <rdf:li rdf:resource="http://identifiers.org/rhea/32913"/>
+                  <rdf:li rdf:resource="http://identifiers.org/rhea/32914"/>
+                  <rdf:li rdf:resource="http://identifiers.org/seed.reaction/rxn08554"/>
+                  <rdf:li rdf:resource="http://identifiers.org/seed.reaction/rxn13291"/>
+                </rdf:Bag>
+              </bqbiol:is>
+            </rdf:Description>
+          </rdf:RDF>
+        </sbml:annotation>
+        <listOfReactants>
+          <speciesReference species="M_g3pc_e" stoichiometry="1" constant="true"/>
+        </listOfReactants>
+      </reaction>
+      <reaction id="R_EX_g3pg_e" fast="false" reversible="false" name="Glycerophosphoglycerol exchange" metaid="R_EX_g3pg_e" sboTerm="SBO:0000627" fbc:upperFluxBound="cobra_default_ub" fbc:lowerFluxBound="cobra_0_bound">
+        <sbml:annotation xmlns:sbml="http://www.sbml.org/sbml/level3/version1/core">
+          <rdf:RDF xmlns:rdf="http://www.w3.org/1999/02/22-rdf-syntax-ns#">
+            <rdf:Description rdf:about="#R_EX_g3pg_e">
+              <bqbiol:is xmlns:bqbiol="http://biomodels.net/biology-qualifiers/">
+                <rdf:Bag>
+                  <rdf:li rdf:resource="http://identifiers.org/bigg.reaction/EX_g3pg_e"/>
+                  <rdf:li rdf:resource="http://identifiers.org/metanetx.reaction/MNXR99886"/>
+                  <rdf:li rdf:resource="http://identifiers.org/seed.reaction/rxn08562"/>
+                </rdf:Bag>
+              </bqbiol:is>
+            </rdf:Description>
+          </rdf:RDF>
+        </sbml:annotation>
+        <listOfReactants>
+          <speciesReference species="M_g3pg_e" stoichiometry="1" constant="true"/>
+        </listOfReactants>
+      </reaction>
+      <reaction id="R_EX_g3pi_e" fast="false" reversible="false" name="Sn-Glycero-3-phospho-1-inositol exchange" metaid="R_EX_g3pi_e" sboTerm="SBO:0000627" fbc:upperFluxBound="cobra_default_ub" fbc:lowerFluxBound="cobra_0_bound">
+        <sbml:annotation xmlns:sbml="http://www.sbml.org/sbml/level3/version1/core">
+          <rdf:RDF xmlns:rdf="http://www.w3.org/1999/02/22-rdf-syntax-ns#">
+            <rdf:Description rdf:about="#R_EX_g3pi_e">
+              <bqbiol:is xmlns:bqbiol="http://biomodels.net/biology-qualifiers/">
+                <rdf:Bag>
+                  <rdf:li rdf:resource="http://identifiers.org/bigg.reaction/EX_g3pi_e"/>
+                  <rdf:li rdf:resource="http://identifiers.org/metanetx.reaction/MNXR99888"/>
+                  <rdf:li rdf:resource="http://identifiers.org/rhea/32918"/>
+                  <rdf:li rdf:resource="http://identifiers.org/rhea/32917"/>
+                  <rdf:li rdf:resource="http://identifiers.org/rhea/32916"/>
+                  <rdf:li rdf:resource="http://identifiers.org/rhea/32915"/>
+                  <rdf:li rdf:resource="http://identifiers.org/seed.reaction/rxn13292"/>
+                  <rdf:li rdf:resource="http://identifiers.org/seed.reaction/rxn08564"/>
+                </rdf:Bag>
+              </bqbiol:is>
+            </rdf:Description>
+          </rdf:RDF>
+        </sbml:annotation>
+        <listOfReactants>
+          <speciesReference species="M_g3pi_e" stoichiometry="1" constant="true"/>
+        </listOfReactants>
+      </reaction>
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+        <sbml:annotation xmlns:sbml="http://www.sbml.org/sbml/level3/version1/core">
+          <rdf:RDF xmlns:rdf="http://www.w3.org/1999/02/22-rdf-syntax-ns#">
+            <rdf:Description rdf:about="#R_SHCHF">
+              <bqbiol:is xmlns:bqbiol="http://biomodels.net/biology-qualifiers/">
+                <rdf:Bag>
+                  <rdf:li rdf:resource="http://identifiers.org/bigg.reaction/SHCHF"/>
+                  <rdf:li rdf:resource="http://identifiers.org/biocyc/META:SIROHEME-FERROCHELAT-RXN"/>
+                  <rdf:li rdf:resource="http://identifiers.org/ec-code/4.99.1.4"/>
+                  <rdf:li rdf:resource="http://identifiers.org/kegg.reaction/R02864"/>
+                  <rdf:li rdf:resource="http://identifiers.org/metanetx.reaction/MNXR104375"/>
+                  <rdf:li rdf:resource="http://identifiers.org/rhea/24360"/>
+                  <rdf:li rdf:resource="http://identifiers.org/rhea/24361"/>
+                  <rdf:li rdf:resource="http://identifiers.org/rhea/24362"/>
+                  <rdf:li rdf:resource="http://identifiers.org/rhea/24363"/>
+                  <rdf:li rdf:resource="http://identifiers.org/seed.reaction/rxn02056"/>
+                </rdf:Bag>
+              </bqbiol:is>
+            </rdf:Description>
+          </rdf:RDF>
+        </sbml:annotation>
+        <listOfReactants>
+          <speciesReference species="M_fe2_c" stoichiometry="1" constant="true"/>
+          <speciesReference species="M_scl_c" stoichiometry="1" constant="true"/>
+        </listOfReactants>
+        <listOfProducts>
+          <speciesReference species="M_h_c" stoichiometry="3" constant="true"/>
+          <speciesReference species="M_sheme_c" stoichiometry="1" constant="true"/>
+        </listOfProducts>
+        <fbc:geneProductAssociation>
+          <fbc:geneProductRef fbc:geneProduct="G_b3368"/>
+        </fbc:geneProductAssociation>
+      </reaction>
+      <reaction id="R_SUCOAS" fast="false" reversible="true" name="Succinyl-CoA synthetase (ADP-forming)" metaid="R_SUCOAS" sboTerm="SBO:0000176" fbc:upperFluxBound="cobra_default_ub" fbc:lowerFluxBound="cobra_default_lb">
+        <sbml:annotation xmlns:sbml="http://www.sbml.org/sbml/level3/version1/core">
+          <rdf:RDF xmlns:rdf="http://www.w3.org/1999/02/22-rdf-syntax-ns#">
+            <rdf:Description rdf:about="#R_SUCOAS">
+              <bqbiol:is xmlns:bqbiol="http://biomodels.net/biology-qualifiers/">
+                <rdf:Bag>
+                  <rdf:li rdf:resource="http://identifiers.org/bigg.reaction/SUCOAS"/>
+                  <rdf:li rdf:resource="http://identifiers.org/biocyc/META:SUCCCOASYN-RXN"/>
+                  <rdf:li rdf:resource="http://identifiers.org/ec-code/6.2.1.5"/>
+                  <rdf:li rdf:resource="http://identifiers.org/kegg.reaction/R00405"/>
+                  <rdf:li rdf:resource="http://identifiers.org/metanetx.reaction/MNXR104635"/>
+                  <rdf:li rdf:resource="http://identifiers.org/reactome.reaction/R-BTA-70997"/>
+                  <rdf:li rdf:resource="http://identifiers.org/reactome.reaction/R-GGA-372977"/>
+                  <rdf:li rdf:resource="http://identifiers.org/reactome.reaction/R-PFA-70997"/>
+                  <rdf:li rdf:resource="http://identifiers.org/reactome.reaction/R-GGA-373134"/>
+                  <rdf:li rdf:resource="http://identifiers.org/reactome.reaction/R-TGU-70997"/>
+                  <rdf:li rdf:resource="http://identifiers.org/reactome.reaction/R-XTR-70997"/>
+                  <rdf:li rdf:resource="http://identifiers.org/reactome.reaction/R-SSC-70997"/>
+                  <rdf:li rdf:resource="http://identifiers.org/reactome.reaction/R-HSA-70997"/>
+                  <rdf:li rdf:resource="http://identifiers.org/reactome.reaction/R-DRE-70997"/>
+                  <rdf:li rdf:resource="http://identifiers.org/reactome.reaction/R-SCE-70997"/>
+                  <rdf:li rdf:resource="http://identifiers.org/reactome.reaction/R-SPO-70997"/>
+                  <rdf:li rdf:resource="http://identifiers.org/reactome.reaction/R-DDI-70997"/>
+                  <rdf:li rdf:resource="http://identifiers.org/reactome.reaction/R-CFA-70997"/>
+                  <rdf:li rdf:resource="http://identifiers.org/reactome.reaction/R-OSA-70997"/>
+                  <rdf:li rdf:resource="http://identifiers.org/reactome.reaction/R-GGA-70997"/>
+                  <rdf:li rdf:resource="http://identifiers.org/reactome.reaction/R-RNO-70997"/>
+                  <rdf:li rdf:resource="http://identifiers.org/reactome.reaction/R-ATH-70997"/>
+                  <rdf:li rdf:resource="http://identifiers.org/reactome.reaction/R-MMU-70997"/>
+                  <rdf:li rdf:resource="http://identifiers.org/rhea/17664"/>
+                  <rdf:li rdf:resource="http://identifiers.org/rhea/17663"/>
+                  <rdf:li rdf:resource="http://identifiers.org/rhea/17662"/>
+                  <rdf:li rdf:resource="http://identifiers.org/rhea/17661"/>
+                  <rdf:li rdf:resource="http://identifiers.org/sabiork/260"/>
+                  <rdf:li rdf:resource="http://identifiers.org/seed.reaction/rxn00285"/>
+                </rdf:Bag>
+              </bqbiol:is>
+            </rdf:Description>
+          </rdf:RDF>
+        </sbml:annotation>
+        <listOfReactants>
+          <speciesReference species="M_atp_c" stoichiometry="1" constant="true"/>
+          <speciesReference species="M_coa_c" stoichiometry="1" constant="true"/>
+          <speciesReference species="M_succ_c" stoichiometry="1" constant="true"/>
+        </listOfReactants>
+        <listOfProducts>
+          <speciesReference species="M_adp_c" stoichiometry="1" constant="true"/>
+          <speciesReference species="M_pi_c" stoichiometry="1" constant="true"/>
+          <speciesReference species="M_succoa_c" stoichiometry="1" constant="true"/>
+        </listOfProducts>
+        <fbc:geneProductAssociation>
+          <fbc:and>
+            <fbc:geneProductRef fbc:geneProduct="G_b0729"/>
+            <fbc:geneProductRef fbc:geneProduct="G_b0728"/>
+          </fbc:and>
+        </fbc:geneProductAssociation>
+      </reaction>
+      <reaction id="R_SUCBZL" fast="false" reversible="false" name="O-succinylbenzoate-CoA ligase" metaid="R_SUCBZL" sboTerm="SBO:0000176" fbc:upperFluxBound="cobra_default_ub" fbc:lowerFluxBound="cobra_0_bound">
+        <sbml:annotation xmlns:sbml="http://www.sbml.org/sbml/level3/version1/core">
+          <rdf:RDF xmlns:rdf="http://www.w3.org/1999/02/22-rdf-syntax-ns#">
+            <rdf:Description rdf:about="#R_SUCBZL">
+              <bqbiol:is xmlns:bqbiol="http://biomodels.net/biology-qualifiers/">
+                <rdf:Bag>
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+                  <rdf:li rdf:resource="http://identifiers.org/biocyc/META:O-SUCCINYLBENZOATE-COA-LIG-RXN"/>
+                  <rdf:li rdf:resource="http://identifiers.org/ec-code/6.2.1.26"/>
+                  <rdf:li rdf:resource="http://identifiers.org/kegg.reaction/R04030"/>
+                  <rdf:li rdf:resource="http://identifiers.org/metanetx.reaction/MNXR104612"/>
+                  <rdf:li rdf:resource="http://identifiers.org/rhea/17012"/>
+                  <rdf:li rdf:resource="http://identifiers.org/rhea/17011"/>
+                  <rdf:li rdf:resource="http://identifiers.org/rhea/17009"/>
+                  <rdf:li rdf:resource="http://identifiers.org/rhea/17010"/>
+                  <rdf:li rdf:resource="http://identifiers.org/seed.reaction/rxn02831"/>
+                </rdf:Bag>
+              </bqbiol:is>
+            </rdf:Description>
+          </rdf:RDF>
+        </sbml:annotation>
+        <listOfReactants>
+          <speciesReference species="M_atp_c" stoichiometry="1" constant="true"/>
+          <speciesReference species="M_coa_c" stoichiometry="1" constant="true"/>
+          <speciesReference species="M_sucbz_c" stoichiometry="1" constant="true"/>
+        </listOfReactants>
+        <listOfProducts>
+          <speciesReference species="M_amp_c" stoichiometry="1" constant="true"/>
+          <speciesReference species="M_ppi_c" stoichiometry="1" constant="true"/>
+          <speciesReference species="M_sbzcoa_c" stoichiometry="1" constant="true"/>
+        </listOfProducts>
+        <fbc:geneProductAssociation>
+          <fbc:geneProductRef fbc:geneProduct="G_b2260"/>
+        </fbc:geneProductAssociation>
+      </reaction>
+      <reaction id="R_CYSDDS" fast="false" reversible="false" name="D-cysteine desulfhydrase" metaid="R_CYSDDS" sboTerm="SBO:0000176" fbc:upperFluxBound="cobra_default_ub" fbc:lowerFluxBound="cobra_0_bound">
+        <sbml:annotation xmlns:sbml="http://www.sbml.org/sbml/level3/version1/core">
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+            <rdf:Description rdf:about="#R_CYSDDS">
+              <bqbiol:is xmlns:bqbiol="http://biomodels.net/biology-qualifiers/">
+                <rdf:Bag>
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+                  <rdf:li rdf:resource="http://identifiers.org/biocyc/META:DCYSDESULF-RXN"/>
+                  <rdf:li rdf:resource="http://identifiers.org/ec-code/4.4.1.15"/>
+                  <rdf:li rdf:resource="http://identifiers.org/kegg.reaction/R01874"/>
+                  <rdf:li rdf:resource="http://identifiers.org/metanetx.reaction/MNXR96992"/>
+                  <rdf:li rdf:resource="http://identifiers.org/rhea/11269"/>
+                  <rdf:li rdf:resource="http://identifiers.org/rhea/11270"/>
+                  <rdf:li rdf:resource="http://identifiers.org/rhea/11271"/>
+                  <rdf:li rdf:resource="http://identifiers.org/rhea/11268"/>
+                  <rdf:li rdf:resource="http://identifiers.org/seed.reaction/rxn01365"/>
+                </rdf:Bag>
+              </bqbiol:is>
+            </rdf:Description>
+          </rdf:RDF>
+        </sbml:annotation>
+        <listOfReactants>
+          <speciesReference species="M_cys__D_c" stoichiometry="1" constant="true"/>
+          <speciesReference species="M_h2o_c" stoichiometry="1" constant="true"/>
+        </listOfReactants>
+        <listOfProducts>
+          <speciesReference species="M_h2s_c" stoichiometry="1" constant="true"/>
+          <speciesReference species="M_nh4_c" stoichiometry="1" constant="true"/>
+          <speciesReference species="M_pyr_c" stoichiometry="1" constant="true"/>
+        </listOfProducts>
+        <fbc:geneProductAssociation>
+          <fbc:geneProductRef fbc:geneProduct="G_b1919"/>
+        </fbc:geneProductAssociation>
+      </reaction>
+      <reaction id="R_CYStpp" fast="false" reversible="false" name="L-cysteine export via facilitated transport" metaid="R_CYStpp" sboTerm="SBO:0000185" fbc:upperFluxBound="cobra_default_ub" fbc:lowerFluxBound="cobra_0_bound">
+        <sbml:annotation xmlns:sbml="http://www.sbml.org/sbml/level3/version1/core">
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+            <rdf:Description rdf:about="#R_CYStpp">
+              <bqbiol:is xmlns:bqbiol="http://biomodels.net/biology-qualifiers/">
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+                  <rdf:li rdf:resource="http://identifiers.org/biocyc/META:RXN0-1924"/>
+                  <rdf:li rdf:resource="http://identifiers.org/metanetx.reaction/MNXR97029"/>
+                  <rdf:li rdf:resource="http://identifiers.org/rhea/29655"/>
+                  <rdf:li rdf:resource="http://identifiers.org/rhea/29656"/>
+                  <rdf:li rdf:resource="http://identifiers.org/rhea/29658"/>
+                  <rdf:li rdf:resource="http://identifiers.org/rhea/29657"/>
+                  <rdf:li rdf:resource="http://identifiers.org/sabiork/13465"/>
+                  <rdf:li rdf:resource="http://identifiers.org/seed.reaction/rxn08284"/>
+                  <rdf:li rdf:resource="http://identifiers.org/seed.reaction/rxn10998"/>
+                  <rdf:li rdf:resource="http://identifiers.org/seed.reaction/rxn08286"/>
+                </rdf:Bag>
+              </bqbiol:is>
+            </rdf:Description>
+          </rdf:RDF>
+        </sbml:annotation>
+        <listOfReactants>
+          <speciesReference species="M_cys__L_c" stoichiometry="1" constant="true"/>
+        </listOfReactants>
+        <listOfProducts>
+          <speciesReference species="M_cys__L_p" stoichiometry="1" constant="true"/>
+        </listOfProducts>
+        <fbc:geneProductAssociation>
+          <fbc:or>
+            <fbc:geneProductRef fbc:geneProduct="G_b2578"/>
+            <fbc:geneProductRef fbc:geneProduct="G_b1533"/>
+          </fbc:or>
+        </fbc:geneProductAssociation>
+      </reaction>
+      <reaction id="R_EX_g3ps_e" fast="false" reversible="false" name="Glycerophosphoserine exchange" metaid="R_EX_g3ps_e" sboTerm="SBO:0000627" fbc:upperFluxBound="cobra_default_ub" fbc:lowerFluxBound="cobra_0_bound">
+        <sbml:annotation xmlns:sbml="http://www.sbml.org/sbml/level3/version1/core">
+          <rdf:RDF xmlns:rdf="http://www.w3.org/1999/02/22-rdf-syntax-ns#">
+            <rdf:Description rdf:about="#R_EX_g3ps_e">
+              <bqbiol:is xmlns:bqbiol="http://biomodels.net/biology-qualifiers/">
+                <rdf:Bag>
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+                  <rdf:li rdf:resource="http://identifiers.org/metanetx.reaction/MNXR99893"/>
+                  <rdf:li rdf:resource="http://identifiers.org/seed.reaction/rxn08566"/>
+                </rdf:Bag>
+              </bqbiol:is>
+            </rdf:Description>
+          </rdf:RDF>
+        </sbml:annotation>
+        <listOfReactants>
+          <speciesReference species="M_g3ps_e" stoichiometry="1" constant="true"/>
+        </listOfReactants>
+      </reaction>
+      <reaction id="R_EX_peamn_e" fast="false" reversible="false" name="Phenethylamine exchange" metaid="R_EX_peamn_e" sboTerm="SBO:0000627" fbc:upperFluxBound="cobra_default_ub" fbc:lowerFluxBound="cobra_0_bound">
+        <sbml:annotation xmlns:sbml="http://www.sbml.org/sbml/level3/version1/core">
+          <rdf:RDF xmlns:rdf="http://www.w3.org/1999/02/22-rdf-syntax-ns#">
+            <rdf:Description rdf:about="#R_EX_peamn_e">
+              <bqbiol:is xmlns:bqbiol="http://biomodels.net/biology-qualifiers/">
+                <rdf:Bag>
+                  <rdf:li rdf:resource="http://identifiers.org/bigg.reaction/EX_peamn_e"/>
+                  <rdf:li rdf:resource="http://identifiers.org/metanetx.reaction/MNXR102462"/>
+                  <rdf:li rdf:resource="http://identifiers.org/rhea/29745"/>
+                  <rdf:li rdf:resource="http://identifiers.org/rhea/29744"/>
+                  <rdf:li rdf:resource="http://identifiers.org/rhea/29746"/>
+                  <rdf:li rdf:resource="http://identifiers.org/rhea/29743"/>
+                  <rdf:li rdf:resource="http://identifiers.org/seed.reaction/rxn11405"/>
+                  <rdf:li rdf:resource="http://identifiers.org/seed.reaction/rxn09080"/>
+                </rdf:Bag>
+              </bqbiol:is>
+            </rdf:Description>
+          </rdf:RDF>
+        </sbml:annotation>
+        <listOfReactants>
+          <speciesReference species="M_peamn_e" stoichiometry="1" constant="true"/>
+        </listOfReactants>
+      </reaction>
+      <reaction id="R_EX_34dhpac_e" fast="false" reversible="false" name="3,4-Dihydroxyphenylacetaldehyde exchange" metaid="R_EX_34dhpac_e" sboTerm="SBO:0000627" fbc:upperFluxBound="cobra_default_ub" fbc:lowerFluxBound="cobra_0_bound">
+        <sbml:annotation xmlns:sbml="http://www.sbml.org/sbml/level3/version1/core">
+          <rdf:RDF xmlns:rdf="http://www.w3.org/1999/02/22-rdf-syntax-ns#">
+            <rdf:Description rdf:about="#R_EX_34dhpac_e">
+              <bqbiol:is xmlns:bqbiol="http://biomodels.net/biology-qualifiers/">
+                <rdf:Bag>
+                  <rdf:li rdf:resource="http://identifiers.org/bigg.reaction/EX_34dhpac_e"/>
+                  <rdf:li rdf:resource="http://identifiers.org/metanetx.reaction/MNXR94848"/>
+                  <rdf:li rdf:resource="http://identifiers.org/seed.reaction/rxn07972"/>
+                </rdf:Bag>
+              </bqbiol:is>
+            </rdf:Description>
+          </rdf:RDF>
+        </sbml:annotation>
+        <listOfReactants>
+          <speciesReference species="M_34dhpac_e" stoichiometry="1" constant="true"/>
+        </listOfReactants>
+      </reaction>
+      <reaction id="R_NTP1" fast="false" reversible="false" name="Nucleoside-triphosphatase (ATP)" metaid="R_NTP1" sboTerm="SBO:0000176" fbc:upperFluxBound="cobra_default_ub" fbc:lowerFluxBound="cobra_0_bound">
+        <sbml:annotation xmlns:sbml="http://www.sbml.org/sbml/level3/version1/core">
+          <rdf:RDF xmlns:rdf="http://www.w3.org/1999/02/22-rdf-syntax-ns#">
+            <rdf:Description rdf:about="#R_NTP1">
+              <bqbiol:is xmlns:bqbiol="http://biomodels.net/biology-qualifiers/">
+                <rdf:Bag>
+                  <rdf:li rdf:resource="http://identifiers.org/bigg.reaction/NTP1"/>
+                  <rdf:li rdf:resource="http://identifiers.org/biocyc/META:ATPASE-RXN"/>
+                  <rdf:li rdf:resource="http://identifiers.org/ec-code/3.6.1.5"/>
+                  <rdf:li rdf:resource="http://identifiers.org/ec-code/3.6.3.34"/>
+                  <rdf:li rdf:resource="http://identifiers.org/ec-code/3.6.3.20"/>
+                  <rdf:li rdf:resource="http://identifiers.org/ec-code/3.6.3.53"/>
+                  <rdf:li rdf:resource="http://identifiers.org/ec-code/3.6.3.8"/>
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+                  <rdf:li rdf:resource="http://identifiers.org/ec-code/3.6.4.12"/>
+                  <rdf:li rdf:resource="http://identifiers.org/ec-code/3.6.3.48"/>
+                  <rdf:li rdf:resource="http://identifiers.org/ec-code/3.6.3.40"/>
+                  <rdf:li rdf:resource="http://identifiers.org/ec-code/3.6.3.9"/>
+                  <rdf:li rdf:resource="http://identifiers.org/ec-code/3.6.3.23"/>
+                  <rdf:li rdf:resource="http://identifiers.org/ec-code/3.6.3.22"/>
+                  <rdf:li rdf:resource="http://identifiers.org/ec-code/3.6.3.54"/>
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+                  <rdf:li rdf:resource="http://identifiers.org/ec-code/3.6.3.50"/>
+                  <rdf:li rdf:resource="http://identifiers.org/ec-code/3.6.3.39"/>
+                  <rdf:li rdf:resource="http://identifiers.org/ec-code/3.6.3.19"/>
+                  <rdf:li rdf:resource="http://identifiers.org/ec-code/3.6.3.4"/>
+                  <rdf:li rdf:resource="http://identifiers.org/ec-code/3.6.3.35"/>
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+                  <rdf:li rdf:resource="http://identifiers.org/ec-code/3.6.3.25"/>
+                  <rdf:li rdf:resource="http://identifiers.org/ec-code/3.6.3.38"/>
+                  <rdf:li rdf:resource="http://identifiers.org/ec-code/3.6.3.33"/>
+                  <rdf:li rdf:resource="http://identifiers.org/ec-code/3.6.3.43"/>
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+                  <rdf:li rdf:resource="http://identifiers.org/ec-code/3.6.3.10"/>
+                  <rdf:li rdf:resource="http://identifiers.org/ec-code/3.6.3.24"/>
+                  <rdf:li rdf:resource="http://identifiers.org/ec-code/3.6.3.44"/>
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+                  <rdf:li rdf:resource="http://identifiers.org/ec-code/3.6.3.5"/>
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+                  <rdf:li rdf:resource="http://identifiers.org/ec-code/3.6.4.3"/>
+                  <rdf:li rdf:resource="http://identifiers.org/ec-code/3.6.3.42"/>
+                  <rdf:li rdf:resource="http://identifiers.org/ec-code/3.6.3.11"/>
+                  <rdf:li rdf:resource="http://identifiers.org/ec-code/3.6.3.28"/>
+                  <rdf:li rdf:resource="http://identifiers.org/ec-code/3.6.3.30"/>
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+                  <rdf:li rdf:resource="http://identifiers.org/ec-code/3.6.3.47"/>
+                  <rdf:li rdf:resource="http://identifiers.org/ec-code/3.6.4.6"/>
+                  <rdf:li rdf:resource="http://identifiers.org/ec-code/3.6.3.36"/>
+                  <rdf:li rdf:resource="http://identifiers.org/ec-code/3.6.3.21"/>
+                  <rdf:li rdf:resource="http://identifiers.org/ec-code/3.6.3.12"/>
+                  <rdf:li rdf:resource="http://identifiers.org/ec-code/3.6.3.18"/>
+                  <rdf:li rdf:resource="http://identifiers.org/ec-code/3.6.3.26"/>
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+                  <rdf:li rdf:resource="http://identifiers.org/ec-code/3.6.3.46"/>
+                  <rdf:li rdf:resource="http://identifiers.org/ec-code/3.6.3.41"/>
+                  <rdf:li rdf:resource="http://identifiers.org/ec-code/3.6.3.49"/>
+                  <rdf:li rdf:resource="http://identifiers.org/kegg.reaction/R00086"/>
+                  <rdf:li rdf:resource="http://identifiers.org/metanetx.reaction/MNXR96131"/>
+                  <rdf:li rdf:resource="http://identifiers.org/rhea/13066"/>
+                  <rdf:li rdf:resource="http://identifiers.org/rhea/13065"/>
+                  <rdf:li rdf:resource="http://identifiers.org/rhea/13068"/>
+                  <rdf:li rdf:resource="http://identifiers.org/rhea/13067"/>
+                  <rdf:li rdf:resource="http://identifiers.org/sabiork/75"/>
+                  <rdf:li rdf:resource="http://identifiers.org/seed.reaction/rxn11300"/>
+                  <rdf:li rdf:resource="http://identifiers.org/seed.reaction/rxn09694"/>
+                  <rdf:li rdf:resource="http://identifiers.org/seed.reaction/rxn00062"/>
+                </rdf:Bag>
+              </bqbiol:is>
+            </rdf:Description>
+          </rdf:RDF>
+        </sbml:annotation>
+        <listOfReactants>
+          <speciesReference species="M_atp_c" stoichiometry="1" constant="true"/>
+          <speciesReference species="M_h2o_c" stoichiometry="1" constant="true"/>
+        </listOfReactants>
+        <listOfProducts>
+          <speciesReference species="M_adp_c" stoichiometry="1" constant="true"/>
+          <speciesReference species="M_h_c" stoichiometry="1" constant="true"/>
+          <speciesReference species="M_pi_c" stoichiometry="1" constant="true"/>
+        </listOfProducts>
+        <fbc:geneProductAssociation>
+          <fbc:or>
+            <fbc:geneProductRef fbc:geneProduct="G_b0650"/>
+            <fbc:geneProductRef fbc:geneProduct="G_b4161"/>
+          </fbc:or>
+        </fbc:geneProductAssociation>
+      </reaction>
+      <reaction id="R_DAMPtex" fast="false" reversible="true" name="DAMP transport via diffusion (extracellular to periplasm)" metaid="R_DAMPtex" sboTerm="SBO:0000185" fbc:upperFluxBound="cobra_default_ub" fbc:lowerFluxBound="cobra_default_lb">
+        <sbml:annotation xmlns:sbml="http://www.sbml.org/sbml/level3/version1/core">
+          <rdf:RDF xmlns:rdf="http://www.w3.org/1999/02/22-rdf-syntax-ns#">
+            <rdf:Description rdf:about="#R_DAMPtex">
+              <bqbiol:is xmlns:bqbiol="http://biomodels.net/biology-qualifiers/">
+                <rdf:Bag>
+                  <rdf:li rdf:resource="http://identifiers.org/bigg.reaction/DAMPtex"/>
+                  <rdf:li rdf:resource="http://identifiers.org/metanetx.reaction/MNXR97136"/>
+                  <rdf:li rdf:resource="http://identifiers.org/seed.reaction/rxn08303"/>
+                </rdf:Bag>
+              </bqbiol:is>
+            </rdf:Description>
+          </rdf:RDF>
+        </sbml:annotation>
+        <listOfReactants>
+          <speciesReference species="M_damp_e" stoichiometry="1" constant="true"/>
+        </listOfReactants>
+        <listOfProducts>
+          <speciesReference species="M_damp_p" stoichiometry="1" constant="true"/>
+        </listOfProducts>
+        <fbc:geneProductAssociation>
+          <fbc:or>
+            <fbc:geneProductRef fbc:geneProduct="G_b0241"/>
+            <fbc:geneProductRef fbc:geneProduct="G_b0929"/>
+            <fbc:geneProductRef fbc:geneProduct="G_b1377"/>
+            <fbc:geneProductRef fbc:geneProduct="G_b2215"/>
+          </fbc:or>
+        </fbc:geneProductAssociation>
+      </reaction>
+      <reaction id="R_DCMPtex" fast="false" reversible="true" name="DCMP transport via diffusion (extracellular to periplasm)" metaid="R_DCMPtex" sboTerm="SBO:0000185" fbc:upperFluxBound="cobra_default_ub" fbc:lowerFluxBound="cobra_default_lb">
+        <sbml:annotation xmlns:sbml="http://www.sbml.org/sbml/level3/version1/core">
+          <rdf:RDF xmlns:rdf="http://www.w3.org/1999/02/22-rdf-syntax-ns#">
+            <rdf:Description rdf:about="#R_DCMPtex">
+              <bqbiol:is xmlns:bqbiol="http://biomodels.net/biology-qualifiers/">
+                <rdf:Bag>
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+                  <rdf:li rdf:resource="http://identifiers.org/metanetx.reaction/MNXR97186"/>
+                  <rdf:li rdf:resource="http://identifiers.org/seed.reaction/rxn08315"/>
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+              </bqbiol:is>
+            </rdf:Description>
+          </rdf:RDF>
+        </sbml:annotation>
+        <listOfReactants>
+          <speciesReference species="M_dcmp_e" stoichiometry="1" constant="true"/>
+        </listOfReactants>
+        <listOfProducts>
+          <speciesReference species="M_dcmp_p" stoichiometry="1" constant="true"/>
+        </listOfProducts>
+        <fbc:geneProductAssociation>
+          <fbc:or>
+            <fbc:geneProductRef fbc:geneProduct="G_b0241"/>
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+            <fbc:geneProductRef fbc:geneProduct="G_b1377"/>
+            <fbc:geneProductRef fbc:geneProduct="G_b2215"/>
+          </fbc:or>
+        </fbc:geneProductAssociation>
+      </reaction>
+      <reaction id="R_DGMPtex" fast="false" reversible="true" name="DGMP transport via diffusion (extracellular to periplasm)" metaid="R_DGMPtex" sboTerm="SBO:0000185" fbc:upperFluxBound="cobra_default_ub" fbc:lowerFluxBound="cobra_default_lb">
+        <sbml:annotation xmlns:sbml="http://www.sbml.org/sbml/level3/version1/core">
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+            <rdf:Description rdf:about="#R_DGMPtex">
+              <bqbiol:is xmlns:bqbiol="http://biomodels.net/biology-qualifiers/">
+                <rdf:Bag>
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+                  <rdf:li rdf:resource="http://identifiers.org/seed.reaction/rxn08322"/>
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+        </sbml:annotation>
+        <listOfReactants>
+          <speciesReference species="M_dgmp_e" stoichiometry="1" constant="true"/>
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+        <listOfProducts>
+          <speciesReference species="M_dgmp_p" stoichiometry="1" constant="true"/>
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+        <fbc:geneProductAssociation>
+          <fbc:or>
+            <fbc:geneProductRef fbc:geneProduct="G_b0241"/>
+            <fbc:geneProductRef fbc:geneProduct="G_b0929"/>
+            <fbc:geneProductRef fbc:geneProduct="G_b1377"/>
+            <fbc:geneProductRef fbc:geneProduct="G_b2215"/>
+          </fbc:or>
+        </fbc:geneProductAssociation>
+      </reaction>
+      <reaction id="R_DTMPtex" fast="false" reversible="true" name="DTMP transport via diffusion (extracellular to periplasm)" metaid="R_DTMPtex" sboTerm="SBO:0000185" fbc:upperFluxBound="cobra_default_ub" fbc:lowerFluxBound="cobra_default_lb">
+        <sbml:annotation xmlns:sbml="http://www.sbml.org/sbml/level3/version1/core">
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+            <rdf:Description rdf:about="#R_DTMPtex">
+              <bqbiol:is xmlns:bqbiol="http://biomodels.net/biology-qualifiers/">
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+                  <rdf:li rdf:resource="http://identifiers.org/seed.reaction/rxn08374"/>
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+        <listOfProducts>
+          <speciesReference species="M_dtmp_p" stoichiometry="1" constant="true"/>
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+            <fbc:geneProductRef fbc:geneProduct="G_b1377"/>
+            <fbc:geneProductRef fbc:geneProduct="G_b2215"/>
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+        </fbc:geneProductAssociation>
+      </reaction>
+      <reaction id="R_ACSERtpp" fast="false" reversible="false" name="O-Acetyl-L-serine export via facilitated transport" metaid="R_ACSERtpp" sboTerm="SBO:0000185" fbc:upperFluxBound="cobra_default_ub" fbc:lowerFluxBound="cobra_0_bound">
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+              <bqbiol:is xmlns:bqbiol="http://biomodels.net/biology-qualifiers/">
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+                  <rdf:li rdf:resource="http://identifiers.org/rhea/29660"/>
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+                  <rdf:li rdf:resource="http://identifiers.org/rhea/29661"/>
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+                  <rdf:li rdf:resource="http://identifiers.org/seed.reaction/rxn08059"/>
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+            </rdf:Description>
+          </rdf:RDF>
+        </sbml:annotation>
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+        </listOfReactants>
+        <listOfProducts>
+          <speciesReference species="M_acser_p" stoichiometry="1" constant="true"/>
+        </listOfProducts>
+        <fbc:geneProductAssociation>
+          <fbc:or>
+            <fbc:geneProductRef fbc:geneProduct="G_b2578"/>
+            <fbc:geneProductRef fbc:geneProduct="G_b1533"/>
+          </fbc:or>
+        </fbc:geneProductAssociation>
+      </reaction>
+      <reaction id="R_ACSERtex" fast="false" reversible="true" name="O-Acetyl-L-serine transport via diffusion (extracellular to periplasm)" metaid="R_ACSERtex" sboTerm="SBO:0000185" fbc:upperFluxBound="cobra_default_ub" fbc:lowerFluxBound="cobra_default_lb">
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+        <listOfProducts>
+          <speciesReference species="M_acser_p" stoichiometry="1" constant="true"/>
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+        <fbc:geneProductAssociation>
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+            <fbc:geneProductRef fbc:geneProduct="G_b1377"/>
+            <fbc:geneProductRef fbc:geneProduct="G_b2215"/>
+            <fbc:geneProductRef fbc:geneProduct="G_b0241"/>
+            <fbc:geneProductRef fbc:geneProduct="G_b0929"/>
+          </fbc:or>
+        </fbc:geneProductAssociation>
+      </reaction>
+      <reaction id="R_LALDO3" fast="false" reversible="false" name="L-Lactaldehyde:NADP+ 1-oxidoreductase" metaid="R_LALDO3" sboTerm="SBO:0000176" fbc:upperFluxBound="cobra_default_ub" fbc:lowerFluxBound="cobra_0_bound">
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+                  <rdf:li rdf:resource="http://identifiers.org/rhea/21749"/>
+                  <rdf:li rdf:resource="http://identifiers.org/rhea/21751"/>
+                  <rdf:li rdf:resource="http://identifiers.org/rhea/21748"/>
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+                  <rdf:li rdf:resource="http://identifiers.org/sabiork/9214"/>
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+                  <rdf:li rdf:resource="http://identifiers.org/seed.reaction/rxn01618"/>
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+        </sbml:annotation>
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+          <speciesReference species="M_mthgxl_c" stoichiometry="1" constant="true"/>
+          <speciesReference species="M_nadph_c" stoichiometry="1" constant="true"/>
+        </listOfReactants>
+        <listOfProducts>
+          <speciesReference species="M_lald__L_c" stoichiometry="1" constant="true"/>
+          <speciesReference species="M_nadp_c" stoichiometry="1" constant="true"/>
+        </listOfProducts>
+      </reaction>
+      <reaction id="R_NTP10" fast="false" reversible="false" name="Nucleoside-triphosphatase (ITP)" metaid="R_NTP10" sboTerm="SBO:0000176" fbc:upperFluxBound="cobra_default_ub" fbc:lowerFluxBound="cobra_0_bound">
+        <sbml:annotation xmlns:sbml="http://www.sbml.org/sbml/level3/version1/core">
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+                  <rdf:li rdf:resource="http://identifiers.org/ec-code/3.6.1.5"/>
+                  <rdf:li rdf:resource="http://identifiers.org/kegg.reaction/R00719"/>
+                  <rdf:li rdf:resource="http://identifiers.org/metanetx.reaction/MNXR100892"/>
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+                  <rdf:li rdf:resource="http://identifiers.org/rhea/28332"/>
+                  <rdf:li rdf:resource="http://identifiers.org/rhea/28333"/>
+                  <rdf:li rdf:resource="http://identifiers.org/rhea/28330"/>
+                  <rdf:li rdf:resource="http://identifiers.org/sabiork/1090"/>
+                  <rdf:li rdf:resource="http://identifiers.org/seed.reaction/rxn00513"/>
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+        </sbml:annotation>
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+          <speciesReference species="M_h2o_c" stoichiometry="1" constant="true"/>
+          <speciesReference species="M_itp_c" stoichiometry="1" constant="true"/>
+        </listOfReactants>
+        <listOfProducts>
+          <speciesReference species="M_h_c" stoichiometry="1" constant="true"/>
+          <speciesReference species="M_idp_c" stoichiometry="1" constant="true"/>
+          <speciesReference species="M_pi_c" stoichiometry="1" constant="true"/>
+        </listOfProducts>
+        <fbc:geneProductAssociation>
+          <fbc:or>
+            <fbc:geneProductRef fbc:geneProduct="G_b4161"/>
+            <fbc:geneProductRef fbc:geneProduct="G_b4394"/>
+          </fbc:or>
+        </fbc:geneProductAssociation>
+      </reaction>
+      <reaction id="R_PRAIS" fast="false" reversible="false" name="Phosphoribosylaminoimidazole synthase" metaid="R_PRAIS" sboTerm="SBO:0000176" fbc:upperFluxBound="cobra_default_ub" fbc:lowerFluxBound="cobra_0_bound">
+        <sbml:annotation xmlns:sbml="http://www.sbml.org/sbml/level3/version1/core">
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+                  <rdf:li rdf:resource="http://identifiers.org/metanetx.reaction/MNXR138720"/>
+                  <rdf:li rdf:resource="http://identifiers.org/rhea/23033"/>
+                  <rdf:li rdf:resource="http://identifiers.org/rhea/23032"/>
+                  <rdf:li rdf:resource="http://identifiers.org/rhea/23034"/>
+                  <rdf:li rdf:resource="http://identifiers.org/rhea/23035"/>
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+          <speciesReference species="M_fpram_c" stoichiometry="1" constant="true"/>
+        </listOfReactants>
+        <listOfProducts>
+          <speciesReference species="M_adp_c" stoichiometry="1" constant="true"/>
+          <speciesReference species="M_air_c" stoichiometry="1" constant="true"/>
+          <speciesReference species="M_h_c" stoichiometry="2" constant="true"/>
+          <speciesReference species="M_pi_c" stoichiometry="1" constant="true"/>
+        </listOfProducts>
+        <fbc:geneProductAssociation>
+          <fbc:geneProductRef fbc:geneProduct="G_b2499"/>
+        </fbc:geneProductAssociation>
+      </reaction>
+      <reaction id="R_GDMANE" fast="false" reversible="false" name="GDP-4-dehydro-6-deoxy-D-mannose epimerase" metaid="R_GDMANE" sboTerm="SBO:0000176" fbc:upperFluxBound="cobra_default_ub" fbc:lowerFluxBound="cobra_0_bound">
+        <sbml:annotation xmlns:sbml="http://www.sbml.org/sbml/level3/version1/core">
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+            <rdf:Description rdf:about="#R_GDMANE">
+              <bqbiol:is xmlns:bqbiol="http://biomodels.net/biology-qualifiers/">
+                <rdf:Bag>
+                  <rdf:li rdf:resource="http://identifiers.org/bigg.reaction/GDMANE"/>
+                  <rdf:li rdf:resource="http://identifiers.org/ec-code/5"/>
+                  <rdf:li rdf:resource="http://identifiers.org/metanetx.reaction/MNXR100087"/>
+                  <rdf:li rdf:resource="http://identifiers.org/seed.reaction/rxn08597"/>
+                </rdf:Bag>
+              </bqbiol:is>
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+          </rdf:RDF>
+        </sbml:annotation>
+        <listOfReactants>
+          <speciesReference species="M_gdpddman_c" stoichiometry="1" constant="true"/>
+        </listOfReactants>
+        <listOfProducts>
+          <speciesReference species="M_gdpofuc_c" stoichiometry="1" constant="true"/>
+        </listOfProducts>
+        <fbc:geneProductAssociation>
+          <fbc:geneProductRef fbc:geneProduct="G_b2052"/>
+        </fbc:geneProductAssociation>
+      </reaction>
+      <reaction id="R_GPDDA4" fast="false" reversible="false" name="Glycerophosphodiester phosphodiesterase (Glycerophosphoglycerol)" metaid="R_GPDDA4" sboTerm="SBO:0000176" fbc:upperFluxBound="cobra_default_ub" fbc:lowerFluxBound="cobra_0_bound">
+        <sbml:annotation xmlns:sbml="http://www.sbml.org/sbml/level3/version1/core">
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+            <rdf:Description rdf:about="#R_GPDDA4">
+              <bqbiol:is xmlns:bqbiol="http://biomodels.net/biology-qualifiers/">
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+                  <rdf:li rdf:resource="http://identifiers.org/sabiork/13035"/>
+                  <rdf:li rdf:resource="http://identifiers.org/seed.reaction/rxn08669"/>
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+          <speciesReference species="M_h2o_c" stoichiometry="1" constant="true"/>
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+        <listOfProducts>
+          <speciesReference species="M_glyc3p_c" stoichiometry="1" constant="true"/>
+          <speciesReference species="M_glyc_c" stoichiometry="1" constant="true"/>
+          <speciesReference species="M_h_c" stoichiometry="1" constant="true"/>
+        </listOfProducts>
+        <fbc:geneProductAssociation>
+          <fbc:geneProductRef fbc:geneProduct="G_b3449"/>
+        </fbc:geneProductAssociation>
+      </reaction>
+      <reaction id="R_LPLIPAL2ATG120" fast="false" reversible="false" name="Lysophospholipase L2 (acyltransferase, 2-acyl-glycerophosphoglycerol, n-C12:0)" metaid="R_LPLIPAL2ATG120" sboTerm="SBO:0000176" fbc:upperFluxBound="cobra_default_ub" fbc:lowerFluxBound="cobra_0_bound">
+        <sbml:annotation xmlns:sbml="http://www.sbml.org/sbml/level3/version1/core">
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+            </rdf:Description>
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+        </sbml:annotation>
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+          <speciesReference species="M_2agpg120_c" stoichiometry="1" constant="true"/>
+          <speciesReference species="M_pg120_c" stoichiometry="1" constant="true"/>
+        </listOfReactants>
+        <listOfProducts>
+          <speciesReference species="M_apg120_c" stoichiometry="1" constant="true"/>
+          <speciesReference species="M_g3pg_c" stoichiometry="1" constant="true"/>
+        </listOfProducts>
+        <fbc:geneProductAssociation>
+          <fbc:geneProductRef fbc:geneProduct="G_b3825"/>
+        </fbc:geneProductAssociation>
+      </reaction>
+      <reaction id="R_PLIPA1E140pp" fast="false" reversible="false" name="Phospholipase A1 (phosphatidylethanolamine, n-C14:0) (periplasm)" metaid="R_PLIPA1E140pp" sboTerm="SBO:0000176" fbc:upperFluxBound="cobra_default_ub" fbc:lowerFluxBound="cobra_0_bound">
+        <sbml:annotation xmlns:sbml="http://www.sbml.org/sbml/level3/version1/core">
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+          <speciesReference species="M_h2o_p" stoichiometry="1" constant="true"/>
+          <speciesReference species="M_pe140_p" stoichiometry="1" constant="true"/>
+        </listOfReactants>
+        <listOfProducts>
+          <speciesReference species="M_2agpe140_p" stoichiometry="1" constant="true"/>
+          <speciesReference species="M_h_p" stoichiometry="1" constant="true"/>
+          <speciesReference species="M_ttdca_p" stoichiometry="1" constant="true"/>
+        </listOfProducts>
+        <fbc:geneProductAssociation>
+          <fbc:geneProductRef fbc:geneProduct="G_b3821"/>
+        </fbc:geneProductAssociation>
+      </reaction>
+      <reaction id="R_LPLIPAL2E140" fast="false" reversible="false" name="Lysophospholipase L2 (2-acylglycerophosphoethanolamine, n-C14:0)" metaid="R_LPLIPAL2E140" sboTerm="SBO:0000176" fbc:upperFluxBound="cobra_default_ub" fbc:lowerFluxBound="cobra_0_bound">
+        <sbml:annotation xmlns:sbml="http://www.sbml.org/sbml/level3/version1/core">
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+              <bqbiol:is xmlns:bqbiol="http://biomodels.net/biology-qualifiers/">
+                <rdf:Bag>
+                  <rdf:li rdf:resource="http://identifiers.org/bigg.reaction/LPLIPAL2E140"/>
+                  <rdf:li rdf:resource="http://identifiers.org/metanetx.reaction/MNXR101184"/>
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+          <speciesReference species="M_2agpe140_c" stoichiometry="1" constant="true"/>
+          <speciesReference species="M_h2o_c" stoichiometry="1" constant="true"/>
+        </listOfReactants>
+        <listOfProducts>
+          <speciesReference species="M_g3pe_c" stoichiometry="1" constant="true"/>
+          <speciesReference species="M_h_c" stoichiometry="1" constant="true"/>
+          <speciesReference species="M_ttdca_c" stoichiometry="1" constant="true"/>
+        </listOfProducts>
+        <fbc:geneProductAssociation>
+          <fbc:geneProductRef fbc:geneProduct="G_b3825"/>
+        </fbc:geneProductAssociation>
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+      <reaction id="R_PLIPA1E160pp" fast="false" reversible="false" name="Phospholipase A1 (phosphatidylethanolamine, n-C16:0) (periplasm)" metaid="R_PLIPA1E160pp" sboTerm="SBO:0000176" fbc:upperFluxBound="cobra_default_ub" fbc:lowerFluxBound="cobra_0_bound">
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+          <speciesReference species="M_pe160_p" stoichiometry="1" constant="true"/>
+        </listOfReactants>
+        <listOfProducts>
+          <speciesReference species="M_2agpe160_p" stoichiometry="1" constant="true"/>
+          <speciesReference species="M_h_p" stoichiometry="1" constant="true"/>
+          <speciesReference species="M_hdca_p" stoichiometry="1" constant="true"/>
+        </listOfProducts>
+        <fbc:geneProductAssociation>
+          <fbc:geneProductRef fbc:geneProduct="G_b3821"/>
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+                  <rdf:li rdf:resource="http://identifiers.org/sabiork/1354"/>
+                  <rdf:li rdf:resource="http://identifiers.org/seed.reaction/rxn00808"/>
+                </rdf:Bag>
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+            </rdf:Description>
+          </rdf:RDF>
+        </sbml:annotation>
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+          <speciesReference species="M_atp_c" stoichiometry="1" constant="true"/>
+          <speciesReference species="M_gal_c" stoichiometry="1" constant="true"/>
+        </listOfReactants>
+        <listOfProducts>
+          <speciesReference species="M_adp_c" stoichiometry="1" constant="true"/>
+          <speciesReference species="M_gal1p_c" stoichiometry="1" constant="true"/>
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+        </listOfProducts>
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+          <fbc:geneProductRef fbc:geneProduct="G_b0757"/>
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+      </reaction>
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+        </listOfProducts>
+        <fbc:geneProductAssociation>
+          <fbc:geneProductRef fbc:geneProduct="G_b3821"/>
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+          <speciesReference species="M_dcaACP_c" stoichiometry="1" constant="true"/>
+          <speciesReference species="M_ppi_c" stoichiometry="1" constant="true"/>
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+            <fbc:geneProductRef fbc:geneProduct="G_b2836"/>
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+        </fbc:geneProductAssociation>
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+          <speciesReference species="M_octa_c" stoichiometry="1" constant="true"/>
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+        <listOfProducts>
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+          <speciesReference species="M_ocACP_c" stoichiometry="1" constant="true"/>
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+          <speciesReference species="M_h_c" stoichiometry="1" constant="true"/>
+          <speciesReference species="M_ocdca_c" stoichiometry="1" constant="true"/>
+        </listOfProducts>
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+          <fbc:geneProductRef fbc:geneProduct="G_b3825"/>
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+          <speciesReference species="M_hdcea_c" stoichiometry="1" constant="true"/>
+        </listOfProducts>
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+          <fbc:geneProductRef fbc:geneProduct="G_b3825"/>
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+          <fbc:geneProductRef fbc:geneProduct="G_b2835"/>
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+        <listOfProducts>
+          <speciesReference species="M_ac_c" stoichiometry="1" constant="true"/>
+          <speciesReference species="M_hxcoa_c" stoichiometry="1" constant="true"/>
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+            <fbc:geneProductRef fbc:geneProduct="G_b2221"/>
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+        </fbc:geneProductAssociation>
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+          <speciesReference species="M_ocdcaACP_c" stoichiometry="1" constant="true"/>
+          <speciesReference species="M_ppi_c" stoichiometry="1" constant="true"/>
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+            <fbc:geneProductRef fbc:geneProduct="G_b2836"/>
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+                  <rdf:li rdf:resource="http://identifiers.org/seed.reaction/rxn07949"/>
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+          <speciesReference species="M_hdca_c" stoichiometry="1" constant="true"/>
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+          <speciesReference species="M_pe160_c" stoichiometry="1" constant="true"/>
+          <speciesReference species="M_ppi_c" stoichiometry="1" constant="true"/>
+        </listOfProducts>
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+          <speciesReference species="M_ddcaACP_c" stoichiometry="1" constant="true"/>
+          <speciesReference species="M_ppi_c" stoichiometry="1" constant="true"/>
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+                  <rdf:li rdf:resource="http://identifiers.org/seed.reaction/rxn01791"/>
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+          <speciesReference species="M_g3pg_c" stoichiometry="1" constant="true"/>
+          <speciesReference species="M_h_c" stoichiometry="1" constant="true"/>
+          <speciesReference species="M_pi_c" stoichiometry="1" constant="true"/>
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+            <fbc:geneProductRef fbc:geneProduct="G_b3451"/>
+            <fbc:geneProductRef fbc:geneProduct="G_b3453"/>
+            <fbc:geneProductRef fbc:geneProduct="G_b3452"/>
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+        </fbc:geneProductAssociation>
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+      <reaction id="R_G3PIabcpp" fast="false" reversible="false" name="Sn-glycerol-3-phosphoethanolamine transport via ABC system (periplasm)" metaid="R_G3PIabcpp" sboTerm="SBO:0000185" fbc:upperFluxBound="cobra_default_ub" fbc:lowerFluxBound="cobra_0_bound">
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+          <speciesReference species="M_g3pi_c" stoichiometry="1" constant="true"/>
+          <speciesReference species="M_h_c" stoichiometry="1" constant="true"/>
+          <speciesReference species="M_pi_c" stoichiometry="1" constant="true"/>
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+            <fbc:geneProductRef fbc:geneProduct="G_b3451"/>
+            <fbc:geneProductRef fbc:geneProduct="G_b3453"/>
+            <fbc:geneProductRef fbc:geneProduct="G_b3452"/>
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+        </fbc:geneProductAssociation>
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+                  <rdf:li rdf:resource="http://identifiers.org/rhea/20192"/>
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+                  <rdf:li rdf:resource="http://identifiers.org/rhea/20190"/>
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+          <speciesReference species="M_nad_c" stoichiometry="1" constant="true"/>
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+        <listOfProducts>
+          <speciesReference species="M_h_c" stoichiometry="1" constant="true"/>
+          <speciesReference species="M_nadh_c" stoichiometry="1" constant="true"/>
+          <speciesReference species="M_ura_c" stoichiometry="1" constant="true"/>
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+            <fbc:geneProductRef fbc:geneProduct="G_b2146"/>
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+        </fbc:geneProductAssociation>
+      </reaction>
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+          <speciesReference species="M_hdd2coa_c" stoichiometry="1" constant="true"/>
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+            <fbc:geneProductRef fbc:geneProduct="G_b3846"/>
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+        </fbc:geneProductAssociation>
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+        <sbml:annotation xmlns:sbml="http://www.sbml.org/sbml/level3/version1/core">
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+                  <rdf:li rdf:resource="http://identifiers.org/rhea/19936"/>
+                  <rdf:li rdf:resource="http://identifiers.org/rhea/19935"/>
+                  <rdf:li rdf:resource="http://identifiers.org/rhea/19934"/>
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+                  <rdf:li rdf:resource="http://identifiers.org/sabiork/9953"/>
+                  <rdf:li rdf:resource="http://identifiers.org/seed.reaction/rxn00221"/>
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+          <speciesReference species="M_h2o_p" stoichiometry="1" constant="true"/>
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+        <listOfProducts>
+          <speciesReference species="M_glc__D_p" stoichiometry="1" constant="true"/>
+          <speciesReference species="M_pi_p" stoichiometry="1" constant="true"/>
+        </listOfProducts>
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+          <fbc:or>
+            <fbc:geneProductRef fbc:geneProduct="G_b1002"/>
+            <fbc:geneProductRef fbc:geneProduct="G_b0383"/>
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+                  <rdf:li rdf:resource="http://identifiers.org/seed.reaction/rxn02173"/>
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+          <speciesReference species="M_galctn__D_c" stoichiometry="1" constant="true"/>
+        </listOfReactants>
+        <listOfProducts>
+          <speciesReference species="M_2dh3dgal_c" stoichiometry="1" constant="true"/>
+          <speciesReference species="M_h2o_c" stoichiometry="1" constant="true"/>
+        </listOfProducts>
+        <fbc:geneProductAssociation>
+          <fbc:geneProductRef fbc:geneProduct="G_b4478"/>
+        </fbc:geneProductAssociation>
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+          <speciesReference species="M_h2o_c" stoichiometry="1" constant="true"/>
+          <speciesReference species="M_nad_c" stoichiometry="1" constant="true"/>
+        </listOfReactants>
+        <listOfProducts>
+          <speciesReference species="M_glyclt_c" stoichiometry="1" constant="true"/>
+          <speciesReference species="M_h_c" stoichiometry="2" constant="true"/>
+          <speciesReference species="M_nadh_c" stoichiometry="1" constant="true"/>
+        </listOfProducts>
+        <fbc:geneProductAssociation>
+          <fbc:geneProductRef fbc:geneProduct="G_b1415"/>
+        </fbc:geneProductAssociation>
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+          <speciesReference species="M_hisp_c" stoichiometry="1" constant="true"/>
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+          <speciesReference species="M_pi_c" stoichiometry="1" constant="true"/>
+        </listOfProducts>
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+          <fbc:geneProductRef fbc:geneProduct="G_b2022"/>
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+          <speciesReference species="M_h2o_c" stoichiometry="1" constant="true"/>
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+          <speciesReference species="M_g3ps_c" stoichiometry="1" constant="true"/>
+          <speciesReference species="M_h_c" stoichiometry="1" constant="true"/>
+          <speciesReference species="M_pi_c" stoichiometry="1" constant="true"/>
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+            <fbc:geneProductRef fbc:geneProduct="G_b3453"/>
+            <fbc:geneProductRef fbc:geneProduct="G_b3452"/>
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+          <speciesReference species="M_ttdcea_c" stoichiometry="1" constant="true"/>
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+          <speciesReference species="M_nadh_c" stoichiometry="1" constant="true"/>
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+          <fbc:geneProductRef fbc:geneProduct="G_b1380"/>
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+            <fbc:geneProductRef fbc:geneProduct="G_b3399"/>
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+          <speciesReference species="M_ocdcea_c" stoichiometry="1" constant="true"/>
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+        <fbc:geneProductAssociation>
+          <fbc:geneProductRef fbc:geneProduct="G_b3825"/>
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+          <speciesReference species="M_psd5p_c" stoichiometry="1" constant="true"/>
+        </listOfProducts>
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+          <speciesReference species="M_h_c" stoichiometry="1" constant="true"/>
+          <speciesReference species="M_ocdca_c" stoichiometry="1" constant="true"/>
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+          <fbc:geneProductRef fbc:geneProduct="G_b2889"/>
+        </fbc:geneProductAssociation>
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+      <reaction id="R_ORNDC" fast="false" reversible="false" name="Ornithine Decarboxylase" metaid="R_ORNDC" sboTerm="SBO:0000176" fbc:upperFluxBound="cobra_default_ub" fbc:lowerFluxBound="cobra_0_bound">
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+          <speciesReference species="M_ptrc_c" stoichiometry="1" constant="true"/>
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+            <fbc:geneProductRef fbc:geneProduct="G_b0693"/>
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+        </fbc:geneProductAssociation>
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+          <speciesReference species="M_co2_c" stoichiometry="1" constant="true"/>
+          <speciesReference species="M_coa_c" stoichiometry="1" constant="true"/>
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+            <fbc:geneProductRef fbc:geneProduct="G_b2215"/>
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+          <speciesReference species="M_h_c" stoichiometry="1" constant="true"/>
+          <speciesReference species="M_odecoa_c" stoichiometry="1" constant="true"/>
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+          <speciesReference species="M_cdec3eACP_c" stoichiometry="1" constant="true"/>
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+          <fbc:geneProductRef fbc:geneProduct="G_b0954"/>
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+          <speciesReference species="M_pg180_c" stoichiometry="1" constant="true"/>
+          <speciesReference species="M_ppi_c" stoichiometry="1" constant="true"/>
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+          <speciesReference species="M_tdeACP_c" stoichiometry="1" constant="true"/>
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+          <speciesReference species="M_3ocpalm9eACP_c" stoichiometry="1" constant="true"/>
+          <speciesReference species="M_ACP_c" stoichiometry="1" constant="true"/>
+          <speciesReference species="M_co2_c" stoichiometry="1" constant="true"/>
+        </listOfProducts>
+        <fbc:geneProductAssociation>
+          <fbc:geneProductRef fbc:geneProduct="G_b2323"/>
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+          <speciesReference species="M_nadh_c" stoichiometry="1" constant="true"/>
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+          <speciesReference species="M_dca_c" stoichiometry="1" constant="true"/>
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+      <reaction id="R_FACOAE80" fast="false" reversible="false" name="Fatty-acid-CoA thioesterase (octanoate)" metaid="R_FACOAE80" sboTerm="SBO:0000176" fbc:upperFluxBound="cobra_default_ub" fbc:lowerFluxBound="cobra_0_bound">
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+          <speciesReference species="M_occoa_c" stoichiometry="1" constant="true"/>
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+        <listOfProducts>
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+          <speciesReference species="M_h_c" stoichiometry="1" constant="true"/>
+          <speciesReference species="M_octa_c" stoichiometry="1" constant="true"/>
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+          <fbc:geneProductRef fbc:geneProduct="G_b0452"/>
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+          <speciesReference species="M_hxcoa_c" stoichiometry="1" constant="true"/>
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+        <listOfProducts>
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+          <speciesReference species="M_hxa_c" stoichiometry="1" constant="true"/>
+        </listOfProducts>
+        <fbc:geneProductAssociation>
+          <fbc:geneProductRef fbc:geneProduct="G_b0452"/>
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+      <reaction id="R_CLPNS180pp" fast="false" reversible="true" name="Cardiolipin synthase (periplasmic, n-C18:0)" metaid="R_CLPNS180pp" sboTerm="SBO:0000176" fbc:upperFluxBound="cobra_default_ub" fbc:lowerFluxBound="cobra_default_lb">
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+        <listOfProducts>
+          <speciesReference species="M_clpn180_p" stoichiometry="1" constant="true"/>
+          <speciesReference species="M_glyc_p" stoichiometry="1" constant="true"/>
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+            <fbc:geneProductRef fbc:geneProduct="G_b0789"/>
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+        </fbc:geneProductAssociation>
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+      <reaction id="R_PLIPA1E120pp" fast="false" reversible="false" name="Phospholipase A1 (phosphatidylethanolamine, n-C12:0) (periplasm)" metaid="R_PLIPA1E120pp" sboTerm="SBO:0000176" fbc:upperFluxBound="cobra_default_ub" fbc:lowerFluxBound="cobra_0_bound">
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+          <speciesReference species="M_pe120_p" stoichiometry="1" constant="true"/>
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+          <speciesReference species="M_2agpe120_p" stoichiometry="1" constant="true"/>
+          <speciesReference species="M_ddca_p" stoichiometry="1" constant="true"/>
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+          <fbc:geneProductRef fbc:geneProduct="G_b3821"/>
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+            <fbc:geneProductRef fbc:geneProduct="G_b0789"/>
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+        </fbc:geneProductAssociation>
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+          <speciesReference species="M_pgp120_p" stoichiometry="1" constant="true"/>
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+        <listOfProducts>
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+            <fbc:geneProductRef fbc:geneProduct="G_b0929"/>
+            <fbc:geneProductRef fbc:geneProduct="G_b1377"/>
+            <fbc:geneProductRef fbc:geneProduct="G_b2215"/>
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+                  <rdf:li rdf:resource="http://identifiers.org/rhea/34925"/>
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+          <speciesReference species="M_no3_p" stoichiometry="1" constant="true"/>
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+          <speciesReference species="M_malACP_c" stoichiometry="1" constant="true"/>
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+          <speciesReference species="M_co2_c" stoichiometry="1" constant="true"/>
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+          <fbc:geneProductRef fbc:geneProduct="G_b0914"/>
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+          <speciesReference species="M_2agpg120_p" stoichiometry="1" constant="true"/>
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+          <speciesReference species="M_h_p" stoichiometry="1" constant="true"/>
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+          <fbc:geneProductRef fbc:geneProduct="G_b3821"/>
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+          <speciesReference species="M_h_c" stoichiometry="1" constant="true"/>
+          <speciesReference species="M_ura_c" stoichiometry="1" constant="true"/>
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+            <fbc:geneProductRef fbc:geneProduct="G_b1006"/>
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+        </fbc:geneProductAssociation>
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+          <speciesReference species="M_h_c" stoichiometry="1" constant="true"/>
+          <speciesReference species="M_ttdcea_c" stoichiometry="1" constant="true"/>
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+        <listOfProducts>
+          <speciesReference species="M_clpn120_p" stoichiometry="1" constant="true"/>
+          <speciesReference species="M_glyc_p" stoichiometry="1" constant="true"/>
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+            <fbc:geneProductRef fbc:geneProduct="G_b1249"/>
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+        </fbc:geneProductAssociation>
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+            <fbc:geneProductRef fbc:geneProduct="G_b0657"/>
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+        </fbc:geneProductAssociation>
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+          <speciesReference species="M_hdcea_c" stoichiometry="1" constant="true"/>
+        </listOfProducts>
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+          <fbc:geneProductRef fbc:geneProduct="G_b0452"/>
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+          <speciesReference species="M_pg160_p" stoichiometry="1" constant="true"/>
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+        <listOfProducts>
+          <speciesReference species="M_2agpg160_p" stoichiometry="1" constant="true"/>
+          <speciesReference species="M_lpp_p" stoichiometry="1" constant="true"/>
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+            <fbc:geneProductRef fbc:geneProduct="G_b0657"/>
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+          <speciesReference species="M_g3pe_c" stoichiometry="1" constant="true"/>
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+        <fbc:geneProductAssociation>
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+      <reaction id="R_ALAALAD" fast="false" reversible="false" name="D-alanine-D-alanine dipeptidase" metaid="R_ALAALAD" sboTerm="SBO:0000176" fbc:upperFluxBound="cobra_default_ub" fbc:lowerFluxBound="cobra_0_bound">
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+        <listOfProducts>
+          <speciesReference species="M_ala__D_c" stoichiometry="2" constant="true"/>
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+        <fbc:geneProductAssociation>
+          <fbc:geneProductRef fbc:geneProduct="G_b1488"/>
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+          <speciesReference species="M_ocdca_c" stoichiometry="1" constant="true"/>
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+        <listOfProducts>
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+          <speciesReference species="M_pe180_c" stoichiometry="1" constant="true"/>
+          <speciesReference species="M_ppi_c" stoichiometry="1" constant="true"/>
+        </listOfProducts>
+        <fbc:geneProductAssociation>
+          <fbc:geneProductRef fbc:geneProduct="G_b2836"/>
+        </fbc:geneProductAssociation>
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+        <listOfProducts>
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+          <speciesReference species="M_g3pe_c" stoichiometry="1" constant="true"/>
+        </listOfProducts>
+        <fbc:geneProductAssociation>
+          <fbc:geneProductRef fbc:geneProduct="G_b3825"/>
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+                  <rdf:li rdf:resource="http://identifiers.org/seed.reaction/rxn09050"/>
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+        </listOfProducts>
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+          <speciesReference species="M_pg180_c" stoichiometry="1" constant="true"/>
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+        </listOfProducts>
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+          <fbc:geneProductRef fbc:geneProduct="G_b3825"/>
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+          <speciesReference species="M_g3pe_c" stoichiometry="1" constant="true"/>
+        </listOfProducts>
+        <fbc:geneProductAssociation>
+          <fbc:geneProductRef fbc:geneProduct="G_b3825"/>
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+          <speciesReference species="M_ocdcea_c" stoichiometry="1" constant="true"/>
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+          <speciesReference species="M_pe181_c" stoichiometry="1" constant="true"/>
+          <speciesReference species="M_ppi_c" stoichiometry="1" constant="true"/>
+        </listOfProducts>
+        <fbc:geneProductAssociation>
+          <fbc:geneProductRef fbc:geneProduct="G_b2836"/>
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+      <reaction id="R_2AGPGAT140" fast="false" reversible="false" name="2-acyl-glycerophospho-glycerol acyltransferase (n-C14:0)" metaid="R_2AGPGAT140" sboTerm="SBO:0000176" fbc:upperFluxBound="cobra_default_ub" fbc:lowerFluxBound="cobra_0_bound">
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+          <speciesReference species="M_ttdca_c" stoichiometry="1" constant="true"/>
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+          <speciesReference species="M_ppi_c" stoichiometry="1" constant="true"/>
+        </listOfProducts>
+        <fbc:geneProductAssociation>
+          <fbc:geneProductRef fbc:geneProduct="G_b2836"/>
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+        </listOfReactants>
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+          <speciesReference species="M_2agpe181_p" stoichiometry="1" constant="true"/>
+          <speciesReference species="M_h_p" stoichiometry="1" constant="true"/>
+          <speciesReference species="M_ocdcea_p" stoichiometry="1" constant="true"/>
+        </listOfProducts>
+        <fbc:geneProductAssociation>
+          <fbc:geneProductRef fbc:geneProduct="G_b3821"/>
+        </fbc:geneProductAssociation>
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+      <reaction id="R_PLIPA1G180pp" fast="false" reversible="false" name="Phospholipase A1 (phosphatidylglycerol, n-C18:0) (periplasm)" metaid="R_PLIPA1G180pp" sboTerm="SBO:0000176" fbc:upperFluxBound="cobra_default_ub" fbc:lowerFluxBound="cobra_0_bound">
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+          <speciesReference species="M_ocdca_p" stoichiometry="1" constant="true"/>
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+          <fbc:geneProductRef fbc:geneProduct="G_b3821"/>
+        </fbc:geneProductAssociation>
+      </reaction>
+      <reaction id="R_LPLIPAL2ATE161" fast="false" reversible="false" name="Lysophospholipase L2 (acyltransferase, 2-acyl-glycerophosphoethanolamine, n-C16:1)" metaid="R_LPLIPAL2ATE161" sboTerm="SBO:0000176" fbc:upperFluxBound="cobra_default_ub" fbc:lowerFluxBound="cobra_0_bound">
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+          <speciesReference species="M_pg161_c" stoichiometry="1" constant="true"/>
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+        <listOfProducts>
+          <speciesReference species="M_apg161_c" stoichiometry="1" constant="true"/>
+          <speciesReference species="M_g3pe_c" stoichiometry="1" constant="true"/>
+        </listOfProducts>
+        <fbc:geneProductAssociation>
+          <fbc:geneProductRef fbc:geneProduct="G_b3825"/>
+        </fbc:geneProductAssociation>
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+      <reaction id="R_LPLIPAL2ATE181" fast="false" reversible="false" name="Lysophospholipase L2 (acyltransferase, 2-acyl-glycerophosphoethanolamine, n-C18:1)" metaid="R_LPLIPAL2ATE181" sboTerm="SBO:0000176" fbc:upperFluxBound="cobra_default_ub" fbc:lowerFluxBound="cobra_0_bound">
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+          <speciesReference species="M_g3pe_c" stoichiometry="1" constant="true"/>
+        </listOfProducts>
+        <fbc:geneProductAssociation>
+          <fbc:geneProductRef fbc:geneProduct="G_b3825"/>
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+      <reaction id="R_FACOAL141t2pp" fast="false" reversible="false" name="Fatty-acid-CoA ligase (tetradecenoate transport via vectoral Co-A coupling)" metaid="R_FACOAL141t2pp" sboTerm="SBO:0000185" fbc:upperFluxBound="cobra_default_ub" fbc:lowerFluxBound="cobra_0_bound">
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+          <speciesReference species="M_h_p" stoichiometry="1" constant="true"/>
+          <speciesReference species="M_ttdcea_p" stoichiometry="1" constant="true"/>
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+        <listOfProducts>
+          <speciesReference species="M_amp_c" stoichiometry="1" constant="true"/>
+          <speciesReference species="M_h_c" stoichiometry="1" constant="true"/>
+          <speciesReference species="M_ppi_c" stoichiometry="1" constant="true"/>
+          <speciesReference species="M_tdecoa_c" stoichiometry="1" constant="true"/>
+        </listOfProducts>
+        <fbc:geneProductAssociation>
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+            <fbc:geneProductRef fbc:geneProduct="G_b1701"/>
+            <fbc:geneProductRef fbc:geneProduct="G_b1805"/>
+          </fbc:or>
+        </fbc:geneProductAssociation>
+      </reaction>
+      <reaction id="R_FACOAL161t2pp" fast="false" reversible="false" name="Fatty-acid-CoA ligase (hexadecenoate transport via vectoral Co-A coupling)" metaid="R_FACOAL161t2pp" sboTerm="SBO:0000185" fbc:upperFluxBound="cobra_default_ub" fbc:lowerFluxBound="cobra_0_bound">
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+          <speciesReference species="M_h_p" stoichiometry="1" constant="true"/>
+          <speciesReference species="M_hdcea_p" stoichiometry="1" constant="true"/>
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+        <listOfProducts>
+          <speciesReference species="M_amp_c" stoichiometry="1" constant="true"/>
+          <speciesReference species="M_h_c" stoichiometry="1" constant="true"/>
+          <speciesReference species="M_hdcoa_c" stoichiometry="1" constant="true"/>
+          <speciesReference species="M_ppi_c" stoichiometry="1" constant="true"/>
+        </listOfProducts>
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+            <fbc:geneProductRef fbc:geneProduct="G_b1701"/>
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+        </fbc:geneProductAssociation>
+      </reaction>
+      <reaction id="R_PA160abcpp" fast="false" reversible="false" name="Phosphatidate transport via ABC system (n-C16:0, periplasm)" metaid="R_PA160abcpp" sboTerm="SBO:0000185" fbc:upperFluxBound="cobra_default_ub" fbc:lowerFluxBound="cobra_0_bound">
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+        <listOfProducts>
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+          <speciesReference species="M_h_c" stoichiometry="1" constant="true"/>
+          <speciesReference species="M_pa160_p" stoichiometry="1" constant="true"/>
+          <speciesReference species="M_pi_c" stoichiometry="1" constant="true"/>
+        </listOfProducts>
+        <fbc:geneProductAssociation>
+          <fbc:geneProductRef fbc:geneProduct="G_b0914"/>
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+      <reaction id="R_PLIPA1G181pp" fast="false" reversible="false" name="Phospholipase A1 (phosphatidylglycerol, n-C18:1) (periplasm)" metaid="R_PLIPA1G181pp" sboTerm="SBO:0000176" fbc:upperFluxBound="cobra_default_ub" fbc:lowerFluxBound="cobra_0_bound">
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+          <speciesReference species="M_pg181_p" stoichiometry="1" constant="true"/>
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+        <listOfProducts>
+          <speciesReference species="M_2agpg181_p" stoichiometry="1" constant="true"/>
+          <speciesReference species="M_h_p" stoichiometry="1" constant="true"/>
+          <speciesReference species="M_ocdcea_p" stoichiometry="1" constant="true"/>
+        </listOfProducts>
+        <fbc:geneProductAssociation>
+          <fbc:geneProductRef fbc:geneProduct="G_b3821"/>
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+      </reaction>
+      <reaction id="R_ALAALAabcpp" fast="false" reversible="false" name="D-alanyl-D-alanine (DalaDala) transport via ABC system (periplasm)" metaid="R_ALAALAabcpp" sboTerm="SBO:0000185" fbc:upperFluxBound="cobra_default_ub" fbc:lowerFluxBound="cobra_0_bound">
+        <sbml:annotation xmlns:sbml="http://www.sbml.org/sbml/level3/version1/core">
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+              <bqbiol:is xmlns:bqbiol="http://biomodels.net/biology-qualifiers/">
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+            </rdf:Description>
+          </rdf:RDF>
+        </sbml:annotation>
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+          <speciesReference species="M_h2o_c" stoichiometry="1" constant="true"/>
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+        <listOfProducts>
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+          <speciesReference species="M_alaala_c" stoichiometry="1" constant="true"/>
+          <speciesReference species="M_h_c" stoichiometry="1" constant="true"/>
+          <speciesReference species="M_pi_c" stoichiometry="1" constant="true"/>
+        </listOfProducts>
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+              <fbc:geneProductRef fbc:geneProduct="G_b3542"/>
+              <fbc:geneProductRef fbc:geneProduct="G_b3543"/>
+              <fbc:geneProductRef fbc:geneProduct="G_b3540"/>
+              <fbc:geneProductRef fbc:geneProduct="G_b3541"/>
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+            <fbc:and>
+              <fbc:geneProductRef fbc:geneProduct="G_b1487"/>
+              <fbc:geneProductRef fbc:geneProduct="G_b1486"/>
+              <fbc:geneProductRef fbc:geneProduct="G_b1483"/>
+              <fbc:geneProductRef fbc:geneProduct="G_b1485"/>
+              <fbc:geneProductRef fbc:geneProduct="G_b1484"/>
+            </fbc:and>
+          </fbc:or>
+        </fbc:geneProductAssociation>
+      </reaction>
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+                  <rdf:li rdf:resource="http://identifiers.org/metanetx.reaction/MNXR100622"/>
+                  <rdf:li rdf:resource="http://identifiers.org/seed.reaction/rxn12596"/>
+                  <rdf:li rdf:resource="http://identifiers.org/seed.reaction/rxn08714"/>
+                </rdf:Bag>
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+        </listOfReactants>
+        <listOfProducts>
+          <speciesReference species="M_h_c" stoichiometry="1" constant="true"/>
+          <speciesReference species="M_hxa_c" stoichiometry="1" constant="true"/>
+        </listOfProducts>
+        <fbc:geneProductAssociation>
+          <fbc:geneProductRef fbc:geneProduct="G_b2223"/>
+        </fbc:geneProductAssociation>
+      </reaction>
+      <reaction id="R_G3PEabcpp" fast="false" reversible="false" name="Sn-glycerol-3-phosphoethanolamine transport via ABC system (periplasm)" metaid="R_G3PEabcpp" sboTerm="SBO:0000185" fbc:upperFluxBound="cobra_default_ub" fbc:lowerFluxBound="cobra_0_bound">
+        <sbml:annotation xmlns:sbml="http://www.sbml.org/sbml/level3/version1/core">
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+                  <rdf:li rdf:resource="http://identifiers.org/metanetx.reaction/MNXR99883"/>
+                  <rdf:li rdf:resource="http://identifiers.org/seed.reaction/rxn08559"/>
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+          </rdf:RDF>
+        </sbml:annotation>
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+        </listOfReactants>
+        <listOfProducts>
+          <speciesReference species="M_adp_c" stoichiometry="1" constant="true"/>
+          <speciesReference species="M_g3pe_c" stoichiometry="1" constant="true"/>
+          <speciesReference species="M_h_c" stoichiometry="1" constant="true"/>
+          <speciesReference species="M_pi_c" stoichiometry="1" constant="true"/>
+        </listOfProducts>
+        <fbc:geneProductAssociation>
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+            <fbc:geneProductRef fbc:geneProduct="G_b3450"/>
+            <fbc:geneProductRef fbc:geneProduct="G_b3451"/>
+            <fbc:geneProductRef fbc:geneProduct="G_b3453"/>
+            <fbc:geneProductRef fbc:geneProduct="G_b3452"/>
+          </fbc:and>
+        </fbc:geneProductAssociation>
+      </reaction>
+      <reaction id="R_G3PCabcpp" fast="false" reversible="false" name="Sn-glycerol-3-phosphocholine transport via ABC system (periplasm)" metaid="R_G3PCabcpp" sboTerm="SBO:0000185" fbc:upperFluxBound="cobra_default_ub" fbc:lowerFluxBound="cobra_0_bound">
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+              <bqbiol:is xmlns:bqbiol="http://biomodels.net/biology-qualifiers/">
+                <rdf:Bag>
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+          <speciesReference species="M_h2o_c" stoichiometry="1" constant="true"/>
+        </listOfReactants>
+        <listOfProducts>
+          <speciesReference species="M_adp_c" stoichiometry="1" constant="true"/>
+          <speciesReference species="M_g3pc_c" stoichiometry="1" constant="true"/>
+          <speciesReference species="M_h_c" stoichiometry="1" constant="true"/>
+          <speciesReference species="M_pi_c" stoichiometry="1" constant="true"/>
+        </listOfProducts>
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+            <fbc:geneProductRef fbc:geneProduct="G_b3451"/>
+            <fbc:geneProductRef fbc:geneProduct="G_b3453"/>
+            <fbc:geneProductRef fbc:geneProduct="G_b3452"/>
+          </fbc:and>
+        </fbc:geneProductAssociation>
+      </reaction>
+      <reaction id="R_2AGPGAT161" fast="false" reversible="false" name="2-acyl-glycerophospho-glycerol acyltransferase (n-C16:1)" metaid="R_2AGPGAT161" sboTerm="SBO:0000176" fbc:upperFluxBound="cobra_default_ub" fbc:lowerFluxBound="cobra_0_bound">
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+              <bqbiol:is xmlns:bqbiol="http://biomodels.net/biology-qualifiers/">
+                <rdf:Bag>
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+          <speciesReference species="M_hdcea_c" stoichiometry="1" constant="true"/>
+        </listOfReactants>
+        <listOfProducts>
+          <speciesReference species="M_amp_c" stoichiometry="1" constant="true"/>
+          <speciesReference species="M_pg161_c" stoichiometry="1" constant="true"/>
+          <speciesReference species="M_ppi_c" stoichiometry="1" constant="true"/>
+        </listOfProducts>
+        <fbc:geneProductAssociation>
+          <fbc:geneProductRef fbc:geneProduct="G_b2836"/>
+        </fbc:geneProductAssociation>
+      </reaction>
+      <reaction id="R_PA181abcpp" fast="false" reversible="false" name="Phosphatidate transport via ABC system (n-C18:1, periplasm)" metaid="R_PA181abcpp" sboTerm="SBO:0000185" fbc:upperFluxBound="cobra_default_ub" fbc:lowerFluxBound="cobra_0_bound">
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+                  <rdf:li rdf:resource="http://identifiers.org/seed.reaction/rxn09059"/>
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+          <speciesReference species="M_pa181_c" stoichiometry="1" constant="true"/>
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+        <listOfProducts>
+          <speciesReference species="M_adp_c" stoichiometry="1" constant="true"/>
+          <speciesReference species="M_h_c" stoichiometry="1" constant="true"/>
+          <speciesReference species="M_pa181_p" stoichiometry="1" constant="true"/>
+          <speciesReference species="M_pi_c" stoichiometry="1" constant="true"/>
+        </listOfProducts>
+        <fbc:geneProductAssociation>
+          <fbc:geneProductRef fbc:geneProduct="G_b0914"/>
+        </fbc:geneProductAssociation>
+      </reaction>
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+        </listOfReactants>
+        <listOfProducts>
+          <speciesReference species="M_12dgr141_c" stoichiometry="1" constant="true"/>
+        </listOfProducts>
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+      <reaction id="R_AMPTASEPG" fast="false" reversible="false" name="Aminopeptidase (pro-gly)" metaid="R_AMPTASEPG" sboTerm="SBO:0000176" fbc:upperFluxBound="cobra_default_ub" fbc:lowerFluxBound="cobra_0_bound">
+        <sbml:annotation xmlns:sbml="http://www.sbml.org/sbml/level3/version1/core">
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+                <rdf:Bag>
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+                  <rdf:li rdf:resource="http://identifiers.org/metanetx.reaction/MNXR95829"/>
+                  <rdf:li rdf:resource="http://identifiers.org/rhea/28802"/>
+                  <rdf:li rdf:resource="http://identifiers.org/rhea/28799"/>
+                  <rdf:li rdf:resource="http://identifiers.org/rhea/28801"/>
+                  <rdf:li rdf:resource="http://identifiers.org/rhea/28800"/>
+                  <rdf:li rdf:resource="http://identifiers.org/seed.reaction/rxn08133"/>
+                </rdf:Bag>
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+          </rdf:RDF>
+        </sbml:annotation>
+        <listOfReactants>
+          <speciesReference species="M_h2o_c" stoichiometry="1" constant="true"/>
+          <speciesReference species="M_progly_c" stoichiometry="1" constant="true"/>
+        </listOfReactants>
+        <listOfProducts>
+          <speciesReference species="M_gly_c" stoichiometry="1" constant="true"/>
+          <speciesReference species="M_pro__L_c" stoichiometry="1" constant="true"/>
+        </listOfProducts>
+        <fbc:geneProductAssociation>
+          <fbc:or>
+            <fbc:geneProductRef fbc:geneProduct="G_b2523"/>
+            <fbc:geneProductRef fbc:geneProduct="G_b0932"/>
+            <fbc:geneProductRef fbc:geneProduct="G_b4260"/>
+            <fbc:geneProductRef fbc:geneProduct="G_b0237"/>
+          </fbc:or>
+        </fbc:geneProductAssociation>
+      </reaction>
+      <reaction id="R_ADSL1r" fast="false" reversible="true" name="Adenylsuccinate lyase" metaid="R_ADSL1r" sboTerm="SBO:0000176" fbc:upperFluxBound="cobra_default_ub" fbc:lowerFluxBound="cobra_default_lb">
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+                  <rdf:li rdf:resource="http://identifiers.org/biocyc/META:AMPSYN-RXN"/>
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+                  <rdf:li rdf:resource="http://identifiers.org/reactome.reaction/R-RNO-73828"/>
+                  <rdf:li rdf:resource="http://identifiers.org/reactome.reaction/R-TGU-73828"/>
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+                  <rdf:li rdf:resource="http://identifiers.org/reactome.reaction/R-SSC-73828"/>
+                  <rdf:li rdf:resource="http://identifiers.org/reactome.reaction/R-DDI-73828"/>
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+                  <rdf:li rdf:resource="http://identifiers.org/rhea/16853"/>
+                  <rdf:li rdf:resource="http://identifiers.org/rhea/16856"/>
+                  <rdf:li rdf:resource="http://identifiers.org/rhea/16855"/>
+                  <rdf:li rdf:resource="http://identifiers.org/sabiork/306"/>
+                  <rdf:li rdf:resource="http://identifiers.org/seed.reaction/rxn00800"/>
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+        <listOfProducts>
+          <speciesReference species="M_amp_c" stoichiometry="1" constant="true"/>
+          <speciesReference species="M_fum_c" stoichiometry="1" constant="true"/>
+        </listOfProducts>
+        <fbc:geneProductAssociation>
+          <fbc:geneProductRef fbc:geneProduct="G_b1131"/>
+        </fbc:geneProductAssociation>
+      </reaction>
+      <reaction id="R_PROGLYabcpp" fast="false" reversible="false" name="L-Prolinylglycine (Pro-Gly) transport via ABC system (periplasm)" metaid="R_PROGLYabcpp" sboTerm="SBO:0000185" fbc:upperFluxBound="cobra_default_ub" fbc:lowerFluxBound="cobra_0_bound">
+        <sbml:annotation xmlns:sbml="http://www.sbml.org/sbml/level3/version1/core">
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+              <bqbiol:is xmlns:bqbiol="http://biomodels.net/biology-qualifiers/">
+                <rdf:Bag>
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+                  <rdf:li rdf:resource="http://identifiers.org/metanetx.reaction/MNXR103190"/>
+                  <rdf:li rdf:resource="http://identifiers.org/seed.reaction/rxn09189"/>
+                </rdf:Bag>
+              </bqbiol:is>
+            </rdf:Description>
+          </rdf:RDF>
+        </sbml:annotation>
+        <listOfReactants>
+          <speciesReference species="M_atp_c" stoichiometry="1" constant="true"/>
+          <speciesReference species="M_h2o_c" stoichiometry="1" constant="true"/>
+          <speciesReference species="M_progly_p" stoichiometry="1" constant="true"/>
+        </listOfReactants>
+        <listOfProducts>
+          <speciesReference species="M_adp_c" stoichiometry="1" constant="true"/>
+          <speciesReference species="M_h_c" stoichiometry="1" constant="true"/>
+          <speciesReference species="M_pi_c" stoichiometry="1" constant="true"/>
+          <speciesReference species="M_progly_c" stoichiometry="1" constant="true"/>
+        </listOfProducts>
+        <fbc:geneProductAssociation>
+          <fbc:and>
+            <fbc:geneProductRef fbc:geneProduct="G_b3544"/>
+            <fbc:geneProductRef fbc:geneProduct="G_b3542"/>
+            <fbc:geneProductRef fbc:geneProduct="G_b3540"/>
+            <fbc:geneProductRef fbc:geneProduct="G_b3541"/>
+            <fbc:geneProductRef fbc:geneProduct="G_b3543"/>
+          </fbc:and>
+        </fbc:geneProductAssociation>
+      </reaction>
+      <reaction id="R_GTHRDabcpp" fast="false" reversible="false" name="Reduced glutathione via ABC system (periplasm)" metaid="R_GTHRDabcpp" sboTerm="SBO:0000185" fbc:upperFluxBound="cobra_default_ub" fbc:lowerFluxBound="cobra_0_bound">
+        <sbml:annotation xmlns:sbml="http://www.sbml.org/sbml/level3/version1/core">
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+              <bqbiol:is xmlns:bqbiol="http://biomodels.net/biology-qualifiers/">
+                <rdf:Bag>
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+                  <rdf:li rdf:resource="http://identifiers.org/biocyc/META:RXN0-11"/>
+                  <rdf:li rdf:resource="http://identifiers.org/metanetx.reaction/MNXR100448"/>
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+                  <rdf:li rdf:resource="http://identifiers.org/rhea/29787#2"/>
+                  <rdf:li rdf:resource="http://identifiers.org/rhea/29792#1"/>
+                  <rdf:li rdf:resource="http://identifiers.org/rhea/29790#2"/>
+                  <rdf:li rdf:resource="http://identifiers.org/rhea/29793#1"/>
+                  <rdf:li rdf:resource="http://identifiers.org/rhea/29789#2"/>
+                  <rdf:li rdf:resource="http://identifiers.org/rhea/29794#1"/>
+                  <rdf:li rdf:resource="http://identifiers.org/rhea/29791#1"/>
+                  <rdf:li rdf:resource="http://identifiers.org/seed.reaction/rxn08676"/>
+                  <rdf:li rdf:resource="http://identifiers.org/seed.reaction/rxn13306"/>
+                </rdf:Bag>
+              </bqbiol:is>
+            </rdf:Description>
+          </rdf:RDF>
+        </sbml:annotation>
+        <listOfReactants>
+          <speciesReference species="M_atp_c" stoichiometry="1" constant="true"/>
+          <speciesReference species="M_gthrd_p" stoichiometry="1" constant="true"/>
+          <speciesReference species="M_h2o_c" stoichiometry="1" constant="true"/>
+        </listOfReactants>
+        <listOfProducts>
+          <speciesReference species="M_adp_c" stoichiometry="1" constant="true"/>
+          <speciesReference species="M_gthrd_c" stoichiometry="1" constant="true"/>
+          <speciesReference species="M_h_c" stoichiometry="1" constant="true"/>
+          <speciesReference species="M_pi_c" stoichiometry="1" constant="true"/>
+        </listOfProducts>
+        <fbc:geneProductAssociation>
+          <fbc:and>
+            <fbc:geneProductRef fbc:geneProduct="G_b0831"/>
+            <fbc:geneProductRef fbc:geneProduct="G_b0830"/>
+            <fbc:geneProductRef fbc:geneProduct="G_b0829"/>
+            <fbc:geneProductRef fbc:geneProduct="G_b0832"/>
+          </fbc:and>
+        </fbc:geneProductAssociation>
+      </reaction>
+      <reaction id="R_PGPP140pp" fast="false" reversible="false" name="Phosphatidylglycerol phosphate phosphatase (periplasm, n-C14:0)" metaid="R_PGPP140pp" sboTerm="SBO:0000176" fbc:upperFluxBound="cobra_default_ub" fbc:lowerFluxBound="cobra_0_bound">
+        <sbml:annotation xmlns:sbml="http://www.sbml.org/sbml/level3/version1/core">
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+              <bqbiol:is xmlns:bqbiol="http://biomodels.net/biology-qualifiers/">
+                <rdf:Bag>
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+                  <rdf:li rdf:resource="http://identifiers.org/metanetx.reaction/MNXR102561"/>
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+              </bqbiol:is>
+            </rdf:Description>
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+        </sbml:annotation>
+        <listOfReactants>
+          <speciesReference species="M_h2o_p" stoichiometry="1" constant="true"/>
+          <speciesReference species="M_pgp140_p" stoichiometry="1" constant="true"/>
+        </listOfReactants>
+        <listOfProducts>
+          <speciesReference species="M_pg140_p" stoichiometry="1" constant="true"/>
+          <speciesReference species="M_pi_p" stoichiometry="1" constant="true"/>
+        </listOfProducts>
+        <fbc:geneProductAssociation>
+          <fbc:or>
+            <fbc:geneProductRef fbc:geneProduct="G_b0418"/>
+            <fbc:geneProductRef fbc:geneProduct="G_b1278"/>
+          </fbc:or>
+        </fbc:geneProductAssociation>
+      </reaction>
+      <reaction id="R_PGPP141pp" fast="false" reversible="false" name="Phosphatidylglycerol phosphate phosphatase (periplasm, n-C14:1)" metaid="R_PGPP141pp" sboTerm="SBO:0000176" fbc:upperFluxBound="cobra_default_ub" fbc:lowerFluxBound="cobra_0_bound">
+        <sbml:annotation xmlns:sbml="http://www.sbml.org/sbml/level3/version1/core">
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+            <rdf:Description rdf:about="#R_PGPP141pp">
+              <bqbiol:is xmlns:bqbiol="http://biomodels.net/biology-qualifiers/">
+                <rdf:Bag>
+                  <rdf:li rdf:resource="http://identifiers.org/bigg.reaction/PGPP141pp"/>
+                  <rdf:li rdf:resource="http://identifiers.org/metanetx.reaction/MNXR102562"/>
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+              </bqbiol:is>
+            </rdf:Description>
+          </rdf:RDF>
+        </sbml:annotation>
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+          <speciesReference species="M_h2o_p" stoichiometry="1" constant="true"/>
+          <speciesReference species="M_pgp141_p" stoichiometry="1" constant="true"/>
+        </listOfReactants>
+        <listOfProducts>
+          <speciesReference species="M_pg141_p" stoichiometry="1" constant="true"/>
+          <speciesReference species="M_pi_p" stoichiometry="1" constant="true"/>
+        </listOfProducts>
+        <fbc:geneProductAssociation>
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+            <fbc:geneProductRef fbc:geneProduct="G_b1278"/>
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+        </fbc:geneProductAssociation>
+      </reaction>
+      <reaction id="R_PGPP160pp" fast="false" reversible="false" name="Phosphatidylglycerol phosphate phosphatase (periplasm, n-C16:0)" metaid="R_PGPP160pp" sboTerm="SBO:0000176" fbc:upperFluxBound="cobra_default_ub" fbc:lowerFluxBound="cobra_0_bound">
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+              <bqbiol:is xmlns:bqbiol="http://biomodels.net/biology-qualifiers/">
+                <rdf:Bag>
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+                  <rdf:li rdf:resource="http://identifiers.org/seed.reaction/rxn09104"/>
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+          </rdf:RDF>
+        </sbml:annotation>
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+          <speciesReference species="M_h2o_p" stoichiometry="1" constant="true"/>
+          <speciesReference species="M_pgp160_p" stoichiometry="1" constant="true"/>
+        </listOfReactants>
+        <listOfProducts>
+          <speciesReference species="M_pg160_p" stoichiometry="1" constant="true"/>
+          <speciesReference species="M_pi_p" stoichiometry="1" constant="true"/>
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+        <fbc:geneProductAssociation>
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+            <fbc:geneProductRef fbc:geneProduct="G_b1278"/>
+          </fbc:or>
+        </fbc:geneProductAssociation>
+      </reaction>
+      <reaction id="R_2AGPG140tipp" fast="false" reversible="false" name="2-Acyl-sn-glycero-3-phosphoglycerol (n-C14:0) transporter via facilitated diffusion (periplasm)" metaid="R_2AGPG140tipp" sboTerm="SBO:0000185" fbc:upperFluxBound="cobra_default_ub" fbc:lowerFluxBound="cobra_0_bound">
+        <sbml:annotation xmlns:sbml="http://www.sbml.org/sbml/level3/version1/core">
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+              <bqbiol:is xmlns:bqbiol="http://biomodels.net/biology-qualifiers/">
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+            </rdf:Description>
+          </rdf:RDF>
+        </sbml:annotation>
+        <listOfReactants>
+          <speciesReference species="M_2agpg140_p" stoichiometry="1" constant="true"/>
+        </listOfReactants>
+        <listOfProducts>
+          <speciesReference species="M_2agpg140_c" stoichiometry="1" constant="true"/>
+        </listOfProducts>
+        <fbc:geneProductAssociation>
+          <fbc:geneProductRef fbc:geneProduct="G_b2835"/>
+        </fbc:geneProductAssociation>
+      </reaction>
+      <reaction id="R_PGPP180pp" fast="false" reversible="false" name="Phosphatidylglycerol phosphate phosphatase (periplasm, n-C18:0)" metaid="R_PGPP180pp" sboTerm="SBO:0000176" fbc:upperFluxBound="cobra_default_ub" fbc:lowerFluxBound="cobra_0_bound">
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+              <bqbiol:is xmlns:bqbiol="http://biomodels.net/biology-qualifiers/">
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+          <speciesReference species="M_pg180_p" stoichiometry="1" constant="true"/>
+          <speciesReference species="M_pi_p" stoichiometry="1" constant="true"/>
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+        <fbc:geneProductAssociation>
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+            <fbc:geneProductRef fbc:geneProduct="G_b1278"/>
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+        </fbc:geneProductAssociation>
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+        <sbml:annotation xmlns:sbml="http://www.sbml.org/sbml/level3/version1/core">
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+        </listOfReactants>
+        <listOfProducts>
+          <speciesReference species="M_2agpg160_c" stoichiometry="1" constant="true"/>
+        </listOfProducts>
+        <fbc:geneProductAssociation>
+          <fbc:geneProductRef fbc:geneProduct="G_b2835"/>
+        </fbc:geneProductAssociation>
+      </reaction>
+      <reaction id="R_SERD_D" fast="false" reversible="false" name="D-serine deaminase" metaid="R_SERD_D" sboTerm="SBO:0000176" fbc:upperFluxBound="cobra_default_ub" fbc:lowerFluxBound="cobra_0_bound">
+        <sbml:annotation xmlns:sbml="http://www.sbml.org/sbml/level3/version1/core">
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+          <speciesReference species="M_nh4_c" stoichiometry="1" constant="true"/>
+          <speciesReference species="M_pyr_c" stoichiometry="1" constant="true"/>
+        </listOfProducts>
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+          <fbc:geneProductRef fbc:geneProduct="G_b2366"/>
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+          <speciesReference species="M_h2o_p" stoichiometry="1" constant="true"/>
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+          <speciesReference species="M_h_p" stoichiometry="1" constant="true"/>
+          <speciesReference species="M_pa141_p" stoichiometry="1" constant="true"/>
+          <speciesReference species="M_pg141_p" stoichiometry="1" constant="true"/>
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+          <speciesReference species="M_pg160_p" stoichiometry="1" constant="true"/>
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+          <speciesReference species="M_h2o_p" stoichiometry="1" constant="true"/>
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+        <listOfProducts>
+          <speciesReference species="M_h_p" stoichiometry="1" constant="true"/>
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+          <speciesReference species="M_pg161_p" stoichiometry="1" constant="true"/>
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+                  <rdf:li rdf:resource="http://identifiers.org/rhea/22195"/>
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+          <speciesReference species="M_fprica_c" stoichiometry="1" constant="true"/>
+          <speciesReference species="M_thf_c" stoichiometry="1" constant="true"/>
+        </listOfProducts>
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+          <fbc:geneProductRef fbc:geneProduct="G_b4006"/>
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+          <speciesReference species="M_h2o_p" stoichiometry="1" constant="true"/>
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+          <speciesReference species="M_h_p" stoichiometry="1" constant="true"/>
+          <speciesReference species="M_pa181_p" stoichiometry="1" constant="true"/>
+          <speciesReference species="M_pg181_p" stoichiometry="1" constant="true"/>
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+                  <rdf:li rdf:resource="http://identifiers.org/seed.reaction/rxn09772"/>
+                  <rdf:li rdf:resource="http://identifiers.org/seed.reaction/rxn08350"/>
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+          <speciesReference species="M_lac__D_c" stoichiometry="1" constant="true"/>
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+            <fbc:geneProductRef fbc:geneProduct="G_b2975"/>
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+        </fbc:geneProductAssociation>
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+                  <rdf:li rdf:resource="http://identifiers.org/seed.reaction/rxn09135"/>
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+          <speciesReference species="M_pe180_p" stoichiometry="1" constant="true"/>
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+        <listOfProducts>
+          <speciesReference species="M_2agpe180_p" stoichiometry="1" constant="true"/>
+          <speciesReference species="M_h_p" stoichiometry="1" constant="true"/>
+          <speciesReference species="M_ocdca_p" stoichiometry="1" constant="true"/>
+        </listOfProducts>
+        <fbc:geneProductAssociation>
+          <fbc:geneProductRef fbc:geneProduct="G_b3821"/>
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+        <sbml:annotation xmlns:sbml="http://www.sbml.org/sbml/level3/version1/core">
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+        <listOfProducts>
+          <speciesReference species="M_rib__D_p" stoichiometry="1" constant="true"/>
+        </listOfProducts>
+        <fbc:geneProductAssociation>
+          <fbc:or>
+            <fbc:geneProductRef fbc:geneProduct="G_b0241"/>
+            <fbc:geneProductRef fbc:geneProduct="G_b0929"/>
+            <fbc:geneProductRef fbc:geneProduct="G_b1377"/>
+            <fbc:geneProductRef fbc:geneProduct="G_b2215"/>
+          </fbc:or>
+        </fbc:geneProductAssociation>
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+          <speciesReference species="M_nadh_c" stoichiometry="1" constant="true"/>
+          <speciesReference species="M_ribflv_c" stoichiometry="1" constant="true"/>
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+          <speciesReference species="M_rbflvrd_c" stoichiometry="1" constant="true"/>
+        </listOfProducts>
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+            <fbc:geneProductRef fbc:geneProduct="G_b2215"/>
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+        <listOfProducts>
+          <speciesReference species="M_xylu__L_p" stoichiometry="1" constant="true"/>
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+        </fbc:geneProductAssociation>
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+          <speciesReference species="M_ttdca_p" stoichiometry="1" constant="true"/>
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+          <fbc:geneProductRef fbc:geneProduct="G_b3821"/>
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+          <speciesReference species="M_hdcea_p" stoichiometry="1" constant="true"/>
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+          <speciesReference species="M_glyc_p" stoichiometry="1" constant="true"/>
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+            <fbc:geneProductRef fbc:geneProduct="G_b1249"/>
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+        </fbc:geneProductAssociation>
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+            <fbc:geneProductRef fbc:geneProduct="G_b0789"/>
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+        </fbc:geneProductAssociation>
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+      <reaction id="R_ALLtex" fast="false" reversible="true" name="Allose transport via diffusion (extracellular to periplasm)" metaid="R_ALLtex" sboTerm="SBO:0000185" fbc:upperFluxBound="cobra_default_ub" fbc:lowerFluxBound="cobra_default_lb">
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+        <listOfProducts>
+          <speciesReference species="M_all__D_p" stoichiometry="1" constant="true"/>
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+            <fbc:geneProductRef fbc:geneProduct="G_b0241"/>
+            <fbc:geneProductRef fbc:geneProduct="G_b1377"/>
+            <fbc:geneProductRef fbc:geneProduct="G_b2215"/>
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+        </fbc:geneProductAssociation>
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+          <speciesReference species="M_adp_c" stoichiometry="1" constant="true"/>
+          <speciesReference species="M_h_c" stoichiometry="1" constant="true"/>
+          <speciesReference species="M_pg160_p" stoichiometry="1" constant="true"/>
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+          <fbc:geneProductRef fbc:geneProduct="G_b0914"/>
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+        <listOfProducts>
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+          <speciesReference species="M_pyr_c" stoichiometry="1" constant="true"/>
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+            <fbc:geneProductRef fbc:geneProduct="G_b1817"/>
+            <fbc:geneProductRef fbc:geneProduct="G_b2416"/>
+            <fbc:geneProductRef fbc:geneProduct="G_b1819"/>
+            <fbc:geneProductRef fbc:geneProduct="G_b2415"/>
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+          <speciesReference species="M_pgp140_p" stoichiometry="1" constant="true"/>
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+        <fbc:geneProductAssociation>
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+          <fbc:geneProductRef fbc:geneProduct="G_b1278"/>
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+        <fbc:geneProductAssociation>
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+          <speciesReference species="M_o2_c" stoichiometry="1" constant="true"/>
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+          <speciesReference species="M_nh4_c" stoichiometry="1" constant="true"/>
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+          <speciesReference species="M_pi_p" stoichiometry="1" constant="true"/>
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+            <fbc:geneProductRef fbc:geneProduct="G_b0929"/>
+            <fbc:geneProductRef fbc:geneProduct="G_b1377"/>
+            <fbc:geneProductRef fbc:geneProduct="G_b2215"/>
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+        </fbc:geneProductAssociation>
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+        <listOfProducts>
+          <speciesReference species="M_12dgr160_p" stoichiometry="1" constant="true"/>
+          <speciesReference species="M_pi_p" stoichiometry="1" constant="true"/>
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+          <fbc:geneProductRef fbc:geneProduct="G_b1278"/>
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+          <speciesReference species="M_pi_c" stoichiometry="2" constant="true"/>
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+        <listOfProducts>
+          <speciesReference species="M_g6p_c" stoichiometry="1" constant="true"/>
+          <speciesReference species="M_pi_p" stoichiometry="2" constant="true"/>
+        </listOfProducts>
+        <fbc:geneProductAssociation>
+          <fbc:geneProductRef fbc:geneProduct="G_b3666"/>
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+          <speciesReference species="M_pa161_p" stoichiometry="1" constant="true"/>
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+        <listOfProducts>
+          <speciesReference species="M_12dgr161_p" stoichiometry="1" constant="true"/>
+          <speciesReference species="M_pi_p" stoichiometry="1" constant="true"/>
+        </listOfProducts>
+        <fbc:geneProductAssociation>
+          <fbc:geneProductRef fbc:geneProduct="G_b1278"/>
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+      <reaction id="R_MALTHXtexi" fast="false" reversible="false" name="Maltohexaose transport via diffusion (extracellular to periplasm) irreversible" metaid="R_MALTHXtexi" sboTerm="SBO:0000185" fbc:upperFluxBound="cobra_default_ub" fbc:lowerFluxBound="cobra_0_bound">
+        <sbml:annotation xmlns:sbml="http://www.sbml.org/sbml/level3/version1/core">
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+              <bqbiol:is xmlns:bqbiol="http://biomodels.net/biology-qualifiers/">
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+                  <rdf:li rdf:resource="http://identifiers.org/metanetx.reaction/MNXR101354"/>
+                  <rdf:li rdf:resource="http://identifiers.org/seed.reaction/rxn08870"/>
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+        <listOfProducts>
+          <speciesReference species="M_malthx_p" stoichiometry="1" constant="true"/>
+        </listOfProducts>
+        <fbc:geneProductAssociation>
+          <fbc:geneProductRef fbc:geneProduct="G_b4036"/>
+        </fbc:geneProductAssociation>
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+      <reaction id="R_12PPDStpp" fast="false" reversible="true" name="(S)-Propane-1,2-diol facilitated transport (periplasm)" metaid="R_12PPDStpp" sboTerm="SBO:0000185" fbc:upperFluxBound="cobra_default_ub" fbc:lowerFluxBound="cobra_default_lb">
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+        <listOfProducts>
+          <speciesReference species="M_12ppd__S_c" stoichiometry="1" constant="true"/>
+        </listOfProducts>
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+          <speciesReference species="M_pa180_p" stoichiometry="1" constant="true"/>
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+        <listOfProducts>
+          <speciesReference species="M_12dgr180_p" stoichiometry="1" constant="true"/>
+          <speciesReference species="M_pi_p" stoichiometry="1" constant="true"/>
+        </listOfProducts>
+        <fbc:geneProductAssociation>
+          <fbc:geneProductRef fbc:geneProduct="G_b1278"/>
+        </fbc:geneProductAssociation>
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+        <sbml:annotation xmlns:sbml="http://www.sbml.org/sbml/level3/version1/core">
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+                  <rdf:li rdf:resource="http://identifiers.org/seed.reaction/rxn11339"/>
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+        <listOfProducts>
+          <speciesReference species="M_pro__L_p" stoichiometry="1" constant="true"/>
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+            <fbc:geneProductRef fbc:geneProduct="G_b2215"/>
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+            <fbc:geneProductRef fbc:geneProduct="G_b0929"/>
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+        </fbc:geneProductAssociation>
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+          <speciesReference species="M_2h3oppan_c" stoichiometry="1" constant="true"/>
+        </listOfProducts>
+        <fbc:geneProductAssociation>
+          <fbc:geneProductRef fbc:geneProduct="G_b0508"/>
+        </fbc:geneProductAssociation>
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+        <sbml:annotation xmlns:sbml="http://www.sbml.org/sbml/level3/version1/core">
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+          <speciesReference species="M_h_c" stoichiometry="1" constant="true"/>
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+                  <rdf:li rdf:resource="http://identifiers.org/rhea/29059#1"/>
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+          <speciesReference species="M_h_c" stoichiometry="2" constant="true"/>
+          <speciesReference species="M_q8_c" stoichiometry="1" constant="true"/>
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+        <listOfProducts>
+          <speciesReference species="M_h_p" stoichiometry="2" constant="true"/>
+          <speciesReference species="M_q8h2_c" stoichiometry="1" constant="true"/>
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+          <fbc:or>
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+              <fbc:geneProductRef fbc:geneProduct="G_b0974"/>
+              <fbc:geneProductRef fbc:geneProduct="G_b0972"/>
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+            <fbc:and>
+              <fbc:geneProductRef fbc:geneProduct="G_b2994"/>
+              <fbc:geneProductRef fbc:geneProduct="G_b2997"/>
+              <fbc:geneProductRef fbc:geneProduct="G_b2996"/>
+              <fbc:geneProductRef fbc:geneProduct="G_b2995"/>
+            </fbc:and>
+            <fbc:and>
+              <fbc:geneProductRef fbc:geneProduct="G_b2722"/>
+              <fbc:geneProductRef fbc:geneProduct="G_b2723"/>
+              <fbc:geneProductRef fbc:geneProduct="G_b2724"/>
+              <fbc:geneProductRef fbc:geneProduct="G_b2720"/>
+              <fbc:geneProductRef fbc:geneProduct="G_b2721"/>
+              <fbc:geneProductRef fbc:geneProduct="G_b2719"/>
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+          </fbc:or>
+        </fbc:geneProductAssociation>
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+        </sbml:annotation>
+        <listOfReactants>
+          <speciesReference species="M_atp_c" stoichiometry="1" constant="true"/>
+          <speciesReference species="M_dpcoa_c" stoichiometry="1" constant="true"/>
+        </listOfReactants>
+        <listOfProducts>
+          <speciesReference species="M_2tpr3dpcoa_c" stoichiometry="1" constant="true"/>
+          <speciesReference species="M_ade_c" stoichiometry="1" constant="true"/>
+        </listOfProducts>
+        <fbc:geneProductAssociation>
+          <fbc:geneProductRef fbc:geneProduct="G_b0613"/>
+        </fbc:geneProductAssociation>
+      </reaction>
+      <reaction id="R_ACGAM1PPpp" fast="false" reversible="false" name="N-acetyl-D-glucosamine 1-phosphatase (periplasm)" metaid="R_ACGAM1PPpp" sboTerm="SBO:0000176" fbc:upperFluxBound="cobra_default_ub" fbc:lowerFluxBound="cobra_0_bound">
+        <sbml:annotation xmlns:sbml="http://www.sbml.org/sbml/level3/version1/core">
+          <rdf:RDF xmlns:rdf="http://www.w3.org/1999/02/22-rdf-syntax-ns#">
+            <rdf:Description rdf:about="#R_ACGAM1PPpp">
+              <bqbiol:is xmlns:bqbiol="http://biomodels.net/biology-qualifiers/">
+                <rdf:Bag>
+                  <rdf:li rdf:resource="http://identifiers.org/bigg.reaction/ACGAM1PPpp"/>
+                  <rdf:li rdf:resource="http://identifiers.org/ec-code/3.1.3.10"/>
+                  <rdf:li rdf:resource="http://identifiers.org/metanetx.reaction/MNXR95245"/>
+                  <rdf:li rdf:resource="http://identifiers.org/seed.reaction/rxn08038"/>
+                </rdf:Bag>
+              </bqbiol:is>
+            </rdf:Description>
+          </rdf:RDF>
+        </sbml:annotation>
+        <listOfReactants>
+          <speciesReference species="M_acgam1p_p" stoichiometry="1" constant="true"/>
+          <speciesReference species="M_h2o_p" stoichiometry="1" constant="true"/>
+        </listOfReactants>
+        <listOfProducts>
+          <speciesReference species="M_acgam_p" stoichiometry="1" constant="true"/>
+          <speciesReference species="M_pi_p" stoichiometry="1" constant="true"/>
+        </listOfProducts>
+      </reaction>
+      <reaction id="R_EX_dgmp_e" fast="false" reversible="false" name="DGMP exchange" metaid="R_EX_dgmp_e" sboTerm="SBO:0000627" fbc:upperFluxBound="cobra_default_ub" fbc:lowerFluxBound="cobra_0_bound">
+        <sbml:annotation xmlns:sbml="http://www.sbml.org/sbml/level3/version1/core">
+          <rdf:RDF xmlns:rdf="http://www.w3.org/1999/02/22-rdf-syntax-ns#">
+            <rdf:Description rdf:about="#R_EX_dgmp_e">
+              <bqbiol:is xmlns:bqbiol="http://biomodels.net/biology-qualifiers/">
+                <rdf:Bag>
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+                  <rdf:li rdf:resource="http://identifiers.org/seed.reaction/rxn08322"/>
+                </rdf:Bag>
+              </bqbiol:is>
+            </rdf:Description>
+          </rdf:RDF>
+        </sbml:annotation>
+        <listOfReactants>
+          <speciesReference species="M_dgmp_e" stoichiometry="1" constant="true"/>
+        </listOfReactants>
+      </reaction>
+      <reaction id="R_GAMptspp" fast="false" reversible="false" name="D-glucosamine transport via PEP:Pyr PTS (periplasm)" metaid="R_GAMptspp" sboTerm="SBO:0000185" fbc:upperFluxBound="cobra_default_ub" fbc:lowerFluxBound="cobra_0_bound">
+        <sbml:annotation xmlns:sbml="http://www.sbml.org/sbml/level3/version1/core">
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+            <rdf:Description rdf:about="#R_GAMptspp">
+              <bqbiol:is xmlns:bqbiol="http://biomodels.net/biology-qualifiers/">
+                <rdf:Bag>
+                  <rdf:li rdf:resource="http://identifiers.org/bigg.reaction/GAMptspp"/>
+                  <rdf:li rdf:resource="http://identifiers.org/metanetx.reaction/MNXR100034"/>
+                  <rdf:li rdf:resource="http://identifiers.org/seed.reaction/rxn08592"/>
+                  <rdf:li rdf:resource="http://identifiers.org/seed.reaction/rxn05569"/>
+                </rdf:Bag>
+              </bqbiol:is>
+            </rdf:Description>
+          </rdf:RDF>
+        </sbml:annotation>
+        <listOfReactants>
+          <speciesReference species="M_gam_p" stoichiometry="1" constant="true"/>
+          <speciesReference species="M_pep_c" stoichiometry="1" constant="true"/>
+        </listOfReactants>
+        <listOfProducts>
+          <speciesReference species="M_gam6p_c" stoichiometry="1" constant="true"/>
+          <speciesReference species="M_pyr_c" stoichiometry="1" constant="true"/>
+        </listOfProducts>
+        <fbc:geneProductAssociation>
+          <fbc:and>
+            <fbc:geneProductRef fbc:geneProduct="G_b2415"/>
+            <fbc:geneProductRef fbc:geneProduct="G_b2416"/>
+            <fbc:geneProductRef fbc:geneProduct="G_b1819"/>
+            <fbc:geneProductRef fbc:geneProduct="G_b1817"/>
+            <fbc:geneProductRef fbc:geneProduct="G_b1818"/>
+          </fbc:and>
+        </fbc:geneProductAssociation>
+      </reaction>
+      <reaction id="R_GSNt2pp" fast="false" reversible="false" name="Guanosine transport in via proton symport (periplasm)" metaid="R_GSNt2pp" sboTerm="SBO:0000185" fbc:upperFluxBound="cobra_default_ub" fbc:lowerFluxBound="cobra_0_bound">
+        <sbml:annotation xmlns:sbml="http://www.sbml.org/sbml/level3/version1/core">
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+            <rdf:Description rdf:about="#R_GSNt2pp">
+              <bqbiol:is xmlns:bqbiol="http://biomodels.net/biology-qualifiers/">
+                <rdf:Bag>
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+                  <rdf:li rdf:resource="http://identifiers.org/metanetx.reaction/MNXR100434"/>
+                  <rdf:li rdf:resource="http://identifiers.org/seed.reaction/rxn08671"/>
+                  <rdf:li rdf:resource="http://identifiers.org/seed.reaction/rxn05204"/>
+                  <rdf:li rdf:resource="http://identifiers.org/seed.reaction/rxn09747"/>
+                </rdf:Bag>
+              </bqbiol:is>
+            </rdf:Description>
+          </rdf:RDF>
+        </sbml:annotation>
+        <listOfReactants>
+          <speciesReference species="M_gsn_p" stoichiometry="1" constant="true"/>
+          <speciesReference species="M_h_p" stoichiometry="1" constant="true"/>
+        </listOfReactants>
+        <listOfProducts>
+          <speciesReference species="M_gsn_c" stoichiometry="1" constant="true"/>
+          <speciesReference species="M_h_c" stoichiometry="1" constant="true"/>
+        </listOfProducts>
+        <fbc:geneProductAssociation>
+          <fbc:geneProductRef fbc:geneProduct="G_b2964"/>
+        </fbc:geneProductAssociation>
+      </reaction>
+      <reaction id="R_EX_4hoxpacd_e" fast="false" reversible="false" name="4-Hydroxyphenylacetaldehyde exchange" metaid="R_EX_4hoxpacd_e" sboTerm="SBO:0000627" fbc:upperFluxBound="cobra_default_ub" fbc:lowerFluxBound="cobra_0_bound">
+        <sbml:annotation xmlns:sbml="http://www.sbml.org/sbml/level3/version1/core">
+          <rdf:RDF xmlns:rdf="http://www.w3.org/1999/02/22-rdf-syntax-ns#">
+            <rdf:Description rdf:about="#R_EX_4hoxpacd_e">
+              <bqbiol:is xmlns:bqbiol="http://biomodels.net/biology-qualifiers/">
+                <rdf:Bag>
+                  <rdf:li rdf:resource="http://identifiers.org/bigg.reaction/EX_4hoxpacd_e"/>
+                  <rdf:li rdf:resource="http://identifiers.org/metanetx.reaction/MNXR95017"/>
+                  <rdf:li rdf:resource="http://identifiers.org/seed.reaction/rxn08006"/>
+                </rdf:Bag>
+              </bqbiol:is>
+            </rdf:Description>
+          </rdf:RDF>
+        </sbml:annotation>
+        <listOfReactants>
+          <speciesReference species="M_4hoxpacd_e" stoichiometry="1" constant="true"/>
+        </listOfReactants>
+      </reaction>
+      <reaction id="R_FMNRx" fast="false" reversible="false" name="FMN reductase" metaid="R_FMNRx" sboTerm="SBO:0000176" fbc:upperFluxBound="cobra_default_ub" fbc:lowerFluxBound="cobra_0_bound">
+        <sbml:annotation xmlns:sbml="http://www.sbml.org/sbml/level3/version1/core">
+          <rdf:RDF xmlns:rdf="http://www.w3.org/1999/02/22-rdf-syntax-ns#">
+            <rdf:Description rdf:about="#R_FMNRx">
+              <bqbiol:is xmlns:bqbiol="http://biomodels.net/biology-qualifiers/">
+                <rdf:Bag>
+                  <rdf:li rdf:resource="http://identifiers.org/bigg.reaction/FMNRx"/>
+                  <rdf:li rdf:resource="http://identifiers.org/biocyc/META:RXN-9510"/>
+                  <rdf:li rdf:resource="http://identifiers.org/ec-code/1.5.1.41"/>
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+                  <rdf:li rdf:resource="http://identifiers.org/ec-code/1.5.1.36"/>
+                  <rdf:li rdf:resource="http://identifiers.org/ec-code/1.5.1.39"/>
+                  <rdf:li rdf:resource="http://identifiers.org/ec-code/1.5.1.-"/>
+                  <rdf:li rdf:resource="http://identifiers.org/kegg.reaction/R05705"/>
+                  <rdf:li rdf:resource="http://identifiers.org/metanetx.reaction/MNXR99607"/>
+                  <rdf:li rdf:resource="http://identifiers.org/rhea/21620"/>
+                  <rdf:li rdf:resource="http://identifiers.org/rhea/21622"/>
+                  <rdf:li rdf:resource="http://identifiers.org/rhea/21623"/>
+                  <rdf:li rdf:resource="http://identifiers.org/rhea/21621"/>
+                  <rdf:li rdf:resource="http://identifiers.org/sabiork/5301"/>
+                  <rdf:li rdf:resource="http://identifiers.org/seed.reaction/rxn03974"/>
+                </rdf:Bag>
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+            </rdf:Description>
+          </rdf:RDF>
+        </sbml:annotation>
+        <listOfReactants>
+          <speciesReference species="M_fmn_c" stoichiometry="1" constant="true"/>
+          <speciesReference species="M_h_c" stoichiometry="1" constant="true"/>
+          <speciesReference species="M_nadh_c" stoichiometry="1" constant="true"/>
+        </listOfReactants>
+        <listOfProducts>
+          <speciesReference species="M_fmnh2_c" stoichiometry="1" constant="true"/>
+          <speciesReference species="M_nad_c" stoichiometry="1" constant="true"/>
+        </listOfProducts>
+        <fbc:geneProductAssociation>
+          <fbc:or>
+            <fbc:geneProductRef fbc:geneProduct="G_b0937"/>
+            <fbc:geneProductRef fbc:geneProduct="G_b3844"/>
+          </fbc:or>
+        </fbc:geneProductAssociation>
+      </reaction>
+      <reaction id="R_EX_3hpppn_e" fast="false" reversible="false" name="3-(3-hydroxy-phenyl)propionate exchange" metaid="R_EX_3hpppn_e" sboTerm="SBO:0000627" fbc:upperFluxBound="cobra_default_ub" fbc:lowerFluxBound="cobra_0_bound">
+        <sbml:annotation xmlns:sbml="http://www.sbml.org/sbml/level3/version1/core">
+          <rdf:RDF xmlns:rdf="http://www.w3.org/1999/02/22-rdf-syntax-ns#">
+            <rdf:Description rdf:about="#R_EX_3hpppn_e">
+              <bqbiol:is xmlns:bqbiol="http://biomodels.net/biology-qualifiers/">
+                <rdf:Bag>
+                  <rdf:li rdf:resource="http://identifiers.org/bigg.reaction/EX_3hpppn_e"/>
+                  <rdf:li rdf:resource="http://identifiers.org/metanetx.reaction/MNXR100697"/>
+                  <rdf:li rdf:resource="http://identifiers.org/seed.reaction/rxn08726"/>
+                </rdf:Bag>
+              </bqbiol:is>
+            </rdf:Description>
+          </rdf:RDF>
+        </sbml:annotation>
+        <listOfReactants>
+          <speciesReference species="M_3hpppn_e" stoichiometry="1" constant="true"/>
+        </listOfReactants>
+      </reaction>
+      <reaction id="R_EX_man6p_e" fast="false" reversible="false" name="D-Mannose 6-phosphate exchange" metaid="R_EX_man6p_e" sboTerm="SBO:0000627" fbc:upperFluxBound="cobra_default_ub" fbc:lowerFluxBound="cobra_0_bound">
+        <sbml:annotation xmlns:sbml="http://www.sbml.org/sbml/level3/version1/core">
+          <rdf:RDF xmlns:rdf="http://www.w3.org/1999/02/22-rdf-syntax-ns#">
+            <rdf:Description rdf:about="#R_EX_man6p_e">
+              <bqbiol:is xmlns:bqbiol="http://biomodels.net/biology-qualifiers/">
+                <rdf:Bag>
+                  <rdf:li rdf:resource="http://identifiers.org/bigg.reaction/EX_man6p_e"/>
+                  <rdf:li rdf:resource="http://identifiers.org/metanetx.reaction/MNXR101385"/>
+                  <rdf:li rdf:resource="http://identifiers.org/seed.reaction/rxn13644"/>
+                  <rdf:li rdf:resource="http://identifiers.org/seed.reaction/rxn08880"/>
+                </rdf:Bag>
+              </bqbiol:is>
+            </rdf:Description>
+          </rdf:RDF>
+        </sbml:annotation>
+        <listOfReactants>
+          <speciesReference species="M_man6p_e" stoichiometry="1" constant="true"/>
+        </listOfReactants>
+      </reaction>
+      <reaction id="R_GSNtex" fast="false" reversible="true" name="Guanosine transport via diffusion (extracellular to periplasm)" metaid="R_GSNtex" sboTerm="SBO:0000185" fbc:upperFluxBound="cobra_default_ub" fbc:lowerFluxBound="cobra_default_lb">
+        <sbml:annotation xmlns:sbml="http://www.sbml.org/sbml/level3/version1/core">
+          <rdf:RDF xmlns:rdf="http://www.w3.org/1999/02/22-rdf-syntax-ns#">
+            <rdf:Description rdf:about="#R_GSNtex">
+              <bqbiol:is xmlns:bqbiol="http://biomodels.net/biology-qualifiers/">
+                <rdf:Bag>
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+                  <rdf:li rdf:resource="http://identifiers.org/metanetx.reaction/MNXR100433"/>
+                  <rdf:li rdf:resource="http://identifiers.org/seed.reaction/rxn08672"/>
+                  <rdf:li rdf:resource="http://identifiers.org/seed.reaction/rxn10897"/>
+                </rdf:Bag>
+              </bqbiol:is>
+            </rdf:Description>
+          </rdf:RDF>
+        </sbml:annotation>
+        <listOfReactants>
+          <speciesReference species="M_gsn_e" stoichiometry="1" constant="true"/>
+        </listOfReactants>
+        <listOfProducts>
+          <speciesReference species="M_gsn_p" stoichiometry="1" constant="true"/>
+        </listOfProducts>
+        <fbc:geneProductAssociation>
+          <fbc:or>
+            <fbc:geneProductRef fbc:geneProduct="G_b0241"/>
+            <fbc:geneProductRef fbc:geneProduct="G_b0929"/>
+            <fbc:geneProductRef fbc:geneProduct="G_b1377"/>
+            <fbc:geneProductRef fbc:geneProduct="G_b2215"/>
+          </fbc:or>
+        </fbc:geneProductAssociation>
+      </reaction>
+      <reaction id="R_SBTtex" fast="false" reversible="true" name="D-sorbitol transport via diffusion (extracellular to periplasm)" metaid="R_SBTtex" sboTerm="SBO:0000185" fbc:upperFluxBound="cobra_default_ub" fbc:lowerFluxBound="cobra_default_lb">
+        <sbml:annotation xmlns:sbml="http://www.sbml.org/sbml/level3/version1/core">
+          <rdf:RDF xmlns:rdf="http://www.w3.org/1999/02/22-rdf-syntax-ns#">
+            <rdf:Description rdf:about="#R_SBTtex">
+              <bqbiol:is xmlns:bqbiol="http://biomodels.net/biology-qualifiers/">
+                <rdf:Bag>
+                  <rdf:li rdf:resource="http://identifiers.org/bigg.reaction/SBTtex"/>
+                  <rdf:li rdf:resource="http://identifiers.org/metanetx.reaction/MNXR104288"/>
+                  <rdf:li rdf:resource="http://identifiers.org/seed.reaction/rxn09243"/>
+                  <rdf:li rdf:resource="http://identifiers.org/seed.reaction/rxn09662"/>
+                </rdf:Bag>
+              </bqbiol:is>
+            </rdf:Description>
+          </rdf:RDF>
+        </sbml:annotation>
+        <listOfReactants>
+          <speciesReference species="M_sbt__D_e" stoichiometry="1" constant="true"/>
+        </listOfReactants>
+        <listOfProducts>
+          <speciesReference species="M_sbt__D_p" stoichiometry="1" constant="true"/>
+        </listOfProducts>
+        <fbc:geneProductAssociation>
+          <fbc:or>
+            <fbc:geneProductRef fbc:geneProduct="G_b0241"/>
+            <fbc:geneProductRef fbc:geneProduct="G_b0929"/>
+            <fbc:geneProductRef fbc:geneProduct="G_b1377"/>
+            <fbc:geneProductRef fbc:geneProduct="G_b2215"/>
+          </fbc:or>
+        </fbc:geneProductAssociation>
+      </reaction>
+      <reaction id="R_FORtex" fast="false" reversible="true" name="Formate transport via diffusion (extracellular to periplasm)" metaid="R_FORtex" sboTerm="SBO:0000185" fbc:upperFluxBound="cobra_default_ub" fbc:lowerFluxBound="cobra_default_lb">
+        <sbml:annotation xmlns:sbml="http://www.sbml.org/sbml/level3/version1/core">
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+              <bqbiol:is xmlns:bqbiol="http://biomodels.net/biology-qualifiers/">
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+                  <rdf:li rdf:resource="http://identifiers.org/metanetx.reaction/MNXR99620"/>
+                  <rdf:li rdf:resource="http://identifiers.org/reactome.reaction/R-HSA-6803255"/>
+                  <rdf:li rdf:resource="http://identifiers.org/rhea/29681"/>
+                  <rdf:li rdf:resource="http://identifiers.org/rhea/29680"/>
+                  <rdf:li rdf:resource="http://identifiers.org/rhea/29682"/>
+                  <rdf:li rdf:resource="http://identifiers.org/rhea/29679"/>
+                  <rdf:li rdf:resource="http://identifiers.org/sabiork/12483"/>
+                  <rdf:li rdf:resource="http://identifiers.org/seed.reaction/rxn09754"/>
+                  <rdf:li rdf:resource="http://identifiers.org/seed.reaction/rxn08525"/>
+                  <rdf:li rdf:resource="http://identifiers.org/seed.reaction/rxn09682"/>
+                  <rdf:li rdf:resource="http://identifiers.org/seed.reaction/rxn08526"/>
+                </rdf:Bag>
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+            </rdf:Description>
+          </rdf:RDF>
+        </sbml:annotation>
+        <listOfReactants>
+          <speciesReference species="M_for_e" stoichiometry="1" constant="true"/>
+        </listOfReactants>
+        <listOfProducts>
+          <speciesReference species="M_for_p" stoichiometry="1" constant="true"/>
+        </listOfProducts>
+        <fbc:geneProductAssociation>
+          <fbc:or>
+            <fbc:geneProductRef fbc:geneProduct="G_b0241"/>
+            <fbc:geneProductRef fbc:geneProduct="G_b0929"/>
+            <fbc:geneProductRef fbc:geneProduct="G_b1377"/>
+            <fbc:geneProductRef fbc:geneProduct="G_b2215"/>
+          </fbc:or>
+        </fbc:geneProductAssociation>
+      </reaction>
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+        <sbml:annotation xmlns:sbml="http://www.sbml.org/sbml/level3/version1/core">
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+                  <rdf:li rdf:resource="http://identifiers.org/metanetx.reaction/MNXR104966"/>
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+                  <rdf:li rdf:resource="http://identifiers.org/rhea/32810"/>
+                  <rdf:li rdf:resource="http://identifiers.org/rhea/32807"/>
+                  <rdf:li rdf:resource="http://identifiers.org/rhea/32809"/>
+                  <rdf:li rdf:resource="http://identifiers.org/seed.reaction/rxn09330"/>
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+        </sbml:annotation>
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+          <speciesReference species="M_tsul_e" stoichiometry="1" constant="true"/>
+        </listOfReactants>
+      </reaction>
+      <reaction id="R_PHEt2rpp" fast="false" reversible="true" name="L-phenylalanine reversible transport via proton symport (periplasm)" metaid="R_PHEt2rpp" sboTerm="SBO:0000185" fbc:upperFluxBound="cobra_default_ub" fbc:lowerFluxBound="cobra_default_lb">
+        <sbml:annotation xmlns:sbml="http://www.sbml.org/sbml/level3/version1/core">
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+              <bqbiol:is xmlns:bqbiol="http://biomodels.net/biology-qualifiers/">
+                <rdf:Bag>
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+                  <rdf:li rdf:resource="http://identifiers.org/metanetx.reaction/MNXR102635"/>
+                  <rdf:li rdf:resource="http://identifiers.org/rhea/28926"/>
+                  <rdf:li rdf:resource="http://identifiers.org/rhea/28923"/>
+                  <rdf:li rdf:resource="http://identifiers.org/rhea/28924"/>
+                  <rdf:li rdf:resource="http://identifiers.org/rhea/28925"/>
+                  <rdf:li rdf:resource="http://identifiers.org/seed.reaction/rxn09117"/>
+                  <rdf:li rdf:resource="http://identifiers.org/seed.reaction/rxn09724"/>
+                  <rdf:li rdf:resource="http://identifiers.org/seed.reaction/rxn11337"/>
+                  <rdf:li rdf:resource="http://identifiers.org/seed.reaction/rxn05306"/>
+                </rdf:Bag>
+              </bqbiol:is>
+            </rdf:Description>
+          </rdf:RDF>
+        </sbml:annotation>
+        <listOfReactants>
+          <speciesReference species="M_h_p" stoichiometry="1" constant="true"/>
+          <speciesReference species="M_phe__L_p" stoichiometry="1" constant="true"/>
+        </listOfReactants>
+        <listOfProducts>
+          <speciesReference species="M_h_c" stoichiometry="1" constant="true"/>
+          <speciesReference species="M_phe__L_c" stoichiometry="1" constant="true"/>
+        </listOfProducts>
+        <fbc:geneProductAssociation>
+          <fbc:or>
+            <fbc:geneProductRef fbc:geneProduct="G_b0576"/>
+            <fbc:geneProductRef fbc:geneProduct="G_b0112"/>
+          </fbc:or>
+        </fbc:geneProductAssociation>
+      </reaction>
+      <reaction id="R_DHBS" fast="false" reversible="false" name="2,3-dihydroxybenzoate adenylate synthase" metaid="R_DHBS" sboTerm="SBO:0000176" fbc:upperFluxBound="cobra_default_ub" fbc:lowerFluxBound="cobra_0_bound">
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+              <bqbiol:is xmlns:bqbiol="http://biomodels.net/biology-qualifiers/">
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+                  <rdf:li rdf:resource="http://identifiers.org/biocyc/META:DHBAMPLIG-RXN"/>
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+                  <rdf:li rdf:resource="http://identifiers.org/kegg.reaction/R01504"/>
+                  <rdf:li rdf:resource="http://identifiers.org/metanetx.reaction/MNXR97369"/>
+                  <rdf:li rdf:resource="http://identifiers.org/rhea/20231"/>
+                  <rdf:li rdf:resource="http://identifiers.org/rhea/20229"/>
+                  <rdf:li rdf:resource="http://identifiers.org/rhea/20230"/>
+                  <rdf:li rdf:resource="http://identifiers.org/rhea/20232"/>
+                  <rdf:li rdf:resource="http://identifiers.org/seed.reaction/rxn01093"/>
+                </rdf:Bag>
+              </bqbiol:is>
+            </rdf:Description>
+          </rdf:RDF>
+        </sbml:annotation>
+        <listOfReactants>
+          <speciesReference species="M_23dhb_c" stoichiometry="1" constant="true"/>
+          <speciesReference species="M_atp_c" stoichiometry="1" constant="true"/>
+          <speciesReference species="M_h_c" stoichiometry="1" constant="true"/>
+        </listOfReactants>
+        <listOfProducts>
+          <speciesReference species="M_23dhba_c" stoichiometry="1" constant="true"/>
+          <speciesReference species="M_ppi_c" stoichiometry="1" constant="true"/>
+        </listOfProducts>
+        <fbc:geneProductAssociation>
+          <fbc:geneProductRef fbc:geneProduct="G_b0594"/>
+        </fbc:geneProductAssociation>
+      </reaction>
+      <reaction id="R_THIORDXi" fast="false" reversible="false" name="Hydrogen peroxide reductase (thioredoxin)" metaid="R_THIORDXi" sboTerm="SBO:0000176" fbc:upperFluxBound="cobra_default_ub" fbc:lowerFluxBound="cobra_0_bound">
+        <sbml:annotation xmlns:sbml="http://www.sbml.org/sbml/level3/version1/core">
+          <rdf:RDF xmlns:rdf="http://www.w3.org/1999/02/22-rdf-syntax-ns#">
+            <rdf:Description rdf:about="#R_THIORDXi">
+              <bqbiol:is xmlns:bqbiol="http://biomodels.net/biology-qualifiers/">
+                <rdf:Bag>
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+                  <rdf:li rdf:resource="http://identifiers.org/biocyc/META:RXN0-267"/>
+                  <rdf:li rdf:resource="http://identifiers.org/ec-code/1.11.1.15"/>
+                  <rdf:li rdf:resource="http://identifiers.org/ec-code/1.11.1.16"/>
+                  <rdf:li rdf:resource="http://identifiers.org/metanetx.reaction/MNXR104815"/>
+                  <rdf:li rdf:resource="http://identifiers.org/sabiork/11213"/>
+                  <rdf:li rdf:resource="http://identifiers.org/seed.reaction/rxn09296"/>
+                </rdf:Bag>
+              </bqbiol:is>
+            </rdf:Description>
+          </rdf:RDF>
+        </sbml:annotation>
+        <listOfReactants>
+          <speciesReference species="M_h2o2_c" stoichiometry="1" constant="true"/>
+          <speciesReference species="M_trdrd_c" stoichiometry="1" constant="true"/>
+        </listOfReactants>
+        <listOfProducts>
+          <speciesReference species="M_h2o_c" stoichiometry="2" constant="true"/>
+          <speciesReference species="M_trdox_c" stoichiometry="1" constant="true"/>
+        </listOfProducts>
+        <fbc:geneProductAssociation>
+          <fbc:or>
+            <fbc:and>
+              <fbc:geneProductRef fbc:geneProduct="G_b3781"/>
+              <fbc:geneProductRef fbc:geneProduct="G_b2480"/>
+            </fbc:and>
+            <fbc:geneProductRef fbc:geneProduct="G_b1710"/>
+            <fbc:and>
+              <fbc:geneProductRef fbc:geneProduct="G_b2582"/>
+              <fbc:geneProductRef fbc:geneProduct="G_b2480"/>
+            </fbc:and>
+          </fbc:or>
+        </fbc:geneProductAssociation>
+      </reaction>
+      <reaction id="R_EX_n2o_e" fast="false" reversible="false" name="Nitrous oxide exchange" metaid="R_EX_n2o_e" sboTerm="SBO:0000627" fbc:upperFluxBound="cobra_default_ub" fbc:lowerFluxBound="cobra_0_bound">
+        <sbml:annotation xmlns:sbml="http://www.sbml.org/sbml/level3/version1/core">
+          <rdf:RDF xmlns:rdf="http://www.w3.org/1999/02/22-rdf-syntax-ns#">
+            <rdf:Description rdf:about="#R_EX_n2o_e">
+              <bqbiol:is xmlns:bqbiol="http://biomodels.net/biology-qualifiers/">
+                <rdf:Bag>
+                  <rdf:li rdf:resource="http://identifiers.org/bigg.reaction/EX_n2o_e"/>
+                  <rdf:li rdf:resource="http://identifiers.org/metanetx.reaction/MNXR101797"/>
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+                  <rdf:li rdf:resource="http://identifiers.org/seed.reaction/rxn08967"/>
+                </rdf:Bag>
+              </bqbiol:is>
+            </rdf:Description>
+          </rdf:RDF>
+        </sbml:annotation>
+        <listOfReactants>
+          <speciesReference species="M_n2o_e" stoichiometry="1" constant="true"/>
+        </listOfReactants>
+      </reaction>
+      <reaction id="R_PPPGO3" fast="false" reversible="false" name="Protoporphyrinogen oxidase (anaerobic)" metaid="R_PPPGO3" sboTerm="SBO:0000176" fbc:upperFluxBound="cobra_default_ub" fbc:lowerFluxBound="cobra_0_bound">
+        <sbml:annotation xmlns:sbml="http://www.sbml.org/sbml/level3/version1/core">
+          <rdf:RDF xmlns:rdf="http://www.w3.org/1999/02/22-rdf-syntax-ns#">
+            <rdf:Description rdf:about="#R_PPPGO3">
+              <bqbiol:is xmlns:bqbiol="http://biomodels.net/biology-qualifiers/">
+                <rdf:Bag>
+                  <rdf:li rdf:resource="http://identifiers.org/bigg.reaction/PPPGO3"/>
+                  <rdf:li rdf:resource="http://identifiers.org/ec-code/1.3.3.4"/>
+                  <rdf:li rdf:resource="http://identifiers.org/metanetx.reaction/MNXR103130"/>
+                  <rdf:li rdf:resource="http://identifiers.org/seed.reaction/rxn09180"/>
+                </rdf:Bag>
+              </bqbiol:is>
+            </rdf:Description>
+          </rdf:RDF>
+        </sbml:annotation>
+        <listOfReactants>
+          <speciesReference species="M_fum_c" stoichiometry="3" constant="true"/>
+          <speciesReference species="M_pppg9_c" stoichiometry="1" constant="true"/>
+        </listOfReactants>
+        <listOfProducts>
+          <speciesReference species="M_ppp9_c" stoichiometry="1" constant="true"/>
+          <speciesReference species="M_succ_c" stoichiometry="3" constant="true"/>
+        </listOfProducts>
+        <fbc:geneProductAssociation>
+          <fbc:geneProductRef fbc:geneProduct="G_b3850"/>
+        </fbc:geneProductAssociation>
+      </reaction>
+      <reaction id="R_PFK" fast="false" reversible="false" name="Phosphofructokinase" metaid="R_PFK" sboTerm="SBO:0000176" fbc:upperFluxBound="cobra_default_ub" fbc:lowerFluxBound="cobra_0_bound">
+        <sbml:annotation xmlns:sbml="http://www.sbml.org/sbml/level3/version1/core">
+          <rdf:RDF xmlns:rdf="http://www.w3.org/1999/02/22-rdf-syntax-ns#">
+            <rdf:Description rdf:about="#R_PFK">
+              <bqbiol:is xmlns:bqbiol="http://biomodels.net/biology-qualifiers/">
+                <rdf:Bag>
+                  <rdf:li rdf:resource="http://identifiers.org/bigg.reaction/PFK"/>
+                  <rdf:li rdf:resource="http://identifiers.org/ec-code/2.7.1.11"/>
+                  <rdf:li rdf:resource="http://identifiers.org/metanetx.reaction/MNXR102507"/>
+                  <rdf:li rdf:resource="http://identifiers.org/rhea/16111"/>
+                  <rdf:li rdf:resource="http://identifiers.org/rhea/16109"/>
+                  <rdf:li rdf:resource="http://identifiers.org/rhea/16110"/>
+                  <rdf:li rdf:resource="http://identifiers.org/rhea/16112"/>
+                </rdf:Bag>
+              </bqbiol:is>
+            </rdf:Description>
+          </rdf:RDF>
+        </sbml:annotation>
+        <listOfReactants>
+          <speciesReference species="M_atp_c" stoichiometry="1" constant="true"/>
+          <speciesReference species="M_f6p_c" stoichiometry="1" constant="true"/>
+        </listOfReactants>
+        <listOfProducts>
+          <speciesReference species="M_adp_c" stoichiometry="1" constant="true"/>
+          <speciesReference species="M_fdp_c" stoichiometry="1" constant="true"/>
+          <speciesReference species="M_h_c" stoichiometry="1" constant="true"/>
+        </listOfProducts>
+        <fbc:geneProductAssociation>
+          <fbc:or>
+            <fbc:geneProductRef fbc:geneProduct="G_b3916"/>
+            <fbc:geneProductRef fbc:geneProduct="G_b1723"/>
+          </fbc:or>
+        </fbc:geneProductAssociation>
+      </reaction>
+      <reaction id="R_PDX5POi" fast="false" reversible="false" name="Pyridoxine 5'-phosphate oxidase" metaid="R_PDX5POi" sboTerm="SBO:0000176" fbc:upperFluxBound="cobra_default_ub" fbc:lowerFluxBound="cobra_0_bound">
+        <sbml:annotation xmlns:sbml="http://www.sbml.org/sbml/level3/version1/core">
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+            <rdf:Description rdf:about="#R_PDX5POi">
+              <bqbiol:is xmlns:bqbiol="http://biomodels.net/biology-qualifiers/">
+                <rdf:Bag>
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+                  <rdf:li rdf:resource="http://identifiers.org/biocyc/META:PNPOXI-RXN"/>
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+                  <rdf:li rdf:resource="http://identifiers.org/kegg.reaction/R00278"/>
+                  <rdf:li rdf:resource="http://identifiers.org/metanetx.reaction/MNXR102438"/>
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+                  <rdf:li rdf:resource="http://identifiers.org/reactome.reaction/R-HSA-965019"/>
+                  <rdf:li rdf:resource="http://identifiers.org/reactome.reaction/R-CEL-965019"/>
+                  <rdf:li rdf:resource="http://identifiers.org/reactome.reaction/R-XTR-965019"/>
+                  <rdf:li rdf:resource="http://identifiers.org/reactome.reaction/R-MMU-965019"/>
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+                  <rdf:li rdf:resource="http://identifiers.org/reactome.reaction/R-SCE-965019"/>
+                  <rdf:li rdf:resource="http://identifiers.org/reactome.reaction/R-SPO-965019"/>
+                  <rdf:li rdf:resource="http://identifiers.org/reactome.reaction/R-GGA-965019"/>
+                  <rdf:li rdf:resource="http://identifiers.org/reactome.reaction/R-DME-965019"/>
+                  <rdf:li rdf:resource="http://identifiers.org/reactome.reaction/R-SSC-965019"/>
+                  <rdf:li rdf:resource="http://identifiers.org/reactome.reaction/R-BTA-965019"/>
+                  <rdf:li rdf:resource="http://identifiers.org/reactome.reaction/R-RNO-965019"/>
+                  <rdf:li rdf:resource="http://identifiers.org/reactome.reaction/R-DDI-965019"/>
+                  <rdf:li rdf:resource="http://identifiers.org/rhea/15151"/>
+                  <rdf:li rdf:resource="http://identifiers.org/rhea/15149"/>
+                  <rdf:li rdf:resource="http://identifiers.org/rhea/15152"/>
+                  <rdf:li rdf:resource="http://identifiers.org/rhea/15150"/>
+                  <rdf:li rdf:resource="http://identifiers.org/sabiork/778"/>
+                  <rdf:li rdf:resource="http://identifiers.org/seed.reaction/rxn00209"/>
+                </rdf:Bag>
+              </bqbiol:is>
+            </rdf:Description>
+          </rdf:RDF>
+        </sbml:annotation>
+        <listOfReactants>
+          <speciesReference species="M_o2_c" stoichiometry="1" constant="true"/>
+          <speciesReference species="M_pdx5p_c" stoichiometry="1" constant="true"/>
+        </listOfReactants>
+        <listOfProducts>
+          <speciesReference species="M_h2o2_c" stoichiometry="1" constant="true"/>
+          <speciesReference species="M_pydx5p_c" stoichiometry="1" constant="true"/>
+        </listOfProducts>
+        <fbc:geneProductAssociation>
+          <fbc:geneProductRef fbc:geneProduct="G_b1638"/>
+        </fbc:geneProductAssociation>
+      </reaction>
+      <reaction id="R_PDX5PO2" fast="false" reversible="false" name="Pyridoxine 5'-phosphate oxidase (anaerboic" metaid="R_PDX5PO2" sboTerm="SBO:0000176" fbc:upperFluxBound="cobra_default_ub" fbc:lowerFluxBound="cobra_0_bound">
+        <sbml:annotation xmlns:sbml="http://www.sbml.org/sbml/level3/version1/core">
+          <rdf:RDF xmlns:rdf="http://www.w3.org/1999/02/22-rdf-syntax-ns#">
+            <rdf:Description rdf:about="#R_PDX5PO2">
+              <bqbiol:is xmlns:bqbiol="http://biomodels.net/biology-qualifiers/">
+                <rdf:Bag>
+                  <rdf:li rdf:resource="http://identifiers.org/bigg.reaction/PDX5PO2"/>
+                  <rdf:li rdf:resource="http://identifiers.org/metanetx.reaction/MNXR102437"/>
+                  <rdf:li rdf:resource="http://identifiers.org/seed.reaction/rxn09071"/>
+                </rdf:Bag>
+              </bqbiol:is>
+            </rdf:Description>
+          </rdf:RDF>
+        </sbml:annotation>
+        <listOfReactants>
+          <speciesReference species="M_nad_c" stoichiometry="1" constant="true"/>
+          <speciesReference species="M_pdx5p_c" stoichiometry="1" constant="true"/>
+        </listOfReactants>
+        <listOfProducts>
+          <speciesReference species="M_h_c" stoichiometry="1" constant="true"/>
+          <speciesReference species="M_nadh_c" stoichiometry="1" constant="true"/>
+          <speciesReference species="M_pydx5p_c" stoichiometry="1" constant="true"/>
+        </listOfProducts>
+      </reaction>
+      <reaction id="R_MDDCP1pp" fast="false" reversible="false" name="Murein D,D-carboxypeptidase (murein5px4p) (periplasm)" metaid="R_MDDCP1pp" sboTerm="SBO:0000176" fbc:upperFluxBound="cobra_default_ub" fbc:lowerFluxBound="cobra_0_bound">
+        <sbml:annotation xmlns:sbml="http://www.sbml.org/sbml/level3/version1/core">
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+            <rdf:Description rdf:about="#R_MDDCP1pp">
+              <bqbiol:is xmlns:bqbiol="http://biomodels.net/biology-qualifiers/">
+                <rdf:Bag>
+                  <rdf:li rdf:resource="http://identifiers.org/bigg.reaction/MDDCP1pp"/>
+                  <rdf:li rdf:resource="http://identifiers.org/ec-code/3.4.16.4"/>
+                  <rdf:li rdf:resource="http://identifiers.org/metanetx.reaction/MNXR143206"/>
+                  <rdf:li rdf:resource="http://identifiers.org/seed.reaction/rxn08890"/>
+                </rdf:Bag>
+              </bqbiol:is>
+            </rdf:Description>
+          </rdf:RDF>
+        </sbml:annotation>
+        <listOfReactants>
+          <speciesReference species="M_h2o_p" stoichiometry="1" constant="true"/>
+          <speciesReference species="M_murein5px4p_p" stoichiometry="1" constant="true"/>
+        </listOfReactants>
+        <listOfProducts>
+          <speciesReference species="M_ala__D_p" stoichiometry="1" constant="true"/>
+          <speciesReference species="M_murein4px4p_p" stoichiometry="1" constant="true"/>
+        </listOfProducts>
+        <fbc:geneProductAssociation>
+          <fbc:or>
+            <fbc:geneProductRef fbc:geneProduct="G_b0632"/>
+            <fbc:geneProductRef fbc:geneProduct="G_b3182"/>
+            <fbc:geneProductRef fbc:geneProduct="G_b0839"/>
+            <fbc:geneProductRef fbc:geneProduct="G_b2010"/>
+            <fbc:geneProductRef fbc:geneProduct="G_b0376"/>
+            <fbc:geneProductRef fbc:geneProduct="G_b2430"/>
+          </fbc:or>
+        </fbc:geneProductAssociation>
+      </reaction>
+      <reaction id="R_GUI2" fast="false" reversible="true" name="Glucuronate isomerase (D-galacturonate)" metaid="R_GUI2" sboTerm="SBO:0000176" fbc:upperFluxBound="cobra_default_ub" fbc:lowerFluxBound="cobra_default_lb">
+        <sbml:annotation xmlns:sbml="http://www.sbml.org/sbml/level3/version1/core">
+          <rdf:RDF xmlns:rdf="http://www.w3.org/1999/02/22-rdf-syntax-ns#">
+            <rdf:Description rdf:about="#R_GUI2">
+              <bqbiol:is xmlns:bqbiol="http://biomodels.net/biology-qualifiers/">
+                <rdf:Bag>
+                  <rdf:li rdf:resource="http://identifiers.org/bigg.reaction/GUI2"/>
+                  <rdf:li rdf:resource="http://identifiers.org/ec-code/5.3.1.12"/>
+                  <rdf:li rdf:resource="http://identifiers.org/kegg.reaction/R01983"/>
+                  <rdf:li rdf:resource="http://identifiers.org/metanetx.reaction/MNXR100469"/>
+                  <rdf:li rdf:resource="http://identifiers.org/seed.reaction/rxn01457"/>
+                </rdf:Bag>
+              </bqbiol:is>
+            </rdf:Description>
+          </rdf:RDF>
+        </sbml:annotation>
+        <listOfReactants>
+          <speciesReference species="M_galur_c" stoichiometry="1" constant="true"/>
+        </listOfReactants>
+        <listOfProducts>
+          <speciesReference species="M_tagur_c" stoichiometry="1" constant="true"/>
+        </listOfProducts>
+        <fbc:geneProductAssociation>
+          <fbc:geneProductRef fbc:geneProduct="G_b3092"/>
+        </fbc:geneProductAssociation>
+      </reaction>
+      <reaction id="R_OMBZLM" fast="false" reversible="false" name="2-Octaprenyl-6-methoxy-benzoquinol methylase" metaid="R_OMBZLM" sboTerm="SBO:0000176" fbc:upperFluxBound="cobra_default_ub" fbc:lowerFluxBound="cobra_0_bound">
+        <sbml:annotation xmlns:sbml="http://www.sbml.org/sbml/level3/version1/core">
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+            <rdf:Description rdf:about="#R_OMBZLM">
+              <bqbiol:is xmlns:bqbiol="http://biomodels.net/biology-qualifiers/">
+                <rdf:Bag>
+                  <rdf:li rdf:resource="http://identifiers.org/bigg.reaction/OMBZLM"/>
+                  <rdf:li rdf:resource="http://identifiers.org/biocyc/META:2-OCTAPRENYL-METHOXY-BENZOQ-METH-RXN"/>
+                  <rdf:li rdf:resource="http://identifiers.org/ec-code/2.1.1.201"/>
+                  <rdf:li rdf:resource="http://identifiers.org/metanetx.reaction/MNXR115030"/>
+                  <rdf:li rdf:resource="http://identifiers.org/rhea/27774"/>
+                  <rdf:li rdf:resource="http://identifiers.org/rhea/27777"/>
+                  <rdf:li rdf:resource="http://identifiers.org/rhea/27776"/>
+                  <rdf:li rdf:resource="http://identifiers.org/rhea/27775"/>
+                  <rdf:li rdf:resource="http://identifiers.org/seed.reaction/rxn09039"/>
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+            </rdf:Description>
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+        </sbml:annotation>
+        <listOfReactants>
+          <speciesReference species="M_2ombzl_c" stoichiometry="1" constant="true"/>
+          <speciesReference species="M_amet_c" stoichiometry="1" constant="true"/>
+        </listOfReactants>
+        <listOfProducts>
+          <speciesReference species="M_2ommbl_c" stoichiometry="1" constant="true"/>
+          <speciesReference species="M_ahcys_c" stoichiometry="1" constant="true"/>
+          <speciesReference species="M_h_c" stoichiometry="1" constant="true"/>
+        </listOfProducts>
+        <fbc:geneProductAssociation>
+          <fbc:geneProductRef fbc:geneProduct="G_b3833"/>
+        </fbc:geneProductAssociation>
+      </reaction>
+      <reaction id="R_PLIPA1A181pp" fast="false" reversible="false" name="Phospholipase A1 (phosphatidate, n-C18:1) (periplasm)" metaid="R_PLIPA1A181pp" sboTerm="SBO:0000176" fbc:upperFluxBound="cobra_default_ub" fbc:lowerFluxBound="cobra_0_bound">
+        <sbml:annotation xmlns:sbml="http://www.sbml.org/sbml/level3/version1/core">
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+              <bqbiol:is xmlns:bqbiol="http://biomodels.net/biology-qualifiers/">
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+                  <rdf:li rdf:resource="http://identifiers.org/metanetx.reaction/MNXR102973"/>
+                </rdf:Bag>
+              </bqbiol:is>
+            </rdf:Description>
+          </rdf:RDF>
+        </sbml:annotation>
+        <listOfReactants>
+          <speciesReference species="M_h2o_p" stoichiometry="1" constant="true"/>
+          <speciesReference species="M_pa181_p" stoichiometry="1" constant="true"/>
+        </listOfReactants>
+        <listOfProducts>
+          <speciesReference species="M_2odec11eg3p_p" stoichiometry="1" constant="true"/>
+          <speciesReference species="M_ocdcea_p" stoichiometry="1" constant="true"/>
+        </listOfProducts>
+        <fbc:geneProductAssociation>
+          <fbc:geneProductRef fbc:geneProduct="G_b3821"/>
+        </fbc:geneProductAssociation>
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+                  <rdf:li rdf:resource="http://identifiers.org/rhea/15903"/>
+                  <rdf:li rdf:resource="http://identifiers.org/rhea/15901"/>
+                  <rdf:li rdf:resource="http://identifiers.org/rhea/15904"/>
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+                  <rdf:li rdf:resource="http://identifiers.org/seed.reaction/rxn01106"/>
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+        <listOfProducts>
+          <speciesReference species="M_3pg_c" stoichiometry="1" constant="true"/>
+        </listOfProducts>
+        <fbc:geneProductAssociation>
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+            <fbc:geneProductRef fbc:geneProduct="G_b0755"/>
+            <fbc:geneProductRef fbc:geneProduct="G_b3612"/>
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+        </fbc:geneProductAssociation>
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+          <speciesReference species="M_h2o_c" stoichiometry="1" constant="true"/>
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+        <listOfProducts>
+          <speciesReference species="M_glyc3p_c" stoichiometry="1" constant="true"/>
+          <speciesReference species="M_h_c" stoichiometry="2" constant="true"/>
+          <speciesReference species="M_ttdcea_c" stoichiometry="1" constant="true"/>
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+          <fbc:geneProductRef fbc:geneProduct="G_b3825"/>
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+          <speciesReference species="M_hg2_c" stoichiometry="1" constant="true"/>
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+        <listOfProducts>
+          <speciesReference species="M_h_c" stoichiometry="1" constant="true"/>
+          <speciesReference species="M_hg2_p" stoichiometry="1" constant="true"/>
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+          <fbc:geneProductRef fbc:geneProduct="G_b3915"/>
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+        <sbml:annotation xmlns:sbml="http://www.sbml.org/sbml/level3/version1/core">
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+            </rdf:Description>
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+        </sbml:annotation>
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+          <speciesReference species="M_o2_c" stoichiometry="0.5" constant="true"/>
+          <speciesReference species="M_q8h2_c" stoichiometry="1" constant="true"/>
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+        <listOfProducts>
+          <speciesReference species="M_h2o_c" stoichiometry="1" constant="true"/>
+          <speciesReference species="M_h_p" stoichiometry="4" constant="true"/>
+          <speciesReference species="M_q8_c" stoichiometry="1" constant="true"/>
+        </listOfProducts>
+        <fbc:geneProductAssociation>
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+            <fbc:geneProductRef fbc:geneProduct="G_b0431"/>
+            <fbc:geneProductRef fbc:geneProduct="G_b0429"/>
+            <fbc:geneProductRef fbc:geneProduct="G_b0430"/>
+          </fbc:and>
+        </fbc:geneProductAssociation>
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+        <sbml:annotation xmlns:sbml="http://www.sbml.org/sbml/level3/version1/core">
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+              <bqbiol:is xmlns:bqbiol="http://biomodels.net/biology-qualifiers/">
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+            </rdf:Description>
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+        <sbml:annotation xmlns:sbml="http://www.sbml.org/sbml/level3/version1/core">
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+                  <rdf:li rdf:resource="http://identifiers.org/reactome.reaction/R-CFA-6799495"/>
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+                  <rdf:li rdf:resource="http://identifiers.org/rhea/23516"/>
+                  <rdf:li rdf:resource="http://identifiers.org/rhea/23517"/>
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+                  <rdf:li rdf:resource="http://identifiers.org/seed.reaction/rxn01102"/>
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+          <speciesReference species="M_glyc__R_c" stoichiometry="1" constant="true"/>
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+        <listOfProducts>
+          <speciesReference species="M_3pg_c" stoichiometry="1" constant="true"/>
+          <speciesReference species="M_adp_c" stoichiometry="1" constant="true"/>
+          <speciesReference species="M_h_c" stoichiometry="1" constant="true"/>
+        </listOfProducts>
+        <fbc:geneProductAssociation>
+          <fbc:geneProductRef fbc:geneProduct="G_b0514"/>
+        </fbc:geneProductAssociation>
+      </reaction>
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+        <sbml:annotation xmlns:sbml="http://www.sbml.org/sbml/level3/version1/core">
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+                  <rdf:li rdf:resource="http://identifiers.org/seed.reaction/rxn08936"/>
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+          <speciesReference species="M_malthp_c" stoichiometry="1" constant="true"/>
+        </listOfReactants>
+        <listOfProducts>
+          <speciesReference species="M_glc__D_c" stoichiometry="1" constant="true"/>
+          <speciesReference species="M_malthx_c" stoichiometry="1" constant="true"/>
+        </listOfProducts>
+        <fbc:geneProductAssociation>
+          <fbc:geneProductRef fbc:geneProduct="G_b0403"/>
+        </fbc:geneProductAssociation>
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+        <sbml:annotation xmlns:sbml="http://www.sbml.org/sbml/level3/version1/core">
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+                <rdf:Bag>
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+                  <rdf:li rdf:resource="http://identifiers.org/rhea/29878"/>
+                  <rdf:li rdf:resource="http://identifiers.org/rhea/29876"/>
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+          <speciesReference species="M_h2o_c" stoichiometry="1" constant="true"/>
+        </listOfReactants>
+        <listOfProducts>
+          <speciesReference species="M_glyc3p_c" stoichiometry="1" constant="true"/>
+          <speciesReference species="M_h_c" stoichiometry="1" constant="true"/>
+          <speciesReference species="M_ser__L_c" stoichiometry="1" constant="true"/>
+        </listOfProducts>
+        <fbc:geneProductAssociation>
+          <fbc:geneProductRef fbc:geneProduct="G_b3449"/>
+        </fbc:geneProductAssociation>
+      </reaction>
+      <reaction id="R_EAR141x" fast="false" reversible="false" name="Enoyl-[acyl-carrier-protein] reductase (NADH) (n-C14:1)" metaid="R_EAR141x" sboTerm="SBO:0000176" fbc:upperFluxBound="cobra_default_ub" fbc:lowerFluxBound="cobra_0_bound">
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+          <speciesReference species="M_h_c" stoichiometry="1" constant="true"/>
+          <speciesReference species="M_nadh_c" stoichiometry="1" constant="true"/>
+          <speciesReference species="M_t3c7mrseACP_c" stoichiometry="1" constant="true"/>
+        </listOfReactants>
+        <listOfProducts>
+          <speciesReference species="M_nad_c" stoichiometry="1" constant="true"/>
+          <speciesReference species="M_tdeACP_c" stoichiometry="1" constant="true"/>
+        </listOfProducts>
+        <fbc:geneProductAssociation>
+          <fbc:geneProductRef fbc:geneProduct="G_b1288"/>
+        </fbc:geneProductAssociation>
+      </reaction>
+      <reaction id="R_EAR181x" fast="false" reversible="false" name="Enoyl-[acyl-carrier-protein] reductase (NADH) (n-C18:1)" metaid="R_EAR181x" sboTerm="SBO:0000176" fbc:upperFluxBound="cobra_default_ub" fbc:lowerFluxBound="cobra_0_bound">
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+        </sbml:annotation>
+        <listOfReactants>
+          <speciesReference species="M_h_c" stoichiometry="1" constant="true"/>
+          <speciesReference species="M_nadh_c" stoichiometry="1" constant="true"/>
+          <speciesReference species="M_t3c11vaceACP_c" stoichiometry="1" constant="true"/>
+        </listOfReactants>
+        <listOfProducts>
+          <speciesReference species="M_nad_c" stoichiometry="1" constant="true"/>
+          <speciesReference species="M_octeACP_c" stoichiometry="1" constant="true"/>
+        </listOfProducts>
+        <fbc:geneProductAssociation>
+          <fbc:geneProductRef fbc:geneProduct="G_b1288"/>
+        </fbc:geneProductAssociation>
+      </reaction>
+      <reaction id="R_TPI" fast="false" reversible="true" name="Triose-phosphate isomerase" metaid="R_TPI" sboTerm="SBO:0000176" fbc:upperFluxBound="cobra_default_ub" fbc:lowerFluxBound="cobra_default_lb">
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+        </sbml:annotation>
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+          <speciesReference species="M_dhap_c" stoichiometry="1" constant="true"/>
+        </listOfReactants>
+        <listOfProducts>
+          <speciesReference species="M_g3p_c" stoichiometry="1" constant="true"/>
+        </listOfProducts>
+        <fbc:geneProductAssociation>
+          <fbc:geneProductRef fbc:geneProduct="G_b3919"/>
+        </fbc:geneProductAssociation>
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+        <sbml:annotation xmlns:sbml="http://www.sbml.org/sbml/level3/version1/core">
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+                  <rdf:li rdf:resource="http://identifiers.org/ec-code/1.3.1.10"/>
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+        </sbml:annotation>
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+          <speciesReference species="M_h_c" stoichiometry="1" constant="true"/>
+          <speciesReference species="M_nadph_c" stoichiometry="1" constant="true"/>
+          <speciesReference species="M_t3c11vaceACP_c" stoichiometry="1" constant="true"/>
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+        <listOfProducts>
+          <speciesReference species="M_nadp_c" stoichiometry="1" constant="true"/>
+          <speciesReference species="M_octeACP_c" stoichiometry="1" constant="true"/>
+        </listOfProducts>
+        <fbc:geneProductAssociation>
+          <fbc:geneProductRef fbc:geneProduct="G_b1288"/>
+        </fbc:geneProductAssociation>
+      </reaction>
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+              <bqbiol:is xmlns:bqbiol="http://biomodels.net/biology-qualifiers/">
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+                  <rdf:li rdf:resource="http://identifiers.org/metanetx.reaction/MNXR99856"/>
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+            </rdf:Description>
+          </rdf:RDF>
+        </sbml:annotation>
+        <listOfReactants>
+          <speciesReference species="M_glyc3p_c" stoichiometry="1" constant="true"/>
+          <speciesReference species="M_tdeACP_c" stoichiometry="1" constant="true"/>
+        </listOfReactants>
+        <listOfProducts>
+          <speciesReference species="M_1tdec7eg3p_c" stoichiometry="1" constant="true"/>
+          <speciesReference species="M_ACP_c" stoichiometry="1" constant="true"/>
+        </listOfProducts>
+        <fbc:geneProductAssociation>
+          <fbc:and>
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+            <fbc:geneProductRef fbc:geneProduct="G_b4041"/>
+          </fbc:and>
+        </fbc:geneProductAssociation>
+      </reaction>
+      <reaction id="R_2DOXG6PP" fast="false" reversible="false" name="2 deoxyglucose 6 phosphatase" metaid="R_2DOXG6PP" sboTerm="SBO:0000176" fbc:upperFluxBound="cobra_default_ub" fbc:lowerFluxBound="cobra_0_bound">
+        <sbml:annotation xmlns:sbml="http://www.sbml.org/sbml/level3/version1/core">
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+              <bqbiol:is xmlns:bqbiol="http://biomodels.net/biology-qualifiers/">
+                <rdf:Bag>
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+          <speciesReference species="M_2doxg6p_c" stoichiometry="1" constant="true"/>
+          <speciesReference species="M_h2o_c" stoichiometry="1" constant="true"/>
+        </listOfReactants>
+        <listOfProducts>
+          <speciesReference species="M_2dglc_c" stoichiometry="1" constant="true"/>
+          <speciesReference species="M_pi_c" stoichiometry="1" constant="true"/>
+        </listOfProducts>
+        <fbc:geneProductAssociation>
+          <fbc:or>
+            <fbc:geneProductRef fbc:geneProduct="G_b3826"/>
+            <fbc:geneProductRef fbc:geneProduct="G_b1727"/>
+            <fbc:geneProductRef fbc:geneProduct="G_b2293"/>
+            <fbc:geneProductRef fbc:geneProduct="G_b0446"/>
+          </fbc:or>
+        </fbc:geneProductAssociation>
+      </reaction>
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+        <sbml:annotation xmlns:sbml="http://www.sbml.org/sbml/level3/version1/core">
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+                  <rdf:li rdf:resource="http://identifiers.org/kegg.reaction/R02937"/>
+                  <rdf:li rdf:resource="http://identifiers.org/metanetx.reaction/MNXR102236"/>
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+          <speciesReference species="M_oxur_c" stoichiometry="1" constant="true"/>
+          <speciesReference species="M_pi_c" stoichiometry="1" constant="true"/>
+        </listOfReactants>
+        <listOfProducts>
+          <speciesReference species="M_cbp_c" stoichiometry="1" constant="true"/>
+          <speciesReference species="M_oxam_c" stoichiometry="1" constant="true"/>
+        </listOfProducts>
+      </reaction>
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+        <sbml:annotation xmlns:sbml="http://www.sbml.org/sbml/level3/version1/core">
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+                  <rdf:li rdf:resource="http://identifiers.org/metanetx.reaction/MNXR105045"/>
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+          <speciesReference species="M_udcpp_p" stoichiometry="1" constant="true"/>
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+        <listOfProducts>
+          <speciesReference species="M_udcpp_c" stoichiometry="1" constant="true"/>
+        </listOfProducts>
+      </reaction>
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+                  <rdf:li rdf:resource="http://identifiers.org/seed.reaction/rxn08080"/>
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+          </rdf:RDF>
+        </sbml:annotation>
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+          <speciesReference species="M_anhgm_c" stoichiometry="1" constant="true"/>
+          <speciesReference species="M_h2o_c" stoichiometry="1" constant="true"/>
+        </listOfReactants>
+        <listOfProducts>
+          <speciesReference species="M_acgam_c" stoichiometry="1" constant="true"/>
+          <speciesReference species="M_anhm_c" stoichiometry="1" constant="true"/>
+        </listOfProducts>
+        <fbc:geneProductAssociation>
+          <fbc:geneProductRef fbc:geneProduct="G_b1107"/>
+        </fbc:geneProductAssociation>
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+            </rdf:Description>
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+        </sbml:annotation>
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+          <speciesReference species="M_octeACP_c" stoichiometry="1" constant="true"/>
+        </listOfReactants>
+        <listOfProducts>
+          <speciesReference species="M_1odec11eg3p_c" stoichiometry="1" constant="true"/>
+          <speciesReference species="M_ACP_c" stoichiometry="1" constant="true"/>
+        </listOfProducts>
+        <fbc:geneProductAssociation>
+          <fbc:and>
+            <fbc:geneProductRef fbc:geneProduct="G_b1094"/>
+            <fbc:geneProductRef fbc:geneProduct="G_b4041"/>
+          </fbc:and>
+        </fbc:geneProductAssociation>
+      </reaction>
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+              <bqbiol:is xmlns:bqbiol="http://biomodels.net/biology-qualifiers/">
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+          <speciesReference species="M_ctp_c" stoichiometry="1" constant="true"/>
+          <speciesReference species="M_h_c" stoichiometry="1" constant="true"/>
+          <speciesReference species="M_pa140_c" stoichiometry="1" constant="true"/>
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+        <listOfProducts>
+          <speciesReference species="M_cdpdtdecg_c" stoichiometry="1" constant="true"/>
+          <speciesReference species="M_ppi_c" stoichiometry="1" constant="true"/>
+        </listOfProducts>
+        <fbc:geneProductAssociation>
+          <fbc:geneProductRef fbc:geneProduct="G_b0175"/>
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+              <bqbiol:is xmlns:bqbiol="http://biomodels.net/biology-qualifiers/">
+                <rdf:Bag>
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+                  <rdf:li rdf:resource="http://identifiers.org/metanetx.reaction/MNXR143249"/>
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+            </rdf:Description>
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+          <speciesReference species="M_uaagmda_c" stoichiometry="2" constant="true"/>
+        </listOfReactants>
+        <listOfProducts>
+          <speciesReference species="M_h_c" stoichiometry="2" constant="true"/>
+          <speciesReference species="M_murein5p5p_p" stoichiometry="1" constant="true"/>
+          <speciesReference species="M_udcpdp_c" stoichiometry="2" constant="true"/>
+        </listOfProducts>
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+              <fbc:geneProductRef fbc:geneProduct="G_b1069"/>
+              <fbc:geneProductRef fbc:geneProduct="G_b0089"/>
+              <fbc:geneProductRef fbc:geneProduct="G_b3208"/>
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+            <fbc:and>
+              <fbc:geneProductRef fbc:geneProduct="G_b3396"/>
+              <fbc:geneProductRef fbc:geneProduct="G_b1069"/>
+              <fbc:geneProductRef fbc:geneProduct="G_b0089"/>
+            </fbc:and>
+            <fbc:and>
+              <fbc:geneProductRef fbc:geneProduct="G_b2519"/>
+              <fbc:geneProductRef fbc:geneProduct="G_b1069"/>
+              <fbc:geneProductRef fbc:geneProduct="G_b0089"/>
+            </fbc:and>
+            <fbc:and>
+              <fbc:geneProductRef fbc:geneProduct="G_b0149"/>
+              <fbc:geneProductRef fbc:geneProduct="G_b1069"/>
+              <fbc:geneProductRef fbc:geneProduct="G_b0089"/>
+            </fbc:and>
+          </fbc:or>
+        </fbc:geneProductAssociation>
+      </reaction>
+      <reaction id="R_DASYN180" fast="false" reversible="false" name="CDP-diacylglycerol synthetase (n-C18:0)" metaid="R_DASYN180" sboTerm="SBO:0000176" fbc:upperFluxBound="cobra_default_ub" fbc:lowerFluxBound="cobra_0_bound">
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+            <rdf:Description rdf:about="#R_DASYN180">
+              <bqbiol:is xmlns:bqbiol="http://biomodels.net/biology-qualifiers/">
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+                  <rdf:li rdf:resource="http://identifiers.org/metanetx.reaction/MNXR97160"/>
+                  <rdf:li rdf:resource="http://identifiers.org/seed.reaction/rxn08311"/>
+                </rdf:Bag>
+              </bqbiol:is>
+            </rdf:Description>
+          </rdf:RDF>
+        </sbml:annotation>
+        <listOfReactants>
+          <speciesReference species="M_ctp_c" stoichiometry="1" constant="true"/>
+          <speciesReference species="M_h_c" stoichiometry="1" constant="true"/>
+          <speciesReference species="M_pa180_c" stoichiometry="1" constant="true"/>
+        </listOfReactants>
+        <listOfProducts>
+          <speciesReference species="M_cdpdodecg_c" stoichiometry="1" constant="true"/>
+          <speciesReference species="M_ppi_c" stoichiometry="1" constant="true"/>
+        </listOfProducts>
+        <fbc:geneProductAssociation>
+          <fbc:geneProductRef fbc:geneProduct="G_b0175"/>
+        </fbc:geneProductAssociation>
+      </reaction>
+      <reaction id="R_MPTG2" fast="false" reversible="false" name="Murein polymerizing transglycosylase 2 (three linked units)" metaid="R_MPTG2" sboTerm="SBO:0000185" fbc:upperFluxBound="cobra_default_ub" fbc:lowerFluxBound="cobra_0_bound">
+        <sbml:annotation xmlns:sbml="http://www.sbml.org/sbml/level3/version1/core">
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+            <rdf:Description rdf:about="#R_MPTG2">
+              <bqbiol:is xmlns:bqbiol="http://biomodels.net/biology-qualifiers/">
+                <rdf:Bag>
+                  <rdf:li rdf:resource="http://identifiers.org/bigg.reaction/MPTG2"/>
+                  <rdf:li rdf:resource="http://identifiers.org/metanetx.reaction/MNXR143250"/>
+                </rdf:Bag>
+              </bqbiol:is>
+            </rdf:Description>
+          </rdf:RDF>
+        </sbml:annotation>
+        <listOfReactants>
+          <speciesReference species="M_murein5p5p_p" stoichiometry="1" constant="true"/>
+          <speciesReference species="M_uaagmda_c" stoichiometry="1" constant="true"/>
+        </listOfReactants>
+        <listOfProducts>
+          <speciesReference species="M_h_c" stoichiometry="1" constant="true"/>
+          <speciesReference species="M_murein5p5p5p_p" stoichiometry="1" constant="true"/>
+          <speciesReference species="M_udcpdp_c" stoichiometry="1" constant="true"/>
+        </listOfProducts>
+        <fbc:geneProductAssociation>
+          <fbc:or>
+            <fbc:and>
+              <fbc:geneProductRef fbc:geneProduct="G_b0149"/>
+              <fbc:geneProductRef fbc:geneProduct="G_b1069"/>
+              <fbc:geneProductRef fbc:geneProduct="G_b0089"/>
+            </fbc:and>
+            <fbc:and>
+              <fbc:geneProductRef fbc:geneProduct="G_b1069"/>
+              <fbc:geneProductRef fbc:geneProduct="G_b0089"/>
+              <fbc:geneProductRef fbc:geneProduct="G_b3208"/>
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+            <fbc:and>
+              <fbc:geneProductRef fbc:geneProduct="G_b3396"/>
+              <fbc:geneProductRef fbc:geneProduct="G_b1069"/>
+              <fbc:geneProductRef fbc:geneProduct="G_b0089"/>
+            </fbc:and>
+            <fbc:and>
+              <fbc:geneProductRef fbc:geneProduct="G_b2519"/>
+              <fbc:geneProductRef fbc:geneProduct="G_b1069"/>
+              <fbc:geneProductRef fbc:geneProduct="G_b0089"/>
+            </fbc:and>
+          </fbc:or>
+        </fbc:geneProductAssociation>
+      </reaction>
+      <reaction id="R_DASYN141" fast="false" reversible="false" name="CDP-diacylglycerol synthetase (n-C14:1)" metaid="R_DASYN141" sboTerm="SBO:0000176" fbc:upperFluxBound="cobra_default_ub" fbc:lowerFluxBound="cobra_0_bound">
+        <sbml:annotation xmlns:sbml="http://www.sbml.org/sbml/level3/version1/core">
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+            <rdf:Description rdf:about="#R_DASYN141">
+              <bqbiol:is xmlns:bqbiol="http://biomodels.net/biology-qualifiers/">
+                <rdf:Bag>
+                  <rdf:li rdf:resource="http://identifiers.org/bigg.reaction/DASYN141"/>
+                  <rdf:li rdf:resource="http://identifiers.org/ec-code/2.7.7.41"/>
+                  <rdf:li rdf:resource="http://identifiers.org/metanetx.reaction/MNXR97156"/>
+                  <rdf:li rdf:resource="http://identifiers.org/seed.reaction/rxn08308"/>
+                </rdf:Bag>
+              </bqbiol:is>
+            </rdf:Description>
+          </rdf:RDF>
+        </sbml:annotation>
+        <listOfReactants>
+          <speciesReference species="M_ctp_c" stoichiometry="1" constant="true"/>
+          <speciesReference species="M_h_c" stoichiometry="1" constant="true"/>
+          <speciesReference species="M_pa141_c" stoichiometry="1" constant="true"/>
+        </listOfReactants>
+        <listOfProducts>
+          <speciesReference species="M_cdpdtdec7eg_c" stoichiometry="1" constant="true"/>
+          <speciesReference species="M_ppi_c" stoichiometry="1" constant="true"/>
+        </listOfProducts>
+        <fbc:geneProductAssociation>
+          <fbc:geneProductRef fbc:geneProduct="G_b0175"/>
+        </fbc:geneProductAssociation>
+      </reaction>
+      <reaction id="R_RPI" fast="false" reversible="true" name="Ribose-5-phosphate isomerase" metaid="R_RPI" sboTerm="SBO:0000176" fbc:upperFluxBound="cobra_default_ub" fbc:lowerFluxBound="cobra_default_lb">
+        <sbml:annotation xmlns:sbml="http://www.sbml.org/sbml/level3/version1/core">
+          <rdf:RDF xmlns:rdf="http://www.w3.org/1999/02/22-rdf-syntax-ns#">
+            <rdf:Description rdf:about="#R_RPI">
+              <bqbiol:is xmlns:bqbiol="http://biomodels.net/biology-qualifiers/">
+                <rdf:Bag>
+                  <rdf:li rdf:resource="http://identifiers.org/bigg.reaction/RPI"/>
+                  <rdf:li rdf:resource="http://identifiers.org/ec-code/5.3.1.6"/>
+                  <rdf:li rdf:resource="http://identifiers.org/metanetx.reaction/MNXR104084"/>
+                </rdf:Bag>
+              </bqbiol:is>
+            </rdf:Description>
+          </rdf:RDF>
+        </sbml:annotation>
+        <listOfReactants>
+          <speciesReference species="M_r5p_c" stoichiometry="1" constant="true"/>
+        </listOfReactants>
+        <listOfProducts>
+          <speciesReference species="M_ru5p__D_c" stoichiometry="1" constant="true"/>
+        </listOfProducts>
+        <fbc:geneProductAssociation>
+          <fbc:or>
+            <fbc:geneProductRef fbc:geneProduct="G_b2914"/>
+            <fbc:geneProductRef fbc:geneProduct="G_b4090"/>
+          </fbc:or>
+        </fbc:geneProductAssociation>
+      </reaction>
+      <reaction id="R_MCTP1App" fast="false" reversible="false" name="Murein crosslinking transpeptidase 1A:(A2pm-&gt;D-ala) (periplasm)" metaid="R_MCTP1App" sboTerm="SBO:0000176" fbc:upperFluxBound="cobra_default_ub" fbc:lowerFluxBound="cobra_0_bound">
+        <sbml:annotation xmlns:sbml="http://www.sbml.org/sbml/level3/version1/core">
+          <rdf:RDF xmlns:rdf="http://www.w3.org/1999/02/22-rdf-syntax-ns#">
+            <rdf:Description rdf:about="#R_MCTP1App">
+              <bqbiol:is xmlns:bqbiol="http://biomodels.net/biology-qualifiers/">
+                <rdf:Bag>
+                  <rdf:li rdf:resource="http://identifiers.org/bigg.reaction/MCTP1App"/>
+                  <rdf:li rdf:resource="http://identifiers.org/metanetx.reaction/MNXR101426"/>
+                  <rdf:li rdf:resource="http://identifiers.org/seed.reaction/rxn08887"/>
+                </rdf:Bag>
+              </bqbiol:is>
+            </rdf:Description>
+          </rdf:RDF>
+        </sbml:annotation>
+        <listOfReactants>
+          <speciesReference species="M_murein5p5p_p" stoichiometry="1" constant="true"/>
+        </listOfReactants>
+        <listOfProducts>
+          <speciesReference species="M_ala__D_p" stoichiometry="1" constant="true"/>
+          <speciesReference species="M_murein5px4p_p" stoichiometry="1" constant="true"/>
+        </listOfProducts>
+        <fbc:geneProductAssociation>
+          <fbc:or>
+            <fbc:and>
+              <fbc:geneProductRef fbc:geneProduct="G_b0635"/>
+              <fbc:geneProductRef fbc:geneProduct="G_b0084"/>
+              <fbc:geneProductRef fbc:geneProduct="G_b3396"/>
+            </fbc:and>
+            <fbc:and>
+              <fbc:geneProductRef fbc:geneProduct="G_b0635"/>
+              <fbc:geneProductRef fbc:geneProduct="G_b0084"/>
+              <fbc:geneProductRef fbc:geneProduct="G_b0149"/>
+            </fbc:and>
+          </fbc:or>
+        </fbc:geneProductAssociation>
+      </reaction>
+      <reaction id="R_MCTP2App" fast="false" reversible="false" name="Murein crosslinking transpeptidase 1A:(A2pm-&gt;D-ala) (periplasm)" metaid="R_MCTP2App" sboTerm="SBO:0000176" fbc:upperFluxBound="cobra_default_ub" fbc:lowerFluxBound="cobra_0_bound">
+        <sbml:annotation xmlns:sbml="http://www.sbml.org/sbml/level3/version1/core">
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+            <rdf:Description rdf:about="#R_MCTP2App">
+              <bqbiol:is xmlns:bqbiol="http://biomodels.net/biology-qualifiers/">
+                <rdf:Bag>
+                  <rdf:li rdf:resource="http://identifiers.org/bigg.reaction/MCTP2App"/>
+                  <rdf:li rdf:resource="http://identifiers.org/metanetx.reaction/MNXR143205"/>
+                  <rdf:li rdf:resource="http://identifiers.org/seed.reaction/rxn08889"/>
+                </rdf:Bag>
+              </bqbiol:is>
+            </rdf:Description>
+          </rdf:RDF>
+        </sbml:annotation>
+        <listOfReactants>
+          <speciesReference species="M_murein5p5p5p_p" stoichiometry="1" constant="true"/>
+        </listOfReactants>
+        <listOfProducts>
+          <speciesReference species="M_ala__D_p" stoichiometry="2" constant="true"/>
+          <speciesReference species="M_murein5px4px4p_p" stoichiometry="1" constant="true"/>
+        </listOfProducts>
+        <fbc:geneProductAssociation>
+          <fbc:or>
+            <fbc:and>
+              <fbc:geneProductRef fbc:geneProduct="G_b0635"/>
+              <fbc:geneProductRef fbc:geneProduct="G_b0084"/>
+              <fbc:geneProductRef fbc:geneProduct="G_b3396"/>
+            </fbc:and>
+            <fbc:and>
+              <fbc:geneProductRef fbc:geneProduct="G_b0635"/>
+              <fbc:geneProductRef fbc:geneProduct="G_b0084"/>
+              <fbc:geneProductRef fbc:geneProduct="G_b0149"/>
+            </fbc:and>
+          </fbc:or>
+        </fbc:geneProductAssociation>
+      </reaction>
+      <reaction id="R_CDAPPA160" fast="false" reversible="false" name="CDP-Diacylglycerol pyrophostatase (n-C16:0)" metaid="R_CDAPPA160" sboTerm="SBO:0000176" fbc:upperFluxBound="cobra_default_ub" fbc:lowerFluxBound="cobra_0_bound">
+        <sbml:annotation xmlns:sbml="http://www.sbml.org/sbml/level3/version1/core">
+          <rdf:RDF xmlns:rdf="http://www.w3.org/1999/02/22-rdf-syntax-ns#">
+            <rdf:Description rdf:about="#R_CDAPPA160">
+              <bqbiol:is xmlns:bqbiol="http://biomodels.net/biology-qualifiers/">
+                <rdf:Bag>
+                  <rdf:li rdf:resource="http://identifiers.org/bigg.reaction/CDAPPA160"/>
+                  <rdf:li rdf:resource="http://identifiers.org/ec-code/3.6.1.26"/>
+                  <rdf:li rdf:resource="http://identifiers.org/metanetx.reaction/MNXR96503"/>
+                  <rdf:li rdf:resource="http://identifiers.org/seed.reaction/rxn08202"/>
+                </rdf:Bag>
+              </bqbiol:is>
+            </rdf:Description>
+          </rdf:RDF>
+        </sbml:annotation>
+        <listOfReactants>
+          <speciesReference species="M_cdpdhdecg_c" stoichiometry="1" constant="true"/>
+          <speciesReference species="M_h2o_c" stoichiometry="1" constant="true"/>
+        </listOfReactants>
+        <listOfProducts>
+          <speciesReference species="M_cmp_c" stoichiometry="1" constant="true"/>
+          <speciesReference species="M_h_c" stoichiometry="2" constant="true"/>
+          <speciesReference species="M_pa160_c" stoichiometry="1" constant="true"/>
+        </listOfProducts>
+        <fbc:geneProductAssociation>
+          <fbc:geneProductRef fbc:geneProduct="G_b3918"/>
+        </fbc:geneProductAssociation>
+      </reaction>
+      <reaction id="R_CDAPPA141" fast="false" reversible="false" name="CDP-Diacylglycerol pyrophostatase (n-C14:1)" metaid="R_CDAPPA141" sboTerm="SBO:0000176" fbc:upperFluxBound="cobra_default_ub" fbc:lowerFluxBound="cobra_0_bound">
+        <sbml:annotation xmlns:sbml="http://www.sbml.org/sbml/level3/version1/core">
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+            <rdf:Description rdf:about="#R_CDAPPA141">
+              <bqbiol:is xmlns:bqbiol="http://biomodels.net/biology-qualifiers/">
+                <rdf:Bag>
+                  <rdf:li rdf:resource="http://identifiers.org/bigg.reaction/CDAPPA141"/>
+                  <rdf:li rdf:resource="http://identifiers.org/ec-code/3.6.1.26"/>
+                  <rdf:li rdf:resource="http://identifiers.org/metanetx.reaction/MNXR96502"/>
+                  <rdf:li rdf:resource="http://identifiers.org/seed.reaction/rxn08201"/>
+                </rdf:Bag>
+              </bqbiol:is>
+            </rdf:Description>
+          </rdf:RDF>
+        </sbml:annotation>
+        <listOfReactants>
+          <speciesReference species="M_cdpdtdec7eg_c" stoichiometry="1" constant="true"/>
+          <speciesReference species="M_h2o_c" stoichiometry="1" constant="true"/>
+        </listOfReactants>
+        <listOfProducts>
+          <speciesReference species="M_cmp_c" stoichiometry="1" constant="true"/>
+          <speciesReference species="M_h_c" stoichiometry="2" constant="true"/>
+          <speciesReference species="M_pa141_c" stoichiometry="1" constant="true"/>
+        </listOfProducts>
+        <fbc:geneProductAssociation>
+          <fbc:geneProductRef fbc:geneProduct="G_b3918"/>
+        </fbc:geneProductAssociation>
+      </reaction>
+      <reaction id="R_MCTP1Bpp" fast="false" reversible="false" name="Murein crosslinking transpeptidase 1B:(A2pm-&gt;A2pm) (periplasm)" metaid="R_MCTP1Bpp" sboTerm="SBO:0000176" fbc:upperFluxBound="cobra_default_ub" fbc:lowerFluxBound="cobra_0_bound">
+        <sbml:annotation xmlns:sbml="http://www.sbml.org/sbml/level3/version1/core">
+          <rdf:RDF xmlns:rdf="http://www.w3.org/1999/02/22-rdf-syntax-ns#">
+            <rdf:Description rdf:about="#R_MCTP1Bpp">
+              <bqbiol:is xmlns:bqbiol="http://biomodels.net/biology-qualifiers/">
+                <rdf:Bag>
+                  <rdf:li rdf:resource="http://identifiers.org/bigg.reaction/MCTP1Bpp"/>
+                  <rdf:li rdf:resource="http://identifiers.org/metanetx.reaction/MNXR143204"/>
+                  <rdf:li rdf:resource="http://identifiers.org/seed.reaction/rxn08888"/>
+                </rdf:Bag>
+              </bqbiol:is>
+            </rdf:Description>
+          </rdf:RDF>
+        </sbml:annotation>
+        <listOfReactants>
+          <speciesReference species="M_murein5p5p_p" stoichiometry="1" constant="true"/>
+        </listOfReactants>
+        <listOfProducts>
+          <speciesReference species="M_alaala_p" stoichiometry="1" constant="true"/>
+          <speciesReference species="M_murein5px3p_p" stoichiometry="1" constant="true"/>
+        </listOfProducts>
+        <fbc:geneProductAssociation>
+          <fbc:or>
+            <fbc:geneProductRef fbc:geneProduct="G_b1678"/>
+            <fbc:geneProductRef fbc:geneProduct="G_b0925"/>
+          </fbc:or>
+        </fbc:geneProductAssociation>
+      </reaction>
+      <reaction id="R_PERD" fast="false" reversible="true" name="Erythronate 4-phosphate (4per) dehydrogenase" metaid="R_PERD" sboTerm="SBO:0000176" fbc:upperFluxBound="cobra_default_ub" fbc:lowerFluxBound="cobra_default_lb">
+        <sbml:annotation xmlns:sbml="http://www.sbml.org/sbml/level3/version1/core">
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+            <rdf:Description rdf:about="#R_PERD">
+              <bqbiol:is xmlns:bqbiol="http://biomodels.net/biology-qualifiers/">
+                <rdf:Bag>
+                  <rdf:li rdf:resource="http://identifiers.org/bigg.reaction/PERD"/>
+                  <rdf:li rdf:resource="http://identifiers.org/biocyc/META:ERYTHRON4PDEHYDROG-RXN"/>
+                  <rdf:li rdf:resource="http://identifiers.org/ec-code/1.1.1.290"/>
+                  <rdf:li rdf:resource="http://identifiers.org/kegg.reaction/R04210"/>
+                  <rdf:li rdf:resource="http://identifiers.org/metanetx.reaction/MNXR102495"/>
+                  <rdf:li rdf:resource="http://identifiers.org/rhea/18831"/>
+                  <rdf:li rdf:resource="http://identifiers.org/rhea/18830"/>
+                  <rdf:li rdf:resource="http://identifiers.org/rhea/18832"/>
+                  <rdf:li rdf:resource="http://identifiers.org/rhea/18829"/>
+                  <rdf:li rdf:resource="http://identifiers.org/seed.reaction/rxn02939"/>
+                </rdf:Bag>
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+            </rdf:Description>
+          </rdf:RDF>
+        </sbml:annotation>
+        <listOfReactants>
+          <speciesReference species="M_4per_c" stoichiometry="1" constant="true"/>
+          <speciesReference species="M_nad_c" stoichiometry="1" constant="true"/>
+        </listOfReactants>
+        <listOfProducts>
+          <speciesReference species="M_h_c" stoichiometry="1" constant="true"/>
+          <speciesReference species="M_nadh_c" stoichiometry="1" constant="true"/>
+          <speciesReference species="M_ohpb_c" stoichiometry="1" constant="true"/>
+        </listOfProducts>
+        <fbc:geneProductAssociation>
+          <fbc:geneProductRef fbc:geneProduct="G_b2320"/>
+        </fbc:geneProductAssociation>
+      </reaction>
+      <reaction id="R_MELIBt3ipp" fast="false" reversible="false" name="Melibiose transport in via antiport (periplasm)" metaid="R_MELIBt3ipp" sboTerm="SBO:0000185" fbc:upperFluxBound="cobra_default_ub" fbc:lowerFluxBound="cobra_0_bound">
+        <sbml:annotation xmlns:sbml="http://www.sbml.org/sbml/level3/version1/core">
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+            <rdf:Description rdf:about="#R_MELIBt3ipp">
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+                <rdf:Bag>
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+                  <rdf:li rdf:resource="http://identifiers.org/metanetx.reaction/MNXR138588"/>
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+              </bqbiol:is>
+            </rdf:Description>
+          </rdf:RDF>
+        </sbml:annotation>
+        <listOfReactants>
+          <speciesReference species="M_h_p" stoichiometry="1" constant="true"/>
+          <speciesReference species="M_melib_c" stoichiometry="1" constant="true"/>
+        </listOfReactants>
+        <listOfProducts>
+          <speciesReference species="M_h_c" stoichiometry="1" constant="true"/>
+          <speciesReference species="M_melib_p" stoichiometry="1" constant="true"/>
+        </listOfProducts>
+        <fbc:geneProductAssociation>
+          <fbc:geneProductRef fbc:geneProduct="G_b1528"/>
+        </fbc:geneProductAssociation>
+      </reaction>
+      <reaction id="R_PGSA141" fast="false" reversible="false" name="Phosphatidylglycerol synthase (n-C14:1)" metaid="R_PGSA141" sboTerm="SBO:0000176" fbc:upperFluxBound="cobra_default_ub" fbc:lowerFluxBound="cobra_0_bound">
+        <sbml:annotation xmlns:sbml="http://www.sbml.org/sbml/level3/version1/core">
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+                  <rdf:li rdf:resource="http://identifiers.org/metanetx.reaction/MNXR102591"/>
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+              </bqbiol:is>
+            </rdf:Description>
+          </rdf:RDF>
+        </sbml:annotation>
+        <listOfReactants>
+          <speciesReference species="M_cdpdtdec7eg_c" stoichiometry="1" constant="true"/>
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+                  <rdf:li rdf:resource="http://identifiers.org/seed.reaction/rxn08925"/>
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+        </listOfReactants>
+        <listOfProducts>
+          <speciesReference species="M_minohp_p" stoichiometry="1" constant="true"/>
+        </listOfProducts>
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+      <reaction id="R_12PPDRtpp" fast="false" reversible="true" name="(R)-Propane-1,2-diol facilitated transport (periplasm)" metaid="R_12PPDRtpp" sboTerm="SBO:0000185" fbc:upperFluxBound="cobra_default_ub" fbc:lowerFluxBound="cobra_default_lb">
+        <sbml:annotation xmlns:sbml="http://www.sbml.org/sbml/level3/version1/core">
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+                  <rdf:li rdf:resource="http://identifiers.org/seed.reaction/rxn07920"/>
+                  <rdf:li rdf:resource="http://identifiers.org/seed.reaction/rxn07919"/>
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+        <listOfProducts>
+          <speciesReference species="M_12ppd__R_c" stoichiometry="1" constant="true"/>
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+      </reaction>
+      <reaction id="R_SFGTHi" fast="false" reversible="false" name="S-Formylglutathione hydralase" metaid="R_SFGTHi" sboTerm="SBO:0000176" fbc:upperFluxBound="cobra_default_ub" fbc:lowerFluxBound="cobra_0_bound">
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+          <speciesReference species="M_h2o_c" stoichiometry="1" constant="true"/>
+        </listOfReactants>
+        <listOfProducts>
+          <speciesReference species="M_for_c" stoichiometry="1" constant="true"/>
+          <speciesReference species="M_gthrd_c" stoichiometry="1" constant="true"/>
+          <speciesReference species="M_h_c" stoichiometry="1" constant="true"/>
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+          <fbc:or>
+            <fbc:geneProductRef fbc:geneProduct="G_b2154"/>
+            <fbc:geneProductRef fbc:geneProduct="G_b0355"/>
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+        </fbc:geneProductAssociation>
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+        <sbml:annotation xmlns:sbml="http://www.sbml.org/sbml/level3/version1/core">
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+          <speciesReference species="M_pydam_c" stoichiometry="1" constant="true"/>
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+          <speciesReference species="M_h_c" stoichiometry="1" constant="true"/>
+          <speciesReference species="M_pyam5p_c" stoichiometry="1" constant="true"/>
+        </listOfProducts>
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+          <fbc:geneProductRef fbc:geneProduct="G_b2418"/>
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+          <speciesReference species="M_fum_c" stoichiometry="1" constant="true"/>
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+          <speciesReference species="M_succ_c" stoichiometry="1" constant="true"/>
+        </listOfProducts>
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+                  <rdf:li rdf:resource="http://identifiers.org/seed.reaction/rxn08760"/>
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+          <speciesReference species="M_kdo2lipid4_c" stoichiometry="1" constant="true"/>
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+          <speciesReference species="M_kdo2lipid4_p" stoichiometry="1" constant="true"/>
+          <speciesReference species="M_pi_c" stoichiometry="1" constant="true"/>
+        </listOfProducts>
+        <fbc:geneProductAssociation>
+          <fbc:geneProductRef fbc:geneProduct="G_b0914"/>
+        </fbc:geneProductAssociation>
+      </reaction>
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+          <speciesReference species="M_h2o_c" stoichiometry="1" constant="true"/>
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+        <listOfProducts>
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+          <speciesReference species="M_ddca_c" stoichiometry="1" constant="true"/>
+          <speciesReference species="M_h_c" stoichiometry="1" constant="true"/>
+        </listOfProducts>
+        <fbc:geneProductAssociation>
+          <fbc:geneProductRef fbc:geneProduct="G_b0452"/>
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+          <speciesReference species="M_nadph_c" stoichiometry="1" constant="true"/>
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+          <speciesReference species="M_3hddecACP_c" stoichiometry="1" constant="true"/>
+          <speciesReference species="M_nadp_c" stoichiometry="1" constant="true"/>
+        </listOfProducts>
+        <fbc:geneProductAssociation>
+          <fbc:geneProductRef fbc:geneProduct="G_b1093"/>
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+          <speciesReference species="M_h2o_c" stoichiometry="1" constant="true"/>
+          <speciesReference species="M_toct2eACP_c" stoichiometry="1" constant="true"/>
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+            <fbc:geneProductRef fbc:geneProduct="G_b0180"/>
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+        </fbc:geneProductAssociation>
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+            </rdf:Description>
+          </rdf:RDF>
+        </sbml:annotation>
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+          <speciesReference species="M_3hddecACP_c" stoichiometry="1" constant="true"/>
+        </listOfReactants>
+        <listOfProducts>
+          <speciesReference species="M_h2o_c" stoichiometry="1" constant="true"/>
+          <speciesReference species="M_tddec2eACP_c" stoichiometry="1" constant="true"/>
+        </listOfProducts>
+        <fbc:geneProductAssociation>
+          <fbc:or>
+            <fbc:geneProductRef fbc:geneProduct="G_b0180"/>
+            <fbc:geneProductRef fbc:geneProduct="G_b0954"/>
+          </fbc:or>
+        </fbc:geneProductAssociation>
+      </reaction>
+      <reaction id="R_DSBCGT" fast="false" reversible="false" name="DsbC:glutathione thiotransferase" metaid="R_DSBCGT" sboTerm="SBO:0000176" fbc:upperFluxBound="cobra_default_ub" fbc:lowerFluxBound="cobra_0_bound">
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+          <speciesReference species="M_gthrd_p" stoichiometry="2" constant="true"/>
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+        <listOfProducts>
+          <speciesReference species="M_dsbcrd_p" stoichiometry="1" constant="true"/>
+          <speciesReference species="M_gthox_p" stoichiometry="1" constant="true"/>
+        </listOfProducts>
+        <fbc:geneProductAssociation>
+          <fbc:geneProductRef fbc:geneProduct="G_b2893"/>
+        </fbc:geneProductAssociation>
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+      <reaction id="R_DSBGGT" fast="false" reversible="false" name="DsbG:glutathione thiotransferase" metaid="R_DSBGGT" sboTerm="SBO:0000176" fbc:upperFluxBound="cobra_default_ub" fbc:lowerFluxBound="cobra_0_bound">
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+          <speciesReference species="M_gthrd_p" stoichiometry="2" constant="true"/>
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+          <speciesReference species="M_gthox_p" stoichiometry="1" constant="true"/>
+        </listOfProducts>
+        <fbc:geneProductAssociation>
+          <fbc:geneProductRef fbc:geneProduct="G_b0604"/>
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+      <reaction id="R_EAR180x" fast="false" reversible="false" name="Enoyl-[acyl-carrier-protein] reductase (NADH) (n-C18:0)" metaid="R_EAR180x" sboTerm="SBO:0000176" fbc:upperFluxBound="cobra_default_ub" fbc:lowerFluxBound="cobra_0_bound">
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+          <speciesReference species="M_nadh_c" stoichiometry="1" constant="true"/>
+          <speciesReference species="M_toctd2eACP_c" stoichiometry="1" constant="true"/>
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+        <listOfProducts>
+          <speciesReference species="M_nad_c" stoichiometry="1" constant="true"/>
+          <speciesReference species="M_ocdcaACP_c" stoichiometry="1" constant="true"/>
+        </listOfProducts>
+        <fbc:geneProductAssociation>
+          <fbc:geneProductRef fbc:geneProduct="G_b1288"/>
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+      <reaction id="R_AKGtex" fast="false" reversible="true" name="Alpha-ketoglutarate transport via diffusion (extracellular to periplasm)" metaid="R_AKGtex" sboTerm="SBO:0000185" fbc:upperFluxBound="cobra_default_ub" fbc:lowerFluxBound="cobra_default_lb">
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+                  <rdf:li rdf:resource="http://identifiers.org/seed.reaction/rxn08096"/>
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+        <listOfProducts>
+          <speciesReference species="M_akg_p" stoichiometry="1" constant="true"/>
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+        <fbc:geneProductAssociation>
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+            <fbc:geneProductRef fbc:geneProduct="G_b0929"/>
+            <fbc:geneProductRef fbc:geneProduct="G_b1377"/>
+            <fbc:geneProductRef fbc:geneProduct="G_b2215"/>
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+        </fbc:geneProductAssociation>
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+      <reaction id="R_SO4t2pp" fast="false" reversible="false" name="Sulfate transport in via proton symport (periplasm to cytoplasm)" metaid="R_SO4t2pp" sboTerm="SBO:0000185" fbc:upperFluxBound="cobra_default_ub" fbc:lowerFluxBound="cobra_0_bound">
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+                  <rdf:li rdf:resource="http://identifiers.org/rhea/28576"/>
+                  <rdf:li rdf:resource="http://identifiers.org/rhea/28577"/>
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+                  <rdf:li rdf:resource="http://identifiers.org/seed.reaction/rxn05651"/>
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+          <speciesReference species="M_so4_p" stoichiometry="1" constant="true"/>
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+        <listOfProducts>
+          <speciesReference species="M_h_c" stoichiometry="1" constant="true"/>
+          <speciesReference species="M_so4_c" stoichiometry="1" constant="true"/>
+        </listOfProducts>
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+          <fbc:geneProductRef fbc:geneProduct="G_b2413"/>
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+      <reaction id="R_EAR180y" fast="false" reversible="false" name="Enoyl-[acyl-carrier-protein] reductase (NADPH) (n-C18:0)" metaid="R_EAR180y" sboTerm="SBO:0000176" fbc:upperFluxBound="cobra_default_ub" fbc:lowerFluxBound="cobra_0_bound">
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+          <speciesReference species="M_toctd2eACP_c" stoichiometry="1" constant="true"/>
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+        <listOfProducts>
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+          <speciesReference species="M_ocdcaACP_c" stoichiometry="1" constant="true"/>
+        </listOfProducts>
+        <fbc:geneProductAssociation>
+          <fbc:geneProductRef fbc:geneProduct="G_b1288"/>
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+          <speciesReference species="M_ddcaACP_c" stoichiometry="1" constant="true"/>
+        </listOfReactants>
+        <listOfProducts>
+          <speciesReference species="M_ACP_c" stoichiometry="1" constant="true"/>
+          <speciesReference species="M_pa120_c" stoichiometry="1" constant="true"/>
+        </listOfProducts>
+        <fbc:geneProductAssociation>
+          <fbc:geneProductRef fbc:geneProduct="G_b3018"/>
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+                  <rdf:li rdf:resource="http://identifiers.org/rhea/30100"/>
+                  <rdf:li rdf:resource="http://identifiers.org/rhea/30099"/>
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+          <speciesReference species="M_h_c" stoichiometry="1" constant="true"/>
+          <speciesReference species="M_octdp_c" stoichiometry="1" constant="true"/>
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+        <listOfProducts>
+          <speciesReference species="M_2dmmql8_c" stoichiometry="1" constant="true"/>
+          <speciesReference species="M_co2_c" stoichiometry="1" constant="true"/>
+          <speciesReference species="M_ppi_c" stoichiometry="1" constant="true"/>
+        </listOfProducts>
+        <fbc:geneProductAssociation>
+          <fbc:geneProductRef fbc:geneProduct="G_b3930"/>
+        </fbc:geneProductAssociation>
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+      <reaction id="R_AMPMS2" fast="false" reversible="false" name="4-amino-2-methyl-5-phosphomethylpyrimidine synthetase" metaid="R_AMPMS2" sboTerm="SBO:0000176" fbc:upperFluxBound="cobra_default_ub" fbc:lowerFluxBound="cobra_0_bound">
+        <sbml:annotation xmlns:sbml="http://www.sbml.org/sbml/level3/version1/core">
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+          <speciesReference species="M_h2o_c" stoichiometry="1" constant="true"/>
+          <speciesReference species="M_nad_c" stoichiometry="1" constant="true"/>
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+        <listOfProducts>
+          <speciesReference species="M_4ampm_c" stoichiometry="1" constant="true"/>
+          <speciesReference species="M_for_c" stoichiometry="2" constant="true"/>
+          <speciesReference species="M_h_c" stoichiometry="3" constant="true"/>
+          <speciesReference species="M_nadh_c" stoichiometry="1" constant="true"/>
+        </listOfProducts>
+        <fbc:geneProductAssociation>
+          <fbc:geneProductRef fbc:geneProduct="G_b3994"/>
+        </fbc:geneProductAssociation>
+      </reaction>
+      <reaction id="R_DM_oxam_c" fast="false" reversible="false" name="Sink needed to allow oxamate to leave system" metaid="R_DM_oxam_c" sboTerm="SBO:0000628" fbc:upperFluxBound="cobra_default_ub" fbc:lowerFluxBound="cobra_0_bound">
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+          <speciesReference species="M_oxam_c" stoichiometry="1" constant="true"/>
+        </listOfReactants>
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+          <speciesReference species="M_nadh_c" stoichiometry="1" constant="true"/>
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+          <speciesReference species="M_12ppd__R_c" stoichiometry="1" constant="true"/>
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+        </listOfProducts>
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+          <fbc:geneProductRef fbc:geneProduct="G_b3945"/>
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+          <speciesReference species="M_pi_c" stoichiometry="1" constant="true"/>
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+            <fbc:geneProductRef fbc:geneProduct="G_b1278"/>
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+        </fbc:geneProductAssociation>
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+          <speciesReference species="M_atp_c" stoichiometry="1" constant="true"/>
+        </listOfReactants>
+        <listOfProducts>
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+          <speciesReference species="M_h_c" stoichiometry="1" constant="true"/>
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+        </fbc:geneProductAssociation>
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+                  <rdf:li rdf:resource="http://identifiers.org/rhea/22146"/>
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+            <fbc:geneProductRef fbc:geneProduct="G_b1276"/>
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+        </fbc:geneProductAssociation>
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+      <reaction id="R_GLCP2" fast="false" reversible="false" name="Glycogen phosphorylase" metaid="R_GLCP2" sboTerm="SBO:0000176" fbc:upperFluxBound="cobra_default_ub" fbc:lowerFluxBound="cobra_0_bound">
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+            <fbc:geneProductRef fbc:geneProduct="G_b3428"/>
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+        </fbc:geneProductAssociation>
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+          <speciesReference species="M_f6p_c" stoichiometry="1" constant="true"/>
+          <speciesReference species="M_pi_p" stoichiometry="2" constant="true"/>
+        </listOfProducts>
+        <fbc:geneProductAssociation>
+          <fbc:geneProductRef fbc:geneProduct="G_b3666"/>
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+      <reaction id="R_PPALtpp" fast="false" reversible="true" name="Propanal transport via channel (periplasm)" metaid="R_PPALtpp" sboTerm="SBO:0000185" fbc:upperFluxBound="cobra_default_ub" fbc:lowerFluxBound="cobra_default_lb">
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+        <listOfProducts>
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+          <speciesReference species="M_pa140_p" stoichiometry="1" constant="true"/>
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+        <listOfProducts>
+          <speciesReference species="M_1tdecg3p_p" stoichiometry="1" constant="true"/>
+          <speciesReference species="M_h_p" stoichiometry="1" constant="true"/>
+          <speciesReference species="M_ttdca_p" stoichiometry="1" constant="true"/>
+        </listOfProducts>
+        <fbc:geneProductAssociation>
+          <fbc:geneProductRef fbc:geneProduct="G_b3821"/>
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+          <speciesReference species="M_1tdec7eg3p_p" stoichiometry="1" constant="true"/>
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+          <speciesReference species="M_ttdcea_p" stoichiometry="1" constant="true"/>
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+        <fbc:geneProductAssociation>
+          <fbc:geneProductRef fbc:geneProduct="G_b3821"/>
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+        <listOfProducts>
+          <speciesReference species="M_1odecg3p_p" stoichiometry="1" constant="true"/>
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+          <speciesReference species="M_ocdca_p" stoichiometry="1" constant="true"/>
+        </listOfProducts>
+        <fbc:geneProductAssociation>
+          <fbc:geneProductRef fbc:geneProduct="G_b3821"/>
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+      <reaction id="R_GAM6Pt6_2pp" fast="false" reversible="false" name="D-Glucosamine 6-phosphate transport via phosphate antiport (periplasm)" metaid="R_GAM6Pt6_2pp" sboTerm="SBO:0000185" fbc:upperFluxBound="cobra_default_ub" fbc:lowerFluxBound="cobra_0_bound">
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+        <listOfProducts>
+          <speciesReference species="M_gam6p_c" stoichiometry="1" constant="true"/>
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+        </listOfProducts>
+        <fbc:geneProductAssociation>
+          <fbc:geneProductRef fbc:geneProduct="G_b3666"/>
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+        <listOfProducts>
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+          <speciesReference species="M_ttdcea_p" stoichiometry="1" constant="true"/>
+        </listOfProducts>
+        <fbc:geneProductAssociation>
+          <fbc:geneProductRef fbc:geneProduct="G_b3821"/>
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+      <reaction id="R_FE3HOXabcpp" fast="false" reversible="false" name="Ferric-dicitrate transport via ABC system (periplasm)" metaid="R_FE3HOXabcpp" sboTerm="SBO:0000185" fbc:upperFluxBound="cobra_default_ub" fbc:lowerFluxBound="cobra_0_bound">
+        <sbml:annotation xmlns:sbml="http://www.sbml.org/sbml/level3/version1/core">
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+                <rdf:Bag>
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+        </sbml:annotation>
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+          <speciesReference species="M_fe3hox_p" stoichiometry="1" constant="true"/>
+          <speciesReference species="M_h2o_c" stoichiometry="1" constant="true"/>
+        </listOfReactants>
+        <listOfProducts>
+          <speciesReference species="M_adp_c" stoichiometry="1" constant="true"/>
+          <speciesReference species="M_fe3hox_c" stoichiometry="1" constant="true"/>
+          <speciesReference species="M_h_c" stoichiometry="1" constant="true"/>
+          <speciesReference species="M_pi_c" stoichiometry="1" constant="true"/>
+        </listOfProducts>
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+            <fbc:geneProductRef fbc:geneProduct="G_b0151"/>
+            <fbc:geneProductRef fbc:geneProduct="G_b0152"/>
+            <fbc:geneProductRef fbc:geneProduct="G_b0153"/>
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+        </fbc:geneProductAssociation>
+      </reaction>
+      <reaction id="R_PLIPA2E181pp" fast="false" reversible="false" name="Phospholipase A2 (phosphatidylethanolamine, n-C18:1) (periplasm)" metaid="R_PLIPA2E181pp" sboTerm="SBO:0000176" fbc:upperFluxBound="cobra_default_ub" fbc:lowerFluxBound="cobra_0_bound">
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+        <listOfProducts>
+          <speciesReference species="M_1agpe181_p" stoichiometry="1" constant="true"/>
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+          <speciesReference species="M_ocdcea_p" stoichiometry="1" constant="true"/>
+        </listOfProducts>
+        <fbc:geneProductAssociation>
+          <fbc:geneProductRef fbc:geneProduct="G_b3821"/>
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+        <listOfProducts>
+          <speciesReference species="M_1agpg140_p" stoichiometry="1" constant="true"/>
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+          <speciesReference species="M_ttdca_p" stoichiometry="1" constant="true"/>
+        </listOfProducts>
+        <fbc:geneProductAssociation>
+          <fbc:geneProductRef fbc:geneProduct="G_b3821"/>
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+        <listOfProducts>
+          <speciesReference species="M_ppal_p" stoichiometry="1" constant="true"/>
+        </listOfProducts>
+        <fbc:geneProductAssociation>
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+            <fbc:geneProductRef fbc:geneProduct="G_b0929"/>
+            <fbc:geneProductRef fbc:geneProduct="G_b1377"/>
+            <fbc:geneProductRef fbc:geneProduct="G_b2215"/>
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+              <bqbiol:is xmlns:bqbiol="http://biomodels.net/biology-qualifiers/">
+                <rdf:Bag>
+                  <rdf:li rdf:resource="http://identifiers.org/bigg.reaction/CU1Opp"/>
+                  <rdf:li rdf:resource="http://identifiers.org/ec-code/1.16.3"/>
+                  <rdf:li rdf:resource="http://identifiers.org/metanetx.reaction/MNXR96948"/>
+                  <rdf:li rdf:resource="http://identifiers.org/rhea/30086"/>
+                  <rdf:li rdf:resource="http://identifiers.org/rhea/30085"/>
+                  <rdf:li rdf:resource="http://identifiers.org/rhea/30084"/>
+                  <rdf:li rdf:resource="http://identifiers.org/rhea/30083"/>
+                  <rdf:li rdf:resource="http://identifiers.org/sabiork/7055"/>
+                </rdf:Bag>
+              </bqbiol:is>
+            </rdf:Description>
+          </rdf:RDF>
+        </sbml:annotation>
+        <listOfReactants>
+          <speciesReference species="M_cu_p" stoichiometry="4" constant="true"/>
+          <speciesReference species="M_h_p" stoichiometry="4" constant="true"/>
+          <speciesReference species="M_o2_p" stoichiometry="1" constant="true"/>
+        </listOfReactants>
+        <listOfProducts>
+          <speciesReference species="M_cu2_p" stoichiometry="4" constant="true"/>
+          <speciesReference species="M_h2o_p" stoichiometry="2" constant="true"/>
+        </listOfProducts>
+        <fbc:geneProductAssociation>
+          <fbc:geneProductRef fbc:geneProduct="G_b0123"/>
+        </fbc:geneProductAssociation>
+      </reaction>
+      <reaction id="R_PLIPA2G181pp" fast="false" reversible="false" name="Phospholipase A2 (phosphatidylglycerol, n-C18:1) (periplasm)" metaid="R_PLIPA2G181pp" sboTerm="SBO:0000176" fbc:upperFluxBound="cobra_default_ub" fbc:lowerFluxBound="cobra_0_bound">
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+            <rdf:Description rdf:about="#R_PLIPA2G181pp">
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+                <rdf:Bag>
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+                  <rdf:li rdf:resource="http://identifiers.org/metanetx.reaction/MNXR103009"/>
+                </rdf:Bag>
+              </bqbiol:is>
+            </rdf:Description>
+          </rdf:RDF>
+        </sbml:annotation>
+        <listOfReactants>
+          <speciesReference species="M_h2o_p" stoichiometry="1" constant="true"/>
+          <speciesReference species="M_pg181_p" stoichiometry="1" constant="true"/>
+        </listOfReactants>
+        <listOfProducts>
+          <speciesReference species="M_1agpg181_p" stoichiometry="1" constant="true"/>
+          <speciesReference species="M_h_p" stoichiometry="1" constant="true"/>
+          <speciesReference species="M_ocdcea_p" stoichiometry="1" constant="true"/>
+        </listOfProducts>
+        <fbc:geneProductAssociation>
+          <fbc:geneProductRef fbc:geneProduct="G_b3821"/>
+        </fbc:geneProductAssociation>
+      </reaction>
+      <reaction id="R_SUCDi" fast="false" reversible="false" name="Succinate dehydrogenase (irreversible)" metaid="R_SUCDi" sboTerm="SBO:0000176" fbc:upperFluxBound="cobra_default_ub" fbc:lowerFluxBound="cobra_0_bound">
+        <sbml:annotation xmlns:sbml="http://www.sbml.org/sbml/level3/version1/core">
+          <rdf:RDF xmlns:rdf="http://www.w3.org/1999/02/22-rdf-syntax-ns#">
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+              <bqbiol:is xmlns:bqbiol="http://biomodels.net/biology-qualifiers/">
+                <rdf:Bag>
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+                  <rdf:li rdf:resource="http://identifiers.org/metanetx.reaction/MNXR99641"/>
+                  <rdf:li rdf:resource="http://identifiers.org/rhea/29190"/>
+                  <rdf:li rdf:resource="http://identifiers.org/rhea/29189"/>
+                  <rdf:li rdf:resource="http://identifiers.org/rhea/29187"/>
+                  <rdf:li rdf:resource="http://identifiers.org/rhea/29188"/>
+                  <rdf:li rdf:resource="http://identifiers.org/seed.reaction/rxn09272"/>
+                </rdf:Bag>
+              </bqbiol:is>
+            </rdf:Description>
+          </rdf:RDF>
+        </sbml:annotation>
+        <listOfReactants>
+          <speciesReference species="M_q8_c" stoichiometry="1" constant="true"/>
+          <speciesReference species="M_succ_c" stoichiometry="1" constant="true"/>
+        </listOfReactants>
+        <listOfProducts>
+          <speciesReference species="M_fum_c" stoichiometry="1" constant="true"/>
+          <speciesReference species="M_q8h2_c" stoichiometry="1" constant="true"/>
+        </listOfProducts>
+        <fbc:geneProductAssociation>
+          <fbc:and>
+            <fbc:geneProductRef fbc:geneProduct="G_b0721"/>
+            <fbc:geneProductRef fbc:geneProduct="G_b0722"/>
+            <fbc:geneProductRef fbc:geneProduct="G_b0723"/>
+            <fbc:geneProductRef fbc:geneProduct="G_b0724"/>
+          </fbc:and>
+        </fbc:geneProductAssociation>
+      </reaction>
+      <reaction id="R_FADRx2" fast="false" reversible="false" name="FAD reductase" metaid="R_FADRx2" sboTerm="SBO:0000176" fbc:upperFluxBound="cobra_default_ub" fbc:lowerFluxBound="cobra_0_bound">
+        <sbml:annotation xmlns:sbml="http://www.sbml.org/sbml/level3/version1/core">
+          <rdf:RDF xmlns:rdf="http://www.w3.org/1999/02/22-rdf-syntax-ns#">
+            <rdf:Description rdf:about="#R_FADRx2">
+              <bqbiol:is xmlns:bqbiol="http://biomodels.net/biology-qualifiers/">
+                <rdf:Bag>
+                  <rdf:li rdf:resource="http://identifiers.org/bigg.reaction/FADRx2"/>
+                  <rdf:li rdf:resource="http://identifiers.org/ec-code/1.5.1.45"/>
+                  <rdf:li rdf:resource="http://identifiers.org/ec-code/1.5.1.30"/>
+                  <rdf:li rdf:resource="http://identifiers.org/kegg.reaction/R09520"/>
+                  <rdf:li rdf:resource="http://identifiers.org/metanetx.reaction/MNXR99216"/>
+                  <rdf:li rdf:resource="http://identifiers.org/rhea/30154"/>
+                  <rdf:li rdf:resource="http://identifiers.org/rhea/30151"/>
+                  <rdf:li rdf:resource="http://identifiers.org/rhea/30153"/>
+                  <rdf:li rdf:resource="http://identifiers.org/rhea/30152"/>
+                  <rdf:li rdf:resource="http://identifiers.org/sabiork/7292"/>
+                  <rdf:li rdf:resource="http://identifiers.org/seed.reaction/rxn08459"/>
+                </rdf:Bag>
+              </bqbiol:is>
+            </rdf:Description>
+          </rdf:RDF>
+        </sbml:annotation>
+        <listOfReactants>
+          <speciesReference species="M_fad_c" stoichiometry="1" constant="true"/>
+          <speciesReference species="M_h_c" stoichiometry="1" constant="true"/>
+          <speciesReference species="M_nadph_c" stoichiometry="1" constant="true"/>
+        </listOfReactants>
+        <listOfProducts>
+          <speciesReference species="M_fadh2_c" stoichiometry="1" constant="true"/>
+          <speciesReference species="M_nadp_c" stoichiometry="1" constant="true"/>
+        </listOfProducts>
+        <fbc:geneProductAssociation>
+          <fbc:and>
+            <fbc:geneProductRef fbc:geneProduct="G_b2764"/>
+            <fbc:geneProductRef fbc:geneProduct="G_b2763"/>
+          </fbc:and>
+        </fbc:geneProductAssociation>
+      </reaction>
+      <reaction id="R_LPLIPAL1E141pp" fast="false" reversible="false" name="Lysophospholipase L1 (2-acylglycerophosphoethanolamine, n-C14:1) (periplasm)" metaid="R_LPLIPAL1E141pp" sboTerm="SBO:0000176" fbc:upperFluxBound="cobra_default_ub" fbc:lowerFluxBound="cobra_0_bound">
+        <sbml:annotation xmlns:sbml="http://www.sbml.org/sbml/level3/version1/core">
+          <rdf:RDF xmlns:rdf="http://www.w3.org/1999/02/22-rdf-syntax-ns#">
+            <rdf:Description rdf:about="#R_LPLIPAL1E141pp">
+              <bqbiol:is xmlns:bqbiol="http://biomodels.net/biology-qualifiers/">
+                <rdf:Bag>
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+                  <rdf:li rdf:resource="http://identifiers.org/metanetx.reaction/MNXR101150"/>
+                </rdf:Bag>
+              </bqbiol:is>
+            </rdf:Description>
+          </rdf:RDF>
+        </sbml:annotation>
+        <listOfReactants>
+          <speciesReference species="M_1agpe141_p" stoichiometry="1" constant="true"/>
+          <speciesReference species="M_h2o_p" stoichiometry="1" constant="true"/>
+        </listOfReactants>
+        <listOfProducts>
+          <speciesReference species="M_g3pe_p" stoichiometry="1" constant="true"/>
+          <speciesReference species="M_h_p" stoichiometry="1" constant="true"/>
+          <speciesReference species="M_ttdcea_p" stoichiometry="1" constant="true"/>
+        </listOfProducts>
+        <fbc:geneProductAssociation>
+          <fbc:geneProductRef fbc:geneProduct="G_b0494"/>
+        </fbc:geneProductAssociation>
+      </reaction>
+      <reaction id="R_LALDO2x" fast="false" reversible="false" name="D-Lactaldehyde:NAD+ 1-oxidoreductase" metaid="R_LALDO2x" sboTerm="SBO:0000176" fbc:upperFluxBound="cobra_default_ub" fbc:lowerFluxBound="cobra_0_bound">
+        <sbml:annotation xmlns:sbml="http://www.sbml.org/sbml/level3/version1/core">
+          <rdf:RDF xmlns:rdf="http://www.w3.org/1999/02/22-rdf-syntax-ns#">
+            <rdf:Description rdf:about="#R_LALDO2x">
+              <bqbiol:is xmlns:bqbiol="http://biomodels.net/biology-qualifiers/">
+                <rdf:Bag>
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+                  <rdf:li rdf:resource="http://identifiers.org/biocyc/META:D-LACTALDEHYDE-DEHYDROGENASE-RXN"/>
+                  <rdf:li rdf:resource="http://identifiers.org/ec-code/1.1.1.79"/>
+                  <rdf:li rdf:resource="http://identifiers.org/ec-code/1.1.1.78"/>
+                  <rdf:li rdf:resource="http://identifiers.org/kegg.reaction/R02527"/>
+                  <rdf:li rdf:resource="http://identifiers.org/metanetx.reaction/MNXR101008"/>
+                  <rdf:li rdf:resource="http://identifiers.org/rhea/24531"/>
+                  <rdf:li rdf:resource="http://identifiers.org/rhea/24529"/>
+                  <rdf:li rdf:resource="http://identifiers.org/rhea/24528"/>
+                  <rdf:li rdf:resource="http://identifiers.org/rhea/24530"/>
+                  <rdf:li rdf:resource="http://identifiers.org/seed.reaction/rxn01831"/>
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+          </rdf:RDF>
+        </sbml:annotation>
+        <listOfReactants>
+          <speciesReference species="M_h_c" stoichiometry="1" constant="true"/>
+          <speciesReference species="M_mthgxl_c" stoichiometry="1" constant="true"/>
+          <speciesReference species="M_nadh_c" stoichiometry="1" constant="true"/>
+        </listOfReactants>
+        <listOfProducts>
+          <speciesReference species="M_lald__D_c" stoichiometry="1" constant="true"/>
+          <speciesReference species="M_nad_c" stoichiometry="1" constant="true"/>
+        </listOfProducts>
+        <fbc:geneProductAssociation>
+          <fbc:geneProductRef fbc:geneProduct="G_b3945"/>
+        </fbc:geneProductAssociation>
+      </reaction>
+      <reaction id="R_12PPDRtex" fast="false" reversible="true" name="(R)-Propane-1,2-diol transport via diffusion (extracellular to periplasm)" metaid="R_12PPDRtex" sboTerm="SBO:0000185" fbc:upperFluxBound="cobra_default_ub" fbc:lowerFluxBound="cobra_default_lb">
+        <sbml:annotation xmlns:sbml="http://www.sbml.org/sbml/level3/version1/core">
+          <rdf:RDF xmlns:rdf="http://www.w3.org/1999/02/22-rdf-syntax-ns#">
+            <rdf:Description rdf:about="#R_12PPDRtex">
+              <bqbiol:is xmlns:bqbiol="http://biomodels.net/biology-qualifiers/">
+                <rdf:Bag>
+                  <rdf:li rdf:resource="http://identifiers.org/bigg.reaction/12PPDRtex"/>
+                  <rdf:li rdf:resource="http://identifiers.org/biocyc/META:TRANS-RXN0-467"/>
+                  <rdf:li rdf:resource="http://identifiers.org/metanetx.reaction/MNXR94683"/>
+                  <rdf:li rdf:resource="http://identifiers.org/seed.reaction/rxn07920"/>
+                  <rdf:li rdf:resource="http://identifiers.org/seed.reaction/rxn07919"/>
+                </rdf:Bag>
+              </bqbiol:is>
+            </rdf:Description>
+          </rdf:RDF>
+        </sbml:annotation>
+        <listOfReactants>
+          <speciesReference species="M_12ppd__R_e" stoichiometry="1" constant="true"/>
+        </listOfReactants>
+        <listOfProducts>
+          <speciesReference species="M_12ppd__R_p" stoichiometry="1" constant="true"/>
+        </listOfProducts>
+        <fbc:geneProductAssociation>
+          <fbc:or>
+            <fbc:geneProductRef fbc:geneProduct="G_b0241"/>
+            <fbc:geneProductRef fbc:geneProduct="G_b0929"/>
+            <fbc:geneProductRef fbc:geneProduct="G_b1377"/>
+            <fbc:geneProductRef fbc:geneProduct="G_b2215"/>
+          </fbc:or>
+        </fbc:geneProductAssociation>
+      </reaction>
+      <reaction id="R_LPLIPAL1E160pp" fast="false" reversible="false" name="Lysophospholipase L1 (2-acylglycerophosphoethanolamine, n-C16:0) (periplasm)" metaid="R_LPLIPAL1E160pp" sboTerm="SBO:0000176" fbc:upperFluxBound="cobra_default_ub" fbc:lowerFluxBound="cobra_0_bound">
+        <sbml:annotation xmlns:sbml="http://www.sbml.org/sbml/level3/version1/core">
+          <rdf:RDF xmlns:rdf="http://www.w3.org/1999/02/22-rdf-syntax-ns#">
+            <rdf:Description rdf:about="#R_LPLIPAL1E160pp">
+              <bqbiol:is xmlns:bqbiol="http://biomodels.net/biology-qualifiers/">
+                <rdf:Bag>
+                  <rdf:li rdf:resource="http://identifiers.org/bigg.reaction/LPLIPAL1E160pp"/>
+                  <rdf:li rdf:resource="http://identifiers.org/metanetx.reaction/MNXR101151"/>
+                  <rdf:li rdf:resource="http://identifiers.org/rhea/40891"/>
+                  <rdf:li rdf:resource="http://identifiers.org/rhea/40893"/>
+                  <rdf:li rdf:resource="http://identifiers.org/rhea/40894"/>
+                  <rdf:li rdf:resource="http://identifiers.org/rhea/40892"/>
+                </rdf:Bag>
+              </bqbiol:is>
+            </rdf:Description>
+          </rdf:RDF>
+        </sbml:annotation>
+        <listOfReactants>
+          <speciesReference species="M_1agpe160_p" stoichiometry="1" constant="true"/>
+          <speciesReference species="M_h2o_p" stoichiometry="1" constant="true"/>
+        </listOfReactants>
+        <listOfProducts>
+          <speciesReference species="M_g3pe_p" stoichiometry="1" constant="true"/>
+          <speciesReference species="M_h_p" stoichiometry="1" constant="true"/>
+          <speciesReference species="M_hdca_p" stoichiometry="1" constant="true"/>
+        </listOfProducts>
+        <fbc:geneProductAssociation>
+          <fbc:geneProductRef fbc:geneProduct="G_b0494"/>
+        </fbc:geneProductAssociation>
+      </reaction>
+      <reaction id="R_LPLIPAL1E180pp" fast="false" reversible="false" name="Lysophospholipase L1 (2-acylglycerophosphoethanolamine, n-C18:0) (periplasm)" metaid="R_LPLIPAL1E180pp" sboTerm="SBO:0000176" fbc:upperFluxBound="cobra_default_ub" fbc:lowerFluxBound="cobra_0_bound">
+        <sbml:annotation xmlns:sbml="http://www.sbml.org/sbml/level3/version1/core">
+          <rdf:RDF xmlns:rdf="http://www.w3.org/1999/02/22-rdf-syntax-ns#">
+            <rdf:Description rdf:about="#R_LPLIPAL1E180pp">
+              <bqbiol:is xmlns:bqbiol="http://biomodels.net/biology-qualifiers/">
+                <rdf:Bag>
+                  <rdf:li rdf:resource="http://identifiers.org/bigg.reaction/LPLIPAL1E180pp"/>
+                  <rdf:li rdf:resource="http://identifiers.org/metanetx.reaction/MNXR143196"/>
+                </rdf:Bag>
+              </bqbiol:is>
+            </rdf:Description>
+          </rdf:RDF>
+        </sbml:annotation>
+        <listOfReactants>
+          <speciesReference species="M_1agpe180_p" stoichiometry="1" constant="true"/>
+          <speciesReference species="M_h2o_p" stoichiometry="1" constant="true"/>
+        </listOfReactants>
+        <listOfProducts>
+          <speciesReference species="M_g3pe_p" stoichiometry="1" constant="true"/>
+          <speciesReference species="M_h_p" stoichiometry="1" constant="true"/>
+          <speciesReference species="M_ocdca_p" stoichiometry="1" constant="true"/>
+        </listOfProducts>
+        <fbc:geneProductAssociation>
+          <fbc:geneProductRef fbc:geneProduct="G_b0494"/>
+        </fbc:geneProductAssociation>
+      </reaction>
+      <reaction id="R_ASNS1" fast="false" reversible="false" name="Asparagine synthase (glutamine-hydrolysing)" metaid="R_ASNS1" sboTerm="SBO:0000176" fbc:upperFluxBound="cobra_default_ub" fbc:lowerFluxBound="cobra_0_bound">
+        <sbml:annotation xmlns:sbml="http://www.sbml.org/sbml/level3/version1/core">
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+              <bqbiol:is xmlns:bqbiol="http://biomodels.net/biology-qualifiers/">
+                <rdf:Bag>
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+                  <rdf:li rdf:resource="http://identifiers.org/biocyc/META:ASNSYNB-RXN"/>
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+                  <rdf:li rdf:resource="http://identifiers.org/kegg.reaction/R00578"/>
+                  <rdf:li rdf:resource="http://identifiers.org/metanetx.reaction/MNXR96059"/>
+                  <rdf:li rdf:resource="http://identifiers.org/reactome.reaction/R-GGA-70599"/>
+                  <rdf:li rdf:resource="http://identifiers.org/reactome.reaction/R-BTA-70599"/>
+                  <rdf:li rdf:resource="http://identifiers.org/reactome.reaction/R-SPO-70599"/>
+                  <rdf:li rdf:resource="http://identifiers.org/reactome.reaction/R-PFA-70599"/>
+                  <rdf:li rdf:resource="http://identifiers.org/reactome.reaction/R-RNO-70599"/>
+                  <rdf:li rdf:resource="http://identifiers.org/reactome.reaction/R-MMU-70599"/>
+                  <rdf:li rdf:resource="http://identifiers.org/reactome.reaction/R-HSA-70599"/>
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+                  <rdf:li rdf:resource="http://identifiers.org/reactome.reaction/R-DDI-70599"/>
+                  <rdf:li rdf:resource="http://identifiers.org/reactome.reaction/R-XTR-70599"/>
+                  <rdf:li rdf:resource="http://identifiers.org/reactome.reaction/R-ATH-70599"/>
+                  <rdf:li rdf:resource="http://identifiers.org/reactome.reaction/R-SSC-70599"/>
+                  <rdf:li rdf:resource="http://identifiers.org/reactome.reaction/R-DRE-70599"/>
+                  <rdf:li rdf:resource="http://identifiers.org/reactome.reaction/R-CFA-70599"/>
+                  <rdf:li rdf:resource="http://identifiers.org/reactome.reaction/R-OSA-70599"/>
+                  <rdf:li rdf:resource="http://identifiers.org/rhea/12231"/>
+                  <rdf:li rdf:resource="http://identifiers.org/rhea/12229"/>
+                  <rdf:li rdf:resource="http://identifiers.org/rhea/12230"/>
+                  <rdf:li rdf:resource="http://identifiers.org/rhea/12228"/>
+                  <rdf:li rdf:resource="http://identifiers.org/seed.reaction/rxn00416"/>
+                  <rdf:li rdf:resource="http://identifiers.org/seed.reaction/rxn11214"/>
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+            </rdf:Description>
+          </rdf:RDF>
+        </sbml:annotation>
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+          <speciesReference species="M_asp__L_c" stoichiometry="1" constant="true"/>
+          <speciesReference species="M_atp_c" stoichiometry="1" constant="true"/>
+          <speciesReference species="M_gln__L_c" stoichiometry="1" constant="true"/>
+          <speciesReference species="M_h2o_c" stoichiometry="1" constant="true"/>
+        </listOfReactants>
+        <listOfProducts>
+          <speciesReference species="M_amp_c" stoichiometry="1" constant="true"/>
+          <speciesReference species="M_asn__L_c" stoichiometry="1" constant="true"/>
+          <speciesReference species="M_glu__L_c" stoichiometry="1" constant="true"/>
+          <speciesReference species="M_h_c" stoichiometry="1" constant="true"/>
+          <speciesReference species="M_ppi_c" stoichiometry="1" constant="true"/>
+        </listOfProducts>
+        <fbc:geneProductAssociation>
+          <fbc:geneProductRef fbc:geneProduct="G_b0674"/>
+        </fbc:geneProductAssociation>
+      </reaction>
+      <reaction id="R_EAR80y" fast="false" reversible="false" name="Enoyl-[acyl-carrier-protein] reductase (NADPH) (n-C8:0)" metaid="R_EAR80y" sboTerm="SBO:0000176" fbc:upperFluxBound="cobra_default_ub" fbc:lowerFluxBound="cobra_0_bound">
+        <sbml:annotation xmlns:sbml="http://www.sbml.org/sbml/level3/version1/core">
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+            <rdf:Description rdf:about="#R_EAR80y">
+              <bqbiol:is xmlns:bqbiol="http://biomodels.net/biology-qualifiers/">
+                <rdf:Bag>
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+                  <rdf:li rdf:resource="http://identifiers.org/ec-code/2.3.1.86"/>
+                  <rdf:li rdf:resource="http://identifiers.org/metanetx.reaction/MNXR97868"/>
+                </rdf:Bag>
+              </bqbiol:is>
+            </rdf:Description>
+          </rdf:RDF>
+        </sbml:annotation>
+        <listOfReactants>
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+          <speciesReference species="M_nadph_c" stoichiometry="1" constant="true"/>
+          <speciesReference species="M_toct2eACP_c" stoichiometry="1" constant="true"/>
+        </listOfReactants>
+        <listOfProducts>
+          <speciesReference species="M_nadp_c" stoichiometry="1" constant="true"/>
+          <speciesReference species="M_ocACP_c" stoichiometry="1" constant="true"/>
+        </listOfProducts>
+        <fbc:geneProductAssociation>
+          <fbc:geneProductRef fbc:geneProduct="G_b1288"/>
+        </fbc:geneProductAssociation>
+      </reaction>
+      <reaction id="R_EAR120y" fast="false" reversible="false" name="Enoyl-[acyl-carrier-protein] reductase (NADPH) (n-C12:0)" metaid="R_EAR120y" sboTerm="SBO:0000176" fbc:upperFluxBound="cobra_default_ub" fbc:lowerFluxBound="cobra_0_bound">
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+        </sbml:annotation>
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+          <speciesReference species="M_nadph_c" stoichiometry="1" constant="true"/>
+          <speciesReference species="M_tddec2eACP_c" stoichiometry="1" constant="true"/>
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+        <listOfProducts>
+          <speciesReference species="M_ddcaACP_c" stoichiometry="1" constant="true"/>
+          <speciesReference species="M_nadp_c" stoichiometry="1" constant="true"/>
+        </listOfProducts>
+        <fbc:geneProductAssociation>
+          <fbc:geneProductRef fbc:geneProduct="G_b1288"/>
+        </fbc:geneProductAssociation>
+      </reaction>
+      <reaction id="R_3OAR181" fast="false" reversible="false" name="3-oxoacyl-[acyl-carrier-protein] reductase (n-C18:1)" metaid="R_3OAR181" sboTerm="SBO:0000176" fbc:upperFluxBound="cobra_default_ub" fbc:lowerFluxBound="cobra_0_bound">
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+                  <rdf:li rdf:resource="http://identifiers.org/metanetx.reaction/MNXR94949"/>
+                  <rdf:li rdf:resource="http://identifiers.org/seed.reaction/rxn07993"/>
+                </rdf:Bag>
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+            </rdf:Description>
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+          <speciesReference species="M_h_c" stoichiometry="1" constant="true"/>
+          <speciesReference species="M_nadph_c" stoichiometry="1" constant="true"/>
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+        <listOfProducts>
+          <speciesReference species="M_3hcvac11eACP_c" stoichiometry="1" constant="true"/>
+          <speciesReference species="M_nadp_c" stoichiometry="1" constant="true"/>
+        </listOfProducts>
+        <fbc:geneProductAssociation>
+          <fbc:geneProductRef fbc:geneProduct="G_b1093"/>
+        </fbc:geneProductAssociation>
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+      <reaction id="R_3HAD121" fast="false" reversible="false" name="3-hydroxyacyl-[acyl-carrier-protein] dehydratase (n-C12:1)" metaid="R_3HAD121" sboTerm="SBO:0000176" fbc:upperFluxBound="cobra_default_ub" fbc:lowerFluxBound="cobra_0_bound">
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+                  <rdf:li rdf:resource="http://identifiers.org/bigg.reaction/3HAD121"/>
+                  <rdf:li rdf:resource="http://identifiers.org/ec-code/4.2.1.61"/>
+                  <rdf:li rdf:resource="http://identifiers.org/metanetx.reaction/MNXR94878"/>
+                  <rdf:li rdf:resource="http://identifiers.org/seed.reaction/rxn07976"/>
+                </rdf:Bag>
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+            </rdf:Description>
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+        </sbml:annotation>
+        <listOfReactants>
+          <speciesReference species="M_3hcddec5eACP_c" stoichiometry="1" constant="true"/>
+        </listOfReactants>
+        <listOfProducts>
+          <speciesReference species="M_h2o_c" stoichiometry="1" constant="true"/>
+          <speciesReference species="M_t3c5ddeceACP_c" stoichiometry="1" constant="true"/>
+        </listOfProducts>
+        <fbc:geneProductAssociation>
+          <fbc:or>
+            <fbc:geneProductRef fbc:geneProduct="G_b0954"/>
+            <fbc:geneProductRef fbc:geneProduct="G_b0180"/>
+          </fbc:or>
+        </fbc:geneProductAssociation>
+      </reaction>
+      <reaction id="R_EAR121y" fast="false" reversible="false" name="Enoyl-[acyl-carrier-protein] reductase (NADPH) (n-C12:1)" metaid="R_EAR121y" sboTerm="SBO:0000176" fbc:upperFluxBound="cobra_default_ub" fbc:lowerFluxBound="cobra_0_bound">
+        <sbml:annotation xmlns:sbml="http://www.sbml.org/sbml/level3/version1/core">
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+              <bqbiol:is xmlns:bqbiol="http://biomodels.net/biology-qualifiers/">
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+                  <rdf:li rdf:resource="http://identifiers.org/ec-code/1.3.1.10"/>
+                  <rdf:li rdf:resource="http://identifiers.org/metanetx.reaction/MNXR97850"/>
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+            </rdf:Description>
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+          <speciesReference species="M_h_c" stoichiometry="1" constant="true"/>
+          <speciesReference species="M_nadph_c" stoichiometry="1" constant="true"/>
+          <speciesReference species="M_t3c5ddeceACP_c" stoichiometry="1" constant="true"/>
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+        <listOfProducts>
+          <speciesReference species="M_cddec5eACP_c" stoichiometry="1" constant="true"/>
+          <speciesReference species="M_nadp_c" stoichiometry="1" constant="true"/>
+        </listOfProducts>
+        <fbc:geneProductAssociation>
+          <fbc:geneProductRef fbc:geneProduct="G_b1288"/>
+        </fbc:geneProductAssociation>
+      </reaction>
+      <reaction id="R_LPLIPAL1E181pp" fast="false" reversible="false" name="Lysophospholipase L1 (2-acylglycerophosphoethanolamine, n-C18:1) (periplasm)" metaid="R_LPLIPAL1E181pp" sboTerm="SBO:0000176" fbc:upperFluxBound="cobra_default_ub" fbc:lowerFluxBound="cobra_0_bound">
+        <sbml:annotation xmlns:sbml="http://www.sbml.org/sbml/level3/version1/core">
+          <rdf:RDF xmlns:rdf="http://www.w3.org/1999/02/22-rdf-syntax-ns#">
+            <rdf:Description rdf:about="#R_LPLIPAL1E181pp">
+              <bqbiol:is xmlns:bqbiol="http://biomodels.net/biology-qualifiers/">
+                <rdf:Bag>
+                  <rdf:li rdf:resource="http://identifiers.org/bigg.reaction/LPLIPAL1E181pp"/>
+                  <rdf:li rdf:resource="http://identifiers.org/metanetx.reaction/MNXR101154"/>
+                </rdf:Bag>
+              </bqbiol:is>
+            </rdf:Description>
+          </rdf:RDF>
+        </sbml:annotation>
+        <listOfReactants>
+          <speciesReference species="M_1agpe181_p" stoichiometry="1" constant="true"/>
+          <speciesReference species="M_h2o_p" stoichiometry="1" constant="true"/>
+        </listOfReactants>
+        <listOfProducts>
+          <speciesReference species="M_g3pe_p" stoichiometry="1" constant="true"/>
+          <speciesReference species="M_h_p" stoichiometry="1" constant="true"/>
+          <speciesReference species="M_ocdcea_p" stoichiometry="1" constant="true"/>
+        </listOfProducts>
+        <fbc:geneProductAssociation>
+          <fbc:geneProductRef fbc:geneProduct="G_b0494"/>
+        </fbc:geneProductAssociation>
+      </reaction>
+      <reaction id="R_LPLIPAL1G160pp" fast="false" reversible="false" name="Lysophospholipase L1 (2-acylglycerophosphoglycerol, n-C16:0) (periplasm)" metaid="R_LPLIPAL1G160pp" sboTerm="SBO:0000176" fbc:upperFluxBound="cobra_default_ub" fbc:lowerFluxBound="cobra_0_bound">
+        <sbml:annotation xmlns:sbml="http://www.sbml.org/sbml/level3/version1/core">
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+              <bqbiol:is xmlns:bqbiol="http://biomodels.net/biology-qualifiers/">
+                <rdf:Bag>
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+                  <rdf:li rdf:resource="http://identifiers.org/metanetx.reaction/MNXR101158"/>
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+            </rdf:Description>
+          </rdf:RDF>
+        </sbml:annotation>
+        <listOfReactants>
+          <speciesReference species="M_1agpg160_p" stoichiometry="1" constant="true"/>
+          <speciesReference species="M_h2o_p" stoichiometry="1" constant="true"/>
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+        <listOfProducts>
+          <speciesReference species="M_g3pg_p" stoichiometry="1" constant="true"/>
+          <speciesReference species="M_h_p" stoichiometry="1" constant="true"/>
+          <speciesReference species="M_hdca_p" stoichiometry="1" constant="true"/>
+        </listOfProducts>
+        <fbc:geneProductAssociation>
+          <fbc:geneProductRef fbc:geneProduct="G_b0494"/>
+        </fbc:geneProductAssociation>
+      </reaction>
+      <reaction id="R_LPLIPAL1G161pp" fast="false" reversible="false" name="Lysophospholipase L1 (2-acylglycerophosphoglycerol, n-C16:1) (periplasm)" metaid="R_LPLIPAL1G161pp" sboTerm="SBO:0000176" fbc:upperFluxBound="cobra_default_ub" fbc:lowerFluxBound="cobra_0_bound">
+        <sbml:annotation xmlns:sbml="http://www.sbml.org/sbml/level3/version1/core">
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+              <bqbiol:is xmlns:bqbiol="http://biomodels.net/biology-qualifiers/">
+                <rdf:Bag>
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+                  <rdf:li rdf:resource="http://identifiers.org/metanetx.reaction/MNXR101159"/>
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+            </rdf:Description>
+          </rdf:RDF>
+        </sbml:annotation>
+        <listOfReactants>
+          <speciesReference species="M_1agpg161_p" stoichiometry="1" constant="true"/>
+          <speciesReference species="M_h2o_p" stoichiometry="1" constant="true"/>
+        </listOfReactants>
+        <listOfProducts>
+          <speciesReference species="M_g3pg_p" stoichiometry="1" constant="true"/>
+          <speciesReference species="M_h_p" stoichiometry="1" constant="true"/>
+          <speciesReference species="M_hdcea_p" stoichiometry="1" constant="true"/>
+        </listOfProducts>
+        <fbc:geneProductAssociation>
+          <fbc:geneProductRef fbc:geneProduct="G_b0494"/>
+        </fbc:geneProductAssociation>
+      </reaction>
+      <reaction id="R_GTHRDHpp" fast="false" reversible="false" name="Glutathione hydralase (periplasmic)" metaid="R_GTHRDHpp" sboTerm="SBO:0000176" fbc:upperFluxBound="cobra_default_ub" fbc:lowerFluxBound="cobra_0_bound">
+        <sbml:annotation xmlns:sbml="http://www.sbml.org/sbml/level3/version1/core">
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+                  <rdf:li rdf:resource="http://identifiers.org/biocyc/META:RXN-15856"/>
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+                  <rdf:li rdf:resource="http://identifiers.org/ec-code/3.4.19.13"/>
+                  <rdf:li rdf:resource="http://identifiers.org/kegg.reaction/R00494"/>
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+                  <rdf:li rdf:resource="http://identifiers.org/reactome.reaction/R-RNO-8943279"/>
+                  <rdf:li rdf:resource="http://identifiers.org/reactome.reaction/R-MMU-8943279"/>
+                  <rdf:li rdf:resource="http://identifiers.org/reactome.reaction/R-SPO-8943279"/>
+                  <rdf:li rdf:resource="http://identifiers.org/reactome.reaction/R-ATH-8943279"/>
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+                  <rdf:li rdf:resource="http://identifiers.org/reactome.reaction/R-SCE-8943279"/>
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+                  <rdf:li rdf:resource="http://identifiers.org/rhea/28808"/>
+                  <rdf:li rdf:resource="http://identifiers.org/rhea/28807"/>
+                  <rdf:li rdf:resource="http://identifiers.org/rhea/28810"/>
+                  <rdf:li rdf:resource="http://identifiers.org/sabiork/926"/>
+                  <rdf:li rdf:resource="http://identifiers.org/seed.reaction/rxn00350"/>
+                </rdf:Bag>
+              </bqbiol:is>
+            </rdf:Description>
+          </rdf:RDF>
+        </sbml:annotation>
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+          <speciesReference species="M_h2o_p" stoichiometry="1" constant="true"/>
+        </listOfReactants>
+        <listOfProducts>
+          <speciesReference species="M_cgly_p" stoichiometry="1" constant="true"/>
+          <speciesReference species="M_glu__L_p" stoichiometry="1" constant="true"/>
+        </listOfProducts>
+        <fbc:geneProductAssociation>
+          <fbc:geneProductRef fbc:geneProduct="G_b3447"/>
+        </fbc:geneProductAssociation>
+      </reaction>
+      <reaction id="R_EX_o2_e" fast="false" reversible="true" name="O2 exchange" metaid="R_EX_o2_e" sboTerm="SBO:0000627" fbc:upperFluxBound="cobra_default_ub" fbc:lowerFluxBound="cobra_default_lb">
+        <sbml:annotation xmlns:sbml="http://www.sbml.org/sbml/level3/version1/core">
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+              <bqbiol:is xmlns:bqbiol="http://biomodels.net/biology-qualifiers/">
+                <rdf:Bag>
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+                  <rdf:li rdf:resource="http://identifiers.org/biocyc/META:TRANS-RXN0-474"/>
+                  <rdf:li rdf:resource="http://identifiers.org/metanetx.reaction/MNXR102090"/>
+                  <rdf:li rdf:resource="http://identifiers.org/seed.reaction/rxn09641"/>
+                  <rdf:li rdf:resource="http://identifiers.org/seed.reaction/rxn05468"/>
+                  <rdf:li rdf:resource="http://identifiers.org/seed.reaction/rxn09031"/>
+                  <rdf:li rdf:resource="http://identifiers.org/seed.reaction/rxn09032"/>
+                  <rdf:li rdf:resource="http://identifiers.org/seed.reaction/rxn09734"/>
+                </rdf:Bag>
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+            </rdf:Description>
+          </rdf:RDF>
+        </sbml:annotation>
+        <listOfReactants>
+          <speciesReference species="M_o2_e" stoichiometry="1" constant="true"/>
+        </listOfReactants>
+      </reaction>
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+        <sbml:annotation xmlns:sbml="http://www.sbml.org/sbml/level3/version1/core">
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+              <bqbiol:is xmlns:bqbiol="http://biomodels.net/biology-qualifiers/">
+                <rdf:Bag>
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+                  <rdf:li rdf:resource="http://identifiers.org/metanetx.reaction/MNXR103191"/>
+                  <rdf:li rdf:resource="http://identifiers.org/seed.reaction/rxn09190"/>
+                </rdf:Bag>
+              </bqbiol:is>
+            </rdf:Description>
+          </rdf:RDF>
+        </sbml:annotation>
+        <listOfReactants>
+          <speciesReference species="M_progly_e" stoichiometry="1" constant="true"/>
+        </listOfReactants>
+        <listOfProducts>
+          <speciesReference species="M_progly_p" stoichiometry="1" constant="true"/>
+        </listOfProducts>
+        <fbc:geneProductAssociation>
+          <fbc:or>
+            <fbc:geneProductRef fbc:geneProduct="G_b0241"/>
+            <fbc:geneProductRef fbc:geneProduct="G_b0929"/>
+            <fbc:geneProductRef fbc:geneProduct="G_b1377"/>
+            <fbc:geneProductRef fbc:geneProduct="G_b2215"/>
+          </fbc:or>
+        </fbc:geneProductAssociation>
+      </reaction>
+      <reaction id="R_EX_progly_e" fast="false" reversible="false" name="L-Prolinylglycine exchange" metaid="R_EX_progly_e" sboTerm="SBO:0000627" fbc:upperFluxBound="cobra_default_ub" fbc:lowerFluxBound="cobra_0_bound">
+        <sbml:annotation xmlns:sbml="http://www.sbml.org/sbml/level3/version1/core">
+          <rdf:RDF xmlns:rdf="http://www.w3.org/1999/02/22-rdf-syntax-ns#">
+            <rdf:Description rdf:about="#R_EX_progly_e">
+              <bqbiol:is xmlns:bqbiol="http://biomodels.net/biology-qualifiers/">
+                <rdf:Bag>
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+                  <rdf:li rdf:resource="http://identifiers.org/metanetx.reaction/MNXR103191"/>
+                  <rdf:li rdf:resource="http://identifiers.org/seed.reaction/rxn09190"/>
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+            </rdf:Description>
+          </rdf:RDF>
+        </sbml:annotation>
+        <listOfReactants>
+          <speciesReference species="M_progly_e" stoichiometry="1" constant="true"/>
+        </listOfReactants>
+      </reaction>
+      <reaction id="R_MDDCP2pp" fast="false" reversible="false" name="Murein D,D-carboxypeptidase (murein5px4px4p) (periplasm)" metaid="R_MDDCP2pp" sboTerm="SBO:0000176" fbc:upperFluxBound="cobra_default_ub" fbc:lowerFluxBound="cobra_0_bound">
+        <sbml:annotation xmlns:sbml="http://www.sbml.org/sbml/level3/version1/core">
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+              <bqbiol:is xmlns:bqbiol="http://biomodels.net/biology-qualifiers/">
+                <rdf:Bag>
+                  <rdf:li rdf:resource="http://identifiers.org/bigg.reaction/MDDCP2pp"/>
+                  <rdf:li rdf:resource="http://identifiers.org/ec-code/3.4.16.4"/>
+                  <rdf:li rdf:resource="http://identifiers.org/metanetx.reaction/MNXR143207"/>
+                  <rdf:li rdf:resource="http://identifiers.org/seed.reaction/rxn08891"/>
+                </rdf:Bag>
+              </bqbiol:is>
+            </rdf:Description>
+          </rdf:RDF>
+        </sbml:annotation>
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+          <speciesReference species="M_h2o_p" stoichiometry="1" constant="true"/>
+          <speciesReference species="M_murein5px4px4p_p" stoichiometry="1" constant="true"/>
+        </listOfReactants>
+        <listOfProducts>
+          <speciesReference species="M_ala__D_p" stoichiometry="1" constant="true"/>
+          <speciesReference species="M_murein4px4px4p_p" stoichiometry="1" constant="true"/>
+        </listOfProducts>
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+            <fbc:geneProductRef fbc:geneProduct="G_b3182"/>
+            <fbc:geneProductRef fbc:geneProduct="G_b0839"/>
+            <fbc:geneProductRef fbc:geneProduct="G_b2010"/>
+            <fbc:geneProductRef fbc:geneProduct="G_b2430"/>
+            <fbc:geneProductRef fbc:geneProduct="G_b0376"/>
+          </fbc:or>
+        </fbc:geneProductAssociation>
+      </reaction>
+      <reaction id="R_LPLIPAL1G120pp" fast="false" reversible="false" name="Lysophospholipase L1 (2-acylglycerophosphoglycerol, n-C12:0) (periplasm)" metaid="R_LPLIPAL1G120pp" sboTerm="SBO:0000176" fbc:upperFluxBound="cobra_default_ub" fbc:lowerFluxBound="cobra_0_bound">
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+          </rdf:RDF>
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+          <speciesReference species="M_h2o_p" stoichiometry="1" constant="true"/>
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+        <listOfProducts>
+          <speciesReference species="M_ddca_p" stoichiometry="1" constant="true"/>
+          <speciesReference species="M_g3pg_p" stoichiometry="1" constant="true"/>
+          <speciesReference species="M_h_p" stoichiometry="1" constant="true"/>
+        </listOfProducts>
+        <fbc:geneProductAssociation>
+          <fbc:geneProductRef fbc:geneProduct="G_b0494"/>
+        </fbc:geneProductAssociation>
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+      <reaction id="R_PLIPA2E140pp" fast="false" reversible="false" name="Phospholipase A2 (phosphatidylethanolamine, n-C14:0) (periplasm)" metaid="R_PLIPA2E140pp" sboTerm="SBO:0000176" fbc:upperFluxBound="cobra_default_ub" fbc:lowerFluxBound="cobra_0_bound">
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+          <speciesReference species="M_pe140_p" stoichiometry="1" constant="true"/>
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+        <listOfProducts>
+          <speciesReference species="M_1agpe140_p" stoichiometry="1" constant="true"/>
+          <speciesReference species="M_h_p" stoichiometry="1" constant="true"/>
+          <speciesReference species="M_ttdca_p" stoichiometry="1" constant="true"/>
+        </listOfProducts>
+        <fbc:geneProductAssociation>
+          <fbc:geneProductRef fbc:geneProduct="G_b3821"/>
+        </fbc:geneProductAssociation>
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+      <reaction id="R_PLIPA2E160pp" fast="false" reversible="false" name="Phospholipase A2 (phosphatidylethanolamine, n-C16:0) (periplasm)" metaid="R_PLIPA2E160pp" sboTerm="SBO:0000176" fbc:upperFluxBound="cobra_default_ub" fbc:lowerFluxBound="cobra_0_bound">
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+          <speciesReference species="M_pe160_p" stoichiometry="1" constant="true"/>
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+        <listOfProducts>
+          <speciesReference species="M_1agpe160_p" stoichiometry="1" constant="true"/>
+          <speciesReference species="M_h_p" stoichiometry="1" constant="true"/>
+          <speciesReference species="M_hdca_p" stoichiometry="1" constant="true"/>
+        </listOfProducts>
+        <fbc:geneProductAssociation>
+          <fbc:geneProductRef fbc:geneProduct="G_b3821"/>
+        </fbc:geneProductAssociation>
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+      <reaction id="R_PLIPA2A161pp" fast="false" reversible="false" name="Phospholipase A2 (phosphatidate, n-C16:1) (periplasm)" metaid="R_PLIPA2A161pp" sboTerm="SBO:0000176" fbc:upperFluxBound="cobra_default_ub" fbc:lowerFluxBound="cobra_0_bound">
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+          <speciesReference species="M_h2o_p" stoichiometry="1" constant="true"/>
+          <speciesReference species="M_pa161_p" stoichiometry="1" constant="true"/>
+        </listOfReactants>
+        <listOfProducts>
+          <speciesReference species="M_1hdec9eg3p_p" stoichiometry="1" constant="true"/>
+          <speciesReference species="M_h_p" stoichiometry="1" constant="true"/>
+          <speciesReference species="M_hdcea_p" stoichiometry="1" constant="true"/>
+        </listOfProducts>
+        <fbc:geneProductAssociation>
+          <fbc:geneProductRef fbc:geneProduct="G_b3821"/>
+        </fbc:geneProductAssociation>
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+      <reaction id="R_PLIPA2A181pp" fast="false" reversible="false" name="Phospholipase A2 (phosphatidate, n-C18:1) (periplasm)" metaid="R_PLIPA2A181pp" sboTerm="SBO:0000176" fbc:upperFluxBound="cobra_default_ub" fbc:lowerFluxBound="cobra_0_bound">
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+          <speciesReference species="M_pa181_p" stoichiometry="1" constant="true"/>
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+        <listOfProducts>
+          <speciesReference species="M_1odec11eg3p_p" stoichiometry="1" constant="true"/>
+          <speciesReference species="M_h_p" stoichiometry="1" constant="true"/>
+          <speciesReference species="M_ocdcea_p" stoichiometry="1" constant="true"/>
+        </listOfProducts>
+        <fbc:geneProductAssociation>
+          <fbc:geneProductRef fbc:geneProduct="G_b3821"/>
+        </fbc:geneProductAssociation>
+      </reaction>
+      <reaction id="R_F6Ptex" fast="false" reversible="true" name="Fructose 6-phosphate transport via diffusion (extracellular to periplasm)" metaid="R_F6Ptex" sboTerm="SBO:0000185" fbc:upperFluxBound="cobra_default_ub" fbc:lowerFluxBound="cobra_default_lb">
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+        <listOfProducts>
+          <speciesReference species="M_f6p_p" stoichiometry="1" constant="true"/>
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+        <fbc:geneProductAssociation>
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+            <fbc:geneProductRef fbc:geneProduct="G_b0929"/>
+            <fbc:geneProductRef fbc:geneProduct="G_b1377"/>
+            <fbc:geneProductRef fbc:geneProduct="G_b2215"/>
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+        </fbc:geneProductAssociation>
+      </reaction>
+      <reaction id="R_MDDCP3pp" fast="false" reversible="false" name="Murein D,D-carboxypeptidase (murein5p5p) (periplasm)" metaid="R_MDDCP3pp" sboTerm="SBO:0000176" fbc:upperFluxBound="cobra_default_ub" fbc:lowerFluxBound="cobra_0_bound">
+        <sbml:annotation xmlns:sbml="http://www.sbml.org/sbml/level3/version1/core">
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+                  <rdf:li rdf:resource="http://identifiers.org/seed.reaction/rxn08892"/>
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+          <speciesReference species="M_murein5p5p_p" stoichiometry="1" constant="true"/>
+        </listOfReactants>
+        <listOfProducts>
+          <speciesReference species="M_ala__D_p" stoichiometry="1" constant="true"/>
+          <speciesReference species="M_murein5p4p_p" stoichiometry="1" constant="true"/>
+        </listOfProducts>
+        <fbc:geneProductAssociation>
+          <fbc:or>
+            <fbc:geneProductRef fbc:geneProduct="G_b0632"/>
+            <fbc:geneProductRef fbc:geneProduct="G_b3182"/>
+            <fbc:geneProductRef fbc:geneProduct="G_b0839"/>
+            <fbc:geneProductRef fbc:geneProduct="G_b2010"/>
+            <fbc:geneProductRef fbc:geneProduct="G_b2430"/>
+            <fbc:geneProductRef fbc:geneProduct="G_b0376"/>
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+        </fbc:geneProductAssociation>
+      </reaction>
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+        <sbml:annotation xmlns:sbml="http://www.sbml.org/sbml/level3/version1/core">
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+        </sbml:annotation>
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+          <speciesReference species="M_nadh_c" stoichiometry="1" constant="true"/>
+          <speciesReference species="M_tmrs2eACP_c" stoichiometry="1" constant="true"/>
+        </listOfReactants>
+        <listOfProducts>
+          <speciesReference species="M_myrsACP_c" stoichiometry="1" constant="true"/>
+          <speciesReference species="M_nad_c" stoichiometry="1" constant="true"/>
+        </listOfProducts>
+        <fbc:geneProductAssociation>
+          <fbc:geneProductRef fbc:geneProduct="G_b1288"/>
+        </fbc:geneProductAssociation>
+      </reaction>
+      <reaction id="R_EAR40y" fast="false" reversible="false" name="Enoyl-[acyl-carrier-protein] reductase (NADPH) (n-C4:0)" metaid="R_EAR40y" sboTerm="SBO:0000176" fbc:upperFluxBound="cobra_default_ub" fbc:lowerFluxBound="cobra_0_bound">
+        <sbml:annotation xmlns:sbml="http://www.sbml.org/sbml/level3/version1/core">
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+              <bqbiol:is xmlns:bqbiol="http://biomodels.net/biology-qualifiers/">
+                <rdf:Bag>
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+                </rdf:Bag>
+              </bqbiol:is>
+            </rdf:Description>
+          </rdf:RDF>
+        </sbml:annotation>
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+          <speciesReference species="M_h_c" stoichiometry="1" constant="true"/>
+          <speciesReference species="M_nadph_c" stoichiometry="1" constant="true"/>
+        </listOfReactants>
+        <listOfProducts>
+          <speciesReference species="M_butACP_c" stoichiometry="1" constant="true"/>
+          <speciesReference species="M_nadp_c" stoichiometry="1" constant="true"/>
+        </listOfProducts>
+        <fbc:geneProductAssociation>
+          <fbc:geneProductRef fbc:geneProduct="G_b1288"/>
+        </fbc:geneProductAssociation>
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+      <reaction id="R_GAMAN6Ptex" fast="false" reversible="true" name="D-glucosamine 6-phosphate transport via diffusion (extracellular to periplasm)" metaid="R_GAMAN6Ptex" sboTerm="SBO:0000185" fbc:upperFluxBound="cobra_default_ub" fbc:lowerFluxBound="cobra_default_lb">
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+              <bqbiol:is xmlns:bqbiol="http://biomodels.net/biology-qualifiers/">
+                <rdf:Bag>
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+                  <rdf:li rdf:resource="http://identifiers.org/metanetx.reaction/MNXR100031"/>
+                  <rdf:li rdf:resource="http://identifiers.org/seed.reaction/rxn13642"/>
+                  <rdf:li rdf:resource="http://identifiers.org/seed.reaction/rxn08591"/>
+                  <rdf:li rdf:resource="http://identifiers.org/seed.reaction/rxn05568"/>
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+        </sbml:annotation>
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+          <speciesReference species="M_gam6p_e" stoichiometry="1" constant="true"/>
+        </listOfReactants>
+        <listOfProducts>
+          <speciesReference species="M_gam6p_p" stoichiometry="1" constant="true"/>
+        </listOfProducts>
+        <fbc:geneProductAssociation>
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+            <fbc:geneProductRef fbc:geneProduct="G_b0929"/>
+            <fbc:geneProductRef fbc:geneProduct="G_b1377"/>
+            <fbc:geneProductRef fbc:geneProduct="G_b2215"/>
+          </fbc:or>
+        </fbc:geneProductAssociation>
+      </reaction>
+      <reaction id="R_EX_gal_bD_e" fast="false" reversible="false" name="Beta D-Galactose exchange" metaid="R_EX_gal_bD_e" sboTerm="SBO:0000627" fbc:upperFluxBound="cobra_default_ub" fbc:lowerFluxBound="cobra_0_bound">
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+              <bqbiol:is xmlns:bqbiol="http://biomodels.net/biology-qualifiers/">
+                <rdf:Bag>
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+                  <rdf:li rdf:resource="http://identifiers.org/seed.reaction/rxn08574"/>
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+            </rdf:Description>
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+        </sbml:annotation>
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+          <speciesReference species="M_gal_bD_e" stoichiometry="1" constant="true"/>
+        </listOfReactants>
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+          <speciesReference species="M_hdeACP_c" stoichiometry="1" constant="true"/>
+          <speciesReference species="M_malACP_c" stoichiometry="1" constant="true"/>
+        </listOfReactants>
+        <listOfProducts>
+          <speciesReference species="M_3ocvac11eACP_c" stoichiometry="1" constant="true"/>
+          <speciesReference species="M_ACP_c" stoichiometry="1" constant="true"/>
+          <speciesReference species="M_co2_c" stoichiometry="1" constant="true"/>
+        </listOfProducts>
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+          <fbc:geneProductRef fbc:geneProduct="G_b1095"/>
+        </fbc:geneProductAssociation>
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+          <speciesReference species="M_nadph_c" stoichiometry="1" constant="true"/>
+          <speciesReference species="M_t3c9palmeACP_c" stoichiometry="1" constant="true"/>
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+          <speciesReference species="M_nadp_c" stoichiometry="1" constant="true"/>
+        </listOfProducts>
+        <fbc:geneProductAssociation>
+          <fbc:geneProductRef fbc:geneProduct="G_b1288"/>
+        </fbc:geneProductAssociation>
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+            <fbc:geneProductRef fbc:geneProduct="G_b0925"/>
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+          <speciesReference species="M_malACP_c" stoichiometry="1" constant="true"/>
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+          <speciesReference species="M_co2_c" stoichiometry="1" constant="true"/>
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+          <speciesReference species="M_tpalm2eACP_c" stoichiometry="1" constant="true"/>
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+        </listOfProducts>
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+          <speciesReference species="M_pg120_p" stoichiometry="1" constant="true"/>
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+          <speciesReference species="M_pg140_p" stoichiometry="1" constant="true"/>
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+        </fbc:geneProductAssociation>
+      </reaction>
+      <reaction id="R_MDDCP5pp" fast="false" reversible="false" name="Murein D,D-carboxypeptidase (murein5p3p) (periplasm)" metaid="R_MDDCP5pp" sboTerm="SBO:0000176" fbc:upperFluxBound="cobra_default_ub" fbc:lowerFluxBound="cobra_0_bound">
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+          <speciesReference species="M_murein5p3p_p" stoichiometry="1" constant="true"/>
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+        <listOfProducts>
+          <speciesReference species="M_ala__D_p" stoichiometry="1" constant="true"/>
+          <speciesReference species="M_murein4p3p_p" stoichiometry="1" constant="true"/>
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+        <fbc:geneProductAssociation>
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+            <fbc:geneProductRef fbc:geneProduct="G_b0632"/>
+            <fbc:geneProductRef fbc:geneProduct="G_b3182"/>
+            <fbc:geneProductRef fbc:geneProduct="G_b0839"/>
+            <fbc:geneProductRef fbc:geneProduct="G_b2010"/>
+            <fbc:geneProductRef fbc:geneProduct="G_b2430"/>
+            <fbc:geneProductRef fbc:geneProduct="G_b0376"/>
+          </fbc:or>
+        </fbc:geneProductAssociation>
+      </reaction>
+      <reaction id="R_MLTGY3pp" fast="false" reversible="false" name="Murein lytic transglycosylase (murein3p3p) (periplasm)" metaid="R_MLTGY3pp" sboTerm="SBO:0000176" fbc:upperFluxBound="cobra_default_ub" fbc:lowerFluxBound="cobra_0_bound">
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+                  <rdf:li rdf:resource="http://identifiers.org/seed.reaction/rxn08939"/>
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+        </sbml:annotation>
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+        <listOfProducts>
+          <speciesReference species="M_anhgm3p_p" stoichiometry="2" constant="true"/>
+        </listOfProducts>
+        <fbc:geneProductAssociation>
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+            <fbc:geneProductRef fbc:geneProduct="G_b4392"/>
+            <fbc:geneProductRef fbc:geneProduct="G_b2813"/>
+            <fbc:geneProductRef fbc:geneProduct="G_b2701"/>
+            <fbc:geneProductRef fbc:geneProduct="G_b1193"/>
+            <fbc:geneProductRef fbc:geneProduct="G_b2963"/>
+            <fbc:geneProductRef fbc:geneProduct="G_b2558"/>
+            <fbc:geneProductRef fbc:geneProduct="G_b0211"/>
+            <fbc:geneProductRef fbc:geneProduct="G_b1097"/>
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+        </fbc:geneProductAssociation>
+      </reaction>
+      <reaction id="R_12DGR120tipp" fast="false" reversible="false" name="1,2 diacylglycerol transport via flipping (periplasm to cytoplasm, n-C12:0)" metaid="R_12DGR120tipp" sboTerm="SBO:0000185" fbc:upperFluxBound="cobra_default_ub" fbc:lowerFluxBound="cobra_0_bound">
+        <sbml:annotation xmlns:sbml="http://www.sbml.org/sbml/level3/version1/core">
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+            <rdf:Description rdf:about="#R_12DGR120tipp">
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+                <rdf:Bag>
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+                  <rdf:li rdf:resource="http://identifiers.org/metanetx.reaction/MNXR94675"/>
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+              </bqbiol:is>
+            </rdf:Description>
+          </rdf:RDF>
+        </sbml:annotation>
+        <listOfReactants>
+          <speciesReference species="M_12dgr120_p" stoichiometry="1" constant="true"/>
+        </listOfReactants>
+        <listOfProducts>
+          <speciesReference species="M_12dgr120_c" stoichiometry="1" constant="true"/>
+        </listOfProducts>
+      </reaction>
+      <reaction id="R_MDDCP4pp" fast="false" reversible="false" name="Murein D,D-carboxypeptidase (murein5p4p) (periplasm)" metaid="R_MDDCP4pp" sboTerm="SBO:0000176" fbc:upperFluxBound="cobra_default_ub" fbc:lowerFluxBound="cobra_0_bound">
+        <sbml:annotation xmlns:sbml="http://www.sbml.org/sbml/level3/version1/core">
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+                  <rdf:li rdf:resource="http://identifiers.org/metanetx.reaction/MNXR143208"/>
+                  <rdf:li rdf:resource="http://identifiers.org/seed.reaction/rxn08893"/>
+                </rdf:Bag>
+              </bqbiol:is>
+            </rdf:Description>
+          </rdf:RDF>
+        </sbml:annotation>
+        <listOfReactants>
+          <speciesReference species="M_h2o_p" stoichiometry="1" constant="true"/>
+          <speciesReference species="M_murein5p4p_p" stoichiometry="1" constant="true"/>
+        </listOfReactants>
+        <listOfProducts>
+          <speciesReference species="M_ala__D_p" stoichiometry="1" constant="true"/>
+          <speciesReference species="M_murein4p4p_p" stoichiometry="1" constant="true"/>
+        </listOfProducts>
+        <fbc:geneProductAssociation>
+          <fbc:or>
+            <fbc:geneProductRef fbc:geneProduct="G_b0632"/>
+            <fbc:geneProductRef fbc:geneProduct="G_b3182"/>
+            <fbc:geneProductRef fbc:geneProduct="G_b0839"/>
+            <fbc:geneProductRef fbc:geneProduct="G_b2010"/>
+            <fbc:geneProductRef fbc:geneProduct="G_b2430"/>
+            <fbc:geneProductRef fbc:geneProduct="G_b0376"/>
+          </fbc:or>
+        </fbc:geneProductAssociation>
+      </reaction>
+      <reaction id="R_CLPNS140pp" fast="false" reversible="true" name="Cardiolipin synthase (periplasmic, n-C14:0)" metaid="R_CLPNS140pp" sboTerm="SBO:0000176" fbc:upperFluxBound="cobra_default_ub" fbc:lowerFluxBound="cobra_default_lb">
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+            <rdf:Description rdf:about="#R_CLPNS140pp">
+              <bqbiol:is xmlns:bqbiol="http://biomodels.net/biology-qualifiers/">
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+        <listOfReactants>
+          <speciesReference species="M_pg140_p" stoichiometry="2" constant="true"/>
+        </listOfReactants>
+        <listOfProducts>
+          <speciesReference species="M_clpn140_p" stoichiometry="1" constant="true"/>
+          <speciesReference species="M_glyc_p" stoichiometry="1" constant="true"/>
+        </listOfProducts>
+        <fbc:geneProductAssociation>
+          <fbc:or>
+            <fbc:geneProductRef fbc:geneProduct="G_b1249"/>
+            <fbc:geneProductRef fbc:geneProduct="G_b0789"/>
+          </fbc:or>
+        </fbc:geneProductAssociation>
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+      <reaction id="R_CLPNS141pp" fast="false" reversible="true" name="Cardiolipin synthase (periplasmic, n-C14:1)" metaid="R_CLPNS141pp" sboTerm="SBO:0000176" fbc:upperFluxBound="cobra_default_ub" fbc:lowerFluxBound="cobra_default_lb">
+        <sbml:annotation xmlns:sbml="http://www.sbml.org/sbml/level3/version1/core">
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+            <rdf:Description rdf:about="#R_CLPNS141pp">
+              <bqbiol:is xmlns:bqbiol="http://biomodels.net/biology-qualifiers/">
+                <rdf:Bag>
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+                  <rdf:li rdf:resource="http://identifiers.org/metanetx.reaction/MNXR96783"/>
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+            </rdf:Description>
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+        </sbml:annotation>
+        <listOfReactants>
+          <speciesReference species="M_pg141_p" stoichiometry="2" constant="true"/>
+        </listOfReactants>
+        <listOfProducts>
+          <speciesReference species="M_clpn141_p" stoichiometry="1" constant="true"/>
+          <speciesReference species="M_glyc_p" stoichiometry="1" constant="true"/>
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+        <fbc:geneProductAssociation>
+          <fbc:or>
+            <fbc:geneProductRef fbc:geneProduct="G_b1249"/>
+            <fbc:geneProductRef fbc:geneProduct="G_b0789"/>
+          </fbc:or>
+        </fbc:geneProductAssociation>
+      </reaction>
+      <reaction id="R_G3PAT180" fast="false" reversible="false" name="Glycerol-3-phosphate acyltransferase (C18:0)" metaid="R_G3PAT180" sboTerm="SBO:0000176" fbc:upperFluxBound="cobra_default_ub" fbc:lowerFluxBound="cobra_0_bound">
+        <sbml:annotation xmlns:sbml="http://www.sbml.org/sbml/level3/version1/core">
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+              <bqbiol:is xmlns:bqbiol="http://biomodels.net/biology-qualifiers/">
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+                  <rdf:li rdf:resource="http://identifiers.org/metanetx.reaction/MNXR99860"/>
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+            </rdf:Description>
+          </rdf:RDF>
+        </sbml:annotation>
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+          <speciesReference species="M_glyc3p_c" stoichiometry="1" constant="true"/>
+          <speciesReference species="M_ocdcaACP_c" stoichiometry="1" constant="true"/>
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+        <listOfProducts>
+          <speciesReference species="M_1odecg3p_c" stoichiometry="1" constant="true"/>
+          <speciesReference species="M_ACP_c" stoichiometry="1" constant="true"/>
+        </listOfProducts>
+        <fbc:geneProductAssociation>
+          <fbc:and>
+            <fbc:geneProductRef fbc:geneProduct="G_b1094"/>
+            <fbc:geneProductRef fbc:geneProduct="G_b4041"/>
+          </fbc:and>
+        </fbc:geneProductAssociation>
+      </reaction>
+      <reaction id="R_EX_o2s_e" fast="false" reversible="false" name="Superoxide anion exchange" metaid="R_EX_o2s_e" sboTerm="SBO:0000627" fbc:upperFluxBound="cobra_default_ub" fbc:lowerFluxBound="cobra_0_bound">
+        <sbml:annotation xmlns:sbml="http://www.sbml.org/sbml/level3/version1/core">
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+            <rdf:Description rdf:about="#R_EX_o2s_e">
+              <bqbiol:is xmlns:bqbiol="http://biomodels.net/biology-qualifiers/">
+                <rdf:Bag>
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+                  <rdf:li rdf:resource="http://identifiers.org/metanetx.reaction/MNXR102089"/>
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+        </sbml:annotation>
+        <listOfReactants>
+          <speciesReference species="M_o2s_e" stoichiometry="1" constant="true"/>
+        </listOfReactants>
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+      <reaction id="R_PLIPA1G160pp" fast="false" reversible="false" name="Phospholipase A1 (phosphatidylglycerol, n-C16:0) (periplasm)" metaid="R_PLIPA1G160pp" sboTerm="SBO:0000176" fbc:upperFluxBound="cobra_default_ub" fbc:lowerFluxBound="cobra_0_bound">
+        <sbml:annotation xmlns:sbml="http://www.sbml.org/sbml/level3/version1/core">
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+              <bqbiol:is xmlns:bqbiol="http://biomodels.net/biology-qualifiers/">
+                <rdf:Bag>
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+                  <rdf:li rdf:resource="http://identifiers.org/metanetx.reaction/MNXR102984"/>
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+            </rdf:Description>
+          </rdf:RDF>
+        </sbml:annotation>
+        <listOfReactants>
+          <speciesReference species="M_h2o_p" stoichiometry="1" constant="true"/>
+          <speciesReference species="M_pg160_p" stoichiometry="1" constant="true"/>
+        </listOfReactants>
+        <listOfProducts>
+          <speciesReference species="M_2agpg160_p" stoichiometry="1" constant="true"/>
+          <speciesReference species="M_h_p" stoichiometry="1" constant="true"/>
+          <speciesReference species="M_hdca_p" stoichiometry="1" constant="true"/>
+        </listOfProducts>
+        <fbc:geneProductAssociation>
+          <fbc:geneProductRef fbc:geneProduct="G_b3821"/>
+        </fbc:geneProductAssociation>
+      </reaction>
+      <reaction id="R_PG120abcpp" fast="false" reversible="false" name="Phosphatidylglycerol transport via ABC system (n-C12:0, periplasm)" metaid="R_PG120abcpp" sboTerm="SBO:0000185" fbc:upperFluxBound="cobra_default_ub" fbc:lowerFluxBound="cobra_0_bound">
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+            <rdf:Description rdf:about="#R_PG120abcpp">
+              <bqbiol:is xmlns:bqbiol="http://biomodels.net/biology-qualifiers/">
+                <rdf:Bag>
+                  <rdf:li rdf:resource="http://identifiers.org/bigg.reaction/PG120abcpp"/>
+                  <rdf:li rdf:resource="http://identifiers.org/metanetx.reaction/MNXR102516"/>
+                </rdf:Bag>
+              </bqbiol:is>
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+          </rdf:RDF>
+        </sbml:annotation>
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+          <speciesReference species="M_atp_c" stoichiometry="1" constant="true"/>
+          <speciesReference species="M_h2o_c" stoichiometry="1" constant="true"/>
+          <speciesReference species="M_pg120_c" stoichiometry="1" constant="true"/>
+        </listOfReactants>
+        <listOfProducts>
+          <speciesReference species="M_adp_c" stoichiometry="1" constant="true"/>
+          <speciesReference species="M_h_c" stoichiometry="1" constant="true"/>
+          <speciesReference species="M_pg120_p" stoichiometry="1" constant="true"/>
+          <speciesReference species="M_pi_c" stoichiometry="1" constant="true"/>
+        </listOfProducts>
+        <fbc:geneProductAssociation>
+          <fbc:geneProductRef fbc:geneProduct="G_b0914"/>
+        </fbc:geneProductAssociation>
+      </reaction>
+      <reaction id="R_EX_gal1p_e" fast="false" reversible="false" name="Alpha-D-Galactose 1-phosphate exchange" metaid="R_EX_gal1p_e" sboTerm="SBO:0000627" fbc:upperFluxBound="cobra_default_ub" fbc:lowerFluxBound="cobra_0_bound">
+        <sbml:annotation xmlns:sbml="http://www.sbml.org/sbml/level3/version1/core">
+          <rdf:RDF xmlns:rdf="http://www.w3.org/1999/02/22-rdf-syntax-ns#">
+            <rdf:Description rdf:about="#R_EX_gal1p_e">
+              <bqbiol:is xmlns:bqbiol="http://biomodels.net/biology-qualifiers/">
+                <rdf:Bag>
+                  <rdf:li rdf:resource="http://identifiers.org/bigg.reaction/EX_gal1p_e"/>
+                  <rdf:li rdf:resource="http://identifiers.org/metanetx.reaction/MNXR99923"/>
+                  <rdf:li rdf:resource="http://identifiers.org/seed.reaction/rxn08572"/>
+                </rdf:Bag>
+              </bqbiol:is>
+            </rdf:Description>
+          </rdf:RDF>
+        </sbml:annotation>
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+          <speciesReference species="M_gal1p_e" stoichiometry="1" constant="true"/>
+        </listOfReactants>
+      </reaction>
+      <reaction id="R_PE140abcpp" fast="false" reversible="false" name="Phosphatidylethanolamine transport via ABC system (n-C14:0, periplasm)" metaid="R_PE140abcpp" sboTerm="SBO:0000185" fbc:upperFluxBound="cobra_default_ub" fbc:lowerFluxBound="cobra_0_bound">
+        <sbml:annotation xmlns:sbml="http://www.sbml.org/sbml/level3/version1/core">
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+            <rdf:Description rdf:about="#R_PE140abcpp">
+              <bqbiol:is xmlns:bqbiol="http://biomodels.net/biology-qualifiers/">
+                <rdf:Bag>
+                  <rdf:li rdf:resource="http://identifiers.org/bigg.reaction/PE140abcpp"/>
+                  <rdf:li rdf:resource="http://identifiers.org/metanetx.reaction/MNXR102442"/>
+                </rdf:Bag>
+              </bqbiol:is>
+            </rdf:Description>
+          </rdf:RDF>
+        </sbml:annotation>
+        <listOfReactants>
+          <speciesReference species="M_atp_c" stoichiometry="1" constant="true"/>
+          <speciesReference species="M_h2o_c" stoichiometry="1" constant="true"/>
+          <speciesReference species="M_pe140_c" stoichiometry="1" constant="true"/>
+        </listOfReactants>
+        <listOfProducts>
+          <speciesReference species="M_adp_c" stoichiometry="1" constant="true"/>
+          <speciesReference species="M_h_c" stoichiometry="1" constant="true"/>
+          <speciesReference species="M_pe140_p" stoichiometry="1" constant="true"/>
+          <speciesReference species="M_pi_c" stoichiometry="1" constant="true"/>
+        </listOfProducts>
+        <fbc:geneProductAssociation>
+          <fbc:geneProductRef fbc:geneProduct="G_b0914"/>
+        </fbc:geneProductAssociation>
+      </reaction>
+      <reaction id="R_CFAS160E" fast="false" reversible="false" name="Cyclopropane fatty acid synthase (Phosphatidylethanolamine, n-C16:0)" metaid="R_CFAS160E" sboTerm="SBO:0000176" fbc:upperFluxBound="cobra_default_ub" fbc:lowerFluxBound="cobra_0_bound">
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+              <bqbiol:is xmlns:bqbiol="http://biomodels.net/biology-qualifiers/">
+                <rdf:Bag>
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+                  <rdf:li rdf:resource="http://identifiers.org/ec-code/2.1.1.79"/>
+                  <rdf:li rdf:resource="http://identifiers.org/metanetx.reaction/MNXR96652"/>
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+              </bqbiol:is>
+            </rdf:Description>
+          </rdf:RDF>
+        </sbml:annotation>
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+          <speciesReference species="M_amet_c" stoichiometry="2" constant="true"/>
+          <speciesReference species="M_pe161_c" stoichiometry="1" constant="true"/>
+        </listOfReactants>
+        <listOfProducts>
+          <speciesReference species="M_ahcys_c" stoichiometry="2" constant="true"/>
+          <speciesReference species="M_cpe160_c" stoichiometry="1" constant="true"/>
+          <speciesReference species="M_h_c" stoichiometry="2" constant="true"/>
+        </listOfProducts>
+        <fbc:geneProductAssociation>
+          <fbc:geneProductRef fbc:geneProduct="G_b1661"/>
+        </fbc:geneProductAssociation>
+      </reaction>
+      <reaction id="R_PLIPA1G141pp" fast="false" reversible="false" name="Phospholipase A1 (phosphatidylglycerol, n-C14:1) (periplasm)" metaid="R_PLIPA1G141pp" sboTerm="SBO:0000176" fbc:upperFluxBound="cobra_default_ub" fbc:lowerFluxBound="cobra_0_bound">
+        <sbml:annotation xmlns:sbml="http://www.sbml.org/sbml/level3/version1/core">
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+            <rdf:Description rdf:about="#R_PLIPA1G141pp">
+              <bqbiol:is xmlns:bqbiol="http://biomodels.net/biology-qualifiers/">
+                <rdf:Bag>
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+                  <rdf:li rdf:resource="http://identifiers.org/metanetx.reaction/MNXR102983"/>
+                </rdf:Bag>
+              </bqbiol:is>
+            </rdf:Description>
+          </rdf:RDF>
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+            <fbc:geneProductRef fbc:geneProduct="G_b0376"/>
+            <fbc:geneProductRef fbc:geneProduct="G_b1655"/>
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+            <fbc:geneProductRef fbc:geneProduct="G_b2558"/>
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+            <fbc:geneProductRef fbc:geneProduct="G_b1097"/>
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+            </rdf:Description>
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+        </sbml:annotation>
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+          <speciesReference species="M_h_c" stoichiometry="1" constant="true"/>
+          <speciesReference species="M_malACP_c" stoichiometry="1" constant="true"/>
+        </listOfReactants>
+        <listOfProducts>
+          <speciesReference species="M_3ohexACP_c" stoichiometry="1" constant="true"/>
+          <speciesReference species="M_ACP_c" stoichiometry="1" constant="true"/>
+          <speciesReference species="M_co2_c" stoichiometry="1" constant="true"/>
+        </listOfProducts>
+        <fbc:geneProductAssociation>
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+            <fbc:geneProductRef fbc:geneProduct="G_b2323"/>
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+        </fbc:geneProductAssociation>
+      </reaction>
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+          <speciesReference species="M_malACP_c" stoichiometry="1" constant="true"/>
+          <speciesReference species="M_myrsACP_c" stoichiometry="1" constant="true"/>
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+        <listOfProducts>
+          <speciesReference species="M_3opalmACP_c" stoichiometry="1" constant="true"/>
+          <speciesReference species="M_ACP_c" stoichiometry="1" constant="true"/>
+          <speciesReference species="M_co2_c" stoichiometry="1" constant="true"/>
+        </listOfProducts>
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+            <fbc:geneProductRef fbc:geneProduct="G_b1095"/>
+          </fbc:or>
+        </fbc:geneProductAssociation>
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+          <speciesReference species="M_pa141_c" stoichiometry="1" constant="true"/>
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+        <listOfProducts>
+          <speciesReference species="M_12dgr141_c" stoichiometry="1" constant="true"/>
+          <speciesReference species="M_pi_c" stoichiometry="1" constant="true"/>
+        </listOfProducts>
+        <fbc:geneProductAssociation>
+          <fbc:geneProductRef fbc:geneProduct="G_b1278"/>
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+      <reaction id="R_PAPA161" fast="false" reversible="false" name="Phosphatidate phosphatase (n-C16:1)" metaid="R_PAPA161" sboTerm="SBO:0000176" fbc:upperFluxBound="cobra_default_ub" fbc:lowerFluxBound="cobra_0_bound">
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+        </sbml:annotation>
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+          <speciesReference species="M_h2o_c" stoichiometry="1" constant="true"/>
+          <speciesReference species="M_pa161_c" stoichiometry="1" constant="true"/>
+        </listOfReactants>
+        <listOfProducts>
+          <speciesReference species="M_12dgr161_c" stoichiometry="1" constant="true"/>
+          <speciesReference species="M_pi_c" stoichiometry="1" constant="true"/>
+        </listOfProducts>
+        <fbc:geneProductAssociation>
+          <fbc:geneProductRef fbc:geneProduct="G_b1278"/>
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+      </reaction>
+      <reaction id="R_GTHOXtex" fast="false" reversible="true" name="Glutathione (ox) transport via diffusion (extracellular to periplasm)" metaid="R_GTHOXtex" sboTerm="SBO:0000185" fbc:upperFluxBound="cobra_default_ub" fbc:lowerFluxBound="cobra_default_lb">
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+                  <rdf:li rdf:resource="http://identifiers.org/seed.reaction/rxn09677"/>
+                  <rdf:li rdf:resource="http://identifiers.org/seed.reaction/rxn08674"/>
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+          <speciesReference species="M_gthox_e" stoichiometry="1" constant="true"/>
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+        <listOfProducts>
+          <speciesReference species="M_gthox_p" stoichiometry="1" constant="true"/>
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+        <fbc:geneProductAssociation>
+          <fbc:or>
+            <fbc:geneProductRef fbc:geneProduct="G_b0241"/>
+            <fbc:geneProductRef fbc:geneProduct="G_b0929"/>
+            <fbc:geneProductRef fbc:geneProduct="G_b1377"/>
+            <fbc:geneProductRef fbc:geneProduct="G_b2215"/>
+          </fbc:or>
+        </fbc:geneProductAssociation>
+      </reaction>
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+        <sbml:annotation xmlns:sbml="http://www.sbml.org/sbml/level3/version1/core">
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+                  <rdf:li rdf:resource="http://identifiers.org/metanetx.reaction/MNXR97791"/>
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+        </sbml:annotation>
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+          <speciesReference species="M_dsbard_p" stoichiometry="1" constant="true"/>
+          <speciesReference species="M_q8_c" stoichiometry="1" constant="true"/>
+        </listOfReactants>
+        <listOfProducts>
+          <speciesReference species="M_dsbaox_p" stoichiometry="1" constant="true"/>
+          <speciesReference species="M_q8h2_c" stoichiometry="1" constant="true"/>
+        </listOfProducts>
+        <fbc:geneProductAssociation>
+          <fbc:and>
+            <fbc:geneProductRef fbc:geneProduct="G_b1185"/>
+            <fbc:geneProductRef fbc:geneProduct="G_b3860"/>
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+        </fbc:geneProductAssociation>
+      </reaction>
+      <reaction id="R_DSBAO2" fast="false" reversible="false" name="DsbA protein reoxidation reaction (anaerobic)" metaid="R_DSBAO2" sboTerm="SBO:0000185" fbc:upperFluxBound="cobra_default_ub" fbc:lowerFluxBound="cobra_0_bound">
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+            <rdf:Description rdf:about="#R_DSBAO2">
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+                <rdf:Bag>
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+          <speciesReference species="M_mqn8_c" stoichiometry="1" constant="true"/>
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+        <listOfProducts>
+          <speciesReference species="M_dsbaox_p" stoichiometry="1" constant="true"/>
+          <speciesReference species="M_mql8_c" stoichiometry="1" constant="true"/>
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+        <fbc:geneProductAssociation>
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+            <fbc:geneProductRef fbc:geneProduct="G_b3860"/>
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+        </fbc:geneProductAssociation>
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+              <bqbiol:is xmlns:bqbiol="http://biomodels.net/biology-qualifiers/">
+                <rdf:Bag>
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+                  <rdf:li rdf:resource="http://identifiers.org/metanetx.reaction/MNXR97794"/>
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+          </rdf:RDF>
+        </sbml:annotation>
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+          <speciesReference species="M_trdrd_c" stoichiometry="1" constant="true"/>
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+        <listOfProducts>
+          <speciesReference species="M_dsbdrd_c" stoichiometry="1" constant="true"/>
+          <speciesReference species="M_trdox_c" stoichiometry="1" constant="true"/>
+        </listOfProducts>
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+              <fbc:geneProductRef fbc:geneProduct="G_b2582"/>
+              <fbc:geneProductRef fbc:geneProduct="G_b4136"/>
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+            <fbc:and>
+              <fbc:geneProductRef fbc:geneProduct="G_b3781"/>
+              <fbc:geneProductRef fbc:geneProduct="G_b4136"/>
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+          </fbc:or>
+        </fbc:geneProductAssociation>
+      </reaction>
+      <reaction id="R_TDSR1" fast="false" reversible="false" name="Thiol:disulfide reductase (DsbC)" metaid="R_TDSR1" sboTerm="SBO:0000185" fbc:upperFluxBound="cobra_default_ub" fbc:lowerFluxBound="cobra_0_bound">
+        <sbml:annotation xmlns:sbml="http://www.sbml.org/sbml/level3/version1/core">
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+                <rdf:Bag>
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+        </sbml:annotation>
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+          <speciesReference species="M_dsbdrd_c" stoichiometry="1" constant="true"/>
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+          <speciesReference species="M_dsbcrd_p" stoichiometry="1" constant="true"/>
+          <speciesReference species="M_dsbdox_c" stoichiometry="1" constant="true"/>
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+        <fbc:geneProductAssociation>
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+            <fbc:geneProductRef fbc:geneProduct="G_b4136"/>
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+        </fbc:geneProductAssociation>
+      </reaction>
+      <reaction id="R_CGLYabcpp" fast="false" reversible="false" name="L-Cysteinylglycine (Cys-Gly) transport via ABC system (periplasm)" metaid="R_CGLYabcpp" sboTerm="SBO:0000185" fbc:upperFluxBound="cobra_default_ub" fbc:lowerFluxBound="cobra_0_bound">
+        <sbml:annotation xmlns:sbml="http://www.sbml.org/sbml/level3/version1/core">
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+              <bqbiol:is xmlns:bqbiol="http://biomodels.net/biology-qualifiers/">
+                <rdf:Bag>
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+                  <rdf:li rdf:resource="http://identifiers.org/metanetx.reaction/MNXR96656"/>
+                  <rdf:li rdf:resource="http://identifiers.org/seed.reaction/rxn05539"/>
+                  <rdf:li rdf:resource="http://identifiers.org/seed.reaction/rxn08210"/>
+                </rdf:Bag>
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+            </rdf:Description>
+          </rdf:RDF>
+        </sbml:annotation>
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+          <speciesReference species="M_atp_c" stoichiometry="1" constant="true"/>
+          <speciesReference species="M_cgly_p" stoichiometry="1" constant="true"/>
+          <speciesReference species="M_h2o_c" stoichiometry="1" constant="true"/>
+        </listOfReactants>
+        <listOfProducts>
+          <speciesReference species="M_adp_c" stoichiometry="1" constant="true"/>
+          <speciesReference species="M_cgly_c" stoichiometry="1" constant="true"/>
+          <speciesReference species="M_h_c" stoichiometry="1" constant="true"/>
+          <speciesReference species="M_pi_c" stoichiometry="1" constant="true"/>
+        </listOfProducts>
+        <fbc:geneProductAssociation>
+          <fbc:and>
+            <fbc:geneProductRef fbc:geneProduct="G_b3544"/>
+            <fbc:geneProductRef fbc:geneProduct="G_b3542"/>
+            <fbc:geneProductRef fbc:geneProduct="G_b3543"/>
+            <fbc:geneProductRef fbc:geneProduct="G_b3540"/>
+            <fbc:geneProductRef fbc:geneProduct="G_b3541"/>
+          </fbc:and>
+        </fbc:geneProductAssociation>
+      </reaction>
+      <reaction id="R_PLIPA2A120pp" fast="false" reversible="false" name="Phospholipase A2 (phosphatidate, n-C12:0) (periplasm)" metaid="R_PLIPA2A120pp" sboTerm="SBO:0000176" fbc:upperFluxBound="cobra_default_ub" fbc:lowerFluxBound="cobra_0_bound">
+        <sbml:annotation xmlns:sbml="http://www.sbml.org/sbml/level3/version1/core">
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+                <rdf:Bag>
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+                  <rdf:li rdf:resource="http://identifiers.org/metanetx.reaction/MNXR102989"/>
+                </rdf:Bag>
+              </bqbiol:is>
+            </rdf:Description>
+          </rdf:RDF>
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+          <speciesReference species="M_pa120_p" stoichiometry="1" constant="true"/>
+        </listOfReactants>
+        <listOfProducts>
+          <speciesReference species="M_1ddecg3p_p" stoichiometry="1" constant="true"/>
+          <speciesReference species="M_ddca_p" stoichiometry="1" constant="true"/>
+          <speciesReference species="M_h_p" stoichiometry="1" constant="true"/>
+        </listOfProducts>
+        <fbc:geneProductAssociation>
+          <fbc:geneProductRef fbc:geneProduct="G_b3821"/>
+        </fbc:geneProductAssociation>
+      </reaction>
+      <reaction id="R_PLIPA2A160pp" fast="false" reversible="false" name="Phospholipase A2 (phosphatidate, n-C16:0) (periplasm)" metaid="R_PLIPA2A160pp" sboTerm="SBO:0000176" fbc:upperFluxBound="cobra_default_ub" fbc:lowerFluxBound="cobra_0_bound">
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+        </listOfReactants>
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+          <speciesReference species="M_1hdecg3p_p" stoichiometry="1" constant="true"/>
+          <speciesReference species="M_h_p" stoichiometry="1" constant="true"/>
+          <speciesReference species="M_hdca_p" stoichiometry="1" constant="true"/>
+        </listOfProducts>
+        <fbc:geneProductAssociation>
+          <fbc:geneProductRef fbc:geneProduct="G_b3821"/>
+        </fbc:geneProductAssociation>
+      </reaction>
+      <reaction id="R_CLPNH180pp" fast="false" reversible="false" name="Cardiolipin hydrolase (periplasm, n-C18:0)" metaid="R_CLPNH180pp" sboTerm="SBO:0000176" fbc:upperFluxBound="cobra_default_ub" fbc:lowerFluxBound="cobra_0_bound">
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+              <bqbiol:is xmlns:bqbiol="http://biomodels.net/biology-qualifiers/">
+                <rdf:Bag>
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+                  <rdf:li rdf:resource="http://identifiers.org/metanetx.reaction/MNXR96779"/>
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+              </bqbiol:is>
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+          </rdf:RDF>
+        </sbml:annotation>
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+          <speciesReference species="M_h2o_p" stoichiometry="1" constant="true"/>
+        </listOfReactants>
+        <listOfProducts>
+          <speciesReference species="M_h_p" stoichiometry="1" constant="true"/>
+          <speciesReference species="M_pa180_p" stoichiometry="1" constant="true"/>
+          <speciesReference species="M_pg180_p" stoichiometry="1" constant="true"/>
+        </listOfProducts>
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+        </listOfProducts>
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+          <fbc:geneProductRef fbc:geneProduct="G_b1093"/>
+        </fbc:geneProductAssociation>
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+          <speciesReference species="M_tdec2eACP_c" stoichiometry="1" constant="true"/>
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+          <speciesReference species="M_tmrs2eACP_c" stoichiometry="1" constant="true"/>
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+                  <rdf:li rdf:resource="http://identifiers.org/seed.reaction/rxn05332"/>
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+        <listOfProducts>
+          <speciesReference species="M_h2o_c" stoichiometry="1" constant="true"/>
+          <speciesReference species="M_tpalm2eACP_c" stoichiometry="1" constant="true"/>
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+            <fbc:geneProductRef fbc:geneProduct="G_b0180"/>
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+          <speciesReference species="M_co2_c" stoichiometry="1" constant="true"/>
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+          <fbc:geneProductRef fbc:geneProduct="G_b4160"/>
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+          <speciesReference species="M_ocdcaACP_c" stoichiometry="1" constant="true"/>
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+          <fbc:geneProductRef fbc:geneProduct="G_b3018"/>
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+        <fbc:geneProductAssociation>
+          <fbc:geneProductRef fbc:geneProduct="G_b3018"/>
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+          <speciesReference species="M_12dgr120_c" stoichiometry="1" constant="true"/>
+          <speciesReference species="M_pi_c" stoichiometry="1" constant="true"/>
+        </listOfProducts>
+        <fbc:geneProductAssociation>
+          <fbc:geneProductRef fbc:geneProduct="G_b1278"/>
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+                  <rdf:li rdf:resource="http://identifiers.org/metanetx.reaction/MNXR142943"/>
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+          <speciesReference species="M_cpgn_un_e" stoichiometry="1" constant="true"/>
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+            <fbc:geneProductRef fbc:geneProduct="G_b2328"/>
+            <fbc:geneProductRef fbc:geneProduct="G_b2134"/>
+            <fbc:geneProductRef fbc:geneProduct="G_b1655"/>
+            <fbc:geneProductRef fbc:geneProduct="G_b1856"/>
+            <fbc:geneProductRef fbc:geneProduct="G_b2175"/>
+            <fbc:geneProductRef fbc:geneProduct="G_b0376"/>
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+        </fbc:geneProductAssociation>
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+            <fbc:geneProductRef fbc:geneProduct="G_b0376"/>
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+          <speciesReference species="M_pa161_c" stoichiometry="1" constant="true"/>
+        </listOfProducts>
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+        </listOfProducts>
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+          <fbc:geneProductRef fbc:geneProduct="G_b3821"/>
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+        </listOfProducts>
+        <fbc:geneProductAssociation>
+          <fbc:geneProductRef fbc:geneProduct="G_b1288"/>
+        </fbc:geneProductAssociation>
+      </reaction>
+      <reaction id="R_PLIPA2G161pp" fast="false" reversible="false" name="Phospholipase A2 (phosphatidylglycerol, n-C16:1) (periplasm)" metaid="R_PLIPA2G161pp" sboTerm="SBO:0000176" fbc:upperFluxBound="cobra_default_ub" fbc:lowerFluxBound="cobra_0_bound">
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+          <speciesReference species="M_pg161_p" stoichiometry="1" constant="true"/>
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+          <speciesReference species="M_hdcea_p" stoichiometry="1" constant="true"/>
+        </listOfProducts>
+        <fbc:geneProductAssociation>
+          <fbc:geneProductRef fbc:geneProduct="G_b3821"/>
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+      <reaction id="R_EX_cys__D_e" fast="false" reversible="false" name="D-Cysteine exchange" metaid="R_EX_cys__D_e" sboTerm="SBO:0000627" fbc:upperFluxBound="cobra_default_ub" fbc:lowerFluxBound="cobra_0_bound">
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+        </sbml:annotation>
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+          <speciesReference species="M_h2o_p" stoichiometry="1" constant="true"/>
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+        <listOfProducts>
+          <speciesReference species="M_ddca_p" stoichiometry="1" constant="true"/>
+          <speciesReference species="M_glyc3p_p" stoichiometry="1" constant="true"/>
+          <speciesReference species="M_h_p" stoichiometry="1" constant="true"/>
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+        <fbc:geneProductAssociation>
+          <fbc:geneProductRef fbc:geneProduct="G_b0494"/>
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+      <reaction id="R_LPLIPAL1A140pp" fast="false" reversible="false" name="Lysophospholipase L1 (2-acylglycerophosphotidate, n-C14:0) (periplasm)" metaid="R_LPLIPAL1A140pp" sboTerm="SBO:0000176" fbc:upperFluxBound="cobra_default_ub" fbc:lowerFluxBound="cobra_0_bound">
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+          <speciesReference species="M_h_p" stoichiometry="1" constant="true"/>
+          <speciesReference species="M_ttdca_p" stoichiometry="1" constant="true"/>
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+        <fbc:geneProductAssociation>
+          <fbc:geneProductRef fbc:geneProduct="G_b0494"/>
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+      <reaction id="R_EAR80x" fast="false" reversible="false" name="Enoyl-[acyl-carrier-protein] reductase (NADH) (n-C8:0)" metaid="R_EAR80x" sboTerm="SBO:0000176" fbc:upperFluxBound="cobra_default_ub" fbc:lowerFluxBound="cobra_0_bound">
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+          <speciesReference species="M_nadh_c" stoichiometry="1" constant="true"/>
+          <speciesReference species="M_toct2eACP_c" stoichiometry="1" constant="true"/>
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+        <listOfProducts>
+          <speciesReference species="M_nad_c" stoichiometry="1" constant="true"/>
+          <speciesReference species="M_ocACP_c" stoichiometry="1" constant="true"/>
+        </listOfProducts>
+        <fbc:geneProductAssociation>
+          <fbc:geneProductRef fbc:geneProduct="G_b1288"/>
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+      <reaction id="R_PE181abcpp" fast="false" reversible="false" name="Phosphatidylethanolamine transport via ABC system (n-C18:1, periplasm)" metaid="R_PE181abcpp" sboTerm="SBO:0000185" fbc:upperFluxBound="cobra_default_ub" fbc:lowerFluxBound="cobra_0_bound">
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+        <listOfProducts>
+          <speciesReference species="M_adp_c" stoichiometry="1" constant="true"/>
+          <speciesReference species="M_h_c" stoichiometry="1" constant="true"/>
+          <speciesReference species="M_pe181_p" stoichiometry="1" constant="true"/>
+          <speciesReference species="M_pi_c" stoichiometry="1" constant="true"/>
+        </listOfProducts>
+        <fbc:geneProductAssociation>
+          <fbc:geneProductRef fbc:geneProduct="G_b0914"/>
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+        <listOfProducts>
+          <speciesReference species="M_12dgr181_c" stoichiometry="1" constant="true"/>
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+                  <rdf:li rdf:resource="http://identifiers.org/rhea/30861"/>
+                  <rdf:li rdf:resource="http://identifiers.org/seed.reaction/rxn09011"/>
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+          <speciesReference species="M_h2o_c" stoichiometry="1" constant="true"/>
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+        <listOfProducts>
+          <speciesReference species="M_didp_c" stoichiometry="1" constant="true"/>
+          <speciesReference species="M_h_c" stoichiometry="1" constant="true"/>
+          <speciesReference species="M_pi_c" stoichiometry="1" constant="true"/>
+        </listOfProducts>
+        <fbc:geneProductAssociation>
+          <fbc:geneProductRef fbc:geneProduct="G_b4394"/>
+        </fbc:geneProductAssociation>
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+        <sbml:annotation xmlns:sbml="http://www.sbml.org/sbml/level3/version1/core">
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+          <speciesReference species="M_glyc3p_p" stoichiometry="1" constant="true"/>
+          <speciesReference species="M_h_p" stoichiometry="1" constant="true"/>
+          <speciesReference species="M_ocdcea_p" stoichiometry="1" constant="true"/>
+        </listOfProducts>
+        <fbc:geneProductAssociation>
+          <fbc:geneProductRef fbc:geneProduct="G_b0494"/>
+        </fbc:geneProductAssociation>
+      </reaction>
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+        <listOfProducts>
+          <speciesReference species="M_ddca_p" stoichiometry="1" constant="true"/>
+          <speciesReference species="M_g3pe_p" stoichiometry="1" constant="true"/>
+          <speciesReference species="M_h_p" stoichiometry="1" constant="true"/>
+        </listOfProducts>
+        <fbc:geneProductAssociation>
+          <fbc:geneProductRef fbc:geneProduct="G_b0494"/>
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+          <speciesReference species="M_nadph_c" stoichiometry="1" constant="true"/>
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+          <speciesReference species="M_nadp_c" stoichiometry="1" constant="true"/>
+        </listOfProducts>
+        <fbc:geneProductAssociation>
+          <fbc:geneProductRef fbc:geneProduct="G_b1093"/>
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+            <fbc:geneProductRef fbc:geneProduct="G_b4041"/>
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+        </fbc:geneProductAssociation>
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+          <speciesReference species="M_h_c" stoichiometry="1" constant="true"/>
+          <speciesReference species="M_pgp120_c" stoichiometry="1" constant="true"/>
+        </listOfProducts>
+        <fbc:geneProductAssociation>
+          <fbc:geneProductRef fbc:geneProduct="G_b1912"/>
+        </fbc:geneProductAssociation>
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+          <speciesReference species="M_malACP_c" stoichiometry="1" constant="true"/>
+          <speciesReference species="M_palmACP_c" stoichiometry="1" constant="true"/>
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+          <speciesReference species="M_3ooctdACP_c" stoichiometry="1" constant="true"/>
+          <speciesReference species="M_ACP_c" stoichiometry="1" constant="true"/>
+          <speciesReference species="M_co2_c" stoichiometry="1" constant="true"/>
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+            <fbc:geneProductRef fbc:geneProduct="G_b2323"/>
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+        </fbc:geneProductAssociation>
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+          <speciesReference species="M_toctd2eACP_c" stoichiometry="1" constant="true"/>
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+            <fbc:geneProductRef fbc:geneProduct="G_b0180"/>
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+      <reaction id="R_CDAPPA120" fast="false" reversible="false" name="CDP-Diacylglycerol pyrophostatase (n-C12:0)" metaid="R_CDAPPA120" sboTerm="SBO:0000176" fbc:upperFluxBound="cobra_default_ub" fbc:lowerFluxBound="cobra_0_bound">
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+        <listOfProducts>
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+          <speciesReference species="M_h_c" stoichiometry="2" constant="true"/>
+          <speciesReference species="M_pa120_c" stoichiometry="1" constant="true"/>
+        </listOfProducts>
+        <fbc:geneProductAssociation>
+          <fbc:geneProductRef fbc:geneProduct="G_b3918"/>
+        </fbc:geneProductAssociation>
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+      <reaction id="R_TDSR2" fast="false" reversible="false" name="Thiol:disulfide reductase (DsbG)" metaid="R_TDSR2" sboTerm="SBO:0000185" fbc:upperFluxBound="cobra_default_ub" fbc:lowerFluxBound="cobra_0_bound">
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+          <speciesReference species="M_dsbgox_p" stoichiometry="1" constant="true"/>
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+          <speciesReference species="M_dsbdox_c" stoichiometry="1" constant="true"/>
+          <speciesReference species="M_dsbgrd_p" stoichiometry="1" constant="true"/>
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+            <fbc:geneProductRef fbc:geneProduct="G_b4136"/>
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+        </fbc:geneProductAssociation>
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+                  <rdf:li rdf:resource="http://identifiers.org/rhea/29661"/>
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+            <fbc:geneProductRef fbc:geneProduct="G_b0929"/>
+            <fbc:geneProductRef fbc:geneProduct="G_b1377"/>
+            <fbc:geneProductRef fbc:geneProduct="G_b2215"/>
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+        </fbc:geneProductAssociation>
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+          <speciesReference species="M_h2o_c" stoichiometry="1" constant="true"/>
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+          <speciesReference species="M_adp_c" stoichiometry="1" constant="true"/>
+          <speciesReference species="M_gthrd_p" stoichiometry="1" constant="true"/>
+          <speciesReference species="M_h_c" stoichiometry="1" constant="true"/>
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+            <fbc:geneProductRef fbc:geneProduct="G_b0887"/>
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+        </fbc:geneProductAssociation>
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+          <speciesReference species="M_h2o_c" stoichiometry="3" constant="true"/>
+          <speciesReference species="M_nad_c" stoichiometry="1" constant="true"/>
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+        <listOfProducts>
+          <speciesReference species="M_2omhmbl_c" stoichiometry="1" constant="true"/>
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+          <speciesReference species="M_h_c" stoichiometry="3" constant="true"/>
+          <speciesReference species="M_nadh_c" stoichiometry="1" constant="true"/>
+          <speciesReference species="M_pi_c" stoichiometry="2" constant="true"/>
+        </listOfProducts>
+      </reaction>
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+        <listOfProducts>
+          <speciesReference species="M_cmp_c" stoichiometry="1" constant="true"/>
+          <speciesReference species="M_h_c" stoichiometry="1" constant="true"/>
+          <speciesReference species="M_ps120_c" stoichiometry="1" constant="true"/>
+        </listOfProducts>
+        <fbc:geneProductAssociation>
+          <fbc:geneProductRef fbc:geneProduct="G_b2585"/>
+        </fbc:geneProductAssociation>
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+          <speciesReference species="M_atp_c" stoichiometry="1" constant="true"/>
+          <speciesReference species="M_uamr_c" stoichiometry="1" constant="true"/>
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+          <speciesReference species="M_um4p_c" stoichiometry="1" constant="true"/>
+        </listOfProducts>
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+          <fbc:geneProductRef fbc:geneProduct="G_b4233"/>
+        </fbc:geneProductAssociation>
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+          <speciesReference species="M_h2o_c" stoichiometry="1" constant="true"/>
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+          <speciesReference species="M_h_c" stoichiometry="1" constant="true"/>
+          <speciesReference species="M_pi_c" stoichiometry="1" constant="true"/>
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+            <fbc:geneProductRef fbc:geneProduct="G_b1134"/>
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+          <speciesReference species="M_hdd2coa_c" stoichiometry="1" constant="true"/>
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+          <speciesReference species="M_od2coa_c" stoichiometry="1" constant="true"/>
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+        <listOfProducts>
+          <speciesReference species="M_2ddecg3p_p" stoichiometry="1" constant="true"/>
+          <speciesReference species="M_ddca_p" stoichiometry="1" constant="true"/>
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+        <fbc:geneProductAssociation>
+          <fbc:geneProductRef fbc:geneProduct="G_b3821"/>
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+          <fbc:geneProductRef fbc:geneProduct="G_b3821"/>
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+          <speciesReference species="M_2tdec7eg3p_p" stoichiometry="1" constant="true"/>
+          <speciesReference species="M_ttdcea_p" stoichiometry="1" constant="true"/>
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+        <fbc:geneProductAssociation>
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+            <fbc:geneProductRef fbc:geneProduct="G_b0241"/>
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+          <fbc:geneProductRef fbc:geneProduct="G_b4208"/>
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+          <speciesReference species="M_dkdglcn_c" stoichiometry="1" constant="true"/>
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+        <fbc:geneProductAssociation>
+          <fbc:geneProductRef fbc:geneProduct="G_b2843"/>
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+          <speciesReference species="M_ctbtcoa_c" stoichiometry="1" constant="true"/>
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+              <fbc:geneProductRef fbc:geneProduct="G_b3114"/>
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+        </fbc:geneProductAssociation>
+      </reaction>
+      <reaction id="R_NADH17pp" fast="false" reversible="false" name="NADH dehydrogenase (menaquinone-8 &amp; 3 protons) (periplasm)" metaid="R_NADH17pp" sboTerm="SBO:0000185" fbc:upperFluxBound="cobra_default_ub" fbc:lowerFluxBound="cobra_0_bound">
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+          <speciesReference species="M_mqn8_c" stoichiometry="1" constant="true"/>
+          <speciesReference species="M_nadh_c" stoichiometry="1" constant="true"/>
+        </listOfReactants>
+        <listOfProducts>
+          <speciesReference species="M_h_p" stoichiometry="3" constant="true"/>
+          <speciesReference species="M_mql8_c" stoichiometry="1" constant="true"/>
+          <speciesReference species="M_nad_c" stoichiometry="1" constant="true"/>
+        </listOfProducts>
+        <fbc:geneProductAssociation>
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+            <fbc:geneProductRef fbc:geneProduct="G_b2279"/>
+            <fbc:geneProductRef fbc:geneProduct="G_b2277"/>
+            <fbc:geneProductRef fbc:geneProduct="G_b2284"/>
+            <fbc:geneProductRef fbc:geneProduct="G_b2282"/>
+            <fbc:geneProductRef fbc:geneProduct="G_b2278"/>
+            <fbc:geneProductRef fbc:geneProduct="G_b2288"/>
+            <fbc:geneProductRef fbc:geneProduct="G_b2276"/>
+            <fbc:geneProductRef fbc:geneProduct="G_b2287"/>
+            <fbc:geneProductRef fbc:geneProduct="G_b2283"/>
+            <fbc:geneProductRef fbc:geneProduct="G_b2281"/>
+            <fbc:geneProductRef fbc:geneProduct="G_b2286"/>
+            <fbc:geneProductRef fbc:geneProduct="G_b2280"/>
+            <fbc:geneProductRef fbc:geneProduct="G_b2285"/>
+          </fbc:and>
+        </fbc:geneProductAssociation>
+      </reaction>
+      <reaction id="R_FA161ACPHi" fast="false" reversible="false" name="Fatty-acyl-ACP hydrolase" metaid="R_FA161ACPHi" sboTerm="SBO:0000176" fbc:upperFluxBound="cobra_default_ub" fbc:lowerFluxBound="cobra_0_bound">
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+        <listOfProducts>
+          <speciesReference species="M_ACP_c" stoichiometry="1" constant="true"/>
+          <speciesReference species="M_h_c" stoichiometry="1" constant="true"/>
+          <speciesReference species="M_hdcea_c" stoichiometry="1" constant="true"/>
+        </listOfProducts>
+        <fbc:geneProductAssociation>
+          <fbc:geneProductRef fbc:geneProduct="G_b0404"/>
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+      <reaction id="R_BGLA1" fast="false" reversible="false" name="6-phospho-beta-glucosidase" metaid="R_BGLA1" sboTerm="SBO:0000176" fbc:upperFluxBound="cobra_default_ub" fbc:lowerFluxBound="cobra_0_bound">
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+                  <rdf:li rdf:resource="http://identifiers.org/metanetx.reaction/MNXR96242"/>
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+            </rdf:Description>
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+          <speciesReference species="M_h2o_c" stoichiometry="1" constant="true"/>
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+        <listOfProducts>
+          <speciesReference species="M_g6p_c" stoichiometry="1" constant="true"/>
+          <speciesReference species="M_glc__D_c" stoichiometry="1" constant="true"/>
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+        <fbc:geneProductAssociation>
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+            <fbc:geneProductRef fbc:geneProduct="G_b1734"/>
+            <fbc:geneProductRef fbc:geneProduct="G_b2716"/>
+            <fbc:geneProductRef fbc:geneProduct="G_b3721"/>
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+        </fbc:geneProductAssociation>
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+      <reaction id="R_FA141ACPHi" fast="false" reversible="false" name="Fatty-acyl-ACP hydrolase" metaid="R_FA141ACPHi" sboTerm="SBO:0000176" fbc:upperFluxBound="cobra_default_ub" fbc:lowerFluxBound="cobra_0_bound">
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+          <speciesReference species="M_tdeACP_c" stoichiometry="1" constant="true"/>
+        </listOfReactants>
+        <listOfProducts>
+          <speciesReference species="M_ACP_c" stoichiometry="1" constant="true"/>
+          <speciesReference species="M_h_c" stoichiometry="1" constant="true"/>
+          <speciesReference species="M_ttdcea_c" stoichiometry="1" constant="true"/>
+        </listOfProducts>
+        <fbc:geneProductAssociation>
+          <fbc:geneProductRef fbc:geneProduct="G_b0404"/>
+        </fbc:geneProductAssociation>
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+      <reaction id="R_THRt2pp" fast="false" reversible="false" name="L-threonine efflux transport via proton antiport (periplasm)" metaid="R_THRt2pp" sboTerm="SBO:0000185" fbc:upperFluxBound="cobra_default_ub" fbc:lowerFluxBound="cobra_0_bound">
+        <sbml:annotation xmlns:sbml="http://www.sbml.org/sbml/level3/version1/core">
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+                  <rdf:li rdf:resource="http://identifiers.org/rhea/28998"/>
+                  <rdf:li rdf:resource="http://identifiers.org/rhea/28996"/>
+                  <rdf:li rdf:resource="http://identifiers.org/rhea/28995"/>
+                  <rdf:li rdf:resource="http://identifiers.org/sabiork/13940#2"/>
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+                  <rdf:li rdf:resource="http://identifiers.org/seed.reaction/rxn09304"/>
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+          <speciesReference species="M_thr__L_c" stoichiometry="1" constant="true"/>
+        </listOfReactants>
+        <listOfProducts>
+          <speciesReference species="M_h_c" stoichiometry="1" constant="true"/>
+          <speciesReference species="M_thr__L_p" stoichiometry="1" constant="true"/>
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+        <fbc:geneProductAssociation>
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+            <fbc:geneProductRef fbc:geneProduct="G_b0813"/>
+            <fbc:geneProductRef fbc:geneProduct="G_b3823"/>
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+        </fbc:geneProductAssociation>
+      </reaction>
+      <reaction id="R_ARGt3pp" fast="false" reversible="false" name="L-arginine transport out via proton antiport (cytoplasm to periplasm)" metaid="R_ARGt3pp" sboTerm="SBO:0000185" fbc:upperFluxBound="cobra_default_ub" fbc:lowerFluxBound="cobra_0_bound">
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+                  <rdf:li rdf:resource="http://identifiers.org/seed.reaction/rxn13228"/>
+                  <rdf:li rdf:resource="http://identifiers.org/seed.reaction/rxn08154"/>
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+          <speciesReference species="M_h_p" stoichiometry="1" constant="true"/>
+        </listOfReactants>
+        <listOfProducts>
+          <speciesReference species="M_arg__L_p" stoichiometry="1" constant="true"/>
+          <speciesReference species="M_h_c" stoichiometry="1" constant="true"/>
+        </listOfProducts>
+        <fbc:geneProductAssociation>
+          <fbc:geneProductRef fbc:geneProduct="G_b2923"/>
+        </fbc:geneProductAssociation>
+      </reaction>
+      <reaction id="R_FA160ACPHi" fast="false" reversible="false" name="Fatty-acyl-ACP hydrolase" metaid="R_FA160ACPHi" sboTerm="SBO:0000176" fbc:upperFluxBound="cobra_default_ub" fbc:lowerFluxBound="cobra_0_bound">
+        <sbml:annotation xmlns:sbml="http://www.sbml.org/sbml/level3/version1/core">
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+        </sbml:annotation>
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+          <speciesReference species="M_palmACP_c" stoichiometry="1" constant="true"/>
+        </listOfReactants>
+        <listOfProducts>
+          <speciesReference species="M_ACP_c" stoichiometry="1" constant="true"/>
+          <speciesReference species="M_h_c" stoichiometry="1" constant="true"/>
+          <speciesReference species="M_hdca_c" stoichiometry="1" constant="true"/>
+        </listOfProducts>
+        <fbc:geneProductAssociation>
+          <fbc:geneProductRef fbc:geneProduct="G_b0404"/>
+        </fbc:geneProductAssociation>
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+      <reaction id="R_MALDtex" fast="false" reversible="true" name="D-Malate transport via diffusion (extracellular to periplasm)" metaid="R_MALDtex" sboTerm="SBO:0000185" fbc:upperFluxBound="cobra_default_ub" fbc:lowerFluxBound="cobra_default_lb">
+        <sbml:annotation xmlns:sbml="http://www.sbml.org/sbml/level3/version1/core">
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+            </rdf:Description>
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+          <speciesReference species="M_mal__D_e" stoichiometry="1" constant="true"/>
+        </listOfReactants>
+        <listOfProducts>
+          <speciesReference species="M_mal__D_p" stoichiometry="1" constant="true"/>
+        </listOfProducts>
+        <fbc:geneProductAssociation>
+          <fbc:or>
+            <fbc:geneProductRef fbc:geneProduct="G_b1377"/>
+            <fbc:geneProductRef fbc:geneProduct="G_b2215"/>
+            <fbc:geneProductRef fbc:geneProduct="G_b0241"/>
+            <fbc:geneProductRef fbc:geneProduct="G_b0929"/>
+          </fbc:or>
+        </fbc:geneProductAssociation>
+      </reaction>
+      <reaction id="R_OROTtex" fast="false" reversible="true" name="Orotate transport via diffusion (extracellular to periplasm)" metaid="R_OROTtex" sboTerm="SBO:0000185" fbc:upperFluxBound="cobra_default_ub" fbc:lowerFluxBound="cobra_default_lb">
+        <sbml:annotation xmlns:sbml="http://www.sbml.org/sbml/level3/version1/core">
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+                <rdf:Bag>
+                  <rdf:li rdf:resource="http://identifiers.org/bigg.reaction/OROTtex"/>
+                  <rdf:li rdf:resource="http://identifiers.org/metanetx.reaction/MNXR102230"/>
+                  <rdf:li rdf:resource="http://identifiers.org/seed.reaction/rxn10908"/>
+                  <rdf:li rdf:resource="http://identifiers.org/seed.reaction/rxn09050"/>
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+        <listOfProducts>
+          <speciesReference species="M_orot_p" stoichiometry="1" constant="true"/>
+        </listOfProducts>
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+            <fbc:geneProductRef fbc:geneProduct="G_b1377"/>
+            <fbc:geneProductRef fbc:geneProduct="G_b0929"/>
+            <fbc:geneProductRef fbc:geneProduct="G_b2215"/>
+            <fbc:geneProductRef fbc:geneProduct="G_b0241"/>
+          </fbc:or>
+        </fbc:geneProductAssociation>
+      </reaction>
+      <reaction id="R_EX_crn__D_e" fast="false" reversible="false" name="D-carnitine exchange" metaid="R_EX_crn__D_e" sboTerm="SBO:0000627" fbc:upperFluxBound="cobra_default_ub" fbc:lowerFluxBound="cobra_0_bound">
+        <sbml:annotation xmlns:sbml="http://www.sbml.org/sbml/level3/version1/core">
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+                  <rdf:li rdf:resource="http://identifiers.org/rhea/35068"/>
+                  <rdf:li rdf:resource="http://identifiers.org/rhea/35070"/>
+                  <rdf:li rdf:resource="http://identifiers.org/rhea/35069"/>
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+          <speciesReference species="M_h_c" stoichiometry="2" constant="true"/>
+          <speciesReference species="M_man1p_c" stoichiometry="1" constant="true"/>
+        </listOfProducts>
+        <fbc:geneProductAssociation>
+          <fbc:geneProductRef fbc:geneProduct="G_b2467"/>
+        </fbc:geneProductAssociation>
+      </reaction>
+      <reaction id="R_OPHHX3" fast="false" reversible="false" name="2-Octaprenylphenol hydroxylase (anaerobic)" metaid="R_OPHHX3" sboTerm="SBO:0000176" fbc:upperFluxBound="cobra_default_ub" fbc:lowerFluxBound="cobra_0_bound">
+        <sbml:annotation xmlns:sbml="http://www.sbml.org/sbml/level3/version1/core">
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+          <speciesReference species="M_h2o_c" stoichiometry="3" constant="true"/>
+          <speciesReference species="M_nad_c" stoichiometry="1" constant="true"/>
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+        <listOfProducts>
+          <speciesReference species="M_2ohph_c" stoichiometry="1" constant="true"/>
+          <speciesReference species="M_adp_c" stoichiometry="2" constant="true"/>
+          <speciesReference species="M_h_c" stoichiometry="3" constant="true"/>
+          <speciesReference species="M_nadh_c" stoichiometry="1" constant="true"/>
+          <speciesReference species="M_pi_c" stoichiometry="2" constant="true"/>
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+          <speciesReference species="M_mql8_c" stoichiometry="1" constant="true"/>
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+          <speciesReference species="M_ttdca_c" stoichiometry="1" constant="true"/>
+        </listOfProducts>
+        <fbc:geneProductAssociation>
+          <fbc:geneProductRef fbc:geneProduct="G_b0404"/>
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+          <speciesReference species="M_ppa_p" stoichiometry="1" constant="true"/>
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+        </listOfProducts>
+        <fbc:geneProductAssociation>
+          <fbc:geneProductRef fbc:geneProduct="G_b1015"/>
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+          <speciesReference species="M_h_c" stoichiometry="2" constant="true"/>
+          <speciesReference species="M_orot_c" stoichiometry="1" constant="true"/>
+        </listOfProducts>
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+          <speciesReference species="M_mal__D_c" stoichiometry="1" constant="true"/>
+        </listOfProducts>
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+          <fbc:geneProductRef fbc:geneProduct="G_b3528"/>
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+          <speciesReference species="M_crn__D_c" stoichiometry="1" constant="true"/>
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+        <listOfProducts>
+          <speciesReference species="M_adp_c" stoichiometry="1" constant="true"/>
+          <speciesReference species="M_crnDcoa_c" stoichiometry="1" constant="true"/>
+          <speciesReference species="M_pi_c" stoichiometry="1" constant="true"/>
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+          <fbc:geneProductRef fbc:geneProduct="G_b0037"/>
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+          <speciesReference species="M_5dglcn_p" stoichiometry="1" constant="true"/>
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+            <fbc:geneProductRef fbc:geneProduct="G_b0241"/>
+            <fbc:geneProductRef fbc:geneProduct="G_b0929"/>
+            <fbc:geneProductRef fbc:geneProduct="G_b2215"/>
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+        </fbc:geneProductAssociation>
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+        <fbc:geneProductAssociation>
+          <fbc:geneProductRef fbc:geneProduct="G_b4122"/>
+        </fbc:geneProductAssociation>
+      </reaction>
+      <reaction id="R_CRNCAL2" fast="false" reversible="false" name="Carnitine-CoA Ligase" metaid="R_CRNCAL2" sboTerm="SBO:0000176" fbc:upperFluxBound="cobra_default_ub" fbc:lowerFluxBound="cobra_0_bound">
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+              <bqbiol:is xmlns:bqbiol="http://biomodels.net/biology-qualifiers/">
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+            </rdf:Description>
+          </rdf:RDF>
+        </sbml:annotation>
+        <listOfReactants>
+          <speciesReference species="M_atp_c" stoichiometry="1" constant="true"/>
+          <speciesReference species="M_coa_c" stoichiometry="1" constant="true"/>
+          <speciesReference species="M_crn_c" stoichiometry="1" constant="true"/>
+        </listOfReactants>
+        <listOfProducts>
+          <speciesReference species="M_adp_c" stoichiometry="1" constant="true"/>
+          <speciesReference species="M_crncoa_c" stoichiometry="1" constant="true"/>
+          <speciesReference species="M_pi_c" stoichiometry="1" constant="true"/>
+        </listOfProducts>
+        <fbc:geneProductAssociation>
+          <fbc:geneProductRef fbc:geneProduct="G_b0037"/>
+        </fbc:geneProductAssociation>
+      </reaction>
+      <reaction id="R_CHLt2pp" fast="false" reversible="false" name="Choline transport via proton symport (periplasm)" metaid="R_CHLt2pp" sboTerm="SBO:0000185" fbc:upperFluxBound="cobra_default_ub" fbc:lowerFluxBound="cobra_0_bound">
+        <sbml:annotation xmlns:sbml="http://www.sbml.org/sbml/level3/version1/core">
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+                  <rdf:li rdf:resource="http://identifiers.org/rhea/28843"/>
+                  <rdf:li rdf:resource="http://identifiers.org/rhea/28845"/>
+                  <rdf:li rdf:resource="http://identifiers.org/rhea/28846"/>
+                  <rdf:li rdf:resource="http://identifiers.org/rhea/28844"/>
+                  <rdf:li rdf:resource="http://identifiers.org/seed.reaction/rxn09692"/>
+                  <rdf:li rdf:resource="http://identifiers.org/seed.reaction/rxn08213"/>
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+            </rdf:Description>
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+        </sbml:annotation>
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+          <speciesReference species="M_h_p" stoichiometry="1" constant="true"/>
+        </listOfReactants>
+        <listOfProducts>
+          <speciesReference species="M_chol_c" stoichiometry="1" constant="true"/>
+          <speciesReference species="M_h_c" stoichiometry="1" constant="true"/>
+        </listOfProducts>
+        <fbc:geneProductAssociation>
+          <fbc:or>
+            <fbc:geneProductRef fbc:geneProduct="G_b0314"/>
+            <fbc:geneProductRef fbc:geneProduct="G_b1801"/>
+          </fbc:or>
+        </fbc:geneProductAssociation>
+      </reaction>
+      <reaction id="R_GLYt4pp" fast="false" reversible="false" name="Glycine transport in via sodium symport (periplasm)" metaid="R_GLYt4pp" sboTerm="SBO:0000185" fbc:upperFluxBound="cobra_default_ub" fbc:lowerFluxBound="cobra_0_bound">
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+                  <rdf:li rdf:resource="http://identifiers.org/seed.reaction/rxn10537"/>
+                </rdf:Bag>
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+          <speciesReference species="M_na1_p" stoichiometry="1" constant="true"/>
+        </listOfReactants>
+        <listOfProducts>
+          <speciesReference species="M_gly_c" stoichiometry="1" constant="true"/>
+          <speciesReference species="M_na1_c" stoichiometry="1" constant="true"/>
+        </listOfProducts>
+        <fbc:geneProductAssociation>
+          <fbc:geneProductRef fbc:geneProduct="G_b0007"/>
+        </fbc:geneProductAssociation>
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+      <reaction id="R_PLIPA2E161pp" fast="false" reversible="false" name="Phospholipase A2 (phosphatidylethanolamine, n-C16:1) (periplasm)" metaid="R_PLIPA2E161pp" sboTerm="SBO:0000176" fbc:upperFluxBound="cobra_default_ub" fbc:lowerFluxBound="cobra_0_bound">
+        <sbml:annotation xmlns:sbml="http://www.sbml.org/sbml/level3/version1/core">
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+                <rdf:Bag>
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+                  <rdf:li rdf:resource="http://identifiers.org/metanetx.reaction/MNXR103000"/>
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+              </bqbiol:is>
+            </rdf:Description>
+          </rdf:RDF>
+        </sbml:annotation>
+        <listOfReactants>
+          <speciesReference species="M_h2o_p" stoichiometry="1" constant="true"/>
+          <speciesReference species="M_pe161_p" stoichiometry="1" constant="true"/>
+        </listOfReactants>
+        <listOfProducts>
+          <speciesReference species="M_1agpe161_p" stoichiometry="1" constant="true"/>
+          <speciesReference species="M_h_p" stoichiometry="1" constant="true"/>
+          <speciesReference species="M_hdcea_p" stoichiometry="1" constant="true"/>
+        </listOfProducts>
+        <fbc:geneProductAssociation>
+          <fbc:geneProductRef fbc:geneProduct="G_b3821"/>
+        </fbc:geneProductAssociation>
+      </reaction>
+      <reaction id="R_PLIPA2E180pp" fast="false" reversible="false" name="Phospholipase A2 (phosphatidylethanolamine, n-C18:0) (periplasm)" metaid="R_PLIPA2E180pp" sboTerm="SBO:0000176" fbc:upperFluxBound="cobra_default_ub" fbc:lowerFluxBound="cobra_0_bound">
+        <sbml:annotation xmlns:sbml="http://www.sbml.org/sbml/level3/version1/core">
+          <rdf:RDF xmlns:rdf="http://www.w3.org/1999/02/22-rdf-syntax-ns#">
+            <rdf:Description rdf:about="#R_PLIPA2E180pp">
+              <bqbiol:is xmlns:bqbiol="http://biomodels.net/biology-qualifiers/">
+                <rdf:Bag>
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+                  <rdf:li rdf:resource="http://identifiers.org/metanetx.reaction/MNXR143296"/>
+                </rdf:Bag>
+              </bqbiol:is>
+            </rdf:Description>
+          </rdf:RDF>
+        </sbml:annotation>
+        <listOfReactants>
+          <speciesReference species="M_h2o_p" stoichiometry="1" constant="true"/>
+          <speciesReference species="M_pe180_p" stoichiometry="1" constant="true"/>
+        </listOfReactants>
+        <listOfProducts>
+          <speciesReference species="M_1agpe180_p" stoichiometry="1" constant="true"/>
+          <speciesReference species="M_h_p" stoichiometry="1" constant="true"/>
+          <speciesReference species="M_ocdca_p" stoichiometry="1" constant="true"/>
+        </listOfProducts>
+        <fbc:geneProductAssociation>
+          <fbc:geneProductRef fbc:geneProduct="G_b3821"/>
+        </fbc:geneProductAssociation>
+      </reaction>
+      <reaction id="R_FRULYSE" fast="false" reversible="true" name="Fructoselysine 3-epimerase" metaid="R_FRULYSE" sboTerm="SBO:0000176" fbc:upperFluxBound="cobra_default_ub" fbc:lowerFluxBound="cobra_default_lb">
+        <sbml:annotation xmlns:sbml="http://www.sbml.org/sbml/level3/version1/core">
+          <rdf:RDF xmlns:rdf="http://www.w3.org/1999/02/22-rdf-syntax-ns#">
+            <rdf:Description rdf:about="#R_FRULYSE">
+              <bqbiol:is xmlns:bqbiol="http://biomodels.net/biology-qualifiers/">
+                <rdf:Bag>
+                  <rdf:li rdf:resource="http://identifiers.org/bigg.reaction/FRULYSE"/>
+                  <rdf:li rdf:resource="http://identifiers.org/biocyc/META:RXN0-4841"/>
+                  <rdf:li rdf:resource="http://identifiers.org/metanetx.reaction/MNXR99654"/>
+                  <rdf:li rdf:resource="http://identifiers.org/rhea/28391"/>
+                  <rdf:li rdf:resource="http://identifiers.org/rhea/28390"/>
+                  <rdf:li rdf:resource="http://identifiers.org/rhea/28392"/>
+                  <rdf:li rdf:resource="http://identifiers.org/rhea/28393"/>
+                  <rdf:li rdf:resource="http://identifiers.org/seed.reaction/rxn08531"/>
+                </rdf:Bag>
+              </bqbiol:is>
+            </rdf:Description>
+          </rdf:RDF>
+        </sbml:annotation>
+        <listOfReactants>
+          <speciesReference species="M_psclys_c" stoichiometry="1" constant="true"/>
+        </listOfReactants>
+        <listOfProducts>
+          <speciesReference species="M_frulys_c" stoichiometry="1" constant="true"/>
+        </listOfProducts>
+        <fbc:geneProductAssociation>
+          <fbc:geneProductRef fbc:geneProduct="G_b4474"/>
+        </fbc:geneProductAssociation>
+      </reaction>
+      <reaction id="R_FRULYSt2pp" fast="false" reversible="false" name="Fructoselysine transport via proton symport (periplasm)" metaid="R_FRULYSt2pp" sboTerm="SBO:0000185" fbc:upperFluxBound="cobra_default_ub" fbc:lowerFluxBound="cobra_0_bound">
+        <sbml:annotation xmlns:sbml="http://www.sbml.org/sbml/level3/version1/core">
+          <rdf:RDF xmlns:rdf="http://www.w3.org/1999/02/22-rdf-syntax-ns#">
+            <rdf:Description rdf:about="#R_FRULYSt2pp">
+              <bqbiol:is xmlns:bqbiol="http://biomodels.net/biology-qualifiers/">
+                <rdf:Bag>
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+                  <rdf:li rdf:resource="http://identifiers.org/metanetx.reaction/MNXR99656"/>
+                  <rdf:li rdf:resource="http://identifiers.org/seed.reaction/rxn08533"/>
+                </rdf:Bag>
+              </bqbiol:is>
+            </rdf:Description>
+          </rdf:RDF>
+        </sbml:annotation>
+        <listOfReactants>
+          <speciesReference species="M_frulys_p" stoichiometry="1" constant="true"/>
+          <speciesReference species="M_h_p" stoichiometry="1" constant="true"/>
+        </listOfReactants>
+        <listOfProducts>
+          <speciesReference species="M_frulys_c" stoichiometry="1" constant="true"/>
+          <speciesReference species="M_h_c" stoichiometry="1" constant="true"/>
+        </listOfProducts>
+        <fbc:geneProductAssociation>
+          <fbc:geneProductRef fbc:geneProduct="G_b3370"/>
+        </fbc:geneProductAssociation>
+      </reaction>
+      <reaction id="R_EX_LalaDgluMdap_e" fast="false" reversible="false" name="L-alanine-D-glutamate-meso-2,6-diaminoheptanedioate exchange" metaid="R_EX_LalaDgluMdap_e" sboTerm="SBO:0000627" fbc:upperFluxBound="cobra_default_ub" fbc:lowerFluxBound="cobra_0_bound">
+        <sbml:annotation xmlns:sbml="http://www.sbml.org/sbml/level3/version1/core">
+          <rdf:RDF xmlns:rdf="http://www.w3.org/1999/02/22-rdf-syntax-ns#">
+            <rdf:Description rdf:about="#R_EX_LalaDgluMdap_e">
+              <bqbiol:is xmlns:bqbiol="http://biomodels.net/biology-qualifiers/">
+                <rdf:Bag>
+                  <rdf:li rdf:resource="http://identifiers.org/bigg.reaction/EX_LalaDgluMdap_e"/>
+                  <rdf:li rdf:resource="http://identifiers.org/metanetx.reaction/MNXR94971"/>
+                  <rdf:li rdf:resource="http://identifiers.org/seed.reaction/rxn08004"/>
+                </rdf:Bag>
+              </bqbiol:is>
+            </rdf:Description>
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+        </sbml:annotation>
+        <listOfReactants>
+          <speciesReference species="M_LalaDgluMdap_e" stoichiometry="1" constant="true"/>
+        </listOfReactants>
+      </reaction>
+      <reaction id="R_EX_psclys_e" fast="false" reversible="false" name="Psicoselysine exchange" metaid="R_EX_psclys_e" sboTerm="SBO:0000627" fbc:upperFluxBound="cobra_default_ub" fbc:lowerFluxBound="cobra_0_bound">
+        <sbml:annotation xmlns:sbml="http://www.sbml.org/sbml/level3/version1/core">
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+            <rdf:Description rdf:about="#R_EX_psclys_e">
+              <bqbiol:is xmlns:bqbiol="http://biomodels.net/biology-qualifiers/">
+                <rdf:Bag>
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+                  <rdf:li rdf:resource="http://identifiers.org/biocyc/META:TRANS-RXN0-418"/>
+                  <rdf:li rdf:resource="http://identifiers.org/metanetx.reaction/MNXR103228"/>
+                  <rdf:li rdf:resource="http://identifiers.org/rhea/28450"/>
+                  <rdf:li rdf:resource="http://identifiers.org/rhea/28453"/>
+                  <rdf:li rdf:resource="http://identifiers.org/rhea/28451"/>
+                  <rdf:li rdf:resource="http://identifiers.org/rhea/28452"/>
+                  <rdf:li rdf:resource="http://identifiers.org/seed.reaction/rxn09196"/>
+                </rdf:Bag>
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+            </rdf:Description>
+          </rdf:RDF>
+        </sbml:annotation>
+        <listOfReactants>
+          <speciesReference species="M_psclys_e" stoichiometry="1" constant="true"/>
+        </listOfReactants>
+      </reaction>
+      <reaction id="R_TUNGStex" fast="false" reversible="true" name="Tungstate transport via diffusion (extracellular to periplasm)" metaid="R_TUNGStex" sboTerm="SBO:0000185" fbc:upperFluxBound="cobra_default_ub" fbc:lowerFluxBound="cobra_default_lb">
+        <sbml:annotation xmlns:sbml="http://www.sbml.org/sbml/level3/version1/core">
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+            <rdf:Description rdf:about="#R_TUNGStex">
+              <bqbiol:is xmlns:bqbiol="http://biomodels.net/biology-qualifiers/">
+                <rdf:Bag>
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+                  <rdf:li rdf:resource="http://identifiers.org/metanetx.reaction/MNXR104979"/>
+                  <rdf:li rdf:resource="http://identifiers.org/rhea/32842"/>
+                  <rdf:li rdf:resource="http://identifiers.org/rhea/32841"/>
+                  <rdf:li rdf:resource="http://identifiers.org/rhea/32840"/>
+                  <rdf:li rdf:resource="http://identifiers.org/rhea/32839"/>
+                  <rdf:li rdf:resource="http://identifiers.org/seed.reaction/rxn09334"/>
+                </rdf:Bag>
+              </bqbiol:is>
+            </rdf:Description>
+          </rdf:RDF>
+        </sbml:annotation>
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+          <speciesReference species="M_tungs_e" stoichiometry="1" constant="true"/>
+        </listOfReactants>
+        <listOfProducts>
+          <speciesReference species="M_tungs_p" stoichiometry="1" constant="true"/>
+        </listOfProducts>
+        <fbc:geneProductAssociation>
+          <fbc:or>
+            <fbc:geneProductRef fbc:geneProduct="G_b0929"/>
+            <fbc:geneProductRef fbc:geneProduct="G_b2215"/>
+            <fbc:geneProductRef fbc:geneProduct="G_b1377"/>
+            <fbc:geneProductRef fbc:geneProduct="G_b0241"/>
+          </fbc:or>
+        </fbc:geneProductAssociation>
+      </reaction>
+      <reaction id="R_PLIPA2G120pp" fast="false" reversible="false" name="Phospholipase A2 (phosphatidylglycerol, n-C12:0) (periplasm)" metaid="R_PLIPA2G120pp" sboTerm="SBO:0000176" fbc:upperFluxBound="cobra_default_ub" fbc:lowerFluxBound="cobra_0_bound">
+        <sbml:annotation xmlns:sbml="http://www.sbml.org/sbml/level3/version1/core">
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+            <rdf:Description rdf:about="#R_PLIPA2G120pp">
+              <bqbiol:is xmlns:bqbiol="http://biomodels.net/biology-qualifiers/">
+                <rdf:Bag>
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+                  <rdf:li rdf:resource="http://identifiers.org/metanetx.reaction/MNXR103003"/>
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+              </bqbiol:is>
+            </rdf:Description>
+          </rdf:RDF>
+        </sbml:annotation>
+        <listOfReactants>
+          <speciesReference species="M_h2o_p" stoichiometry="1" constant="true"/>
+          <speciesReference species="M_pg120_p" stoichiometry="1" constant="true"/>
+        </listOfReactants>
+        <listOfProducts>
+          <speciesReference species="M_1agpg120_p" stoichiometry="1" constant="true"/>
+          <speciesReference species="M_ddca_p" stoichiometry="1" constant="true"/>
+          <speciesReference species="M_h_p" stoichiometry="1" constant="true"/>
+        </listOfProducts>
+        <fbc:geneProductAssociation>
+          <fbc:geneProductRef fbc:geneProduct="G_b3821"/>
+        </fbc:geneProductAssociation>
+      </reaction>
+      <reaction id="R_PLIPA2G180pp" fast="false" reversible="false" name="Phospholipase A2 (phosphatidylglycerol, n-C18:0) (periplasm)" metaid="R_PLIPA2G180pp" sboTerm="SBO:0000176" fbc:upperFluxBound="cobra_default_ub" fbc:lowerFluxBound="cobra_0_bound">
+        <sbml:annotation xmlns:sbml="http://www.sbml.org/sbml/level3/version1/core">
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+                <rdf:Bag>
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+                  <rdf:li rdf:resource="http://identifiers.org/metanetx.reaction/MNXR103008"/>
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+          <speciesReference species="M_pg180_p" stoichiometry="1" constant="true"/>
+        </listOfReactants>
+        <listOfProducts>
+          <speciesReference species="M_1agpg180_p" stoichiometry="1" constant="true"/>
+          <speciesReference species="M_h_p" stoichiometry="1" constant="true"/>
+          <speciesReference species="M_ocdca_p" stoichiometry="1" constant="true"/>
+        </listOfProducts>
+        <fbc:geneProductAssociation>
+          <fbc:geneProductRef fbc:geneProduct="G_b3821"/>
+        </fbc:geneProductAssociation>
+      </reaction>
+      <reaction id="R_LPLIPAL1A161pp" fast="false" reversible="false" name="Lysophospholipase L1 (2-acylglycerophosphotidate, n-C16:1) (periplasm)" metaid="R_LPLIPAL1A161pp" sboTerm="SBO:0000176" fbc:upperFluxBound="cobra_default_ub" fbc:lowerFluxBound="cobra_0_bound">
+        <sbml:annotation xmlns:sbml="http://www.sbml.org/sbml/level3/version1/core">
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+              <bqbiol:is xmlns:bqbiol="http://biomodels.net/biology-qualifiers/">
+                <rdf:Bag>
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+                  <rdf:li rdf:resource="http://identifiers.org/metanetx.reaction/MNXR101145"/>
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+            </rdf:Description>
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+        </sbml:annotation>
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+          <speciesReference species="M_1hdec9eg3p_p" stoichiometry="1" constant="true"/>
+          <speciesReference species="M_h2o_p" stoichiometry="1" constant="true"/>
+        </listOfReactants>
+        <listOfProducts>
+          <speciesReference species="M_glyc3p_p" stoichiometry="1" constant="true"/>
+          <speciesReference species="M_h_p" stoichiometry="1" constant="true"/>
+          <speciesReference species="M_hdcea_p" stoichiometry="1" constant="true"/>
+        </listOfProducts>
+        <fbc:geneProductAssociation>
+          <fbc:geneProductRef fbc:geneProduct="G_b0494"/>
+        </fbc:geneProductAssociation>
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+                  <rdf:li rdf:resource="http://identifiers.org/rhea/34955"/>
+                  <rdf:li rdf:resource="http://identifiers.org/rhea/34958"/>
+                  <rdf:li rdf:resource="http://identifiers.org/rhea/34956"/>
+                  <rdf:li rdf:resource="http://identifiers.org/rhea/34957"/>
+                </rdf:Bag>
+              </bqbiol:is>
+            </rdf:Description>
+          </rdf:RDF>
+        </sbml:annotation>
+        <listOfReactants>
+          <speciesReference species="M_5mtr_e" stoichiometry="1" constant="true"/>
+        </listOfReactants>
+        <listOfProducts>
+          <speciesReference species="M_5mtr_p" stoichiometry="1" constant="true"/>
+        </listOfProducts>
+        <fbc:geneProductAssociation>
+          <fbc:or>
+            <fbc:geneProductRef fbc:geneProduct="G_b1377"/>
+            <fbc:geneProductRef fbc:geneProduct="G_b0929"/>
+            <fbc:geneProductRef fbc:geneProduct="G_b2215"/>
+            <fbc:geneProductRef fbc:geneProduct="G_b0241"/>
+          </fbc:or>
+        </fbc:geneProductAssociation>
+      </reaction>
+      <reaction id="R_NI2t3pp" fast="false" reversible="false" name="Nickle (Ni+2) transport out via proton antiport (periplasm)" metaid="R_NI2t3pp" sboTerm="SBO:0000185" fbc:upperFluxBound="cobra_default_ub" fbc:lowerFluxBound="cobra_0_bound">
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+              <bqbiol:is xmlns:bqbiol="http://biomodels.net/biology-qualifiers/">
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+                  <rdf:li rdf:resource="http://identifiers.org/metanetx.reaction/MNXR101956"/>
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+              </bqbiol:is>
+            </rdf:Description>
+          </rdf:RDF>
+        </sbml:annotation>
+        <listOfReactants>
+          <speciesReference species="M_h_p" stoichiometry="1" constant="true"/>
+          <speciesReference species="M_ni2_c" stoichiometry="1" constant="true"/>
+        </listOfReactants>
+        <listOfProducts>
+          <speciesReference species="M_h_c" stoichiometry="1" constant="true"/>
+          <speciesReference species="M_ni2_p" stoichiometry="1" constant="true"/>
+        </listOfProducts>
+        <fbc:geneProductAssociation>
+          <fbc:or>
+            <fbc:geneProductRef fbc:geneProduct="G_b3915"/>
+            <fbc:geneProductRef fbc:geneProduct="G_b0752"/>
+          </fbc:or>
+        </fbc:geneProductAssociation>
+      </reaction>
+      <reaction id="R_PPAtex" fast="false" reversible="true" name="Propionate transport via diffusion" metaid="R_PPAtex" sboTerm="SBO:0000185" fbc:upperFluxBound="cobra_default_ub" fbc:lowerFluxBound="cobra_default_lb">
+        <sbml:annotation xmlns:sbml="http://www.sbml.org/sbml/level3/version1/core">
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+              <bqbiol:is xmlns:bqbiol="http://biomodels.net/biology-qualifiers/">
+                <rdf:Bag>
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+                  <rdf:li rdf:resource="http://identifiers.org/metanetx.reaction/MNXR103094"/>
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+              </bqbiol:is>
+            </rdf:Description>
+          </rdf:RDF>
+        </sbml:annotation>
+        <listOfReactants>
+          <speciesReference species="M_ppa_e" stoichiometry="1" constant="true"/>
+        </listOfReactants>
+        <listOfProducts>
+          <speciesReference species="M_ppa_p" stoichiometry="1" constant="true"/>
+        </listOfProducts>
+        <fbc:geneProductAssociation>
+          <fbc:or>
+            <fbc:geneProductRef fbc:geneProduct="G_b0241"/>
+            <fbc:geneProductRef fbc:geneProduct="G_b1377"/>
+            <fbc:geneProductRef fbc:geneProduct="G_b0929"/>
+            <fbc:geneProductRef fbc:geneProduct="G_b2215"/>
+          </fbc:or>
+        </fbc:geneProductAssociation>
+      </reaction>
+      <reaction id="R_GALCTNLt2pp" fast="false" reversible="false" name="L-galactonate transport via proton symport (periplasm)" metaid="R_GALCTNLt2pp" sboTerm="SBO:0000185" fbc:upperFluxBound="cobra_default_ub" fbc:lowerFluxBound="cobra_0_bound">
+        <sbml:annotation xmlns:sbml="http://www.sbml.org/sbml/level3/version1/core">
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+              <bqbiol:is xmlns:bqbiol="http://biomodels.net/biology-qualifiers/">
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+                  <rdf:li rdf:resource="http://identifiers.org/biocyc/META:TRANS-RXN0-227"/>
+                  <rdf:li rdf:resource="http://identifiers.org/metanetx.reaction/MNXR99958"/>
+                  <rdf:li rdf:resource="http://identifiers.org/rhea/28823"/>
+                  <rdf:li rdf:resource="http://identifiers.org/rhea/28824"/>
+                  <rdf:li rdf:resource="http://identifiers.org/rhea/28825"/>
+                  <rdf:li rdf:resource="http://identifiers.org/rhea/28826"/>
+                  <rdf:li rdf:resource="http://identifiers.org/seed.reaction/rxn08576"/>
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+              </bqbiol:is>
+            </rdf:Description>
+          </rdf:RDF>
+        </sbml:annotation>
+        <listOfReactants>
+          <speciesReference species="M_galctn__L_p" stoichiometry="1" constant="true"/>
+          <speciesReference species="M_h_p" stoichiometry="1" constant="true"/>
+        </listOfReactants>
+        <listOfProducts>
+          <speciesReference species="M_galctn__L_c" stoichiometry="1" constant="true"/>
+          <speciesReference species="M_h_c" stoichiometry="1" constant="true"/>
+        </listOfProducts>
+        <fbc:geneProductAssociation>
+          <fbc:geneProductRef fbc:geneProduct="G_b4356"/>
+        </fbc:geneProductAssociation>
+      </reaction>
+      <reaction id="R_GALCTLO" fast="false" reversible="false" name="L-galactonate oxidoreductase" metaid="R_GALCTLO" sboTerm="SBO:0000176" fbc:upperFluxBound="cobra_default_ub" fbc:lowerFluxBound="cobra_0_bound">
+        <sbml:annotation xmlns:sbml="http://www.sbml.org/sbml/level3/version1/core">
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+            <rdf:Description rdf:about="#R_GALCTLO">
+              <bqbiol:is xmlns:bqbiol="http://biomodels.net/biology-qualifiers/">
+                <rdf:Bag>
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+                  <rdf:li rdf:resource="http://identifiers.org/biocyc/META:RXN0-5229"/>
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+                  <rdf:li rdf:resource="http://identifiers.org/metanetx.reaction/MNXR99956"/>
+                  <rdf:li rdf:resource="http://identifiers.org/rhea/30184"/>
+                  <rdf:li rdf:resource="http://identifiers.org/rhea/30186"/>
+                  <rdf:li rdf:resource="http://identifiers.org/rhea/30185"/>
+                  <rdf:li rdf:resource="http://identifiers.org/rhea/30183"/>
+                  <rdf:li rdf:resource="http://identifiers.org/seed.reaction/rxn08575"/>
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+        </sbml:annotation>
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+          <speciesReference species="M_galctn__L_c" stoichiometry="1" constant="true"/>
+          <speciesReference species="M_nad_c" stoichiometry="1" constant="true"/>
+        </listOfReactants>
+        <listOfProducts>
+          <speciesReference species="M_h_c" stoichiometry="1" constant="true"/>
+          <speciesReference species="M_nadh_c" stoichiometry="1" constant="true"/>
+          <speciesReference species="M_tagur_c" stoichiometry="1" constant="true"/>
+        </listOfProducts>
+        <fbc:geneProductAssociation>
+          <fbc:geneProductRef fbc:geneProduct="G_b4358"/>
+        </fbc:geneProductAssociation>
+      </reaction>
+      <reaction id="R_THYMt3pp" fast="false" reversible="false" name="Thymine transport out via proton antiport (periplasm)" metaid="R_THYMt3pp" sboTerm="SBO:0000185" fbc:upperFluxBound="cobra_default_ub" fbc:lowerFluxBound="cobra_0_bound">
+        <sbml:annotation xmlns:sbml="http://www.sbml.org/sbml/level3/version1/core">
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+            <rdf:Description rdf:about="#R_THYMt3pp">
+              <bqbiol:is xmlns:bqbiol="http://biomodels.net/biology-qualifiers/">
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+                  <rdf:li rdf:resource="http://identifiers.org/metanetx.reaction/MNXR104854"/>
+                  <rdf:li rdf:resource="http://identifiers.org/seed.reaction/rxn09308"/>
+                  <rdf:li rdf:resource="http://identifiers.org/seed.reaction/rxn09656"/>
+                </rdf:Bag>
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+        </sbml:annotation>
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+          <speciesReference species="M_h_p" stoichiometry="1" constant="true"/>
+          <speciesReference species="M_thym_c" stoichiometry="1" constant="true"/>
+        </listOfReactants>
+        <listOfProducts>
+          <speciesReference species="M_h_c" stoichiometry="1" constant="true"/>
+          <speciesReference species="M_thym_p" stoichiometry="1" constant="true"/>
+        </listOfProducts>
+      </reaction>
+      <reaction id="R_CLt3_2pp" fast="false" reversible="false" name="Chloride transport out via proton antiport (2:1) (periplasm)" metaid="R_CLt3_2pp" sboTerm="SBO:0000185" fbc:upperFluxBound="cobra_default_ub" fbc:lowerFluxBound="cobra_0_bound">
+        <sbml:annotation xmlns:sbml="http://www.sbml.org/sbml/level3/version1/core">
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+                  <rdf:li rdf:resource="http://identifiers.org/rhea/29569"/>
+                  <rdf:li rdf:resource="http://identifiers.org/rhea/29567"/>
+                  <rdf:li rdf:resource="http://identifiers.org/rhea/29568"/>
+                  <rdf:li rdf:resource="http://identifiers.org/rhea/29570"/>
+                  <rdf:li rdf:resource="http://identifiers.org/seed.reaction/rxn08233"/>
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+            </rdf:Description>
+          </rdf:RDF>
+        </sbml:annotation>
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+          <speciesReference species="M_cl_p" stoichiometry="2" constant="true"/>
+          <speciesReference species="M_h_c" stoichiometry="1" constant="true"/>
+        </listOfReactants>
+        <listOfProducts>
+          <speciesReference species="M_cl_c" stoichiometry="2" constant="true"/>
+          <speciesReference species="M_h_p" stoichiometry="1" constant="true"/>
+        </listOfProducts>
+        <fbc:geneProductAssociation>
+          <fbc:geneProductRef fbc:geneProduct="G_b0155"/>
+        </fbc:geneProductAssociation>
+      </reaction>
+      <reaction id="R_EX_ppal_e" fast="false" reversible="false" name="Propanal exchange" metaid="R_EX_ppal_e" sboTerm="SBO:0000627" fbc:upperFluxBound="cobra_default_ub" fbc:lowerFluxBound="cobra_0_bound">
+        <sbml:annotation xmlns:sbml="http://www.sbml.org/sbml/level3/version1/core">
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+            <rdf:Description rdf:about="#R_EX_ppal_e">
+              <bqbiol:is xmlns:bqbiol="http://biomodels.net/biology-qualifiers/">
+                <rdf:Bag>
+                  <rdf:li rdf:resource="http://identifiers.org/bigg.reaction/EX_ppal_e"/>
+                  <rdf:li rdf:resource="http://identifiers.org/metanetx.reaction/MNXR103071"/>
+                  <rdf:li rdf:resource="http://identifiers.org/seed.reaction/rxn09169"/>
+                  <rdf:li rdf:resource="http://identifiers.org/seed.reaction/rxn09170"/>
+                </rdf:Bag>
+              </bqbiol:is>
+            </rdf:Description>
+          </rdf:RDF>
+        </sbml:annotation>
+        <listOfReactants>
+          <speciesReference species="M_ppal_e" stoichiometry="1" constant="true"/>
+        </listOfReactants>
+      </reaction>
+      <reaction id="R_POR5" fast="false" reversible="true" name="Pyruvate synthase" metaid="R_POR5" sboTerm="SBO:0000176" fbc:upperFluxBound="cobra_default_ub" fbc:lowerFluxBound="cobra_default_lb">
+        <sbml:annotation xmlns:sbml="http://www.sbml.org/sbml/level3/version1/core">
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+            <rdf:Description rdf:about="#R_POR5">
+              <bqbiol:is xmlns:bqbiol="http://biomodels.net/biology-qualifiers/">
+                <rdf:Bag>
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+                  <rdf:li rdf:resource="http://identifiers.org/metanetx.reaction/MNXR103064"/>
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+              </bqbiol:is>
+            </rdf:Description>
+          </rdf:RDF>
+        </sbml:annotation>
+        <listOfReactants>
+          <speciesReference species="M_coa_c" stoichiometry="1" constant="true"/>
+          <speciesReference species="M_flxso_c" stoichiometry="2" constant="true"/>
+          <speciesReference species="M_pyr_c" stoichiometry="1" constant="true"/>
+        </listOfReactants>
+        <listOfProducts>
+          <speciesReference species="M_accoa_c" stoichiometry="1" constant="true"/>
+          <speciesReference species="M_co2_c" stoichiometry="1" constant="true"/>
+          <speciesReference species="M_flxr_c" stoichiometry="2" constant="true"/>
+          <speciesReference species="M_h_c" stoichiometry="1" constant="true"/>
+        </listOfProducts>
+        <fbc:geneProductAssociation>
+          <fbc:or>
+            <fbc:and>
+              <fbc:geneProductRef fbc:geneProduct="G_b1378"/>
+              <fbc:geneProductRef fbc:geneProduct="G_b0684"/>
+            </fbc:and>
+            <fbc:and>
+              <fbc:geneProductRef fbc:geneProduct="G_b1378"/>
+              <fbc:geneProductRef fbc:geneProduct="G_b2895"/>
+            </fbc:and>
+          </fbc:or>
+        </fbc:geneProductAssociation>
+      </reaction>
+      <reaction id="R_HACD8" fast="false" reversible="true" name="3-hydroxyacyl-CoA dehydrogenase (3-oxooctadecanoyl-CoA), peroxisomal" metaid="R_HACD8" sboTerm="SBO:0000176" fbc:upperFluxBound="cobra_default_ub" fbc:lowerFluxBound="cobra_default_lb">
+        <sbml:annotation xmlns:sbml="http://www.sbml.org/sbml/level3/version1/core">
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+              <bqbiol:is xmlns:bqbiol="http://biomodels.net/biology-qualifiers/">
+                <rdf:Bag>
+                  <rdf:li rdf:resource="http://identifiers.org/bigg.reaction/HACD8"/>
+                  <rdf:li rdf:resource="http://identifiers.org/ec-code/1.1.1.35"/>
+                  <rdf:li rdf:resource="http://identifiers.org/metanetx.reaction/MNXR100549"/>
+                  <rdf:li rdf:resource="http://identifiers.org/seed.reaction/rxn08700"/>
+                </rdf:Bag>
+              </bqbiol:is>
+            </rdf:Description>
+          </rdf:RDF>
+        </sbml:annotation>
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+          <speciesReference species="M_3ohodcoa_c" stoichiometry="1" constant="true"/>
+          <speciesReference species="M_h_c" stoichiometry="1" constant="true"/>
+          <speciesReference species="M_nadh_c" stoichiometry="1" constant="true"/>
+        </listOfReactants>
+        <listOfProducts>
+          <speciesReference species="M_3hodcoa_c" stoichiometry="1" constant="true"/>
+          <speciesReference species="M_nad_c" stoichiometry="1" constant="true"/>
+        </listOfProducts>
+        <fbc:geneProductAssociation>
+          <fbc:or>
+            <fbc:geneProductRef fbc:geneProduct="G_b3846"/>
+            <fbc:geneProductRef fbc:geneProduct="G_b2341"/>
+          </fbc:or>
+        </fbc:geneProductAssociation>
+      </reaction>
+      <reaction id="R_CTECOAI8" fast="false" reversible="true" name="3-cis-2-trans-enoyl-CoA isomerase" metaid="R_CTECOAI8" sboTerm="SBO:0000176" fbc:upperFluxBound="cobra_default_ub" fbc:lowerFluxBound="cobra_default_lb">
+        <sbml:annotation xmlns:sbml="http://www.sbml.org/sbml/level3/version1/core">
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+              <bqbiol:is xmlns:bqbiol="http://biomodels.net/biology-qualifiers/">
+                <rdf:Bag>
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+                  <rdf:li rdf:resource="http://identifiers.org/ec-code/5.3.3.8"/>
+                  <rdf:li rdf:resource="http://identifiers.org/metanetx.reaction/MNXR96942"/>
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+          </rdf:RDF>
+        </sbml:annotation>
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+          <speciesReference species="M_odecoa_c" stoichiometry="1" constant="true"/>
+        </listOfReactants>
+        <listOfProducts>
+          <speciesReference species="M_od2coa_c" stoichiometry="1" constant="true"/>
+        </listOfProducts>
+        <fbc:geneProductAssociation>
+          <fbc:geneProductRef fbc:geneProduct="G_b3846"/>
+        </fbc:geneProductAssociation>
+      </reaction>
+      <reaction id="R_CTECOAI6" fast="false" reversible="true" name="3-cis-2-trans-enoyl-CoA isomerase" metaid="R_CTECOAI6" sboTerm="SBO:0000176" fbc:upperFluxBound="cobra_default_ub" fbc:lowerFluxBound="cobra_default_lb">
+        <sbml:annotation xmlns:sbml="http://www.sbml.org/sbml/level3/version1/core">
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+              <bqbiol:is xmlns:bqbiol="http://biomodels.net/biology-qualifiers/">
+                <rdf:Bag>
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+                  <rdf:li rdf:resource="http://identifiers.org/ec-code/5.3.3.8"/>
+                  <rdf:li rdf:resource="http://identifiers.org/metanetx.reaction/MNXR96940"/>
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+              </bqbiol:is>
+            </rdf:Description>
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+        </sbml:annotation>
+        <listOfReactants>
+          <speciesReference species="M_tdecoa_c" stoichiometry="1" constant="true"/>
+        </listOfReactants>
+        <listOfProducts>
+          <speciesReference species="M_td2coa_c" stoichiometry="1" constant="true"/>
+        </listOfProducts>
+        <fbc:geneProductAssociation>
+          <fbc:geneProductRef fbc:geneProduct="G_b3846"/>
+        </fbc:geneProductAssociation>
+      </reaction>
+      <reaction id="R_MTHTHFSs" fast="false" reversible="false" name="(2R,4S)-2-methyl-2,3,3,4-tetrahydroxytetrahydrofuran synthesis (spontaneous)" metaid="R_MTHTHFSs" sboTerm="SBO:0000176" fbc:upperFluxBound="cobra_default_ub" fbc:lowerFluxBound="cobra_0_bound">
+        <sbml:annotation xmlns:sbml="http://www.sbml.org/sbml/level3/version1/core">
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+              <bqbiol:is xmlns:bqbiol="http://biomodels.net/biology-qualifiers/">
+                <rdf:Bag>
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+                  <rdf:li rdf:resource="http://identifiers.org/biocyc/META:RXN-10017"/>
+                  <rdf:li rdf:resource="http://identifiers.org/metanetx.reaction/MNXR101756"/>
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+                  <rdf:li rdf:resource="http://identifiers.org/rhea/35162"/>
+                  <rdf:li rdf:resource="http://identifiers.org/rhea/35159"/>
+                  <rdf:li rdf:resource="http://identifiers.org/rhea/35160"/>
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+            </rdf:Description>
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+          <speciesReference species="M_h2o_c" stoichiometry="1" constant="true"/>
+          <speciesReference species="M_mdhdhf_c" stoichiometry="1" constant="true"/>
+        </listOfReactants>
+        <listOfProducts>
+          <speciesReference species="M_mththf_c" stoichiometry="1" constant="true"/>
+        </listOfProducts>
+        <fbc:geneProductAssociation>
+          <fbc:geneProductRef fbc:geneProduct="G_s0001"/>
+        </fbc:geneProductAssociation>
+      </reaction>
+      <reaction id="R_SELGTHR" fast="false" reversible="false" name="Selenate glutathione reductase" metaid="R_SELGTHR" sboTerm="SBO:0000176" fbc:upperFluxBound="cobra_default_ub" fbc:lowerFluxBound="cobra_0_bound">
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+              <bqbiol:is xmlns:bqbiol="http://biomodels.net/biology-qualifiers/">
+                <rdf:Bag>
+                  <rdf:li rdf:resource="http://identifiers.org/bigg.reaction/SELGTHR"/>
+                  <rdf:li rdf:resource="http://identifiers.org/biocyc/META:RXN-12864"/>
+                  <rdf:li rdf:resource="http://identifiers.org/kegg.reaction/R09367"/>
+                  <rdf:li rdf:resource="http://identifiers.org/metanetx.reaction/MNXR104318"/>
+                  <rdf:li rdf:resource="http://identifiers.org/reactome.reaction/R-HSA-2408556"/>
+                  <rdf:li rdf:resource="http://identifiers.org/reactome.reaction/R-RNO-2408553"/>
+                  <rdf:li rdf:resource="http://identifiers.org/rhea/34906"/>
+                  <rdf:li rdf:resource="http://identifiers.org/rhea/34903"/>
+                  <rdf:li rdf:resource="http://identifiers.org/rhea/34904"/>
+                  <rdf:li rdf:resource="http://identifiers.org/rhea/34905"/>
+                </rdf:Bag>
+              </bqbiol:is>
+            </rdf:Description>
+          </rdf:RDF>
+        </sbml:annotation>
+        <listOfReactants>
+          <speciesReference species="M_gthrd_c" stoichiometry="4" constant="true"/>
+          <speciesReference species="M_h_c" stoichiometry="2" constant="true"/>
+          <speciesReference species="M_slnt_c" stoichiometry="1" constant="true"/>
+        </listOfReactants>
+        <listOfProducts>
+          <speciesReference species="M_dgslnt_c" stoichiometry="1" constant="true"/>
+          <speciesReference species="M_gthox_c" stoichiometry="1" constant="true"/>
+          <speciesReference species="M_h2o_c" stoichiometry="3" constant="true"/>
+        </listOfProducts>
+      </reaction>
+      <reaction id="R_SELGTHR3" fast="false" reversible="false" name="Selenate glutathione reductase III" metaid="R_SELGTHR3" sboTerm="SBO:0000176" fbc:upperFluxBound="cobra_default_ub" fbc:lowerFluxBound="cobra_0_bound">
+        <sbml:annotation xmlns:sbml="http://www.sbml.org/sbml/level3/version1/core">
+          <rdf:RDF xmlns:rdf="http://www.w3.org/1999/02/22-rdf-syntax-ns#">
+            <rdf:Description rdf:about="#R_SELGTHR3">
+              <bqbiol:is xmlns:bqbiol="http://biomodels.net/biology-qualifiers/">
+                <rdf:Bag>
+                  <rdf:li rdf:resource="http://identifiers.org/bigg.reaction/SELGTHR3"/>
+                  <rdf:li rdf:resource="http://identifiers.org/metanetx.reaction/MNXR104320"/>
+                </rdf:Bag>
+              </bqbiol:is>
+            </rdf:Description>
+          </rdf:RDF>
+        </sbml:annotation>
+        <listOfReactants>
+          <speciesReference species="M_gslnt_c" stoichiometry="1" constant="true"/>
+          <speciesReference species="M_nadph_c" stoichiometry="1" constant="true"/>
+        </listOfReactants>
+        <listOfProducts>
+          <speciesReference species="M_gthrd_c" stoichiometry="1" constant="true"/>
+          <speciesReference species="M_nadp_c" stoichiometry="1" constant="true"/>
+          <speciesReference species="M_seln_c" stoichiometry="1" constant="true"/>
+        </listOfProducts>
+      </reaction>
+      <reaction id="R_EX_slnt_e" fast="false" reversible="true" name="Selenite exchange" metaid="R_EX_slnt_e" sboTerm="SBO:0000627" fbc:upperFluxBound="cobra_default_ub" fbc:lowerFluxBound="cobra_default_lb">
+        <sbml:annotation xmlns:sbml="http://www.sbml.org/sbml/level3/version1/core">
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+            <rdf:Description rdf:about="#R_EX_slnt_e">
+              <bqbiol:is xmlns:bqbiol="http://biomodels.net/biology-qualifiers/">
+                <rdf:Bag>
+                  <rdf:li rdf:resource="http://identifiers.org/bigg.reaction/EX_slnt_e"/>
+                  <rdf:li rdf:resource="http://identifiers.org/metanetx.reaction/MNXR104325"/>
+                  <rdf:li rdf:resource="http://identifiers.org/rhea/34894"/>
+                  <rdf:li rdf:resource="http://identifiers.org/rhea/34891"/>
+                  <rdf:li rdf:resource="http://identifiers.org/rhea/34893"/>
+                  <rdf:li rdf:resource="http://identifiers.org/rhea/34892"/>
+                </rdf:Bag>
+              </bqbiol:is>
+            </rdf:Description>
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+        </sbml:annotation>
+        <listOfReactants>
+          <speciesReference species="M_slnt_e" stoichiometry="1" constant="true"/>
+        </listOfReactants>
+      </reaction>
+      <reaction id="R_MALCOAMT" fast="false" reversible="false" name="Malonyl-CoA methyltransferase" metaid="R_MALCOAMT" sboTerm="SBO:0000176" fbc:upperFluxBound="cobra_default_ub" fbc:lowerFluxBound="cobra_0_bound">
+        <sbml:annotation xmlns:sbml="http://www.sbml.org/sbml/level3/version1/core">
+          <rdf:RDF xmlns:rdf="http://www.w3.org/1999/02/22-rdf-syntax-ns#">
+            <rdf:Description rdf:about="#R_MALCOAMT">
+              <bqbiol:is xmlns:bqbiol="http://biomodels.net/biology-qualifiers/">
+                <rdf:Bag>
+                  <rdf:li rdf:resource="http://identifiers.org/bigg.reaction/MALCOAMT"/>
+                  <rdf:li rdf:resource="http://identifiers.org/metanetx.reaction/MNXR101337"/>
+                  <rdf:li rdf:resource="http://identifiers.org/rhea/34900"/>
+                  <rdf:li rdf:resource="http://identifiers.org/rhea/34899"/>
+                  <rdf:li rdf:resource="http://identifiers.org/rhea/34902"/>
+                  <rdf:li rdf:resource="http://identifiers.org/rhea/34901"/>
+                </rdf:Bag>
+              </bqbiol:is>
+            </rdf:Description>
+          </rdf:RDF>
+        </sbml:annotation>
+        <listOfReactants>
+          <speciesReference species="M_amet_c" stoichiometry="1" constant="true"/>
+          <speciesReference species="M_malcoa_c" stoichiometry="1" constant="true"/>
+        </listOfReactants>
+        <listOfProducts>
+          <speciesReference species="M_ahcys_c" stoichiometry="1" constant="true"/>
+          <speciesReference species="M_malcoame_c" stoichiometry="1" constant="true"/>
+        </listOfProducts>
+        <fbc:geneProductAssociation>
+          <fbc:geneProductRef fbc:geneProduct="G_b0777"/>
+        </fbc:geneProductAssociation>
+      </reaction>
+      <reaction id="R_PSCLYStex" fast="false" reversible="true" name="Psicoselysine transporter via diffusion (extracellular)" metaid="R_PSCLYStex" sboTerm="SBO:0000185" fbc:upperFluxBound="cobra_default_ub" fbc:lowerFluxBound="cobra_default_lb">
+        <sbml:annotation xmlns:sbml="http://www.sbml.org/sbml/level3/version1/core">
+          <rdf:RDF xmlns:rdf="http://www.w3.org/1999/02/22-rdf-syntax-ns#">
+            <rdf:Description rdf:about="#R_PSCLYStex">
+              <bqbiol:is xmlns:bqbiol="http://biomodels.net/biology-qualifiers/">
+                <rdf:Bag>
+                  <rdf:li rdf:resource="http://identifiers.org/bigg.reaction/PSCLYStex"/>
+                  <rdf:li rdf:resource="http://identifiers.org/biocyc/META:TRANS-RXN0-418"/>
+                  <rdf:li rdf:resource="http://identifiers.org/metanetx.reaction/MNXR103228"/>
+                  <rdf:li rdf:resource="http://identifiers.org/rhea/28450"/>
+                  <rdf:li rdf:resource="http://identifiers.org/rhea/28453"/>
+                  <rdf:li rdf:resource="http://identifiers.org/rhea/28451"/>
+                  <rdf:li rdf:resource="http://identifiers.org/rhea/28452"/>
+                  <rdf:li rdf:resource="http://identifiers.org/seed.reaction/rxn09196"/>
+                </rdf:Bag>
+              </bqbiol:is>
+            </rdf:Description>
+          </rdf:RDF>
+        </sbml:annotation>
+        <listOfReactants>
+          <speciesReference species="M_psclys_e" stoichiometry="1" constant="true"/>
+        </listOfReactants>
+        <listOfProducts>
+          <speciesReference species="M_psclys_p" stoichiometry="1" constant="true"/>
+        </listOfProducts>
+        <fbc:geneProductAssociation>
+          <fbc:or>
+            <fbc:geneProductRef fbc:geneProduct="G_b0929"/>
+            <fbc:geneProductRef fbc:geneProduct="G_b2215"/>
+            <fbc:geneProductRef fbc:geneProduct="G_b1377"/>
+            <fbc:geneProductRef fbc:geneProduct="G_b0241"/>
+          </fbc:or>
+        </fbc:geneProductAssociation>
+      </reaction>
+      <reaction id="R_THYMtex" fast="false" reversible="true" name="Thymine transport via diffusion (extracellular to periplasm)" metaid="R_THYMtex" sboTerm="SBO:0000185" fbc:upperFluxBound="cobra_default_ub" fbc:lowerFluxBound="cobra_default_lb">
+        <sbml:annotation xmlns:sbml="http://www.sbml.org/sbml/level3/version1/core">
+          <rdf:RDF xmlns:rdf="http://www.w3.org/1999/02/22-rdf-syntax-ns#">
+            <rdf:Description rdf:about="#R_THYMtex">
+              <bqbiol:is xmlns:bqbiol="http://biomodels.net/biology-qualifiers/">
+                <rdf:Bag>
+                  <rdf:li rdf:resource="http://identifiers.org/bigg.reaction/THYMtex"/>
+                  <rdf:li rdf:resource="http://identifiers.org/biocyc/META:TRANS-RXN0-524"/>
+                  <rdf:li rdf:resource="http://identifiers.org/metanetx.reaction/MNXR104853"/>
+                  <rdf:li rdf:resource="http://identifiers.org/seed.reaction/rxn09309"/>
+                </rdf:Bag>
+              </bqbiol:is>
+            </rdf:Description>
+          </rdf:RDF>
+        </sbml:annotation>
+        <listOfReactants>
+          <speciesReference species="M_thym_e" stoichiometry="1" constant="true"/>
+        </listOfReactants>
+        <listOfProducts>
+          <speciesReference species="M_thym_p" stoichiometry="1" constant="true"/>
+        </listOfProducts>
+        <fbc:geneProductAssociation>
+          <fbc:or>
+            <fbc:geneProductRef fbc:geneProduct="G_b0241"/>
+            <fbc:geneProductRef fbc:geneProduct="G_b1377"/>
+            <fbc:geneProductRef fbc:geneProduct="G_b2215"/>
+            <fbc:geneProductRef fbc:geneProduct="G_b0929"/>
+          </fbc:or>
+        </fbc:geneProductAssociation>
+      </reaction>
+      <reaction id="R_CU2tpp" fast="false" reversible="false" name="Copper transport in via permease (no H+)" metaid="R_CU2tpp" sboTerm="SBO:0000185" fbc:upperFluxBound="cobra_default_ub" fbc:lowerFluxBound="cobra_0_bound">
+        <sbml:annotation xmlns:sbml="http://www.sbml.org/sbml/level3/version1/core">
+          <rdf:RDF xmlns:rdf="http://www.w3.org/1999/02/22-rdf-syntax-ns#">
+            <rdf:Description rdf:about="#R_CU2tpp">
+              <bqbiol:is xmlns:bqbiol="http://biomodels.net/biology-qualifiers/">
+                <rdf:Bag>
+                  <rdf:li rdf:resource="http://identifiers.org/bigg.reaction/CU2tpp"/>
+                  <rdf:li rdf:resource="http://identifiers.org/biocyc/META:RXN0-14"/>
+                  <rdf:li rdf:resource="http://identifiers.org/metanetx.reaction/MNXR96951"/>
+                  <rdf:li rdf:resource="http://identifiers.org/reactome.reaction/R-HSA-437300"/>
+                  <rdf:li rdf:resource="http://identifiers.org/reactome.reaction/R-DME-437300"/>
+                  <rdf:li rdf:resource="http://identifiers.org/reactome.reaction/R-RNO-437300"/>
+                  <rdf:li rdf:resource="http://identifiers.org/reactome.reaction/R-SCE-437300"/>
+                  <rdf:li rdf:resource="http://identifiers.org/reactome.reaction/R-DRE-437300"/>
+                  <rdf:li rdf:resource="http://identifiers.org/reactome.reaction/R-XTR-437300"/>
+                  <rdf:li rdf:resource="http://identifiers.org/reactome.reaction/R-TGU-437300"/>
+                  <rdf:li rdf:resource="http://identifiers.org/reactome.reaction/R-BTA-437300"/>
+                  <rdf:li rdf:resource="http://identifiers.org/reactome.reaction/R-CFA-437300"/>
+                  <rdf:li rdf:resource="http://identifiers.org/reactome.reaction/R-SSC-437300"/>
+                  <rdf:li rdf:resource="http://identifiers.org/reactome.reaction/R-MMU-437300"/>
+                  <rdf:li rdf:resource="http://identifiers.org/reactome.reaction/R-GGA-437300"/>
+                  <rdf:li rdf:resource="http://identifiers.org/rhea/28705"/>
+                  <rdf:li rdf:resource="http://identifiers.org/rhea/28706"/>
+                  <rdf:li rdf:resource="http://identifiers.org/rhea/28704"/>
+                  <rdf:li rdf:resource="http://identifiers.org/rhea/28703"/>
+                  <rdf:li rdf:resource="http://identifiers.org/seed.reaction/rxn08274"/>
+                  <rdf:li rdf:resource="http://identifiers.org/seed.reaction/rxn05212"/>
+                  <rdf:li rdf:resource="http://identifiers.org/seed.reaction/rxn08273"/>
+                </rdf:Bag>
+              </bqbiol:is>
+            </rdf:Description>
+          </rdf:RDF>
+        </sbml:annotation>
+        <listOfReactants>
+          <speciesReference species="M_cu2_p" stoichiometry="1" constant="true"/>
+        </listOfReactants>
+        <listOfProducts>
+          <speciesReference species="M_cu2_c" stoichiometry="1" constant="true"/>
+        </listOfProducts>
+        <fbc:geneProductAssociation>
+          <fbc:geneProductRef fbc:geneProduct="G_b3040"/>
+        </fbc:geneProductAssociation>
+      </reaction>
+      <reaction id="R_FE2t3pp" fast="false" reversible="false" name="Iron (Fe+2) transport out via proton antiport (periplasm)" metaid="R_FE2t3pp" sboTerm="SBO:0000185" fbc:upperFluxBound="cobra_default_ub" fbc:lowerFluxBound="cobra_0_bound">
+        <sbml:annotation xmlns:sbml="http://www.sbml.org/sbml/level3/version1/core">
+          <rdf:RDF xmlns:rdf="http://www.w3.org/1999/02/22-rdf-syntax-ns#">
+            <rdf:Description rdf:about="#R_FE2t3pp">
+              <bqbiol:is xmlns:bqbiol="http://biomodels.net/biology-qualifiers/">
+                <rdf:Bag>
+                  <rdf:li rdf:resource="http://identifiers.org/bigg.reaction/FE2t3pp"/>
+                  <rdf:li rdf:resource="http://identifiers.org/biocyc/META:RXN0-6"/>
+                  <rdf:li rdf:resource="http://identifiers.org/metanetx.reaction/MNXR99506"/>
+                  <rdf:li rdf:resource="http://identifiers.org/rhea/29441"/>
+                  <rdf:li rdf:resource="http://identifiers.org/rhea/29439"/>
+                  <rdf:li rdf:resource="http://identifiers.org/rhea/29442"/>
+                  <rdf:li rdf:resource="http://identifiers.org/rhea/29440"/>
+                  <rdf:li rdf:resource="http://identifiers.org/seed.reaction/rxn08474"/>
+                </rdf:Bag>
+              </bqbiol:is>
+            </rdf:Description>
+          </rdf:RDF>
+        </sbml:annotation>
+        <listOfReactants>
+          <speciesReference species="M_fe2_c" stoichiometry="1" constant="true"/>
+          <speciesReference species="M_h_p" stoichiometry="1" constant="true"/>
+        </listOfReactants>
+        <listOfProducts>
+          <speciesReference species="M_fe2_p" stoichiometry="1" constant="true"/>
+          <speciesReference species="M_h_c" stoichiometry="1" constant="true"/>
+        </listOfProducts>
+        <fbc:geneProductAssociation>
+          <fbc:geneProductRef fbc:geneProduct="G_b3915"/>
+        </fbc:geneProductAssociation>
+      </reaction>
+      <reaction id="R_MN2t3pp" fast="false" reversible="false" name="Manganese (Mn+2) transport out via proton antiport (periplasm)" metaid="R_MN2t3pp" sboTerm="SBO:0000185" fbc:upperFluxBound="cobra_default_ub" fbc:lowerFluxBound="cobra_0_bound">
+        <sbml:annotation xmlns:sbml="http://www.sbml.org/sbml/level3/version1/core">
+          <rdf:RDF xmlns:rdf="http://www.w3.org/1999/02/22-rdf-syntax-ns#">
+            <rdf:Description rdf:about="#R_MN2t3pp">
+              <bqbiol:is xmlns:bqbiol="http://biomodels.net/biology-qualifiers/">
+                <rdf:Bag>
+                  <rdf:li rdf:resource="http://identifiers.org/bigg.reaction/MN2t3pp"/>
+                  <rdf:li rdf:resource="http://identifiers.org/metanetx.reaction/MNXR101669"/>
+                  <rdf:li rdf:resource="http://identifiers.org/seed.reaction/rxn08946"/>
+                </rdf:Bag>
+              </bqbiol:is>
+            </rdf:Description>
+          </rdf:RDF>
+        </sbml:annotation>
+        <listOfReactants>
+          <speciesReference species="M_h_p" stoichiometry="1" constant="true"/>
+          <speciesReference species="M_mn2_c" stoichiometry="1" constant="true"/>
+        </listOfReactants>
+        <listOfProducts>
+          <speciesReference species="M_h_c" stoichiometry="1" constant="true"/>
+          <speciesReference species="M_mn2_p" stoichiometry="1" constant="true"/>
+        </listOfProducts>
+        <fbc:geneProductAssociation>
+          <fbc:or>
+            <fbc:geneProductRef fbc:geneProduct="G_b3915"/>
+            <fbc:geneProductRef fbc:geneProduct="G_b0752"/>
+          </fbc:or>
+        </fbc:geneProductAssociation>
+      </reaction>
+      <reaction id="R_MG2t3_2pp" fast="false" reversible="true" name="Magnesium (Mg+2) transport in/out via proton antiport (periplasm)" metaid="R_MG2t3_2pp" sboTerm="SBO:0000185" fbc:upperFluxBound="cobra_default_ub" fbc:lowerFluxBound="cobra_default_lb">
+        <sbml:annotation xmlns:sbml="http://www.sbml.org/sbml/level3/version1/core">
+          <rdf:RDF xmlns:rdf="http://www.w3.org/1999/02/22-rdf-syntax-ns#">
+            <rdf:Description rdf:about="#R_MG2t3_2pp">
+              <bqbiol:is xmlns:bqbiol="http://biomodels.net/biology-qualifiers/">
+                <rdf:Bag>
+                  <rdf:li rdf:resource="http://identifiers.org/bigg.reaction/MG2t3_2pp"/>
+                  <rdf:li rdf:resource="http://identifiers.org/metanetx.reaction/MNXR101508"/>
+                  <rdf:li rdf:resource="http://identifiers.org/seed.reaction/rxn08921"/>
+                </rdf:Bag>
+              </bqbiol:is>
+            </rdf:Description>
+          </rdf:RDF>
+        </sbml:annotation>
+        <listOfReactants>
+          <speciesReference species="M_h_c" stoichiometry="2" constant="true"/>
+          <speciesReference species="M_mg2_p" stoichiometry="1" constant="true"/>
+        </listOfReactants>
+        <listOfProducts>
+          <speciesReference species="M_h_p" stoichiometry="2" constant="true"/>
+          <speciesReference species="M_mg2_c" stoichiometry="1" constant="true"/>
+        </listOfProducts>
+      </reaction>
+      <reaction id="R_CD2tpp" fast="false" reversible="false" name="Cadmium (+2) transport in via permease (no H+)" metaid="R_CD2tpp" sboTerm="SBO:0000185" fbc:upperFluxBound="cobra_default_ub" fbc:lowerFluxBound="cobra_0_bound">
+        <sbml:annotation xmlns:sbml="http://www.sbml.org/sbml/level3/version1/core">
+          <rdf:RDF xmlns:rdf="http://www.w3.org/1999/02/22-rdf-syntax-ns#">
+            <rdf:Description rdf:about="#R_CD2tpp">
+              <bqbiol:is xmlns:bqbiol="http://biomodels.net/biology-qualifiers/">
+                <rdf:Bag>
+                  <rdf:li rdf:resource="http://identifiers.org/bigg.reaction/CD2tpp"/>
+                  <rdf:li rdf:resource="http://identifiers.org/biocyc/META:RXN0-10"/>
+                  <rdf:li rdf:resource="http://identifiers.org/metanetx.reaction/MNXR96499"/>
+                  <rdf:li rdf:resource="http://identifiers.org/rhea/28709"/>
+                  <rdf:li rdf:resource="http://identifiers.org/rhea/28708"/>
+                  <rdf:li rdf:resource="http://identifiers.org/rhea/28707"/>
+                  <rdf:li rdf:resource="http://identifiers.org/rhea/28710"/>
+                  <rdf:li rdf:resource="http://identifiers.org/sabiork/13041"/>
+                  <rdf:li rdf:resource="http://identifiers.org/seed.reaction/rxn08198"/>
+                  <rdf:li rdf:resource="http://identifiers.org/seed.reaction/rxn08197"/>
+                </rdf:Bag>
+              </bqbiol:is>
+            </rdf:Description>
+          </rdf:RDF>
+        </sbml:annotation>
+        <listOfReactants>
+          <speciesReference species="M_cd2_p" stoichiometry="1" constant="true"/>
+        </listOfReactants>
+        <listOfProducts>
+          <speciesReference species="M_cd2_c" stoichiometry="1" constant="true"/>
+        </listOfProducts>
+        <fbc:geneProductAssociation>
+          <fbc:geneProductRef fbc:geneProduct="G_b3040"/>
+        </fbc:geneProductAssociation>
+      </reaction>
+      <reaction id="R_ETHAt2pp" fast="false" reversible="false" name="Ethanolamine transport in via proton symport" metaid="R_ETHAt2pp" sboTerm="SBO:0000185" fbc:upperFluxBound="cobra_default_ub" fbc:lowerFluxBound="cobra_0_bound">
+        <sbml:annotation xmlns:sbml="http://www.sbml.org/sbml/level3/version1/core">
+          <rdf:RDF xmlns:rdf="http://www.w3.org/1999/02/22-rdf-syntax-ns#">
+            <rdf:Description rdf:about="#R_ETHAt2pp">
+              <bqbiol:is xmlns:bqbiol="http://biomodels.net/biology-qualifiers/">
+                <rdf:Bag>
+                  <rdf:li rdf:resource="http://identifiers.org/bigg.reaction/ETHAt2pp"/>
+                  <rdf:li rdf:resource="http://identifiers.org/metanetx.reaction/MNXR97975"/>
+                  <rdf:li rdf:resource="http://identifiers.org/seed.reaction/rxn08423"/>
+                  <rdf:li rdf:resource="http://identifiers.org/seed.reaction/rxn05551"/>
+                </rdf:Bag>
+              </bqbiol:is>
+            </rdf:Description>
+          </rdf:RDF>
+        </sbml:annotation>
+        <listOfReactants>
+          <speciesReference species="M_etha_p" stoichiometry="1" constant="true"/>
+          <speciesReference species="M_h_p" stoichiometry="1" constant="true"/>
+        </listOfReactants>
+        <listOfProducts>
+          <speciesReference species="M_etha_c" stoichiometry="1" constant="true"/>
+          <speciesReference species="M_h_c" stoichiometry="1" constant="true"/>
+        </listOfProducts>
+      </reaction>
+      <reaction id="R_FE3abcpp" fast="false" reversible="false" name="Iron (III) transport via ABC system (periplasm to cytoplasm)" metaid="R_FE3abcpp" sboTerm="SBO:0000185" fbc:upperFluxBound="cobra_default_ub" fbc:lowerFluxBound="cobra_0_bound">
+        <sbml:annotation xmlns:sbml="http://www.sbml.org/sbml/level3/version1/core">
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+          <speciesReference species="M_h2o_c" stoichiometry="1" constant="true"/>
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+          <speciesReference species="M_h_c" stoichiometry="1" constant="true"/>
+          <speciesReference species="M_pi_c" stoichiometry="1" constant="true"/>
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+            <fbc:geneProductRef fbc:geneProduct="G_b0870"/>
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+        </listOfProducts>
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+          <fbc:geneProductRef fbc:geneProduct="G_b1093"/>
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+          <speciesReference species="M_co2_c" stoichiometry="1" constant="true"/>
+          <speciesReference species="M_opmeACP_c" stoichiometry="1" constant="true"/>
+        </listOfProducts>
+        <fbc:geneProductAssociation>
+          <fbc:geneProductRef fbc:geneProduct="G_b2323"/>
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+            <fbc:geneProductRef fbc:geneProduct="G_b4261"/>
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+            <fbc:geneProductRef fbc:geneProduct="G_b3201"/>
+            <fbc:geneProductRef fbc:geneProduct="G_b3200"/>
+            <fbc:geneProductRef fbc:geneProduct="G_b0054"/>
+            <fbc:geneProductRef fbc:geneProduct="G_b0641"/>
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+            <fbc:geneProductRef fbc:geneProduct="G_b1490"/>
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+                  <rdf:li rdf:resource="http://identifiers.org/rhea/18870"/>
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+            <fbc:geneProductRef fbc:geneProduct="G_b3580"/>
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+          <fbc:geneProductRef fbc:geneProduct="G_b3431"/>
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+            <fbc:geneProductRef fbc:geneProduct="G_b1377"/>
+            <fbc:geneProductRef fbc:geneProduct="G_b0241"/>
+            <fbc:geneProductRef fbc:geneProduct="G_b0929"/>
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+          <speciesReference species="M_h2o_c" stoichiometry="1" constant="true"/>
+          <speciesReference species="M_sufbcd_c" stoichiometry="1" constant="true"/>
+          <speciesReference species="M_sufsesh_c" stoichiometry="1" constant="true"/>
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+          <speciesReference species="M_h_c" stoichiometry="5" constant="true"/>
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+          <speciesReference species="M_sufbcd_2fe2s_c" stoichiometry="1" constant="true"/>
+          <speciesReference species="M_sufse_c" stoichiometry="1" constant="true"/>
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+            <fbc:geneProductRef fbc:geneProduct="G_b1679"/>
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+            <fbc:geneProductRef fbc:geneProduct="G_b1683"/>
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+        </fbc:geneProductAssociation>
+      </reaction>
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+                  <rdf:li rdf:resource="http://identifiers.org/rhea/35279"/>
+                  <rdf:li rdf:resource="http://identifiers.org/rhea/35281"/>
+                  <rdf:li rdf:resource="http://identifiers.org/seed.reaction/rxn08767"/>
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+          <speciesReference species="M_accoa_c" stoichiometry="1" constant="true"/>
+          <speciesReference species="M_pmtcoa_c" stoichiometry="1" constant="true"/>
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+            <fbc:geneProductRef fbc:geneProduct="G_b3845"/>
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+        </fbc:geneProductAssociation>
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+      <reaction id="R_LALALGLUtpp" fast="false" reversible="false" name="L-alanyl-L-glutamate transport in via proton symport (periplasm)" metaid="R_LALALGLUtpp" sboTerm="SBO:0000185" fbc:upperFluxBound="cobra_default_ub" fbc:lowerFluxBound="cobra_0_bound">
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+                  <rdf:li rdf:resource="http://identifiers.org/rhea/35132"/>
+                  <rdf:li rdf:resource="http://identifiers.org/rhea/35133"/>
+                  <rdf:li rdf:resource="http://identifiers.org/rhea/35134"/>
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+          <speciesReference species="M_LalaLglu_c" stoichiometry="1" constant="true"/>
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+            <fbc:geneProductRef fbc:geneProduct="G_b3496"/>
+            <fbc:geneProductRef fbc:geneProduct="G_b4130"/>
+            <fbc:geneProductRef fbc:geneProduct="G_b0709"/>
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+        </fbc:geneProductAssociation>
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+      <reaction id="R_CTECOAI7" fast="false" reversible="true" name="3-cis-2-trans-enoyl-CoA isomerase" metaid="R_CTECOAI7" sboTerm="SBO:0000176" fbc:upperFluxBound="cobra_default_ub" fbc:lowerFluxBound="cobra_default_lb">
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+        <listOfProducts>
+          <speciesReference species="M_hdd2coa_c" stoichiometry="1" constant="true"/>
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+        <fbc:geneProductAssociation>
+          <fbc:geneProductRef fbc:geneProduct="G_b3846"/>
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+      <reaction id="R_CLIPAabctex" fast="false" reversible="false" name="Cold lipid A transport via ABC system (periplasm to extracellular)" metaid="R_CLIPAabctex" sboTerm="SBO:0000185" fbc:upperFluxBound="cobra_default_ub" fbc:lowerFluxBound="cobra_0_bound">
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+          <speciesReference species="M_h2o_c" stoichiometry="1" constant="true"/>
+          <speciesReference species="M_lipa_cold_p" stoichiometry="1" constant="true"/>
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+        <listOfProducts>
+          <speciesReference species="M_adp_c" stoichiometry="1" constant="true"/>
+          <speciesReference species="M_h_c" stoichiometry="1" constant="true"/>
+          <speciesReference species="M_lipa_cold_e" stoichiometry="1" constant="true"/>
+          <speciesReference species="M_pi_c" stoichiometry="1" constant="true"/>
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+            <fbc:geneProductRef fbc:geneProduct="G_b4261"/>
+            <fbc:geneProductRef fbc:geneProduct="G_b3199"/>
+            <fbc:geneProductRef fbc:geneProduct="G_b3201"/>
+            <fbc:geneProductRef fbc:geneProduct="G_b3200"/>
+            <fbc:geneProductRef fbc:geneProduct="G_b0054"/>
+            <fbc:geneProductRef fbc:geneProduct="G_b0641"/>
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+        </fbc:geneProductAssociation>
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+      <reaction id="R_3AMACHYD" fast="false" reversible="false" name="3-aminoacrylate hydrolase" metaid="R_3AMACHYD" sboTerm="SBO:0000176" fbc:upperFluxBound="cobra_default_ub" fbc:lowerFluxBound="cobra_0_bound">
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+          <speciesReference species="M_h_c" stoichiometry="1" constant="true"/>
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+        <listOfProducts>
+          <speciesReference species="M_msa_c" stoichiometry="1" constant="true"/>
+          <speciesReference species="M_nh4_c" stoichiometry="1" constant="true"/>
+        </listOfProducts>
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+          <fbc:geneProductRef fbc:geneProduct="G_b1009"/>
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+      <reaction id="R_K2L4Aabctex" fast="false" reversible="false" name="KDO(2)-lipid IV A transport via ABC system (periplasm to extracellular)" metaid="R_K2L4Aabctex" sboTerm="SBO:0000185" fbc:upperFluxBound="cobra_default_ub" fbc:lowerFluxBound="cobra_0_bound">
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+          <speciesReference species="M_kdo2lipid4_p" stoichiometry="1" constant="true"/>
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+          <speciesReference species="M_adp_c" stoichiometry="1" constant="true"/>
+          <speciesReference species="M_h_c" stoichiometry="1" constant="true"/>
+          <speciesReference species="M_kdo2lipid4_e" stoichiometry="1" constant="true"/>
+          <speciesReference species="M_pi_c" stoichiometry="1" constant="true"/>
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+            <fbc:geneProductRef fbc:geneProduct="G_b4261"/>
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+            <fbc:geneProductRef fbc:geneProduct="G_b3200"/>
+            <fbc:geneProductRef fbc:geneProduct="G_b0054"/>
+            <fbc:geneProductRef fbc:geneProduct="G_b0641"/>
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+        </fbc:geneProductAssociation>
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+                  <rdf:li rdf:resource="http://identifiers.org/rhea/29075#1"/>
+                  <rdf:li rdf:resource="http://identifiers.org/rhea/29078#1"/>
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+          <speciesReference species="M_q8_c" stoichiometry="1" constant="true"/>
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+          <speciesReference species="M_q8h2_c" stoichiometry="1" constant="true"/>
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+              <fbc:geneProductRef fbc:geneProduct="G_b3894"/>
+              <fbc:geneProductRef fbc:geneProduct="G_b3892"/>
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+            <fbc:and>
+              <fbc:geneProductRef fbc:geneProduct="G_b1474"/>
+              <fbc:geneProductRef fbc:geneProduct="G_b1476"/>
+              <fbc:geneProductRef fbc:geneProduct="G_b1475"/>
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+          </fbc:or>
+        </fbc:geneProductAssociation>
+      </reaction>
+      <reaction id="R_FDH5pp" fast="false" reversible="false" name="Formate Dehydrogenase (menaquinone-8) (periplasm)" metaid="R_FDH5pp" sboTerm="SBO:0000185" fbc:upperFluxBound="cobra_default_ub" fbc:lowerFluxBound="cobra_0_bound">
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+          <speciesReference species="M_mqn8_c" stoichiometry="1" constant="true"/>
+        </listOfReactants>
+        <listOfProducts>
+          <speciesReference species="M_co2_p" stoichiometry="1" constant="true"/>
+          <speciesReference species="M_h_p" stoichiometry="1" constant="true"/>
+          <speciesReference species="M_mql8_c" stoichiometry="1" constant="true"/>
+        </listOfProducts>
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+              <fbc:geneProductRef fbc:geneProduct="G_b1476"/>
+              <fbc:geneProductRef fbc:geneProduct="G_b1475"/>
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+              <fbc:geneProductRef fbc:geneProduct="G_b3894"/>
+              <fbc:geneProductRef fbc:geneProduct="G_b3892"/>
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+          </fbc:or>
+        </fbc:geneProductAssociation>
+      </reaction>
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+          <speciesReference species="M_myrsACP_c" stoichiometry="1" constant="true"/>
+          <speciesReference species="M_pi_c" stoichiometry="1" constant="true"/>
+        </listOfReactants>
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+          <speciesReference species="M_ACP_c" stoichiometry="1" constant="true"/>
+          <speciesReference species="M_ttdcap_c" stoichiometry="1" constant="true"/>
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+            <fbc:geneProductRef fbc:geneProduct="G_b1090"/>
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+        <sbml:annotation xmlns:sbml="http://www.sbml.org/sbml/level3/version1/core">
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+          <fbc:geneProductRef fbc:geneProduct="G_b3059"/>
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+        <fbc:geneProductAssociation>
+          <fbc:geneProductRef fbc:geneProduct="G_b1285"/>
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+          <fbc:geneProductRef fbc:geneProduct="G_b3059"/>
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+          <speciesReference species="M_moadcosh_c" stoichiometry="1" constant="true"/>
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+          <speciesReference species="M_ocdceap_c" stoichiometry="1" constant="true"/>
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+          <fbc:geneProductRef fbc:geneProduct="G_b3059"/>
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+          <speciesReference species="M_ttdca_c" stoichiometry="1" constant="true"/>
+        </listOfProducts>
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+          <fbc:geneProductRef fbc:geneProduct="G_b0968"/>
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+        </listOfProducts>
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+          <fbc:geneProductRef fbc:geneProduct="G_b0968"/>
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+          <fbc:geneProductRef fbc:geneProduct="G_b0180"/>
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+        </listOfProducts>
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+                  <rdf:li rdf:resource="http://identifiers.org/metanetx.reaction/MNXR95855"/>
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+          <speciesReference species="M_pimACP_c" stoichiometry="1" constant="true"/>
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+        <listOfProducts>
+          <speciesReference species="M_8aonn_c" stoichiometry="1" constant="true"/>
+          <speciesReference species="M_ACP_c" stoichiometry="1" constant="true"/>
+          <speciesReference species="M_co2_c" stoichiometry="1" constant="true"/>
+        </listOfProducts>
+        <fbc:geneProductAssociation>
+          <fbc:geneProductRef fbc:geneProduct="G_b0776"/>
+        </fbc:geneProductAssociation>
+      </reaction>
+      <reaction id="R_MINCYCtpp" fast="false" reversible="false" name="Minocycline transport via TolC system" metaid="R_MINCYCtpp" sboTerm="SBO:0000185" fbc:upperFluxBound="cobra_default_ub" fbc:lowerFluxBound="cobra_0_bound">
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+        <listOfProducts>
+          <speciesReference species="M_h_c" stoichiometry="1" constant="true"/>
+          <speciesReference species="M_mincyc_e" stoichiometry="1" constant="true"/>
+        </listOfProducts>
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+              <fbc:geneProductRef fbc:geneProduct="G_b3035"/>
+              <fbc:geneProductRef fbc:geneProduct="G_b2470"/>
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+              <fbc:geneProductRef fbc:geneProduct="G_b0463"/>
+              <fbc:geneProductRef fbc:geneProduct="G_b3035"/>
+              <fbc:geneProductRef fbc:geneProduct="G_b0462"/>
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+                  <rdf:li rdf:resource="http://identifiers.org/rhea/34872"/>
+                  <rdf:li rdf:resource="http://identifiers.org/rhea/34874"/>
+                  <rdf:li rdf:resource="http://identifiers.org/rhea/34871"/>
+                  <rdf:li rdf:resource="http://identifiers.org/seed.reaction/rxn10570"/>
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+        <listOfProducts>
+          <speciesReference species="M_meoh_c" stoichiometry="1" constant="true"/>
+        </listOfProducts>
+        <fbc:geneProductAssociation>
+          <fbc:geneProductRef fbc:geneProduct="G_s0001"/>
+        </fbc:geneProductAssociation>
+      </reaction>
+      <reaction id="R_EX_LalaDglu_e" fast="false" reversible="false" name="L-alanine-D-glutamate exchange" metaid="R_EX_LalaDglu_e" sboTerm="SBO:0000627" fbc:upperFluxBound="cobra_default_ub" fbc:lowerFluxBound="cobra_0_bound">
+        <sbml:annotation xmlns:sbml="http://www.sbml.org/sbml/level3/version1/core">
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+              <bqbiol:is xmlns:bqbiol="http://biomodels.net/biology-qualifiers/">
+                <rdf:Bag>
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+                  <rdf:li rdf:resource="http://identifiers.org/metanetx.reaction/MNXR101003"/>
+                  <rdf:li rdf:resource="http://identifiers.org/rhea/35127"/>
+                  <rdf:li rdf:resource="http://identifiers.org/rhea/35128"/>
+                  <rdf:li rdf:resource="http://identifiers.org/rhea/35129"/>
+                  <rdf:li rdf:resource="http://identifiers.org/rhea/35130"/>
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+          <speciesReference species="M_LalaDglu_e" stoichiometry="1" constant="true"/>
+        </listOfReactants>
+      </reaction>
+      <reaction id="R_SCYSDS" fast="false" reversible="false" name="SUF Cysteine desulfuration" metaid="R_SCYSDS" sboTerm="SBO:0000176" fbc:upperFluxBound="cobra_default_ub" fbc:lowerFluxBound="cobra_0_bound">
+        <sbml:annotation xmlns:sbml="http://www.sbml.org/sbml/level3/version1/core">
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+                <rdf:Bag>
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+                  <rdf:li rdf:resource="http://identifiers.org/metanetx.reaction/MNXR104298"/>
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+        </sbml:annotation>
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+          <speciesReference species="M_cys__L_c" stoichiometry="1" constant="true"/>
+          <speciesReference species="M_sufse_c" stoichiometry="1" constant="true"/>
+        </listOfReactants>
+        <listOfProducts>
+          <speciesReference species="M_ala__L_c" stoichiometry="1" constant="true"/>
+          <speciesReference species="M_sufsesh_c" stoichiometry="1" constant="true"/>
+        </listOfProducts>
+        <fbc:geneProductAssociation>
+          <fbc:and>
+            <fbc:geneProductRef fbc:geneProduct="G_b1680"/>
+            <fbc:geneProductRef fbc:geneProduct="G_b1679"/>
+          </fbc:and>
+        </fbc:geneProductAssociation>
+      </reaction>
+      <reaction id="R_DOXRBCNtex" fast="false" reversible="true" name="Doxorubicin transport via diffusion (extracellular to periplasm)" metaid="R_DOXRBCNtex" sboTerm="SBO:0000185" fbc:upperFluxBound="cobra_default_ub" fbc:lowerFluxBound="cobra_default_lb">
+        <sbml:annotation xmlns:sbml="http://www.sbml.org/sbml/level3/version1/core">
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+              <bqbiol:is xmlns:bqbiol="http://biomodels.net/biology-qualifiers/">
+                <rdf:Bag>
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+                  <rdf:li rdf:resource="http://identifiers.org/metanetx.reaction/MNXR97760"/>
+                  <rdf:li rdf:resource="http://identifiers.org/rhea/35079"/>
+                  <rdf:li rdf:resource="http://identifiers.org/rhea/35081"/>
+                  <rdf:li rdf:resource="http://identifiers.org/rhea/35080"/>
+                  <rdf:li rdf:resource="http://identifiers.org/rhea/35082"/>
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+          <speciesReference species="M_doxrbcn_e" stoichiometry="1" constant="true"/>
+        </listOfReactants>
+        <listOfProducts>
+          <speciesReference species="M_doxrbcn_p" stoichiometry="1" constant="true"/>
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+        <fbc:geneProductAssociation>
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+            <fbc:geneProductRef fbc:geneProduct="G_b0929"/>
+            <fbc:geneProductRef fbc:geneProduct="G_b2215"/>
+            <fbc:geneProductRef fbc:geneProduct="G_b1377"/>
+            <fbc:geneProductRef fbc:geneProduct="G_b0241"/>
+          </fbc:or>
+        </fbc:geneProductAssociation>
+      </reaction>
+      <reaction id="R_DOXRBCNtpp" fast="false" reversible="false" name="Doxorubicin transport via TolC system" metaid="R_DOXRBCNtpp" sboTerm="SBO:0000185" fbc:upperFluxBound="cobra_default_ub" fbc:lowerFluxBound="cobra_0_bound">
+        <sbml:annotation xmlns:sbml="http://www.sbml.org/sbml/level3/version1/core">
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+            <rdf:Description rdf:about="#R_DOXRBCNtpp">
+              <bqbiol:is xmlns:bqbiol="http://biomodels.net/biology-qualifiers/">
+                <rdf:Bag>
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+                  <rdf:li rdf:resource="http://identifiers.org/metanetx.reaction/MNXR97761"/>
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+        </sbml:annotation>
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+          <speciesReference species="M_doxrbcn_p" stoichiometry="1" constant="true"/>
+          <speciesReference species="M_h_p" stoichiometry="1" constant="true"/>
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+        <listOfProducts>
+          <speciesReference species="M_doxrbcn_e" stoichiometry="1" constant="true"/>
+          <speciesReference species="M_h_c" stoichiometry="1" constant="true"/>
+        </listOfProducts>
+        <fbc:geneProductAssociation>
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+              <fbc:geneProductRef fbc:geneProduct="G_b0463"/>
+              <fbc:geneProductRef fbc:geneProduct="G_b3035"/>
+              <fbc:geneProductRef fbc:geneProduct="G_b0462"/>
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+            <fbc:and>
+              <fbc:geneProductRef fbc:geneProduct="G_b0463"/>
+              <fbc:geneProductRef fbc:geneProduct="G_b3035"/>
+              <fbc:geneProductRef fbc:geneProduct="G_b2470"/>
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+          </fbc:or>
+        </fbc:geneProductAssociation>
+      </reaction>
+      <reaction id="R_S2FE2SS" fast="false" reversible="false" name="SUF [2Fe-2S] Synthesis" metaid="R_S2FE2SS" sboTerm="SBO:0000176" fbc:upperFluxBound="cobra_default_ub" fbc:lowerFluxBound="cobra_0_bound">
+        <sbml:annotation xmlns:sbml="http://www.sbml.org/sbml/level3/version1/core">
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+              <bqbiol:is xmlns:bqbiol="http://biomodels.net/biology-qualifiers/">
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+                  <rdf:li rdf:resource="http://identifiers.org/metanetx.reaction/MNXR104150"/>
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+          <speciesReference species="M_fadh2_c" stoichiometry="1" constant="true"/>
+          <speciesReference species="M_fe2_c" stoichiometry="2" constant="true"/>
+          <speciesReference species="M_h2o_c" stoichiometry="1" constant="true"/>
+          <speciesReference species="M_sufbcd_c" stoichiometry="1" constant="true"/>
+          <speciesReference species="M_sufsesh_c" stoichiometry="2" constant="true"/>
+        </listOfReactants>
+        <listOfProducts>
+          <speciesReference species="M_adp_c" stoichiometry="1" constant="true"/>
+          <speciesReference species="M_fad_c" stoichiometry="1" constant="true"/>
+          <speciesReference species="M_h_c" stoichiometry="7" constant="true"/>
+          <speciesReference species="M_pi_c" stoichiometry="1" constant="true"/>
+          <speciesReference species="M_sufbcd_2fe2s_c" stoichiometry="1" constant="true"/>
+          <speciesReference species="M_sufse_c" stoichiometry="2" constant="true"/>
+        </listOfProducts>
+        <fbc:geneProductAssociation>
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+            <fbc:geneProductRef fbc:geneProduct="G_b1680"/>
+            <fbc:geneProductRef fbc:geneProduct="G_b1683"/>
+            <fbc:geneProductRef fbc:geneProduct="G_b1681"/>
+            <fbc:geneProductRef fbc:geneProduct="G_b1682"/>
+            <fbc:geneProductRef fbc:geneProduct="G_b1679"/>
+          </fbc:and>
+        </fbc:geneProductAssociation>
+      </reaction>
+      <reaction id="R_S4FE4SR" fast="false" reversible="false" name="SUF [4Fe-4S] Reduction" metaid="R_S4FE4SR" sboTerm="SBO:0000176" fbc:upperFluxBound="cobra_default_ub" fbc:lowerFluxBound="cobra_0_bound">
+        <sbml:annotation xmlns:sbml="http://www.sbml.org/sbml/level3/version1/core">
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+          <speciesReference species="M_h_c" stoichiometry="2" constant="true"/>
+          <speciesReference species="M_sufbcd_2fe2s2_c" stoichiometry="1" constant="true"/>
+        </listOfReactants>
+        <listOfProducts>
+          <speciesReference species="M_fad_c" stoichiometry="1" constant="true"/>
+          <speciesReference species="M_sufbcd_4fe4s_c" stoichiometry="1" constant="true"/>
+        </listOfProducts>
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+          <fbc:and>
+            <fbc:geneProductRef fbc:geneProduct="G_b1682"/>
+            <fbc:geneProductRef fbc:geneProduct="G_b1681"/>
+            <fbc:geneProductRef fbc:geneProduct="G_b1683"/>
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+        </fbc:geneProductAssociation>
+      </reaction>
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+        <sbml:annotation xmlns:sbml="http://www.sbml.org/sbml/level3/version1/core">
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+              <bqbiol:is xmlns:bqbiol="http://biomodels.net/biology-qualifiers/">
+                <rdf:Bag>
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+                  <rdf:li rdf:resource="http://identifiers.org/rhea/27984"/>
+                  <rdf:li rdf:resource="http://identifiers.org/rhea/27983"/>
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+          <speciesReference species="M_atp_c" stoichiometry="1" constant="true"/>
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+          <speciesReference species="M_nh4_c" stoichiometry="1" constant="true"/>
+        </listOfReactants>
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+          <speciesReference species="M_adp_c" stoichiometry="1" constant="true"/>
+          <speciesReference species="M_h2o_c" stoichiometry="1" constant="true"/>
+          <speciesReference species="M_h_c" stoichiometry="1" constant="true"/>
+          <speciesReference species="M_pi_c" stoichiometry="1" constant="true"/>
+          <speciesReference species="M_preq0_c" stoichiometry="1" constant="true"/>
+        </listOfProducts>
+        <fbc:geneProductAssociation>
+          <fbc:geneProductRef fbc:geneProduct="G_b0444"/>
+        </fbc:geneProductAssociation>
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+                  <rdf:li rdf:resource="http://identifiers.org/rhea/34887"/>
+                  <rdf:li rdf:resource="http://identifiers.org/rhea/34888"/>
+                  <rdf:li rdf:resource="http://identifiers.org/rhea/34890"/>
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+            <fbc:geneProductRef fbc:geneProduct="G_b0929"/>
+            <fbc:geneProductRef fbc:geneProduct="G_b2215"/>
+            <fbc:geneProductRef fbc:geneProduct="G_b0241"/>
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+        </fbc:geneProductAssociation>
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+                  <rdf:li rdf:resource="http://identifiers.org/metanetx.reaction/MNXR104323"/>
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+                  <rdf:li rdf:resource="http://identifiers.org/rhea/34942"/>
+                  <rdf:li rdf:resource="http://identifiers.org/rhea/34941"/>
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+          <speciesReference species="M_h2o_c" stoichiometry="1" constant="true"/>
+          <speciesReference species="M_mqn8_c" stoichiometry="1" constant="true"/>
+          <speciesReference species="M_slnt_c" stoichiometry="1" constant="true"/>
+        </listOfProducts>
+        <fbc:geneProductAssociation>
+          <fbc:and>
+            <fbc:geneProductRef fbc:geneProduct="G_b1589"/>
+            <fbc:geneProductRef fbc:geneProduct="G_b1590"/>
+            <fbc:geneProductRef fbc:geneProduct="G_b1588"/>
+            <fbc:geneProductRef fbc:geneProduct="G_b1587"/>
+          </fbc:and>
+        </fbc:geneProductAssociation>
+      </reaction>
+      <reaction id="R_OGMEACPD" fast="false" reversible="false" name="3-Oxo-glutaryl-[ACP] methyl ester dehydratase" metaid="R_OGMEACPD" sboTerm="SBO:0000176" fbc:upperFluxBound="cobra_default_ub" fbc:lowerFluxBound="cobra_0_bound">
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+              <bqbiol:is xmlns:bqbiol="http://biomodels.net/biology-qualifiers/">
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+                  <rdf:li rdf:resource="http://identifiers.org/biocyc/META:RXN-11477"/>
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+                  <rdf:li rdf:resource="http://identifiers.org/metanetx.reaction/MNXR102159"/>
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+              </bqbiol:is>
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+          </rdf:RDF>
+        </sbml:annotation>
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+          <speciesReference species="M_hgmeACP_c" stoichiometry="1" constant="true"/>
+        </listOfReactants>
+        <listOfProducts>
+          <speciesReference species="M_egmeACP_c" stoichiometry="1" constant="true"/>
+          <speciesReference species="M_h2o_c" stoichiometry="1" constant="true"/>
+        </listOfProducts>
+        <fbc:geneProductAssociation>
+          <fbc:geneProductRef fbc:geneProduct="G_b0180"/>
+        </fbc:geneProductAssociation>
+      </reaction>
+      <reaction id="R_EGMEACPR" fast="false" reversible="false" name="Enoylglutaryl-[ACP] methyl ester reductase" metaid="R_EGMEACPR" sboTerm="SBO:0000176" fbc:upperFluxBound="cobra_default_ub" fbc:lowerFluxBound="cobra_0_bound">
+        <sbml:annotation xmlns:sbml="http://www.sbml.org/sbml/level3/version1/core">
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+                  <rdf:li rdf:resource="http://identifiers.org/kegg.reaction/R10118"/>
+                  <rdf:li rdf:resource="http://identifiers.org/metanetx.reaction/MNXR97906"/>
+                </rdf:Bag>
+              </bqbiol:is>
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+        </sbml:annotation>
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+          <speciesReference species="M_h_c" stoichiometry="1" constant="true"/>
+          <speciesReference species="M_nadph_c" stoichiometry="1" constant="true"/>
+        </listOfReactants>
+        <listOfProducts>
+          <speciesReference species="M_gmeACP_c" stoichiometry="1" constant="true"/>
+          <speciesReference species="M_nadp_c" stoichiometry="1" constant="true"/>
+        </listOfProducts>
+        <fbc:geneProductAssociation>
+          <fbc:geneProductRef fbc:geneProduct="G_b1288"/>
+        </fbc:geneProductAssociation>
+      </reaction>
+      <reaction id="R_OPMEACPR" fast="false" reversible="false" name="3-Oxo-pimeloyl-[ACP] methyl ester reductase" metaid="R_OPMEACPR" sboTerm="SBO:0000176" fbc:upperFluxBound="cobra_default_ub" fbc:lowerFluxBound="cobra_0_bound">
+        <sbml:annotation xmlns:sbml="http://www.sbml.org/sbml/level3/version1/core">
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+                <rdf:Bag>
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+                  <rdf:li rdf:resource="http://identifiers.org/metanetx.reaction/MNXR102207"/>
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+              </bqbiol:is>
+            </rdf:Description>
+          </rdf:RDF>
+        </sbml:annotation>
+        <listOfReactants>
+          <speciesReference species="M_h_c" stoichiometry="1" constant="true"/>
+          <speciesReference species="M_nadph_c" stoichiometry="1" constant="true"/>
+          <speciesReference species="M_opmeACP_c" stoichiometry="1" constant="true"/>
+        </listOfReactants>
+        <listOfProducts>
+          <speciesReference species="M_hpmeACP_c" stoichiometry="1" constant="true"/>
+          <speciesReference species="M_nadp_c" stoichiometry="1" constant="true"/>
+        </listOfProducts>
+        <fbc:geneProductAssociation>
+          <fbc:geneProductRef fbc:geneProduct="G_b1093"/>
+        </fbc:geneProductAssociation>
+      </reaction>
+      <reaction id="R_PMEACPE" fast="false" reversible="false" name="Pimeloyl-[ACP] methyl ester esterase" metaid="R_PMEACPE" sboTerm="SBO:0000176" fbc:upperFluxBound="cobra_default_ub" fbc:lowerFluxBound="cobra_0_bound">
+        <sbml:annotation xmlns:sbml="http://www.sbml.org/sbml/level3/version1/core">
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+              <bqbiol:is xmlns:bqbiol="http://biomodels.net/biology-qualifiers/">
+                <rdf:Bag>
+                  <rdf:li rdf:resource="http://identifiers.org/bigg.reaction/PMEACPE"/>
+                  <rdf:li rdf:resource="http://identifiers.org/biocyc/META:RXN-11483"/>
+                  <rdf:li rdf:resource="http://identifiers.org/ec-code/3.1.1.85"/>
+                  <rdf:li rdf:resource="http://identifiers.org/kegg.reaction/R09725"/>
+                  <rdf:li rdf:resource="http://identifiers.org/metanetx.reaction/MNXR103041"/>
+                </rdf:Bag>
+              </bqbiol:is>
+            </rdf:Description>
+          </rdf:RDF>
+        </sbml:annotation>
+        <listOfReactants>
+          <speciesReference species="M_h2o_c" stoichiometry="1" constant="true"/>
+          <speciesReference species="M_pmeACP_c" stoichiometry="1" constant="true"/>
+        </listOfReactants>
+        <listOfProducts>
+          <speciesReference species="M_meoh_c" stoichiometry="1" constant="true"/>
+          <speciesReference species="M_pimACP_c" stoichiometry="1" constant="true"/>
+        </listOfProducts>
+        <fbc:geneProductAssociation>
+          <fbc:geneProductRef fbc:geneProduct="G_b3412"/>
+        </fbc:geneProductAssociation>
+      </reaction>
+      <reaction id="R_ETOHtrpp" fast="false" reversible="true" name="Ethanol reversible transport via diffusion (periplasm)" metaid="R_ETOHtrpp" sboTerm="SBO:0000185" fbc:upperFluxBound="cobra_default_ub" fbc:lowerFluxBound="cobra_default_lb">
+        <sbml:annotation xmlns:sbml="http://www.sbml.org/sbml/level3/version1/core">
+          <rdf:RDF xmlns:rdf="http://www.w3.org/1999/02/22-rdf-syntax-ns#">
+            <rdf:Description rdf:about="#R_ETOHtrpp">
+              <bqbiol:is xmlns:bqbiol="http://biomodels.net/biology-qualifiers/">
+                <rdf:Bag>
+                  <rdf:li rdf:resource="http://identifiers.org/bigg.reaction/ETOHtrpp"/>
+                  <rdf:li rdf:resource="http://identifiers.org/biocyc/META:TRANS-RXN0-546"/>
+                  <rdf:li rdf:resource="http://identifiers.org/metanetx.reaction/MNXR97980"/>
+                  <rdf:li rdf:resource="http://identifiers.org/rhea/35269"/>
+                  <rdf:li rdf:resource="http://identifiers.org/rhea/35267"/>
+                  <rdf:li rdf:resource="http://identifiers.org/rhea/35270"/>
+                  <rdf:li rdf:resource="http://identifiers.org/rhea/35268"/>
+                  <rdf:li rdf:resource="http://identifiers.org/seed.reaction/rxn09683"/>
+                  <rdf:li rdf:resource="http://identifiers.org/seed.reaction/rxn08428"/>
+                  <rdf:li rdf:resource="http://identifiers.org/seed.reaction/rxn09764"/>
+                </rdf:Bag>
+              </bqbiol:is>
+            </rdf:Description>
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+        </sbml:annotation>
+        <listOfReactants>
+          <speciesReference species="M_etoh_p" stoichiometry="1" constant="true"/>
+        </listOfReactants>
+        <listOfProducts>
+          <speciesReference species="M_etoh_c" stoichiometry="1" constant="true"/>
+        </listOfProducts>
+        <fbc:geneProductAssociation>
+          <fbc:geneProductRef fbc:geneProduct="G_s0001"/>
+        </fbc:geneProductAssociation>
+      </reaction>
+      <reaction id="R_REPHACCOAI" fast="false" reversible="true" name="Ring 1,2-epoxyphenylacetyl-CoA isomerase (oxepin-CoA forming)" metaid="R_REPHACCOAI" sboTerm="SBO:0000176" fbc:upperFluxBound="cobra_default_ub" fbc:lowerFluxBound="cobra_default_lb">
+        <sbml:annotation xmlns:sbml="http://www.sbml.org/sbml/level3/version1/core">
+          <rdf:RDF xmlns:rdf="http://www.w3.org/1999/02/22-rdf-syntax-ns#">
+            <rdf:Description rdf:about="#R_REPHACCOAI">
+              <bqbiol:is xmlns:bqbiol="http://biomodels.net/biology-qualifiers/">
+                <rdf:Bag>
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+                  <rdf:li rdf:resource="http://identifiers.org/metanetx.reaction/MNXR103993"/>
+                </rdf:Bag>
+              </bqbiol:is>
+            </rdf:Description>
+          </rdf:RDF>
+        </sbml:annotation>
+        <listOfReactants>
+          <speciesReference species="M_rephaccoa_c" stoichiometry="1" constant="true"/>
+        </listOfReactants>
+        <listOfProducts>
+          <speciesReference species="M_2oxpaccoa_c" stoichiometry="1" constant="true"/>
+        </listOfProducts>
+        <fbc:geneProductAssociation>
+          <fbc:geneProductRef fbc:geneProduct="G_b1394"/>
+        </fbc:geneProductAssociation>
+      </reaction>
+      <reaction id="R_ACPPAT141" fast="false" reversible="false" name="Acyl-(acyl carrier protein):phosphate acyltransferase (C14:1)" metaid="R_ACPPAT141" sboTerm="SBO:0000176" fbc:upperFluxBound="cobra_default_ub" fbc:lowerFluxBound="cobra_0_bound">
+        <sbml:annotation xmlns:sbml="http://www.sbml.org/sbml/level3/version1/core">
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+            <rdf:Description rdf:about="#R_ACPPAT141">
+              <bqbiol:is xmlns:bqbiol="http://biomodels.net/biology-qualifiers/">
+                <rdf:Bag>
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+                  <rdf:li rdf:resource="http://identifiers.org/metanetx.reaction/MNXR95397"/>
+                </rdf:Bag>
+              </bqbiol:is>
+            </rdf:Description>
+          </rdf:RDF>
+        </sbml:annotation>
+        <listOfReactants>
+          <speciesReference species="M_h_c" stoichiometry="1" constant="true"/>
+          <speciesReference species="M_pi_c" stoichiometry="1" constant="true"/>
+          <speciesReference species="M_tdeACP_c" stoichiometry="1" constant="true"/>
+        </listOfReactants>
+        <listOfProducts>
+          <speciesReference species="M_ACP_c" stoichiometry="1" constant="true"/>
+          <speciesReference species="M_ttdceap_c" stoichiometry="1" constant="true"/>
+        </listOfProducts>
+        <fbc:geneProductAssociation>
+          <fbc:and>
+            <fbc:geneProductRef fbc:geneProduct="G_b1094"/>
+            <fbc:geneProductRef fbc:geneProduct="G_b1090"/>
+          </fbc:and>
+        </fbc:geneProductAssociation>
+      </reaction>
+      <reaction id="R_ACPPAT161" fast="false" reversible="false" name="Acyl-(acyl carrier protein):phosphate acyltransferase (C16:1)" metaid="R_ACPPAT161" sboTerm="SBO:0000176" fbc:upperFluxBound="cobra_default_ub" fbc:lowerFluxBound="cobra_0_bound">
+        <sbml:annotation xmlns:sbml="http://www.sbml.org/sbml/level3/version1/core">
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+            <rdf:Description rdf:about="#R_ACPPAT161">
+              <bqbiol:is xmlns:bqbiol="http://biomodels.net/biology-qualifiers/">
+                <rdf:Bag>
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+                  <rdf:li rdf:resource="http://identifiers.org/metanetx.reaction/MNXR95399"/>
+                </rdf:Bag>
+              </bqbiol:is>
+            </rdf:Description>
+          </rdf:RDF>
+        </sbml:annotation>
+        <listOfReactants>
+          <speciesReference species="M_h_c" stoichiometry="1" constant="true"/>
+          <speciesReference species="M_hdeACP_c" stoichiometry="1" constant="true"/>
+          <speciesReference species="M_pi_c" stoichiometry="1" constant="true"/>
+        </listOfReactants>
+        <listOfProducts>
+          <speciesReference species="M_ACP_c" stoichiometry="1" constant="true"/>
+          <speciesReference species="M_hdceap_c" stoichiometry="1" constant="true"/>
+        </listOfProducts>
+        <fbc:geneProductAssociation>
+          <fbc:and>
+            <fbc:geneProductRef fbc:geneProduct="G_b1094"/>
+            <fbc:geneProductRef fbc:geneProduct="G_b1090"/>
+          </fbc:and>
+        </fbc:geneProductAssociation>
+      </reaction>
+      <reaction id="R_ACPPAT180" fast="false" reversible="false" name="Acyl-(acyl carrier protein):phosphate acyltransferase (C18:0)" metaid="R_ACPPAT180" sboTerm="SBO:0000176" fbc:upperFluxBound="cobra_default_ub" fbc:lowerFluxBound="cobra_0_bound">
+        <sbml:annotation xmlns:sbml="http://www.sbml.org/sbml/level3/version1/core">
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+            <rdf:Description rdf:about="#R_ACPPAT180">
+              <bqbiol:is xmlns:bqbiol="http://biomodels.net/biology-qualifiers/">
+                <rdf:Bag>
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+                  <rdf:li rdf:resource="http://identifiers.org/metanetx.reaction/MNXR95400"/>
+                </rdf:Bag>
+              </bqbiol:is>
+            </rdf:Description>
+          </rdf:RDF>
+        </sbml:annotation>
+        <listOfReactants>
+          <speciesReference species="M_h_c" stoichiometry="1" constant="true"/>
+          <speciesReference species="M_ocdcaACP_c" stoichiometry="1" constant="true"/>
+          <speciesReference species="M_pi_c" stoichiometry="1" constant="true"/>
+        </listOfReactants>
+        <listOfProducts>
+          <speciesReference species="M_ACP_c" stoichiometry="1" constant="true"/>
+          <speciesReference species="M_ocdcap_c" stoichiometry="1" constant="true"/>
+        </listOfProducts>
+        <fbc:geneProductAssociation>
+          <fbc:and>
+            <fbc:geneProductRef fbc:geneProduct="G_b1094"/>
+            <fbc:geneProductRef fbc:geneProduct="G_b1090"/>
+          </fbc:and>
+        </fbc:geneProductAssociation>
+      </reaction>
+      <reaction id="R_APG3PAT160" fast="false" reversible="false" name="Acyl-phosphate:glycerol-3-phosphate acyltransferase (C16:0)" metaid="R_APG3PAT160" sboTerm="SBO:0000176" fbc:upperFluxBound="cobra_default_ub" fbc:lowerFluxBound="cobra_0_bound">
+        <sbml:annotation xmlns:sbml="http://www.sbml.org/sbml/level3/version1/core">
+          <rdf:RDF xmlns:rdf="http://www.w3.org/1999/02/22-rdf-syntax-ns#">
+            <rdf:Description rdf:about="#R_APG3PAT160">
+              <bqbiol:is xmlns:bqbiol="http://biomodels.net/biology-qualifiers/">
+                <rdf:Bag>
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+                  <rdf:li rdf:resource="http://identifiers.org/metanetx.reaction/MNXR95872"/>
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+              </bqbiol:is>
+            </rdf:Description>
+          </rdf:RDF>
+        </sbml:annotation>
+        <listOfReactants>
+          <speciesReference species="M_glyc3p_c" stoichiometry="1" constant="true"/>
+          <speciesReference species="M_hdcap_c" stoichiometry="1" constant="true"/>
+        </listOfReactants>
+        <listOfProducts>
+          <speciesReference species="M_1hdecg3p_c" stoichiometry="1" constant="true"/>
+          <speciesReference species="M_h_c" stoichiometry="1" constant="true"/>
+          <speciesReference species="M_pi_c" stoichiometry="1" constant="true"/>
+        </listOfProducts>
+        <fbc:geneProductAssociation>
+          <fbc:geneProductRef fbc:geneProduct="G_b3059"/>
+        </fbc:geneProductAssociation>
+      </reaction>
+      <reaction id="R_APG3PAT161" fast="false" reversible="false" name="Acyl-phosphate:glycerol-3-phosphate acyltransferase (C16:1)" metaid="R_APG3PAT161" sboTerm="SBO:0000176" fbc:upperFluxBound="cobra_default_ub" fbc:lowerFluxBound="cobra_0_bound">
+        <sbml:annotation xmlns:sbml="http://www.sbml.org/sbml/level3/version1/core">
+          <rdf:RDF xmlns:rdf="http://www.w3.org/1999/02/22-rdf-syntax-ns#">
+            <rdf:Description rdf:about="#R_APG3PAT161">
+              <bqbiol:is xmlns:bqbiol="http://biomodels.net/biology-qualifiers/">
+                <rdf:Bag>
+                  <rdf:li rdf:resource="http://identifiers.org/bigg.reaction/APG3PAT161"/>
+                  <rdf:li rdf:resource="http://identifiers.org/metanetx.reaction/MNXR95873"/>
+                </rdf:Bag>
+              </bqbiol:is>
+            </rdf:Description>
+          </rdf:RDF>
+        </sbml:annotation>
+        <listOfReactants>
+          <speciesReference species="M_glyc3p_c" stoichiometry="1" constant="true"/>
+          <speciesReference species="M_hdceap_c" stoichiometry="1" constant="true"/>
+        </listOfReactants>
+        <listOfProducts>
+          <speciesReference species="M_1hdec9eg3p_c" stoichiometry="1" constant="true"/>
+          <speciesReference species="M_h_c" stoichiometry="1" constant="true"/>
+          <speciesReference species="M_pi_c" stoichiometry="1" constant="true"/>
+        </listOfProducts>
+        <fbc:geneProductAssociation>
+          <fbc:geneProductRef fbc:geneProduct="G_b3059"/>
+        </fbc:geneProductAssociation>
+      </reaction>
+      <reaction id="R_MEOHtex" fast="false" reversible="true" name="Methanol transport via diffusion (extracellular to periplasm)" metaid="R_MEOHtex" sboTerm="SBO:0000185" fbc:upperFluxBound="cobra_default_ub" fbc:lowerFluxBound="cobra_default_lb">
+        <sbml:annotation xmlns:sbml="http://www.sbml.org/sbml/level3/version1/core">
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+            <rdf:Description rdf:about="#R_MEOHtex">
+              <bqbiol:is xmlns:bqbiol="http://biomodels.net/biology-qualifiers/">
+                <rdf:Bag>
+                  <rdf:li rdf:resource="http://identifiers.org/bigg.reaction/MEOHtex"/>
+                  <rdf:li rdf:resource="http://identifiers.org/biocyc/META:TRANS-RXN0-459"/>
+                  <rdf:li rdf:resource="http://identifiers.org/metanetx.reaction/MNXR101464"/>
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+                  <rdf:li rdf:resource="http://identifiers.org/rhea/34872"/>
+                  <rdf:li rdf:resource="http://identifiers.org/rhea/34874"/>
+                  <rdf:li rdf:resource="http://identifiers.org/rhea/34871"/>
+                  <rdf:li rdf:resource="http://identifiers.org/seed.reaction/rxn10570"/>
+                </rdf:Bag>
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+            </rdf:Description>
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+        </sbml:annotation>
+        <listOfReactants>
+          <speciesReference species="M_meoh_e" stoichiometry="1" constant="true"/>
+        </listOfReactants>
+        <listOfProducts>
+          <speciesReference species="M_meoh_p" stoichiometry="1" constant="true"/>
+        </listOfProducts>
+        <fbc:geneProductAssociation>
+          <fbc:or>
+            <fbc:geneProductRef fbc:geneProduct="G_b0929"/>
+            <fbc:geneProductRef fbc:geneProduct="G_b1377"/>
+            <fbc:geneProductRef fbc:geneProduct="G_b2215"/>
+            <fbc:geneProductRef fbc:geneProduct="G_b0241"/>
+          </fbc:or>
+        </fbc:geneProductAssociation>
+      </reaction>
+      <reaction id="R_EX_5mtr_e" fast="false" reversible="false" name="5-Methylthio-D-ribose exchange" metaid="R_EX_5mtr_e" sboTerm="SBO:0000627" fbc:upperFluxBound="cobra_default_ub" fbc:lowerFluxBound="cobra_0_bound">
+        <sbml:annotation xmlns:sbml="http://www.sbml.org/sbml/level3/version1/core">
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+              <bqbiol:is xmlns:bqbiol="http://biomodels.net/biology-qualifiers/">
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+                  <rdf:li rdf:resource="http://identifiers.org/biocyc/META:TRANS-RXN0-461"/>
+                  <rdf:li rdf:resource="http://identifiers.org/metanetx.reaction/MNXR95091"/>
+                  <rdf:li rdf:resource="http://identifiers.org/rhea/34955"/>
+                  <rdf:li rdf:resource="http://identifiers.org/rhea/34958"/>
+                  <rdf:li rdf:resource="http://identifiers.org/rhea/34956"/>
+                  <rdf:li rdf:resource="http://identifiers.org/rhea/34957"/>
+                </rdf:Bag>
+              </bqbiol:is>
+            </rdf:Description>
+          </rdf:RDF>
+        </sbml:annotation>
+        <listOfReactants>
+          <speciesReference species="M_5mtr_e" stoichiometry="1" constant="true"/>
+        </listOfReactants>
+      </reaction>
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+      <reaction id="R_ICYSDS" fast="false" reversible="false" name="ISC Cysteine desulfuration" metaid="R_ICYSDS" sboTerm="SBO:0000176" fbc:upperFluxBound="cobra_default_ub" fbc:lowerFluxBound="cobra_0_bound">
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+          <speciesReference species="M_h2mb4p_c" stoichiometry="1" constant="true"/>
+          <speciesReference species="M_h2o_c" stoichiometry="1" constant="true"/>
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+          <speciesReference species="M_preq0_c" stoichiometry="1" constant="true"/>
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+          <speciesReference species="M_preq1_c" stoichiometry="1" constant="true"/>
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+          <fbc:geneProductRef fbc:geneProduct="G_b2794"/>
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+            <fbc:geneProductRef fbc:geneProduct="G_b1683"/>
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+          </rdf:RDF>
+        </sbml:annotation>
+        <listOfReactants>
+          <speciesReference species="M_flxr_c" stoichiometry="2" constant="true"/>
+          <speciesReference species="M_h_c" stoichiometry="2" constant="true"/>
+          <speciesReference species="M_utp_c" stoichiometry="1" constant="true"/>
+        </listOfReactants>
+        <listOfProducts>
+          <speciesReference species="M_dutp_c" stoichiometry="1" constant="true"/>
+          <speciesReference species="M_flxso_c" stoichiometry="2" constant="true"/>
+          <speciesReference species="M_h2o_c" stoichiometry="1" constant="true"/>
+        </listOfProducts>
+        <fbc:geneProductAssociation>
+          <fbc:or>
+            <fbc:and>
+              <fbc:geneProductRef fbc:geneProduct="G_b3924"/>
+              <fbc:geneProductRef fbc:geneProduct="G_b0684"/>
+              <fbc:geneProductRef fbc:geneProduct="G_b4238"/>
+              <fbc:geneProductRef fbc:geneProduct="G_b4237"/>
+            </fbc:and>
+            <fbc:and>
+              <fbc:geneProductRef fbc:geneProduct="G_b3924"/>
+              <fbc:geneProductRef fbc:geneProduct="G_b2895"/>
+              <fbc:geneProductRef fbc:geneProduct="G_b4238"/>
+              <fbc:geneProductRef fbc:geneProduct="G_b4237"/>
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+            <fbc:and>
+              <fbc:geneProductRef fbc:geneProduct="G_b0684"/>
+              <fbc:geneProductRef fbc:geneProduct="G_b4238"/>
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+            <fbc:and>
+              <fbc:geneProductRef fbc:geneProduct="G_b2895"/>
+              <fbc:geneProductRef fbc:geneProduct="G_b4238"/>
+            </fbc:and>
+          </fbc:or>
+        </fbc:geneProductAssociation>
+      </reaction>
+      <reaction id="R_BWCOGDS1" fast="false" reversible="false" name="Tungsten bispterin guanine dinucleotide synthase (single GDP)" metaid="R_BWCOGDS1" sboTerm="SBO:0000176" fbc:upperFluxBound="cobra_default_ub" fbc:lowerFluxBound="cobra_0_bound">
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+            </rdf:Description>
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+        </sbml:annotation>
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+          <speciesReference species="M_gtp_c" stoichiometry="1" constant="true"/>
+          <speciesReference species="M_h_c" stoichiometry="1" constant="true"/>
+        </listOfReactants>
+        <listOfProducts>
+          <speciesReference species="M_bwco1gdp_c" stoichiometry="1" constant="true"/>
+          <speciesReference species="M_ppi_c" stoichiometry="1" constant="true"/>
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+              <fbc:geneProductRef fbc:geneProduct="G_b3857"/>
+              <fbc:geneProductRef fbc:geneProduct="G_b3856"/>
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+            <fbc:geneProductRef fbc:geneProduct="G_b3857"/>
+          </fbc:or>
+        </fbc:geneProductAssociation>
+      </reaction>
+      <reaction id="R_BWCOGDS2" fast="false" reversible="false" name="Tungsten bispterin guanine dinucleotide synthase" metaid="R_BWCOGDS2" sboTerm="SBO:0000176" fbc:upperFluxBound="cobra_default_ub" fbc:lowerFluxBound="cobra_0_bound">
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+        </sbml:annotation>
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+          <speciesReference species="M_bwco1gdp_c" stoichiometry="1" constant="true"/>
+          <speciesReference species="M_gtp_c" stoichiometry="1" constant="true"/>
+          <speciesReference species="M_h_c" stoichiometry="1" constant="true"/>
+        </listOfReactants>
+        <listOfProducts>
+          <speciesReference species="M_bwcogdp_c" stoichiometry="1" constant="true"/>
+          <speciesReference species="M_ppi_c" stoichiometry="1" constant="true"/>
+        </listOfProducts>
+        <fbc:geneProductAssociation>
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+              <fbc:geneProductRef fbc:geneProduct="G_b3857"/>
+              <fbc:geneProductRef fbc:geneProduct="G_b3856"/>
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+            <fbc:geneProductRef fbc:geneProduct="G_b3857"/>
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+        </fbc:geneProductAssociation>
+      </reaction>
+      <reaction id="R_FLDR2" fast="false" reversible="false" name="Flavodoxin reductase (NADPH)" metaid="R_FLDR2" sboTerm="SBO:0000176" fbc:upperFluxBound="cobra_default_ub" fbc:lowerFluxBound="cobra_0_bound">
+        <sbml:annotation xmlns:sbml="http://www.sbml.org/sbml/level3/version1/core">
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+            <rdf:Description rdf:about="#R_FLDR2">
+              <bqbiol:is xmlns:bqbiol="http://biomodels.net/biology-qualifiers/">
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+                  <rdf:li rdf:resource="http://identifiers.org/metanetx.reaction/MNXR99599"/>
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+              </bqbiol:is>
+            </rdf:Description>
+          </rdf:RDF>
+        </sbml:annotation>
+        <listOfReactants>
+          <speciesReference species="M_flxso_c" stoichiometry="2" constant="true"/>
+          <speciesReference species="M_nadph_c" stoichiometry="1" constant="true"/>
+        </listOfReactants>
+        <listOfProducts>
+          <speciesReference species="M_flxr_c" stoichiometry="2" constant="true"/>
+          <speciesReference species="M_h_c" stoichiometry="1" constant="true"/>
+          <speciesReference species="M_nadp_c" stoichiometry="1" constant="true"/>
+        </listOfProducts>
+        <fbc:geneProductAssociation>
+          <fbc:or>
+            <fbc:and>
+              <fbc:geneProductRef fbc:geneProduct="G_b3924"/>
+              <fbc:geneProductRef fbc:geneProduct="G_b2895"/>
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+            <fbc:and>
+              <fbc:geneProductRef fbc:geneProduct="G_b3924"/>
+              <fbc:geneProductRef fbc:geneProduct="G_b0684"/>
+            </fbc:and>
+          </fbc:or>
+        </fbc:geneProductAssociation>
+      </reaction>
+      <reaction id="R_CDGS" fast="false" reversible="false" name="7-deaza-7-carboxyguanine synthase" metaid="R_CDGS" sboTerm="SBO:0000176" fbc:upperFluxBound="cobra_default_ub" fbc:lowerFluxBound="cobra_0_bound">
+        <sbml:annotation xmlns:sbml="http://www.sbml.org/sbml/level3/version1/core">
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+              <bqbiol:is xmlns:bqbiol="http://biomodels.net/biology-qualifiers/">
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+                  <rdf:li rdf:resource="http://identifiers.org/biocyc/META:RXN0-6575"/>
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+                  <rdf:li rdf:resource="http://identifiers.org/metanetx.reaction/MNXR96522"/>
+                  <rdf:li rdf:resource="http://identifiers.org/rhea/27974"/>
+                  <rdf:li rdf:resource="http://identifiers.org/rhea/27976"/>
+                  <rdf:li rdf:resource="http://identifiers.org/rhea/27977"/>
+                  <rdf:li rdf:resource="http://identifiers.org/rhea/27975"/>
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+        </sbml:annotation>
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+          <speciesReference species="M_cph4_c" stoichiometry="1" constant="true"/>
+          <speciesReference species="M_h_c" stoichiometry="1" constant="true"/>
+        </listOfReactants>
+        <listOfProducts>
+          <speciesReference species="M_cdg_c" stoichiometry="1" constant="true"/>
+          <speciesReference species="M_nh4_c" stoichiometry="1" constant="true"/>
+        </listOfProducts>
+      </reaction>
+      <reaction id="R_5MTRtpp" fast="false" reversible="false" name="5-Methylthio-D-ribose transport via proton symport (periplasm)" metaid="R_5MTRtpp" sboTerm="SBO:0000185" fbc:upperFluxBound="cobra_default_ub" fbc:lowerFluxBound="cobra_0_bound">
+        <sbml:annotation xmlns:sbml="http://www.sbml.org/sbml/level3/version1/core">
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+            <rdf:Description rdf:about="#R_5MTRtpp">
+              <bqbiol:is xmlns:bqbiol="http://biomodels.net/biology-qualifiers/">
+                <rdf:Bag>
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+                  <rdf:li rdf:resource="http://identifiers.org/metanetx.reaction/MNXR95090"/>
+                  <rdf:li rdf:resource="http://identifiers.org/seed.reaction/rxn05481"/>
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+              </bqbiol:is>
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+          </rdf:RDF>
+        </sbml:annotation>
+        <listOfReactants>
+          <speciesReference species="M_5mtr_c" stoichiometry="1" constant="true"/>
+          <speciesReference species="M_h_c" stoichiometry="1" constant="true"/>
+        </listOfReactants>
+        <listOfProducts>
+          <speciesReference species="M_5mtr_p" stoichiometry="1" constant="true"/>
+          <speciesReference species="M_h_p" stoichiometry="1" constant="true"/>
+        </listOfProducts>
+      </reaction>
+      <reaction id="R_TTRCYCtex" fast="false" reversible="true" name="Tetracycline transport via diffusion (extracellular to periplasm)" metaid="R_TTRCYCtex" sboTerm="SBO:0000185" fbc:upperFluxBound="cobra_default_ub" fbc:lowerFluxBound="cobra_default_lb">
+        <sbml:annotation xmlns:sbml="http://www.sbml.org/sbml/level3/version1/core">
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+              <bqbiol:is xmlns:bqbiol="http://biomodels.net/biology-qualifiers/">
+                <rdf:Bag>
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+                  <rdf:li rdf:resource="http://identifiers.org/metanetx.reaction/MNXR104976"/>
+                  <rdf:li rdf:resource="http://identifiers.org/rhea/35242"/>
+                  <rdf:li rdf:resource="http://identifiers.org/rhea/35240"/>
+                  <rdf:li rdf:resource="http://identifiers.org/rhea/35241"/>
+                  <rdf:li rdf:resource="http://identifiers.org/rhea/35239"/>
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+            </rdf:Description>
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+        <listOfReactants>
+          <speciesReference species="M_ttrcyc_e" stoichiometry="1" constant="true"/>
+        </listOfReactants>
+        <listOfProducts>
+          <speciesReference species="M_ttrcyc_p" stoichiometry="1" constant="true"/>
+        </listOfProducts>
+        <fbc:geneProductAssociation>
+          <fbc:or>
+            <fbc:geneProductRef fbc:geneProduct="G_b0929"/>
+            <fbc:geneProductRef fbc:geneProduct="G_b0241"/>
+            <fbc:geneProductRef fbc:geneProduct="G_b1377"/>
+            <fbc:geneProductRef fbc:geneProduct="G_b2215"/>
+          </fbc:or>
+        </fbc:geneProductAssociation>
+      </reaction>
+      <reaction id="R_DHNPTE" fast="false" reversible="true" name="Dihydroneopterin epimerase" metaid="R_DHNPTE" sboTerm="SBO:0000176" fbc:upperFluxBound="cobra_default_ub" fbc:lowerFluxBound="cobra_default_lb">
+        <sbml:annotation xmlns:sbml="http://www.sbml.org/sbml/level3/version1/core">
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+            <rdf:Description rdf:about="#R_DHNPTE">
+              <bqbiol:is xmlns:bqbiol="http://biomodels.net/biology-qualifiers/">
+                <rdf:Bag>
+                  <rdf:li rdf:resource="http://identifiers.org/bigg.reaction/DHNPTE"/>
+                  <rdf:li rdf:resource="http://identifiers.org/metanetx.reaction/MNXR138236"/>
+                </rdf:Bag>
+              </bqbiol:is>
+            </rdf:Description>
+          </rdf:RDF>
+        </sbml:annotation>
+        <listOfReactants>
+          <speciesReference species="M_dhnpt_c" stoichiometry="1" constant="true"/>
+        </listOfReactants>
+        <listOfProducts>
+          <speciesReference species="M_dhmpt_c" stoichiometry="1" constant="true"/>
+        </listOfProducts>
+        <fbc:geneProductAssociation>
+          <fbc:geneProductRef fbc:geneProduct="G_b3058"/>
+        </fbc:geneProductAssociation>
+      </reaction>
+      <reaction id="R_DHMPTR" fast="false" reversible="false" name="Dihydromonapterin reductase" metaid="R_DHMPTR" sboTerm="SBO:0000176" fbc:upperFluxBound="cobra_default_ub" fbc:lowerFluxBound="cobra_0_bound">
+        <sbml:annotation xmlns:sbml="http://www.sbml.org/sbml/level3/version1/core">
+          <rdf:RDF xmlns:rdf="http://www.w3.org/1999/02/22-rdf-syntax-ns#">
+            <rdf:Description rdf:about="#R_DHMPTR">
+              <bqbiol:is xmlns:bqbiol="http://biomodels.net/biology-qualifiers/">
+                <rdf:Bag>
+                  <rdf:li rdf:resource="http://identifiers.org/bigg.reaction/DHMPTR"/>
+                  <rdf:li rdf:resource="http://identifiers.org/metanetx.reaction/MNXR97405"/>
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+              </bqbiol:is>
+            </rdf:Description>
+          </rdf:RDF>
+        </sbml:annotation>
+        <listOfReactants>
+          <speciesReference species="M_dhmpt_c" stoichiometry="1" constant="true"/>
+          <speciesReference species="M_h_c" stoichiometry="1" constant="true"/>
+          <speciesReference species="M_nadph_c" stoichiometry="1" constant="true"/>
+        </listOfReactants>
+        <listOfProducts>
+          <speciesReference species="M_nadp_c" stoichiometry="1" constant="true"/>
+          <speciesReference species="M_thmnp_c" stoichiometry="1" constant="true"/>
+        </listOfProducts>
+        <fbc:geneProductAssociation>
+          <fbc:geneProductRef fbc:geneProduct="G_b1606"/>
+        </fbc:geneProductAssociation>
+      </reaction>
+      <reaction id="R_NOVBCNtpp" fast="false" reversible="false" name="Novobiocin transport via TolC system" metaid="R_NOVBCNtpp" sboTerm="SBO:0000185" fbc:upperFluxBound="cobra_default_ub" fbc:lowerFluxBound="cobra_0_bound">
+        <sbml:annotation xmlns:sbml="http://www.sbml.org/sbml/level3/version1/core">
+          <rdf:RDF xmlns:rdf="http://www.w3.org/1999/02/22-rdf-syntax-ns#">
+            <rdf:Description rdf:about="#R_NOVBCNtpp">
+              <bqbiol:is xmlns:bqbiol="http://biomodels.net/biology-qualifiers/">
+                <rdf:Bag>
+                  <rdf:li rdf:resource="http://identifiers.org/bigg.reaction/NOVBCNtpp"/>
+                  <rdf:li rdf:resource="http://identifiers.org/metanetx.reaction/MNXR102009"/>
+                </rdf:Bag>
+              </bqbiol:is>
+            </rdf:Description>
+          </rdf:RDF>
+        </sbml:annotation>
+        <listOfReactants>
+          <speciesReference species="M_h_p" stoichiometry="1" constant="true"/>
+          <speciesReference species="M_novbcn_p" stoichiometry="1" constant="true"/>
+        </listOfReactants>
+        <listOfProducts>
+          <speciesReference species="M_h_c" stoichiometry="1" constant="true"/>
+          <speciesReference species="M_novbcn_e" stoichiometry="1" constant="true"/>
+        </listOfProducts>
+        <fbc:geneProductAssociation>
+          <fbc:or>
+            <fbc:and>
+              <fbc:geneProductRef fbc:geneProduct="G_b0463"/>
+              <fbc:geneProductRef fbc:geneProduct="G_b3035"/>
+              <fbc:geneProductRef fbc:geneProduct="G_b2470"/>
+            </fbc:and>
+            <fbc:and>
+              <fbc:geneProductRef fbc:geneProduct="G_b0463"/>
+              <fbc:geneProductRef fbc:geneProduct="G_b3035"/>
+              <fbc:geneProductRef fbc:geneProduct="G_b0462"/>
+            </fbc:and>
+          </fbc:or>
+        </fbc:geneProductAssociation>
+      </reaction>
+      <reaction id="R_CMtex" fast="false" reversible="true" name="Chloramphenicol transport via diffusion (extracellular to periplasm)" metaid="R_CMtex" sboTerm="SBO:0000185" fbc:upperFluxBound="cobra_default_ub" fbc:lowerFluxBound="cobra_default_lb">
+        <sbml:annotation xmlns:sbml="http://www.sbml.org/sbml/level3/version1/core">
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+            <rdf:Description rdf:about="#R_CMtex">
+              <bqbiol:is xmlns:bqbiol="http://biomodels.net/biology-qualifiers/">
+                <rdf:Bag>
+                  <rdf:li rdf:resource="http://identifiers.org/bigg.reaction/CMtex"/>
+                  <rdf:li rdf:resource="http://identifiers.org/metanetx.reaction/MNXR96808"/>
+                  <rdf:li rdf:resource="http://identifiers.org/rhea/35288"/>
+                  <rdf:li rdf:resource="http://identifiers.org/rhea/35290"/>
+                  <rdf:li rdf:resource="http://identifiers.org/rhea/35287"/>
+                  <rdf:li rdf:resource="http://identifiers.org/rhea/35289"/>
+                </rdf:Bag>
+              </bqbiol:is>
+            </rdf:Description>
+          </rdf:RDF>
+        </sbml:annotation>
+        <listOfReactants>
+          <speciesReference species="M_cm_e" stoichiometry="1" constant="true"/>
+        </listOfReactants>
+        <listOfProducts>
+          <speciesReference species="M_cm_p" stoichiometry="1" constant="true"/>
+        </listOfProducts>
+        <fbc:geneProductAssociation>
+          <fbc:or>
+            <fbc:geneProductRef fbc:geneProduct="G_b2215"/>
+            <fbc:geneProductRef fbc:geneProduct="G_b0929"/>
+            <fbc:geneProductRef fbc:geneProduct="G_b1377"/>
+            <fbc:geneProductRef fbc:geneProduct="G_b0241"/>
+          </fbc:or>
+        </fbc:geneProductAssociation>
+      </reaction>
+      <reaction id="R_TTRCYCtpp" fast="false" reversible="false" name="Tetracycline transport via TolC system" metaid="R_TTRCYCtpp" sboTerm="SBO:0000185" fbc:upperFluxBound="cobra_default_ub" fbc:lowerFluxBound="cobra_0_bound">
+        <sbml:annotation xmlns:sbml="http://www.sbml.org/sbml/level3/version1/core">
+          <rdf:RDF xmlns:rdf="http://www.w3.org/1999/02/22-rdf-syntax-ns#">
+            <rdf:Description rdf:about="#R_TTRCYCtpp">
+              <bqbiol:is xmlns:bqbiol="http://biomodels.net/biology-qualifiers/">
+                <rdf:Bag>
+                  <rdf:li rdf:resource="http://identifiers.org/bigg.reaction/TTRCYCtpp"/>
+                  <rdf:li rdf:resource="http://identifiers.org/metanetx.reaction/MNXR104977"/>
+                </rdf:Bag>
+              </bqbiol:is>
+            </rdf:Description>
+          </rdf:RDF>
+        </sbml:annotation>
+        <listOfReactants>
+          <speciesReference species="M_h_p" stoichiometry="1" constant="true"/>
+          <speciesReference species="M_ttrcyc_p" stoichiometry="1" constant="true"/>
+        </listOfReactants>
+        <listOfProducts>
+          <speciesReference species="M_h_c" stoichiometry="1" constant="true"/>
+          <speciesReference species="M_ttrcyc_e" stoichiometry="1" constant="true"/>
+        </listOfProducts>
+        <fbc:geneProductAssociation>
+          <fbc:or>
+            <fbc:and>
+              <fbc:geneProductRef fbc:geneProduct="G_b0463"/>
+              <fbc:geneProductRef fbc:geneProduct="G_b3035"/>
+              <fbc:geneProductRef fbc:geneProduct="G_b2470"/>
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+            <fbc:and>
+              <fbc:geneProductRef fbc:geneProduct="G_b0463"/>
+              <fbc:geneProductRef fbc:geneProduct="G_b3035"/>
+              <fbc:geneProductRef fbc:geneProduct="G_b0462"/>
+            </fbc:and>
+          </fbc:or>
+        </fbc:geneProductAssociation>
+      </reaction>
+      <reaction id="R_LALALGLUtex" fast="false" reversible="true" name="L-alanyl-L-glutamate transport via diffusion (extracellular to periplasm)" metaid="R_LALALGLUtex" sboTerm="SBO:0000185" fbc:upperFluxBound="cobra_default_ub" fbc:lowerFluxBound="cobra_default_lb">
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+              <bqbiol:is xmlns:bqbiol="http://biomodels.net/biology-qualifiers/">
+                <rdf:Bag>
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+                  <rdf:li rdf:resource="http://identifiers.org/metanetx.reaction/MNXR101005"/>
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+                  <rdf:li rdf:resource="http://identifiers.org/rhea/35137"/>
+                  <rdf:li rdf:resource="http://identifiers.org/rhea/35138"/>
+                  <rdf:li rdf:resource="http://identifiers.org/rhea/35135"/>
+                </rdf:Bag>
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+            </rdf:Description>
+          </rdf:RDF>
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+          <speciesReference species="M_LalaLglu_e" stoichiometry="1" constant="true"/>
+        </listOfReactants>
+        <listOfProducts>
+          <speciesReference species="M_LalaLglu_p" stoichiometry="1" constant="true"/>
+        </listOfProducts>
+        <fbc:geneProductAssociation>
+          <fbc:or>
+            <fbc:geneProductRef fbc:geneProduct="G_b1377"/>
+            <fbc:geneProductRef fbc:geneProduct="G_b0241"/>
+            <fbc:geneProductRef fbc:geneProduct="G_b0929"/>
+            <fbc:geneProductRef fbc:geneProduct="G_b2215"/>
+          </fbc:or>
+        </fbc:geneProductAssociation>
+      </reaction>
+      <reaction id="R_CBMD" fast="false" reversible="false" name="Carbamate deaminase" metaid="R_CBMD" sboTerm="SBO:0000176" fbc:upperFluxBound="cobra_default_ub" fbc:lowerFluxBound="cobra_0_bound">
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+                  <rdf:li rdf:resource="http://identifiers.org/rhea/15650"/>
+                  <rdf:li rdf:resource="http://identifiers.org/seed.reaction/rxn05064"/>
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+          <speciesReference species="M_h_c" stoichiometry="2" constant="true"/>
+        </listOfReactants>
+        <listOfProducts>
+          <speciesReference species="M_co2_c" stoichiometry="1" constant="true"/>
+          <speciesReference species="M_nh4_c" stoichiometry="1" constant="true"/>
+        </listOfProducts>
+        <fbc:geneProductAssociation>
+          <fbc:geneProductRef fbc:geneProduct="G_s0001"/>
+        </fbc:geneProductAssociation>
+      </reaction>
+      <reaction id="R_LALADGLUtpp" fast="false" reversible="false" name="L-alanyl-D-glutamate transport in via proton symport (periplasm)" metaid="R_LALADGLUtpp" sboTerm="SBO:0000185" fbc:upperFluxBound="cobra_default_ub" fbc:lowerFluxBound="cobra_0_bound">
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+                  <rdf:li rdf:resource="http://identifiers.org/rhea/35126"/>
+                  <rdf:li rdf:resource="http://identifiers.org/rhea/35125"/>
+                  <rdf:li rdf:resource="http://identifiers.org/rhea/35124"/>
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+          <speciesReference species="M_h_p" stoichiometry="1" constant="true"/>
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+        <listOfProducts>
+          <speciesReference species="M_LalaDglu_c" stoichiometry="1" constant="true"/>
+          <speciesReference species="M_h_c" stoichiometry="1" constant="true"/>
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+          <fbc:or>
+            <fbc:geneProductRef fbc:geneProduct="G_b0709"/>
+            <fbc:geneProductRef fbc:geneProduct="G_b1634"/>
+            <fbc:geneProductRef fbc:geneProduct="G_b3496"/>
+            <fbc:geneProductRef fbc:geneProduct="G_b4130"/>
+          </fbc:or>
+        </fbc:geneProductAssociation>
+      </reaction>
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+        </sbml:annotation>
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+          <speciesReference species="M_fe2_c" stoichiometry="2" constant="true"/>
+          <speciesReference species="M_iscssh_c" stoichiometry="2" constant="true"/>
+          <speciesReference species="M_iscu_c" stoichiometry="1" constant="true"/>
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+        <listOfProducts>
+          <speciesReference species="M_fad_c" stoichiometry="1" constant="true"/>
+          <speciesReference species="M_h_c" stoichiometry="6" constant="true"/>
+          <speciesReference species="M_iscs_c" stoichiometry="2" constant="true"/>
+          <speciesReference species="M_iscu_2fe2s_c" stoichiometry="1" constant="true"/>
+        </listOfProducts>
+        <fbc:geneProductAssociation>
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+            <fbc:geneProductRef fbc:geneProduct="G_b2530"/>
+            <fbc:geneProductRef fbc:geneProduct="G_b2529"/>
+          </fbc:and>
+        </fbc:geneProductAssociation>
+      </reaction>
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+        <sbml:annotation xmlns:sbml="http://www.sbml.org/sbml/level3/version1/core">
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+          <speciesReference species="M_iscu_2fe2s_c" stoichiometry="1" constant="true"/>
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+          <speciesReference species="M_iscu_c" stoichiometry="1" constant="true"/>
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+        <fbc:geneProductAssociation>
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+            <fbc:geneProductRef fbc:geneProduct="G_b2528"/>
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+        </fbc:geneProductAssociation>
+      </reaction>
+      <reaction id="R_FESR" fast="false" reversible="false" name="Iron-sulfur cluster repair" metaid="R_FESR" sboTerm="SBO:0000176" fbc:upperFluxBound="cobra_default_ub" fbc:lowerFluxBound="cobra_0_bound">
+        <sbml:annotation xmlns:sbml="http://www.sbml.org/sbml/level3/version1/core">
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+                  <rdf:li rdf:resource="http://identifiers.org/metanetx.reaction/MNXR99587"/>
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+          <speciesReference species="M_3fe4s_c" stoichiometry="1" constant="true"/>
+          <speciesReference species="M_fe2_c" stoichiometry="1" constant="true"/>
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+        <listOfProducts>
+          <speciesReference species="M_4fe4s_c" stoichiometry="1" constant="true"/>
+        </listOfProducts>
+        <fbc:geneProductAssociation>
+          <fbc:geneProductRef fbc:geneProduct="G_b4209"/>
+        </fbc:geneProductAssociation>
+      </reaction>
+      <reaction id="R_OXCOAHDH" fast="false" reversible="false" name="Oxepin-CoA hydrolase/ 3-oxo-5,6-dehydrosuberyl-CoA semialdehyde dehydrogenase (NADP+)" metaid="R_OXCOAHDH" sboTerm="SBO:0000176" fbc:upperFluxBound="cobra_default_ub" fbc:lowerFluxBound="cobra_0_bound">
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+                  <rdf:li rdf:resource="http://identifiers.org/rhea/34876"/>
+                  <rdf:li rdf:resource="http://identifiers.org/rhea/34877"/>
+                  <rdf:li rdf:resource="http://identifiers.org/rhea/34878"/>
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+          <speciesReference species="M_2oxpaccoa_c" stoichiometry="1" constant="true"/>
+          <speciesReference species="M_h2o_c" stoichiometry="2" constant="true"/>
+          <speciesReference species="M_nadp_c" stoichiometry="1" constant="true"/>
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+        <listOfProducts>
+          <speciesReference species="M_3oxdhscoa_c" stoichiometry="1" constant="true"/>
+          <speciesReference species="M_h_c" stoichiometry="2" constant="true"/>
+          <speciesReference species="M_nadph_c" stoichiometry="1" constant="true"/>
+        </listOfProducts>
+        <fbc:geneProductAssociation>
+          <fbc:geneProductRef fbc:geneProduct="G_b1387"/>
+        </fbc:geneProductAssociation>
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+      <reaction id="R_DHACOAH" fast="false" reversible="true" name="2,3-dehydroadipyl-CoA hydratase" metaid="R_DHACOAH" sboTerm="SBO:0000176" fbc:upperFluxBound="cobra_default_ub" fbc:lowerFluxBound="cobra_default_lb">
+        <sbml:annotation xmlns:sbml="http://www.sbml.org/sbml/level3/version1/core">
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+                  <rdf:li rdf:resource="http://identifiers.org/rhea/34866"/>
+                  <rdf:li rdf:resource="http://identifiers.org/rhea/34863"/>
+                  <rdf:li rdf:resource="http://identifiers.org/rhea/34865"/>
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+          <speciesReference species="M_h2o_c" stoichiometry="1" constant="true"/>
+        </listOfReactants>
+        <listOfProducts>
+          <speciesReference species="M_3hadpcoa_c" stoichiometry="1" constant="true"/>
+        </listOfProducts>
+        <fbc:geneProductAssociation>
+          <fbc:geneProductRef fbc:geneProduct="G_b1393"/>
+        </fbc:geneProductAssociation>
+      </reaction>
+      <reaction id="R_I2FE2SS2" fast="false" reversible="false" name="ISC [2Fe-2S] Synthesis II" metaid="R_I2FE2SS2" sboTerm="SBO:0000176" fbc:upperFluxBound="cobra_default_ub" fbc:lowerFluxBound="cobra_0_bound">
+        <sbml:annotation xmlns:sbml="http://www.sbml.org/sbml/level3/version1/core">
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+              <bqbiol:is xmlns:bqbiol="http://biomodels.net/biology-qualifiers/">
+                <rdf:Bag>
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+                  <rdf:li rdf:resource="http://identifiers.org/metanetx.reaction/MNXR100768"/>
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+          <speciesReference species="M_fe2_c" stoichiometry="2" constant="true"/>
+          <speciesReference species="M_iscssh_c" stoichiometry="2" constant="true"/>
+          <speciesReference species="M_iscu_2fe2s_c" stoichiometry="1" constant="true"/>
+        </listOfReactants>
+        <listOfProducts>
+          <speciesReference species="M_fad_c" stoichiometry="1" constant="true"/>
+          <speciesReference species="M_h_c" stoichiometry="6" constant="true"/>
+          <speciesReference species="M_iscs_c" stoichiometry="2" constant="true"/>
+          <speciesReference species="M_iscu_2fe2s2_c" stoichiometry="1" constant="true"/>
+        </listOfProducts>
+        <fbc:geneProductAssociation>
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+            <fbc:geneProductRef fbc:geneProduct="G_b2530"/>
+            <fbc:geneProductRef fbc:geneProduct="G_b2529"/>
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+        </fbc:geneProductAssociation>
+      </reaction>
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+                  <rdf:li rdf:resource="http://identifiers.org/rhea/26440"/>
+                  <rdf:li rdf:resource="http://identifiers.org/sabiork/12224"/>
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+            </rdf:Description>
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+          <speciesReference species="M_msa_c" stoichiometry="1" constant="true"/>
+          <speciesReference species="M_nadph_c" stoichiometry="1" constant="true"/>
+        </listOfReactants>
+        <listOfProducts>
+          <speciesReference species="M_3hpp_c" stoichiometry="1" constant="true"/>
+          <speciesReference species="M_nadp_c" stoichiometry="1" constant="true"/>
+        </listOfProducts>
+        <fbc:geneProductAssociation>
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+            <fbc:geneProductRef fbc:geneProduct="G_b1008"/>
+            <fbc:geneProductRef fbc:geneProduct="G_b1539"/>
+          </fbc:or>
+        </fbc:geneProductAssociation>
+      </reaction>
+      <reaction id="R_I4FE4ST" fast="false" reversible="false" name="ISC [4Fe-4S] Transfer" metaid="R_I4FE4ST" sboTerm="SBO:0000176" fbc:upperFluxBound="cobra_default_ub" fbc:lowerFluxBound="cobra_0_bound">
+        <sbml:annotation xmlns:sbml="http://www.sbml.org/sbml/level3/version1/core">
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+          <speciesReference species="M_iscu_c" stoichiometry="1" constant="true"/>
+        </listOfProducts>
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+            <fbc:geneProductRef fbc:geneProduct="G_b2528"/>
+          </fbc:and>
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+                <rdf:Bag>
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+          <speciesReference species="M_sufbcd_4fe4s_c" stoichiometry="1" constant="true"/>
+        </listOfReactants>
+        <listOfProducts>
+          <speciesReference species="M_4fe4s_c" stoichiometry="1" constant="true"/>
+          <speciesReference species="M_sufbcd_c" stoichiometry="1" constant="true"/>
+        </listOfProducts>
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+            <fbc:geneProductRef fbc:geneProduct="G_b1681"/>
+            <fbc:geneProductRef fbc:geneProduct="G_b1684"/>
+            <fbc:geneProductRef fbc:geneProduct="G_b1683"/>
+          </fbc:and>
+        </fbc:geneProductAssociation>
+      </reaction>
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+                  <rdf:li rdf:resource="http://identifiers.org/sabiork/2262"/>
+                  <rdf:li rdf:resource="http://identifiers.org/seed.reaction/rxn01652"/>
+                </rdf:Bag>
+              </bqbiol:is>
+            </rdf:Description>
+          </rdf:RDF>
+        </sbml:annotation>
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+          <speciesReference species="M_methf_c" stoichiometry="1" constant="true"/>
+        </listOfReactants>
+        <listOfProducts>
+          <speciesReference species="M_5fthf_c" stoichiometry="1" constant="true"/>
+          <speciesReference species="M_h_c" stoichiometry="1" constant="true"/>
+        </listOfProducts>
+        <fbc:geneProductAssociation>
+          <fbc:geneProductRef fbc:geneProduct="G_b2551"/>
+        </fbc:geneProductAssociation>
+      </reaction>
+      <reaction id="R_FOMETRi" fast="false" reversible="false" name="Aminomethyltransferase" metaid="R_FOMETRi" sboTerm="SBO:0000176" fbc:upperFluxBound="cobra_default_ub" fbc:lowerFluxBound="cobra_0_bound">
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+                  <rdf:li rdf:resource="http://identifiers.org/metanetx.reaction/MNXR99614"/>
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+          <speciesReference species="M_h_c" stoichiometry="1" constant="true"/>
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+        <listOfProducts>
+          <speciesReference species="M_h2o_c" stoichiometry="1" constant="true"/>
+          <speciesReference species="M_methf_c" stoichiometry="1" constant="true"/>
+        </listOfProducts>
+        <fbc:geneProductAssociation>
+          <fbc:geneProductRef fbc:geneProduct="G_b2912"/>
+        </fbc:geneProductAssociation>
+      </reaction>
+      <reaction id="R_SLNTtex" fast="false" reversible="true" name="Selenite transport via diffusion (extracellular to periplasm)" metaid="R_SLNTtex" sboTerm="SBO:0000185" fbc:upperFluxBound="cobra_default_ub" fbc:lowerFluxBound="cobra_default_lb">
+        <sbml:annotation xmlns:sbml="http://www.sbml.org/sbml/level3/version1/core">
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+                  <rdf:li rdf:resource="http://identifiers.org/metanetx.reaction/MNXR104325"/>
+                  <rdf:li rdf:resource="http://identifiers.org/rhea/34894"/>
+                  <rdf:li rdf:resource="http://identifiers.org/rhea/34891"/>
+                  <rdf:li rdf:resource="http://identifiers.org/rhea/34893"/>
+                  <rdf:li rdf:resource="http://identifiers.org/rhea/34892"/>
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+        <fbc:geneProductAssociation>
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+            <fbc:geneProductRef fbc:geneProduct="G_b0929"/>
+            <fbc:geneProductRef fbc:geneProduct="G_b2215"/>
+            <fbc:geneProductRef fbc:geneProduct="G_b0241"/>
+          </fbc:or>
+        </fbc:geneProductAssociation>
+      </reaction>
+      <reaction id="R_S2FE2SS2" fast="false" reversible="false" name="SUF [2Fe-2S] Synthesis II" metaid="R_S2FE2SS2" sboTerm="SBO:0000176" fbc:upperFluxBound="cobra_default_ub" fbc:lowerFluxBound="cobra_0_bound">
+        <sbml:annotation xmlns:sbml="http://www.sbml.org/sbml/level3/version1/core">
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+                  <rdf:li rdf:resource="http://identifiers.org/metanetx.reaction/MNXR104151"/>
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+        </sbml:annotation>
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+          <speciesReference species="M_atp_c" stoichiometry="1" constant="true"/>
+          <speciesReference species="M_fadh2_c" stoichiometry="1" constant="true"/>
+          <speciesReference species="M_fe2_c" stoichiometry="2" constant="true"/>
+          <speciesReference species="M_h2o_c" stoichiometry="1" constant="true"/>
+          <speciesReference species="M_sufbcd_2fe2s_c" stoichiometry="1" constant="true"/>
+          <speciesReference species="M_sufsesh_c" stoichiometry="2" constant="true"/>
+        </listOfReactants>
+        <listOfProducts>
+          <speciesReference species="M_adp_c" stoichiometry="1" constant="true"/>
+          <speciesReference species="M_fad_c" stoichiometry="1" constant="true"/>
+          <speciesReference species="M_h_c" stoichiometry="7" constant="true"/>
+          <speciesReference species="M_pi_c" stoichiometry="1" constant="true"/>
+          <speciesReference species="M_sufbcd_2fe2s2_c" stoichiometry="1" constant="true"/>
+          <speciesReference species="M_sufse_c" stoichiometry="2" constant="true"/>
+        </listOfProducts>
+        <fbc:geneProductAssociation>
+          <fbc:and>
+            <fbc:geneProductRef fbc:geneProduct="G_b1680"/>
+            <fbc:geneProductRef fbc:geneProduct="G_b1683"/>
+            <fbc:geneProductRef fbc:geneProduct="G_b1681"/>
+            <fbc:geneProductRef fbc:geneProduct="G_b1682"/>
+            <fbc:geneProductRef fbc:geneProduct="G_b1679"/>
+          </fbc:and>
+        </fbc:geneProductAssociation>
+      </reaction>
+      <reaction id="R_BTS5" fast="false" reversible="false" name="Biotin synthase" metaid="R_BTS5" sboTerm="SBO:0000176" fbc:upperFluxBound="cobra_default_ub" fbc:lowerFluxBound="cobra_0_bound">
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+                  <rdf:li rdf:resource="http://identifiers.org/metanetx.reaction/MNXR96344"/>
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+        </sbml:annotation>
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+          <speciesReference species="M_dtbt_c" stoichiometry="1" constant="true"/>
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+        <listOfProducts>
+          <speciesReference species="M_2fe1s_c" stoichiometry="1" constant="true"/>
+          <speciesReference species="M_btn_c" stoichiometry="1" constant="true"/>
+          <speciesReference species="M_dad_5_c" stoichiometry="1" constant="true"/>
+          <speciesReference species="M_h_c" stoichiometry="1" constant="true"/>
+          <speciesReference species="M_met__L_c" stoichiometry="1" constant="true"/>
+        </listOfProducts>
+        <fbc:geneProductAssociation>
+          <fbc:geneProductRef fbc:geneProduct="G_b0775"/>
+        </fbc:geneProductAssociation>
+      </reaction>
+      <reaction id="R_SELGTHR2" fast="false" reversible="false" name="Selenate glutathione reductase II" metaid="R_SELGTHR2" sboTerm="SBO:0000176" fbc:upperFluxBound="cobra_default_ub" fbc:lowerFluxBound="cobra_0_bound">
+        <sbml:annotation xmlns:sbml="http://www.sbml.org/sbml/level3/version1/core">
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+                  <rdf:li rdf:resource="http://identifiers.org/bigg.reaction/SELGTHR2"/>
+                  <rdf:li rdf:resource="http://identifiers.org/metanetx.reaction/MNXR104319"/>
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+        </sbml:annotation>
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+          <speciesReference species="M_h_c" stoichiometry="1" constant="true"/>
+          <speciesReference species="M_nadph_c" stoichiometry="1" constant="true"/>
+        </listOfReactants>
+        <listOfProducts>
+          <speciesReference species="M_gslnt_c" stoichiometry="1" constant="true"/>
+          <speciesReference species="M_gthrd_c" stoichiometry="1" constant="true"/>
+          <speciesReference species="M_nadp_c" stoichiometry="1" constant="true"/>
+        </listOfProducts>
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+      <reaction id="R_EX_LalaLglu_e" fast="false" reversible="false" name="L-alanine-L-glutamate exchange" metaid="R_EX_LalaLglu_e" sboTerm="SBO:0000627" fbc:upperFluxBound="cobra_default_ub" fbc:lowerFluxBound="cobra_0_bound">
+        <sbml:annotation xmlns:sbml="http://www.sbml.org/sbml/level3/version1/core">
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+                  <rdf:li rdf:resource="http://identifiers.org/metanetx.reaction/MNXR101005"/>
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+                  <rdf:li rdf:resource="http://identifiers.org/rhea/35137"/>
+                  <rdf:li rdf:resource="http://identifiers.org/rhea/35138"/>
+                  <rdf:li rdf:resource="http://identifiers.org/rhea/35135"/>
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+          <speciesReference species="M_LalaLglu_e" stoichiometry="1" constant="true"/>
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+      </reaction>
+      <reaction id="R_GDPTPDP" fast="false" reversible="false" name="Guanosine 3'-diphosphate 5'-triphosphate 3'-diphosphatase" metaid="R_GDPTPDP" sboTerm="SBO:0000176" fbc:upperFluxBound="cobra_default_ub" fbc:lowerFluxBound="cobra_0_bound">
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+                  <rdf:li rdf:resource="http://identifiers.org/biocyc/META:RXN0-6427"/>
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+                  <rdf:li rdf:resource="http://identifiers.org/rhea/33057"/>
+                  <rdf:li rdf:resource="http://identifiers.org/rhea/33056"/>
+                  <rdf:li rdf:resource="http://identifiers.org/rhea/33055"/>
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+          <speciesReference species="M_h2o_c" stoichiometry="1" constant="true"/>
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+        <listOfProducts>
+          <speciesReference species="M_gtp_c" stoichiometry="1" constant="true"/>
+          <speciesReference species="M_ppi_c" stoichiometry="1" constant="true"/>
+        </listOfProducts>
+        <fbc:geneProductAssociation>
+          <fbc:geneProductRef fbc:geneProduct="G_b3650"/>
+        </fbc:geneProductAssociation>
+      </reaction>
+      <reaction id="R_LIPOS" fast="false" reversible="false" name="Lipoate synthase" metaid="R_LIPOS" sboTerm="SBO:0000176" fbc:upperFluxBound="cobra_default_ub" fbc:lowerFluxBound="cobra_0_bound">
+        <sbml:annotation xmlns:sbml="http://www.sbml.org/sbml/level3/version1/core">
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+            <rdf:Description rdf:about="#R_LIPOS">
+              <bqbiol:is xmlns:bqbiol="http://biomodels.net/biology-qualifiers/">
+                <rdf:Bag>
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+                  <rdf:li rdf:resource="http://identifiers.org/metanetx.reaction/MNXR101090"/>
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+            </rdf:Description>
+          </rdf:RDF>
+        </sbml:annotation>
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+          <speciesReference species="M_4fe4s_c" stoichiometry="1" constant="true"/>
+          <speciesReference species="M_amet_c" stoichiometry="2" constant="true"/>
+          <speciesReference species="M_h_c" stoichiometry="1" constant="true"/>
+          <speciesReference species="M_nad_c" stoichiometry="1" constant="true"/>
+          <speciesReference species="M_octapb_c" stoichiometry="1" constant="true"/>
+        </listOfReactants>
+        <listOfProducts>
+          <speciesReference species="M_2fe2s_c" stoichiometry="1" constant="true"/>
+          <speciesReference species="M_dad_5_c" stoichiometry="2" constant="true"/>
+          <speciesReference species="M_fe2_c" stoichiometry="2" constant="true"/>
+          <speciesReference species="M_lipopb_c" stoichiometry="1" constant="true"/>
+          <speciesReference species="M_met__L_c" stoichiometry="2" constant="true"/>
+          <speciesReference species="M_nadh_c" stoichiometry="1" constant="true"/>
+        </listOfProducts>
+        <fbc:geneProductAssociation>
+          <fbc:geneProductRef fbc:geneProduct="G_b0628"/>
+        </fbc:geneProductAssociation>
+      </reaction>
+      <reaction id="R_COLIPAKpp" fast="false" reversible="false" name="Lipid A core kinase (periplasm)" metaid="R_COLIPAKpp" sboTerm="SBO:0000176" fbc:upperFluxBound="cobra_default_ub" fbc:lowerFluxBound="cobra_0_bound">
+        <sbml:annotation xmlns:sbml="http://www.sbml.org/sbml/level3/version1/core">
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+            <rdf:Description rdf:about="#R_COLIPAKpp">
+              <bqbiol:is xmlns:bqbiol="http://biomodels.net/biology-qualifiers/">
+                <rdf:Bag>
+                  <rdf:li rdf:resource="http://identifiers.org/bigg.reaction/COLIPAKpp"/>
+                  <rdf:li rdf:resource="http://identifiers.org/metanetx.reaction/MNXR96842"/>
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+              </bqbiol:is>
+            </rdf:Description>
+          </rdf:RDF>
+        </sbml:annotation>
+        <listOfReactants>
+          <speciesReference species="M_colipa_p" stoichiometry="1" constant="true"/>
+          <speciesReference species="M_udcpdp_p" stoichiometry="1" constant="true"/>
+        </listOfReactants>
+        <listOfProducts>
+          <speciesReference species="M_colipap_p" stoichiometry="1" constant="true"/>
+          <speciesReference species="M_udcpp_p" stoichiometry="1" constant="true"/>
+        </listOfProducts>
+        <fbc:geneProductAssociation>
+          <fbc:geneProductRef fbc:geneProduct="G_b2174"/>
+        </fbc:geneProductAssociation>
+      </reaction>
+      <reaction id="R_ACPPAT120" fast="false" reversible="false" name="Acyl-(acyl carrier protein):phosphate acyltransferase (C12:0)" metaid="R_ACPPAT120" sboTerm="SBO:0000176" fbc:upperFluxBound="cobra_default_ub" fbc:lowerFluxBound="cobra_0_bound">
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+            <rdf:Description rdf:about="#R_ACPPAT120">
+              <bqbiol:is xmlns:bqbiol="http://biomodels.net/biology-qualifiers/">
+                <rdf:Bag>
+                  <rdf:li rdf:resource="http://identifiers.org/bigg.reaction/ACPPAT120"/>
+                  <rdf:li rdf:resource="http://identifiers.org/metanetx.reaction/MNXR95395"/>
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+            </rdf:Description>
+          </rdf:RDF>
+        </sbml:annotation>
+        <listOfReactants>
+          <speciesReference species="M_ddcaACP_c" stoichiometry="1" constant="true"/>
+          <speciesReference species="M_h_c" stoichiometry="1" constant="true"/>
+          <speciesReference species="M_pi_c" stoichiometry="1" constant="true"/>
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+        <listOfProducts>
+          <speciesReference species="M_ACP_c" stoichiometry="1" constant="true"/>
+          <speciesReference species="M_ddcap_c" stoichiometry="1" constant="true"/>
+        </listOfProducts>
+        <fbc:geneProductAssociation>
+          <fbc:and>
+            <fbc:geneProductRef fbc:geneProduct="G_b1094"/>
+            <fbc:geneProductRef fbc:geneProduct="G_b1090"/>
+          </fbc:and>
+        </fbc:geneProductAssociation>
+      </reaction>
+      <reaction id="R_3HPPtpp" fast="false" reversible="false" name="3-hydroxypropionate transport via proton symport (periplasm)" metaid="R_3HPPtpp" sboTerm="SBO:0000185" fbc:upperFluxBound="cobra_default_ub" fbc:lowerFluxBound="cobra_0_bound">
+        <sbml:annotation xmlns:sbml="http://www.sbml.org/sbml/level3/version1/core">
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+            <rdf:Description rdf:about="#R_3HPPtpp">
+              <bqbiol:is xmlns:bqbiol="http://biomodels.net/biology-qualifiers/">
+                <rdf:Bag>
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+                  <rdf:li rdf:resource="http://identifiers.org/metanetx.reaction/MNXR94905"/>
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+          <speciesReference species="M_3hpp_c" stoichiometry="1" constant="true"/>
+          <speciesReference species="M_h_c" stoichiometry="1" constant="true"/>
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+        <listOfProducts>
+          <speciesReference species="M_3hpp_p" stoichiometry="1" constant="true"/>
+          <speciesReference species="M_h_p" stoichiometry="1" constant="true"/>
+        </listOfProducts>
+      </reaction>
+      <reaction id="R_MPTSS" fast="false" reversible="false" name="Molybdopterin synthase sulfurylase" metaid="R_MPTSS" sboTerm="SBO:0000176" fbc:upperFluxBound="cobra_default_ub" fbc:lowerFluxBound="cobra_0_bound">
+        <sbml:annotation xmlns:sbml="http://www.sbml.org/sbml/level3/version1/core">
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+            <rdf:Description rdf:about="#R_MPTSS">
+              <bqbiol:is xmlns:bqbiol="http://biomodels.net/biology-qualifiers/">
+                <rdf:Bag>
+                  <rdf:li rdf:resource="http://identifiers.org/bigg.reaction/MPTSS"/>
+                  <rdf:li rdf:resource="http://identifiers.org/metanetx.reaction/MNXR101736"/>
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+            </rdf:Description>
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+        </sbml:annotation>
+        <listOfReactants>
+          <speciesReference species="M_atp_c" stoichiometry="1" constant="true"/>
+          <speciesReference species="M_h_c" stoichiometry="1" constant="true"/>
+          <speciesReference species="M_moadcoo_c" stoichiometry="1" constant="true"/>
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+        <listOfProducts>
+          <speciesReference species="M_moadamp_c" stoichiometry="1" constant="true"/>
+          <speciesReference species="M_ppi_c" stoichiometry="1" constant="true"/>
+        </listOfProducts>
+        <fbc:geneProductAssociation>
+          <fbc:geneProductRef fbc:geneProduct="G_b0826"/>
+        </fbc:geneProductAssociation>
+      </reaction>
+      <reaction id="R_CPMPS" fast="false" reversible="false" name="Cyclic pyranopterin monophosphate synthase" metaid="R_CPMPS" sboTerm="SBO:0000176" fbc:upperFluxBound="cobra_default_ub" fbc:lowerFluxBound="cobra_0_bound">
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+          <speciesReference species="M_h2o_c" stoichiometry="1" constant="true"/>
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+        <fbc:geneProductAssociation>
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+            <fbc:geneProductRef fbc:geneProduct="G_b0781"/>
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+        </fbc:geneProductAssociation>
+      </reaction>
+      <reaction id="R_LIPOCT" fast="false" reversible="false" name="Lipoyl(octanoyl) transferase" metaid="R_LIPOCT" sboTerm="SBO:0000176" fbc:upperFluxBound="cobra_default_ub" fbc:lowerFluxBound="cobra_0_bound">
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+          <speciesReference species="M_ocACP_c" stoichiometry="1" constant="true"/>
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+        <listOfProducts>
+          <speciesReference species="M_ACP_c" stoichiometry="1" constant="true"/>
+          <speciesReference species="M_octapb_c" stoichiometry="1" constant="true"/>
+        </listOfProducts>
+        <fbc:geneProductAssociation>
+          <fbc:geneProductRef fbc:geneProduct="G_b0630"/>
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+                  <rdf:li rdf:resource="http://identifiers.org/rhea/12915"/>
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+                  <rdf:li rdf:resource="http://identifiers.org/rhea/12913"/>
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+          <speciesReference species="M_lipoate_c" stoichiometry="1" constant="true"/>
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+        <listOfProducts>
+          <speciesReference species="M_lipoamp_c" stoichiometry="1" constant="true"/>
+          <speciesReference species="M_ppi_c" stoichiometry="1" constant="true"/>
+        </listOfProducts>
+        <fbc:geneProductAssociation>
+          <fbc:geneProductRef fbc:geneProduct="G_b4386"/>
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+      <reaction id="R_LIPAMPL" fast="false" reversible="false" name="Lipoyl-adenylate protein ligase" metaid="R_LIPAMPL" sboTerm="SBO:0000176" fbc:upperFluxBound="cobra_default_ub" fbc:lowerFluxBound="cobra_0_bound">
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+        <listOfProducts>
+          <speciesReference species="M_amp_c" stoichiometry="1" constant="true"/>
+          <speciesReference species="M_lipopb_c" stoichiometry="1" constant="true"/>
+        </listOfProducts>
+        <fbc:geneProductAssociation>
+          <fbc:geneProductRef fbc:geneProduct="G_b4386"/>
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+      <reaction id="R_ALDD19xr" fast="false" reversible="true" name="Aldehyde dehydrogenase (phenylacetaldehyde, NAD)" metaid="R_ALDD19xr" sboTerm="SBO:0000176" fbc:upperFluxBound="cobra_default_ub" fbc:lowerFluxBound="cobra_default_lb">
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+                  <rdf:li rdf:resource="http://identifiers.org/rhea/21393"/>
+                  <rdf:li rdf:resource="http://identifiers.org/sabiork/2456"/>
+                  <rdf:li rdf:resource="http://identifiers.org/seed.reaction/rxn01840"/>
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+          <speciesReference species="M_nad_c" stoichiometry="1" constant="true"/>
+          <speciesReference species="M_pacald_c" stoichiometry="1" constant="true"/>
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+          <speciesReference species="M_nadh_c" stoichiometry="1" constant="true"/>
+          <speciesReference species="M_pac_c" stoichiometry="1" constant="true"/>
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+        <fbc:geneProductAssociation>
+          <fbc:geneProductRef fbc:geneProduct="G_b1385"/>
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+          <speciesReference species="M_mmcoa__S_c" stoichiometry="1" constant="true"/>
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+        <fbc:geneProductAssociation>
+          <fbc:geneProductRef fbc:geneProduct="G_b2917"/>
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+        <sbml:annotation xmlns:sbml="http://www.sbml.org/sbml/level3/version1/core">
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+          <speciesReference species="M_h_c" stoichiometry="1" constant="true"/>
+          <speciesReference species="M_moco_c" stoichiometry="1" constant="true"/>
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+        <listOfProducts>
+          <speciesReference species="M_mocogdp_c" stoichiometry="1" constant="true"/>
+          <speciesReference species="M_ppi_c" stoichiometry="1" constant="true"/>
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+              <fbc:geneProductRef fbc:geneProduct="G_b3856"/>
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+            <fbc:geneProductRef fbc:geneProduct="G_b3857"/>
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+        </fbc:geneProductAssociation>
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+          <speciesReference species="M_acald_c" stoichiometry="1" constant="true"/>
+          <speciesReference species="M_cph4_c" stoichiometry="1" constant="true"/>
+          <speciesReference species="M_h_c" stoichiometry="1" constant="true"/>
+          <speciesReference species="M_pppi_c" stoichiometry="1" constant="true"/>
+        </listOfProducts>
+        <fbc:geneProductAssociation>
+          <fbc:geneProductRef fbc:geneProduct="G_b2765"/>
+        </fbc:geneProductAssociation>
+      </reaction>
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+        <sbml:annotation xmlns:sbml="http://www.sbml.org/sbml/level3/version1/core">
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+          <speciesReference species="M_mptamp_c" stoichiometry="1" constant="true"/>
+          <speciesReference species="M_tungs_c" stoichiometry="1" constant="true"/>
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+          <speciesReference species="M_amp_c" stoichiometry="1" constant="true"/>
+          <speciesReference species="M_cu2_c" stoichiometry="1" constant="true"/>
+          <speciesReference species="M_h2o_c" stoichiometry="1" constant="true"/>
+          <speciesReference species="M_wco_c" stoichiometry="1" constant="true"/>
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+        <fbc:geneProductAssociation>
+          <fbc:geneProductRef fbc:geneProduct="G_b0827"/>
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+          <speciesReference species="M_h_p" stoichiometry="1" constant="true"/>
+          <speciesReference species="M_rfamp_p" stoichiometry="1" constant="true"/>
+        </listOfReactants>
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+          <speciesReference species="M_h_c" stoichiometry="1" constant="true"/>
+          <speciesReference species="M_rfamp_e" stoichiometry="1" constant="true"/>
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+              <fbc:geneProductRef fbc:geneProduct="G_b0463"/>
+              <fbc:geneProductRef fbc:geneProduct="G_b3035"/>
+              <fbc:geneProductRef fbc:geneProduct="G_b0462"/>
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+              <fbc:geneProductRef fbc:geneProduct="G_b3035"/>
+              <fbc:geneProductRef fbc:geneProduct="G_b2470"/>
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+        </fbc:geneProductAssociation>
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+          <speciesReference species="M_2shchc_c" stoichiometry="1" constant="true"/>
+          <speciesReference species="M_pyr_c" stoichiometry="1" constant="true"/>
+        </listOfProducts>
+        <fbc:geneProductAssociation>
+          <fbc:geneProductRef fbc:geneProduct="G_b2263"/>
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+        </listOfReactants>
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+          <speciesReference species="M_pyr_c" stoichiometry="1" constant="true"/>
+          <speciesReference species="M_val__L_c" stoichiometry="1" constant="true"/>
+        </listOfProducts>
+        <fbc:geneProductAssociation>
+          <fbc:geneProductRef fbc:geneProduct="G_b3572"/>
+        </fbc:geneProductAssociation>
+      </reaction>
+      <reaction id="R_ACOLIPAabctex" fast="false" reversible="false" name="Arabinose modified core oligosaccharide lipid A transport via ABC system (periplasm to extracellular)" metaid="R_ACOLIPAabctex" sboTerm="SBO:0000185" fbc:upperFluxBound="cobra_default_ub" fbc:lowerFluxBound="cobra_0_bound">
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+          <rdf:RDF xmlns:rdf="http://www.w3.org/1999/02/22-rdf-syntax-ns#">
+            <rdf:Description rdf:about="#R_ACOLIPAabctex">
+              <bqbiol:is xmlns:bqbiol="http://biomodels.net/biology-qualifiers/">
+                <rdf:Bag>
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+                  <rdf:li rdf:resource="http://identifiers.org/metanetx.reaction/MNXR95378"/>
+                </rdf:Bag>
+              </bqbiol:is>
+            </rdf:Description>
+          </rdf:RDF>
+        </sbml:annotation>
+        <listOfReactants>
+          <speciesReference species="M_acolipa_p" stoichiometry="1" constant="true"/>
+          <speciesReference species="M_atp_c" stoichiometry="1" constant="true"/>
+          <speciesReference species="M_h2o_c" stoichiometry="1" constant="true"/>
+        </listOfReactants>
+        <listOfProducts>
+          <speciesReference species="M_acolipa_e" stoichiometry="1" constant="true"/>
+          <speciesReference species="M_adp_c" stoichiometry="1" constant="true"/>
+          <speciesReference species="M_h_c" stoichiometry="1" constant="true"/>
+          <speciesReference species="M_pi_c" stoichiometry="1" constant="true"/>
+        </listOfProducts>
+        <fbc:geneProductAssociation>
+          <fbc:and>
+            <fbc:geneProductRef fbc:geneProduct="G_b4262"/>
+            <fbc:geneProductRef fbc:geneProduct="G_b4261"/>
+            <fbc:geneProductRef fbc:geneProduct="G_b3199"/>
+            <fbc:geneProductRef fbc:geneProduct="G_b3201"/>
+            <fbc:geneProductRef fbc:geneProduct="G_b3200"/>
+            <fbc:geneProductRef fbc:geneProduct="G_b0054"/>
+            <fbc:geneProductRef fbc:geneProduct="G_b0641"/>
+          </fbc:and>
+        </fbc:geneProductAssociation>
+      </reaction>
+      <reaction id="R_PYK4" fast="false" reversible="false" name="Pyruvate kinase(4)" metaid="R_PYK4" sboTerm="SBO:0000176" fbc:upperFluxBound="cobra_default_ub" fbc:lowerFluxBound="cobra_0_bound">
+        <sbml:annotation xmlns:sbml="http://www.sbml.org/sbml/level3/version1/core">
+          <rdf:RDF xmlns:rdf="http://www.w3.org/1999/02/22-rdf-syntax-ns#">
+            <rdf:Description rdf:about="#R_PYK4">
+              <bqbiol:is xmlns:bqbiol="http://biomodels.net/biology-qualifiers/">
+                <rdf:Bag>
+                  <rdf:li rdf:resource="http://identifiers.org/bigg.reaction/PYK4"/>
+                  <rdf:li rdf:resource="http://identifiers.org/ec-code/2.7.1.40"/>
+                  <rdf:li rdf:resource="http://identifiers.org/kegg.reaction/R00572"/>
+                  <rdf:li rdf:resource="http://identifiers.org/metanetx.reaction/MNXR103373"/>
+                  <rdf:li rdf:resource="http://identifiers.org/seed.reaction/rxn00411"/>
+                </rdf:Bag>
+              </bqbiol:is>
+            </rdf:Description>
+          </rdf:RDF>
+        </sbml:annotation>
+        <listOfReactants>
+          <speciesReference species="M_cdp_c" stoichiometry="1" constant="true"/>
+          <speciesReference species="M_h_c" stoichiometry="1" constant="true"/>
+          <speciesReference species="M_pep_c" stoichiometry="1" constant="true"/>
+        </listOfReactants>
+        <listOfProducts>
+          <speciesReference species="M_ctp_c" stoichiometry="1" constant="true"/>
+          <speciesReference species="M_pyr_c" stoichiometry="1" constant="true"/>
+        </listOfProducts>
+        <fbc:geneProductAssociation>
+          <fbc:geneProductRef fbc:geneProduct="G_b1854"/>
+        </fbc:geneProductAssociation>
+      </reaction>
+      <reaction id="R_NADPHXD" fast="false" reversible="false" name="NADPHX dehydratase" metaid="R_NADPHXD" sboTerm="SBO:0000176" fbc:upperFluxBound="cobra_default_ub" fbc:lowerFluxBound="cobra_0_bound">
+        <sbml:annotation xmlns:sbml="http://www.sbml.org/sbml/level3/version1/core">
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+            <rdf:Description rdf:about="#R_NADPHXD">
+              <bqbiol:is xmlns:bqbiol="http://biomodels.net/biology-qualifiers/">
+                <rdf:Bag>
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+                </rdf:Bag>
+              </bqbiol:is>
+            </rdf:Description>
+          </rdf:RDF>
+        </sbml:annotation>
+        <listOfReactants>
+          <speciesReference species="M_adp_c" stoichiometry="1" constant="true"/>
+          <speciesReference species="M_nadphx__S_c" stoichiometry="1" constant="true"/>
+        </listOfReactants>
+        <listOfProducts>
+          <speciesReference species="M_amp_c" stoichiometry="1" constant="true"/>
+          <speciesReference species="M_h_c" stoichiometry="1" constant="true"/>
+          <speciesReference species="M_nadph_c" stoichiometry="1" constant="true"/>
+          <speciesReference species="M_pi_c" stoichiometry="1" constant="true"/>
+        </listOfProducts>
+        <fbc:geneProductAssociation>
+          <fbc:geneProductRef fbc:geneProduct="G_b4167"/>
+        </fbc:geneProductAssociation>
+      </reaction>
+      <reaction id="R_NADHHR" fast="false" reversible="false" name="NADH hydratase" metaid="R_NADHHR" sboTerm="SBO:0000176" fbc:upperFluxBound="cobra_default_ub" fbc:lowerFluxBound="cobra_0_bound">
+        <sbml:annotation xmlns:sbml="http://www.sbml.org/sbml/level3/version1/core">
+          <rdf:RDF xmlns:rdf="http://www.w3.org/1999/02/22-rdf-syntax-ns#">
+            <rdf:Description rdf:about="#R_NADHHR">
+              <bqbiol:is xmlns:bqbiol="http://biomodels.net/biology-qualifiers/">
+                <rdf:Bag>
+                  <rdf:li rdf:resource="http://identifiers.org/bigg.reaction/NADHHR"/>
+                </rdf:Bag>
+              </bqbiol:is>
+            </rdf:Description>
+          </rdf:RDF>
+        </sbml:annotation>
+        <listOfReactants>
+          <speciesReference species="M_h2o_c" stoichiometry="1" constant="true"/>
+          <speciesReference species="M_nadh_c" stoichiometry="1" constant="true"/>
+        </listOfReactants>
+        <listOfProducts>
+          <speciesReference species="M_nadhx__R_c" stoichiometry="1" constant="true"/>
+        </listOfProducts>
+        <fbc:geneProductAssociation>
+          <fbc:or>
+            <fbc:geneProductRef fbc:geneProduct="G_s0001"/>
+            <fbc:geneProductRef fbc:geneProduct="G_b1779"/>
+          </fbc:or>
+        </fbc:geneProductAssociation>
+      </reaction>
+      <reaction id="R_ECA4COLIPAabctex" fast="false" reversible="false" name="Enterobacterial common antigen (x4) core oligosaccharide lipid A transport via ABC system (periplasm to extracellular)" metaid="R_ECA4COLIPAabctex" sboTerm="SBO:0000185" fbc:upperFluxBound="cobra_default_ub" fbc:lowerFluxBound="cobra_0_bound">
+        <sbml:annotation xmlns:sbml="http://www.sbml.org/sbml/level3/version1/core">
+          <rdf:RDF xmlns:rdf="http://www.w3.org/1999/02/22-rdf-syntax-ns#">
+            <rdf:Description rdf:about="#R_ECA4COLIPAabctex">
+              <bqbiol:is xmlns:bqbiol="http://biomodels.net/biology-qualifiers/">
+                <rdf:Bag>
+                  <rdf:li rdf:resource="http://identifiers.org/bigg.reaction/ECA4COLIPAabctex"/>
+                  <rdf:li rdf:resource="http://identifiers.org/metanetx.reaction/MNXR97871"/>
+                </rdf:Bag>
+              </bqbiol:is>
+            </rdf:Description>
+          </rdf:RDF>
+        </sbml:annotation>
+        <listOfReactants>
+          <speciesReference species="M_atp_c" stoichiometry="1" constant="true"/>
+          <speciesReference species="M_eca4colipa_p" stoichiometry="1" constant="true"/>
+          <speciesReference species="M_h2o_c" stoichiometry="1" constant="true"/>
+        </listOfReactants>
+        <listOfProducts>
+          <speciesReference species="M_adp_c" stoichiometry="1" constant="true"/>
+          <speciesReference species="M_eca4colipa_e" stoichiometry="1" constant="true"/>
+          <speciesReference species="M_h_c" stoichiometry="1" constant="true"/>
+          <speciesReference species="M_pi_c" stoichiometry="1" constant="true"/>
+        </listOfProducts>
+        <fbc:geneProductAssociation>
+          <fbc:and>
+            <fbc:geneProductRef fbc:geneProduct="G_b4262"/>
+            <fbc:geneProductRef fbc:geneProduct="G_b4261"/>
+            <fbc:geneProductRef fbc:geneProduct="G_b3199"/>
+            <fbc:geneProductRef fbc:geneProduct="G_b3201"/>
+            <fbc:geneProductRef fbc:geneProduct="G_b3200"/>
+            <fbc:geneProductRef fbc:geneProduct="G_b0054"/>
+            <fbc:geneProductRef fbc:geneProduct="G_b0641"/>
+          </fbc:and>
+        </fbc:geneProductAssociation>
+      </reaction>
+      <reaction id="R_EX_ttrcyc_e" fast="false" reversible="false" name="Tetracycline exchange" metaid="R_EX_ttrcyc_e" sboTerm="SBO:0000627" fbc:upperFluxBound="cobra_default_ub" fbc:lowerFluxBound="cobra_0_bound">
+        <sbml:annotation xmlns:sbml="http://www.sbml.org/sbml/level3/version1/core">
+          <rdf:RDF xmlns:rdf="http://www.w3.org/1999/02/22-rdf-syntax-ns#">
+            <rdf:Description rdf:about="#R_EX_ttrcyc_e">
+              <bqbiol:is xmlns:bqbiol="http://biomodels.net/biology-qualifiers/">
+                <rdf:Bag>
+                  <rdf:li rdf:resource="http://identifiers.org/bigg.reaction/EX_ttrcyc_e"/>
+                  <rdf:li rdf:resource="http://identifiers.org/metanetx.reaction/MNXR104976"/>
+                  <rdf:li rdf:resource="http://identifiers.org/rhea/35242"/>
+                  <rdf:li rdf:resource="http://identifiers.org/rhea/35240"/>
+                  <rdf:li rdf:resource="http://identifiers.org/rhea/35241"/>
+                  <rdf:li rdf:resource="http://identifiers.org/rhea/35239"/>
+                </rdf:Bag>
+              </bqbiol:is>
+            </rdf:Description>
+          </rdf:RDF>
+        </sbml:annotation>
+        <listOfReactants>
+          <speciesReference species="M_ttrcyc_e" stoichiometry="1" constant="true"/>
+        </listOfReactants>
+      </reaction>
+      <reaction id="R_COLIPAPabctex" fast="false" reversible="false" name="Core oligosaccharide lipid A diphosphate transport via ABC system (periplasm to extracellular)" metaid="R_COLIPAPabctex" sboTerm="SBO:0000185" fbc:upperFluxBound="cobra_default_ub" fbc:lowerFluxBound="cobra_0_bound">
+        <sbml:annotation xmlns:sbml="http://www.sbml.org/sbml/level3/version1/core">
+          <rdf:RDF xmlns:rdf="http://www.w3.org/1999/02/22-rdf-syntax-ns#">
+            <rdf:Description rdf:about="#R_COLIPAPabctex">
+              <bqbiol:is xmlns:bqbiol="http://biomodels.net/biology-qualifiers/">
+                <rdf:Bag>
+                  <rdf:li rdf:resource="http://identifiers.org/bigg.reaction/COLIPAPabctex"/>
+                  <rdf:li rdf:resource="http://identifiers.org/metanetx.reaction/MNXR96843"/>
+                </rdf:Bag>
+              </bqbiol:is>
+            </rdf:Description>
+          </rdf:RDF>
+        </sbml:annotation>
+        <listOfReactants>
+          <speciesReference species="M_atp_c" stoichiometry="1" constant="true"/>
+          <speciesReference species="M_colipap_p" stoichiometry="1" constant="true"/>
+          <speciesReference species="M_h2o_c" stoichiometry="1" constant="true"/>
+        </listOfReactants>
+        <listOfProducts>
+          <speciesReference species="M_adp_c" stoichiometry="1" constant="true"/>
+          <speciesReference species="M_colipap_e" stoichiometry="1" constant="true"/>
+          <speciesReference species="M_h_c" stoichiometry="1" constant="true"/>
+          <speciesReference species="M_pi_c" stoichiometry="1" constant="true"/>
+        </listOfProducts>
+        <fbc:geneProductAssociation>
+          <fbc:and>
+            <fbc:geneProductRef fbc:geneProduct="G_b4262"/>
+            <fbc:geneProductRef fbc:geneProduct="G_b4261"/>
+            <fbc:geneProductRef fbc:geneProduct="G_b3199"/>
+            <fbc:geneProductRef fbc:geneProduct="G_b3201"/>
+            <fbc:geneProductRef fbc:geneProduct="G_b3200"/>
+            <fbc:geneProductRef fbc:geneProduct="G_b0054"/>
+            <fbc:geneProductRef fbc:geneProduct="G_b0641"/>
+          </fbc:and>
+        </fbc:geneProductAssociation>
+      </reaction>
+      <reaction id="R_NADPHXE" fast="false" reversible="true" name="NADPHX epimerase" metaid="R_NADPHXE" sboTerm="SBO:0000176" fbc:upperFluxBound="cobra_default_ub" fbc:lowerFluxBound="cobra_default_lb">
+        <sbml:annotation xmlns:sbml="http://www.sbml.org/sbml/level3/version1/core">
+          <rdf:RDF xmlns:rdf="http://www.w3.org/1999/02/22-rdf-syntax-ns#">
+            <rdf:Description rdf:about="#R_NADPHXE">
+              <bqbiol:is xmlns:bqbiol="http://biomodels.net/biology-qualifiers/">
+                <rdf:Bag>
+                  <rdf:li rdf:resource="http://identifiers.org/bigg.reaction/NADPHXE"/>
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+              </bqbiol:is>
+            </rdf:Description>
+          </rdf:RDF>
+        </sbml:annotation>
+        <listOfReactants>
+          <speciesReference species="M_nadphx__R_c" stoichiometry="1" constant="true"/>
+        </listOfReactants>
+        <listOfProducts>
+          <speciesReference species="M_nadphx__S_c" stoichiometry="1" constant="true"/>
+        </listOfProducts>
+        <fbc:geneProductAssociation>
+          <fbc:geneProductRef fbc:geneProduct="G_b4167"/>
+        </fbc:geneProductAssociation>
+      </reaction>
+      <reaction id="R_ALAtpp" fast="false" reversible="false" name="L-alanine export via facilited diffusion" metaid="R_ALAtpp" sboTerm="SBO:0000185" fbc:upperFluxBound="cobra_default_ub" fbc:lowerFluxBound="cobra_0_bound">
+        <sbml:annotation xmlns:sbml="http://www.sbml.org/sbml/level3/version1/core">
+          <rdf:RDF xmlns:rdf="http://www.w3.org/1999/02/22-rdf-syntax-ns#">
+            <rdf:Description rdf:about="#R_ALAtpp">
+              <bqbiol:is xmlns:bqbiol="http://biomodels.net/biology-qualifiers/">
+                <rdf:Bag>
+                  <rdf:li rdf:resource="http://identifiers.org/bigg.reaction/ALAtpp"/>
+                </rdf:Bag>
+              </bqbiol:is>
+            </rdf:Description>
+          </rdf:RDF>
+        </sbml:annotation>
+        <listOfReactants>
+          <speciesReference species="M_ala__L_c" stoichiometry="1" constant="true"/>
+        </listOfReactants>
+        <listOfProducts>
+          <speciesReference species="M_ala__L_p" stoichiometry="1" constant="true"/>
+        </listOfProducts>
+        <fbc:geneProductAssociation>
+          <fbc:geneProductRef fbc:geneProduct="G_b2670"/>
+        </fbc:geneProductAssociation>
+      </reaction>
+      <reaction id="R_CH4tex" fast="false" reversible="true" name="Methane Transport(extracellular via diffusion)" metaid="R_CH4tex" sboTerm="SBO:0000185" fbc:upperFluxBound="cobra_default_ub" fbc:lowerFluxBound="cobra_default_lb">
+        <sbml:annotation xmlns:sbml="http://www.sbml.org/sbml/level3/version1/core">
+          <rdf:RDF xmlns:rdf="http://www.w3.org/1999/02/22-rdf-syntax-ns#">
+            <rdf:Description rdf:about="#R_CH4tex">
+              <bqbiol:is xmlns:bqbiol="http://biomodels.net/biology-qualifiers/">
+                <rdf:Bag>
+                  <rdf:li rdf:resource="http://identifiers.org/bigg.reaction/CH4tex"/>
+                </rdf:Bag>
+              </bqbiol:is>
+            </rdf:Description>
+          </rdf:RDF>
+        </sbml:annotation>
+        <listOfReactants>
+          <speciesReference species="M_ch4_e" stoichiometry="1" constant="true"/>
+        </listOfReactants>
+        <listOfProducts>
+          <speciesReference species="M_ch4_p" stoichiometry="1" constant="true"/>
+        </listOfProducts>
+      </reaction>
+      <reaction id="R_EX_mincyc_e" fast="false" reversible="false" name="Minocycline exchange" metaid="R_EX_mincyc_e" sboTerm="SBO:0000627" fbc:upperFluxBound="cobra_default_ub" fbc:lowerFluxBound="cobra_0_bound">
+        <sbml:annotation xmlns:sbml="http://www.sbml.org/sbml/level3/version1/core">
+          <rdf:RDF xmlns:rdf="http://www.w3.org/1999/02/22-rdf-syntax-ns#">
+            <rdf:Description rdf:about="#R_EX_mincyc_e">
+              <bqbiol:is xmlns:bqbiol="http://biomodels.net/biology-qualifiers/">
+                <rdf:Bag>
+                  <rdf:li rdf:resource="http://identifiers.org/bigg.reaction/EX_mincyc_e"/>
+                  <rdf:li rdf:resource="http://identifiers.org/metanetx.reaction/MNXR101582"/>
+                  <rdf:li rdf:resource="http://identifiers.org/rhea/35168"/>
+                  <rdf:li rdf:resource="http://identifiers.org/rhea/35167"/>
+                  <rdf:li rdf:resource="http://identifiers.org/rhea/35169"/>
+                  <rdf:li rdf:resource="http://identifiers.org/rhea/35170"/>
+                </rdf:Bag>
+              </bqbiol:is>
+            </rdf:Description>
+          </rdf:RDF>
+        </sbml:annotation>
+        <listOfReactants>
+          <speciesReference species="M_mincyc_e" stoichiometry="1" constant="true"/>
+        </listOfReactants>
+      </reaction>
+      <reaction id="R_TARTRDtex" fast="false" reversible="true" name="D-tartrate transport via diffusion (extracellular to periplasm)" metaid="R_TARTRDtex" sboTerm="SBO:0000185" fbc:upperFluxBound="cobra_default_ub" fbc:lowerFluxBound="cobra_default_lb">
+        <sbml:annotation xmlns:sbml="http://www.sbml.org/sbml/level3/version1/core">
+          <rdf:RDF xmlns:rdf="http://www.w3.org/1999/02/22-rdf-syntax-ns#">
+            <rdf:Description rdf:about="#R_TARTRDtex">
+              <bqbiol:is xmlns:bqbiol="http://biomodels.net/biology-qualifiers/">
+                <rdf:Bag>
+                  <rdf:li rdf:resource="http://identifiers.org/bigg.reaction/TARTRDtex"/>
+                  <rdf:li rdf:resource="http://identifiers.org/metanetx.reaction/MNXR104722"/>
+                  <rdf:li rdf:resource="http://identifiers.org/rhea/35199"/>
+                  <rdf:li rdf:resource="http://identifiers.org/rhea/35200"/>
+                  <rdf:li rdf:resource="http://identifiers.org/rhea/35202"/>
+                  <rdf:li rdf:resource="http://identifiers.org/rhea/35201"/>
+                </rdf:Bag>
+              </bqbiol:is>
+            </rdf:Description>
+          </rdf:RDF>
+        </sbml:annotation>
+        <listOfReactants>
+          <speciesReference species="M_tartr__D_e" stoichiometry="1" constant="true"/>
+        </listOfReactants>
+        <listOfProducts>
+          <speciesReference species="M_tartr__D_p" stoichiometry="1" constant="true"/>
+        </listOfProducts>
+        <fbc:geneProductAssociation>
+          <fbc:or>
+            <fbc:geneProductRef fbc:geneProduct="G_b1377"/>
+            <fbc:geneProductRef fbc:geneProduct="G_b2215"/>
+            <fbc:geneProductRef fbc:geneProduct="G_b0241"/>
+            <fbc:geneProductRef fbc:geneProduct="G_b0929"/>
+          </fbc:or>
+        </fbc:geneProductAssociation>
+      </reaction>
+      <reaction id="R_DM_4crsol_c" fast="false" reversible="false" name="Sink needed to allow p-Cresol to leave system" metaid="R_DM_4crsol_c" sboTerm="SBO:0000628" fbc:upperFluxBound="cobra_default_ub" fbc:lowerFluxBound="cobra_0_bound">
+        <sbml:annotation xmlns:sbml="http://www.sbml.org/sbml/level3/version1/core">
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+            <rdf:Description rdf:about="#R_DM_4crsol_c">
+              <bqbiol:is xmlns:bqbiol="http://biomodels.net/biology-qualifiers/">
+                <rdf:Bag>
+                  <rdf:li rdf:resource="http://identifiers.org/bigg.reaction/DM_4crsol_c"/>
+                  <rdf:li rdf:resource="http://identifiers.org/biocyc/META:TRANS-RXN0-500"/>
+                  <rdf:li rdf:resource="http://identifiers.org/metanetx.reaction/MNXR96888"/>
+                  <rdf:li rdf:resource="http://identifiers.org/rhea/35071"/>
+                  <rdf:li rdf:resource="http://identifiers.org/rhea/35072"/>
+                  <rdf:li rdf:resource="http://identifiers.org/rhea/35074"/>
+                  <rdf:li rdf:resource="http://identifiers.org/rhea/35073"/>
+                </rdf:Bag>
+              </bqbiol:is>
+            </rdf:Description>
+          </rdf:RDF>
+        </sbml:annotation>
+        <listOfReactants>
+          <speciesReference species="M_4crsol_c" stoichiometry="1" constant="true"/>
+        </listOfReactants>
+      </reaction>
+      <reaction id="R_3OXCOAT" fast="false" reversible="false" name="3-oxoadipyl-CoA thiolase" metaid="R_3OXCOAT" sboTerm="SBO:0000176" fbc:upperFluxBound="cobra_default_ub" fbc:lowerFluxBound="cobra_0_bound">
+        <sbml:annotation xmlns:sbml="http://www.sbml.org/sbml/level3/version1/core">
+          <rdf:RDF xmlns:rdf="http://www.w3.org/1999/02/22-rdf-syntax-ns#">
+            <rdf:Description rdf:about="#R_3OXCOAT">
+              <bqbiol:is xmlns:bqbiol="http://biomodels.net/biology-qualifiers/">
+                <rdf:Bag>
+                  <rdf:li rdf:resource="http://identifiers.org/bigg.reaction/3OXCOAT"/>
+                  <rdf:li rdf:resource="http://identifiers.org/biocyc/META:RXN-3641"/>
+                  <rdf:li rdf:resource="http://identifiers.org/ec-code/2.3.1.16"/>
+                  <rdf:li rdf:resource="http://identifiers.org/ec-code/2.3.1.174"/>
+                  <rdf:li rdf:resource="http://identifiers.org/kegg.reaction/R00829"/>
+                  <rdf:li rdf:resource="http://identifiers.org/metanetx.reaction/MNXR94967"/>
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+                  <rdf:li rdf:resource="http://identifiers.org/rhea/19483"/>
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+                  <rdf:li rdf:resource="http://identifiers.org/sabiork/1170"/>
+                  <rdf:li rdf:resource="http://identifiers.org/seed.reaction/rxn00598"/>
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+          </rdf:RDF>
+        </sbml:annotation>
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+          <speciesReference species="M_oxadpcoa_c" stoichiometry="1" constant="true"/>
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+        <listOfProducts>
+          <speciesReference species="M_accoa_c" stoichiometry="1" constant="true"/>
+          <speciesReference species="M_succoa_c" stoichiometry="1" constant="true"/>
+        </listOfProducts>
+        <fbc:geneProductAssociation>
+          <fbc:geneProductRef fbc:geneProduct="G_b1397"/>
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+      </reaction>
+      <reaction id="R_BTNt2ipp" fast="false" reversible="false" name="Biotin transport via proton symport (periplasm)" metaid="R_BTNt2ipp" sboTerm="SBO:0000185" fbc:upperFluxBound="cobra_default_ub" fbc:lowerFluxBound="cobra_0_bound">
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+          <speciesReference species="M_btn_c" stoichiometry="1" constant="true"/>
+          <speciesReference species="M_h_c" stoichiometry="1" constant="true"/>
+        </listOfProducts>
+      </reaction>
+      <reaction id="R_URACPAH" fast="false" reversible="false" name="Peroxyureidoacrylate hydrolase" metaid="R_URACPAH" sboTerm="SBO:0000176" fbc:upperFluxBound="cobra_default_ub" fbc:lowerFluxBound="cobra_0_bound">
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+                  <rdf:li rdf:resource="http://identifiers.org/rhea/31594"/>
+                  <rdf:li rdf:resource="http://identifiers.org/rhea/31593"/>
+                  <rdf:li rdf:resource="http://identifiers.org/rhea/31591"/>
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+        <listOfProducts>
+          <speciesReference species="M_cbm_c" stoichiometry="1" constant="true"/>
+          <speciesReference species="M_h_c" stoichiometry="1" constant="true"/>
+          <speciesReference species="M_poaac_c" stoichiometry="1" constant="true"/>
+        </listOfProducts>
+        <fbc:geneProductAssociation>
+          <fbc:geneProductRef fbc:geneProduct="G_b1011"/>
+        </fbc:geneProductAssociation>
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+      <reaction id="R_BTNtex" fast="false" reversible="true" name="Biotin transport via diffusion (extracellular to periplasm)" metaid="R_BTNtex" sboTerm="SBO:0000185" fbc:upperFluxBound="cobra_default_ub" fbc:lowerFluxBound="cobra_default_lb">
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+                  <rdf:li rdf:resource="http://identifiers.org/rhea/28461"/>
+                  <rdf:li rdf:resource="http://identifiers.org/rhea/28460"/>
+                  <rdf:li rdf:resource="http://identifiers.org/rhea/28458"/>
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+        <listOfProducts>
+          <speciesReference species="M_btn_p" stoichiometry="1" constant="true"/>
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+            <fbc:geneProductRef fbc:geneProduct="G_b1377"/>
+            <fbc:geneProductRef fbc:geneProduct="G_b0241"/>
+            <fbc:geneProductRef fbc:geneProduct="G_b0929"/>
+          </fbc:or>
+        </fbc:geneProductAssociation>
+      </reaction>
+      <reaction id="R_DHBSZ3FEabcpp" fast="false" reversible="false" name="23dhbsz3 Fe III transport via ABC system periplasm" metaid="R_DHBSZ3FEabcpp" sboTerm="SBO:0000185" fbc:upperFluxBound="cobra_default_ub" fbc:lowerFluxBound="cobra_0_bound">
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+        </sbml:annotation>
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+          <speciesReference species="M_fe3dhbzs3_p" stoichiometry="1" constant="true"/>
+          <speciesReference species="M_h2o_c" stoichiometry="1" constant="true"/>
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+        <listOfProducts>
+          <speciesReference species="M_adp_c" stoichiometry="1" constant="true"/>
+          <speciesReference species="M_fe3dhbzs3_c" stoichiometry="1" constant="true"/>
+          <speciesReference species="M_h_c" stoichiometry="1" constant="true"/>
+          <speciesReference species="M_pi_c" stoichiometry="1" constant="true"/>
+        </listOfProducts>
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+            <fbc:geneProductRef fbc:geneProduct="G_b0588"/>
+            <fbc:geneProductRef fbc:geneProduct="G_b0589"/>
+            <fbc:geneProductRef fbc:geneProduct="G_b0590"/>
+            <fbc:geneProductRef fbc:geneProduct="G_b0592"/>
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+        </fbc:geneProductAssociation>
+      </reaction>
+      <reaction id="R_FE3DHBZS3R" fast="false" reversible="false" name="Fe(III)-(2,3-dihydroxybenzoylserine)3 reductase via NADPH" metaid="R_FE3DHBZS3R" sboTerm="SBO:0000176" fbc:upperFluxBound="cobra_default_ub" fbc:lowerFluxBound="cobra_0_bound">
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+          <speciesReference species="M_nadph_c" stoichiometry="1" constant="true"/>
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+          <speciesReference species="M_23dhbzs3_c" stoichiometry="2" constant="true"/>
+          <speciesReference species="M_fe2_c" stoichiometry="2" constant="true"/>
+          <speciesReference species="M_h_c" stoichiometry="3" constant="true"/>
+          <speciesReference species="M_nadp_c" stoichiometry="1" constant="true"/>
+        </listOfProducts>
+        <fbc:geneProductAssociation>
+          <fbc:geneProductRef fbc:geneProduct="G_b3070"/>
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+        <listOfProducts>
+          <speciesReference species="M_dxylnt_c" stoichiometry="1" constant="true"/>
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+          <speciesReference species="M_dxylnt_c" stoichiometry="1" constant="true"/>
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+        <listOfProducts>
+          <speciesReference species="M_2ddara_c" stoichiometry="1" constant="true"/>
+          <speciesReference species="M_h2o_c" stoichiometry="1" constant="true"/>
+        </listOfProducts>
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+            <fbc:geneProductRef fbc:geneProduct="G_b4297"/>
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+        </fbc:geneProductAssociation>
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+      <reaction id="R_2DDARAA" fast="false" reversible="true" name="2-dehydro-3-deoxy-D-arabinonate Aldolase" metaid="R_2DDARAA" sboTerm="SBO:0000176" fbc:upperFluxBound="cobra_default_ub" fbc:lowerFluxBound="cobra_default_lb">
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+              <bqbiol:is xmlns:bqbiol="http://biomodels.net/biology-qualifiers/">
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+        <listOfProducts>
+          <speciesReference species="M_gcald_c" stoichiometry="1" constant="true"/>
+          <speciesReference species="M_pyr_c" stoichiometry="1" constant="true"/>
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+          <fbc:or>
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+            <fbc:geneProductRef fbc:geneProduct="G_b0268"/>
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+        </fbc:geneProductAssociation>
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+              <bqbiol:is xmlns:bqbiol="http://biomodels.net/biology-qualifiers/">
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+          <speciesReference species="M_2dglc_p" stoichiometry="1" constant="true"/>
+          <speciesReference species="M_pep_c" stoichiometry="1" constant="true"/>
+        </listOfReactants>
+        <listOfProducts>
+          <speciesReference species="M_2doxg6p_c" stoichiometry="1" constant="true"/>
+          <speciesReference species="M_pyr_c" stoichiometry="1" constant="true"/>
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+            <fbc:geneProductRef fbc:geneProduct="G_b1817"/>
+            <fbc:geneProductRef fbc:geneProduct="G_b1819"/>
+            <fbc:geneProductRef fbc:geneProduct="G_b2416"/>
+            <fbc:geneProductRef fbc:geneProduct="G_b1818"/>
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+        </fbc:geneProductAssociation>
+      </reaction>
+      <reaction id="R_2DGULRGx" fast="false" reversible="false" name="2-Dehydro-L-gulonate reductase to gluconate (NADH)" metaid="R_2DGULRGx" sboTerm="SBO:0000176" fbc:upperFluxBound="cobra_default_ub" fbc:lowerFluxBound="cobra_0_bound">
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+          <speciesReference species="M_2dhguln_c" stoichiometry="1" constant="true"/>
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+          <speciesReference species="M_nadh_c" stoichiometry="1" constant="true"/>
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+          <speciesReference species="M_glcn_c" stoichiometry="1" constant="true"/>
+          <speciesReference species="M_nad_c" stoichiometry="1" constant="true"/>
+        </listOfProducts>
+        <fbc:geneProductAssociation>
+          <fbc:geneProductRef fbc:geneProduct="G_b3553"/>
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+          <speciesReference species="M_glcn_c" stoichiometry="1" constant="true"/>
+          <speciesReference species="M_nadp_c" stoichiometry="1" constant="true"/>
+        </listOfProducts>
+        <fbc:geneProductAssociation>
+          <fbc:geneProductRef fbc:geneProduct="G_b3553"/>
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+        <fbc:geneProductAssociation>
+          <fbc:geneProductRef fbc:geneProduct="G_b4129"/>
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+                  <rdf:li rdf:resource="http://identifiers.org/rhea/34943"/>
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+        </sbml:annotation>
+        <listOfReactants>
+          <speciesReference species="M_arbt_p" stoichiometry="1" constant="true"/>
+          <speciesReference species="M_pep_c" stoichiometry="1" constant="true"/>
+        </listOfReactants>
+        <listOfProducts>
+          <speciesReference species="M_arbt6p_c" stoichiometry="1" constant="true"/>
+          <speciesReference species="M_pyr_c" stoichiometry="1" constant="true"/>
+        </listOfProducts>
+        <fbc:geneProductAssociation>
+          <fbc:or>
+            <fbc:and>
+              <fbc:geneProductRef fbc:geneProduct="G_b3722"/>
+              <fbc:geneProductRef fbc:geneProduct="G_b2416"/>
+              <fbc:geneProductRef fbc:geneProduct="G_b2415"/>
+            </fbc:and>
+            <fbc:and>
+              <fbc:geneProductRef fbc:geneProduct="G_b2715"/>
+              <fbc:geneProductRef fbc:geneProduct="G_b2416"/>
+              <fbc:geneProductRef fbc:geneProduct="G_b2415"/>
+            </fbc:and>
+          </fbc:or>
+        </fbc:geneProductAssociation>
+      </reaction>
+      <reaction id="R_ARBTtex" fast="false" reversible="false" name="Arbutin transport via diffusion (extracellular to periplasm)" metaid="R_ARBTtex" sboTerm="SBO:0000185" fbc:upperFluxBound="cobra_default_ub" fbc:lowerFluxBound="cobra_0_bound">
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+              <bqbiol:is xmlns:bqbiol="http://biomodels.net/biology-qualifiers/">
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+                  <rdf:li rdf:resource="http://identifiers.org/metanetx.reaction/MNXR95933"/>
+                  <rdf:li rdf:resource="http://identifiers.org/rhea/35024"/>
+                  <rdf:li rdf:resource="http://identifiers.org/rhea/35025"/>
+                  <rdf:li rdf:resource="http://identifiers.org/rhea/35023"/>
+                  <rdf:li rdf:resource="http://identifiers.org/rhea/35026"/>
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+        </sbml:annotation>
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+          <speciesReference species="M_arbt_e" stoichiometry="1" constant="true"/>
+        </listOfReactants>
+        <listOfProducts>
+          <speciesReference species="M_arbt_p" stoichiometry="1" constant="true"/>
+        </listOfProducts>
+        <fbc:geneProductAssociation>
+          <fbc:or>
+            <fbc:geneProductRef fbc:geneProduct="G_b2215"/>
+            <fbc:geneProductRef fbc:geneProduct="G_b0929"/>
+            <fbc:geneProductRef fbc:geneProduct="G_b1377"/>
+            <fbc:geneProductRef fbc:geneProduct="G_b0241"/>
+          </fbc:or>
+        </fbc:geneProductAssociation>
+      </reaction>
+      <reaction id="R_EX_arbt_e" fast="false" reversible="false" name="Arbutin exchange" metaid="R_EX_arbt_e" sboTerm="SBO:0000627" fbc:upperFluxBound="cobra_default_ub" fbc:lowerFluxBound="cobra_0_bound">
+        <sbml:annotation xmlns:sbml="http://www.sbml.org/sbml/level3/version1/core">
+          <rdf:RDF xmlns:rdf="http://www.w3.org/1999/02/22-rdf-syntax-ns#">
+            <rdf:Description rdf:about="#R_EX_arbt_e">
+              <bqbiol:is xmlns:bqbiol="http://biomodels.net/biology-qualifiers/">
+                <rdf:Bag>
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+                  <rdf:li rdf:resource="http://identifiers.org/rhea/35025"/>
+                  <rdf:li rdf:resource="http://identifiers.org/rhea/35023"/>
+                  <rdf:li rdf:resource="http://identifiers.org/rhea/35026"/>
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+          </rdf:RDF>
+        </sbml:annotation>
+        <listOfReactants>
+          <speciesReference species="M_arbt_e" stoichiometry="1" constant="true"/>
+        </listOfReactants>
+      </reaction>
+      <reaction id="R_GNP" fast="false" reversible="false" name="Phosphogluconate phosphatase" metaid="R_GNP" sboTerm="SBO:0000176" fbc:upperFluxBound="cobra_default_ub" fbc:lowerFluxBound="cobra_0_bound">
+        <sbml:annotation xmlns:sbml="http://www.sbml.org/sbml/level3/version1/core">
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+            <rdf:Description rdf:about="#R_GNP">
+              <bqbiol:is xmlns:bqbiol="http://biomodels.net/biology-qualifiers/">
+                <rdf:Bag>
+                  <rdf:li rdf:resource="http://identifiers.org/bigg.reaction/GNP"/>
+                </rdf:Bag>
+              </bqbiol:is>
+            </rdf:Description>
+          </rdf:RDF>
+        </sbml:annotation>
+        <listOfReactants>
+          <speciesReference species="M_6pgc_c" stoichiometry="1" constant="true"/>
+          <speciesReference species="M_h2o_c" stoichiometry="1" constant="true"/>
+        </listOfReactants>
+        <listOfProducts>
+          <speciesReference species="M_glcn_c" stoichiometry="1" constant="true"/>
+          <speciesReference species="M_pi_c" stoichiometry="1" constant="true"/>
+        </listOfProducts>
+        <fbc:geneProductAssociation>
+          <fbc:or>
+            <fbc:geneProductRef fbc:geneProduct="G_b3715"/>
+            <fbc:geneProductRef fbc:geneProduct="G_b2690"/>
+          </fbc:or>
+        </fbc:geneProductAssociation>
+      </reaction>
+      <reaction id="R_ALLTAMH2" fast="false" reversible="false" name="Allantoate amidinohydrolase" metaid="R_ALLTAMH2" sboTerm="SBO:0000176" fbc:upperFluxBound="cobra_default_ub" fbc:lowerFluxBound="cobra_0_bound">
+        <sbml:annotation xmlns:sbml="http://www.sbml.org/sbml/level3/version1/core">
+          <rdf:RDF xmlns:rdf="http://www.w3.org/1999/02/22-rdf-syntax-ns#">
+            <rdf:Description rdf:about="#R_ALLTAMH2">
+              <bqbiol:is xmlns:bqbiol="http://biomodels.net/biology-qualifiers/">
+                <rdf:Bag>
+                  <rdf:li rdf:resource="http://identifiers.org/bigg.reaction/ALLTAMH2"/>
+                </rdf:Bag>
+              </bqbiol:is>
+            </rdf:Description>
+          </rdf:RDF>
+        </sbml:annotation>
+        <listOfReactants>
+          <speciesReference species="M_alltt_c" stoichiometry="1" constant="true"/>
+          <speciesReference species="M_h2o_c" stoichiometry="1" constant="true"/>
+          <speciesReference species="M_h_c" stoichiometry="2" constant="true"/>
+        </listOfReactants>
+        <listOfProducts>
+          <speciesReference species="M_co2_c" stoichiometry="1" constant="true"/>
+          <speciesReference species="M_nh4_c" stoichiometry="1" constant="true"/>
+          <speciesReference species="M_urdgci_c" stoichiometry="1" constant="true"/>
+        </listOfProducts>
+        <fbc:geneProductAssociation>
+          <fbc:geneProductRef fbc:geneProduct="G_b0516"/>
+        </fbc:geneProductAssociation>
+      </reaction>
+      <reaction id="R_UGCIAMH" fast="false" reversible="false" name="Ureidoglycine aminohydrolase" metaid="R_UGCIAMH" sboTerm="SBO:0000176" fbc:upperFluxBound="cobra_default_ub" fbc:lowerFluxBound="cobra_0_bound">
+        <sbml:annotation xmlns:sbml="http://www.sbml.org/sbml/level3/version1/core">
+          <rdf:RDF xmlns:rdf="http://www.w3.org/1999/02/22-rdf-syntax-ns#">
+            <rdf:Description rdf:about="#R_UGCIAMH">
+              <bqbiol:is xmlns:bqbiol="http://biomodels.net/biology-qualifiers/">
+                <rdf:Bag>
+                  <rdf:li rdf:resource="http://identifiers.org/bigg.reaction/UGCIAMH"/>
+                </rdf:Bag>
+              </bqbiol:is>
+            </rdf:Description>
+          </rdf:RDF>
+        </sbml:annotation>
+        <listOfReactants>
+          <speciesReference species="M_h2o_c" stoichiometry="1" constant="true"/>
+          <speciesReference species="M_urdgci_c" stoichiometry="1" constant="true"/>
+        </listOfReactants>
+        <listOfProducts>
+          <speciesReference species="M_nh4_c" stoichiometry="1" constant="true"/>
+          <speciesReference species="M_urdglyc_c" stoichiometry="1" constant="true"/>
+        </listOfProducts>
+        <fbc:geneProductAssociation>
+          <fbc:geneProductRef fbc:geneProduct="G_b0515"/>
+        </fbc:geneProductAssociation>
+      </reaction>
+      <reaction id="R_DMSOtpp" fast="false" reversible="true" name="Dimethyl sulfoxide transport via diffusion (periplasm)" metaid="R_DMSOtpp" sboTerm="SBO:0000185" fbc:upperFluxBound="cobra_default_ub" fbc:lowerFluxBound="cobra_default_lb">
+        <sbml:annotation xmlns:sbml="http://www.sbml.org/sbml/level3/version1/core">
+          <rdf:RDF xmlns:rdf="http://www.w3.org/1999/02/22-rdf-syntax-ns#">
+            <rdf:Description rdf:about="#R_DMSOtpp">
+              <bqbiol:is xmlns:bqbiol="http://biomodels.net/biology-qualifiers/">
+                <rdf:Bag>
+                  <rdf:li rdf:resource="http://identifiers.org/bigg.reaction/DMSOtpp"/>
+                  <rdf:li rdf:resource="http://identifiers.org/biocyc/META:TRANS-RXN0-273"/>
+                  <rdf:li rdf:resource="http://identifiers.org/metanetx.reaction/MNXR97533"/>
+                  <rdf:li rdf:resource="http://identifiers.org/rhea/29700"/>
+                  <rdf:li rdf:resource="http://identifiers.org/rhea/29701"/>
+                  <rdf:li rdf:resource="http://identifiers.org/rhea/29702"/>
+                  <rdf:li rdf:resource="http://identifiers.org/rhea/29699"/>
+                  <rdf:li rdf:resource="http://identifiers.org/seed.reaction/rxn08358"/>
+                </rdf:Bag>
+              </bqbiol:is>
+            </rdf:Description>
+          </rdf:RDF>
+        </sbml:annotation>
+        <listOfReactants>
+          <speciesReference species="M_dmso_p" stoichiometry="1" constant="true"/>
+        </listOfReactants>
+        <listOfProducts>
+          <speciesReference species="M_dmso_c" stoichiometry="1" constant="true"/>
+        </listOfProducts>
+        <fbc:geneProductAssociation>
+          <fbc:geneProductRef fbc:geneProduct="G_s0001"/>
+        </fbc:geneProductAssociation>
+      </reaction>
+      <reaction id="R_POAACR" fast="false" reversible="false" name="Peroxyaminoacrylate reductase" metaid="R_POAACR" sboTerm="SBO:0000176" fbc:upperFluxBound="cobra_default_ub" fbc:lowerFluxBound="cobra_0_bound">
+        <sbml:annotation xmlns:sbml="http://www.sbml.org/sbml/level3/version1/core">
+          <rdf:RDF xmlns:rdf="http://www.w3.org/1999/02/22-rdf-syntax-ns#">
+            <rdf:Description rdf:about="#R_POAACR">
+              <bqbiol:is xmlns:bqbiol="http://biomodels.net/biology-qualifiers/">
+                <rdf:Bag>
+                  <rdf:li rdf:resource="http://identifiers.org/bigg.reaction/POAACR"/>
+                  <rdf:li rdf:resource="http://identifiers.org/metanetx.reaction/MNXR103056"/>
+                </rdf:Bag>
+              </bqbiol:is>
+            </rdf:Description>
+          </rdf:RDF>
+        </sbml:annotation>
+        <listOfReactants>
+          <speciesReference species="M_nadh_c" stoichiometry="1" constant="true"/>
+          <speciesReference species="M_poaac_c" stoichiometry="1" constant="true"/>
+        </listOfReactants>
+        <listOfProducts>
+          <speciesReference species="M_3amac_c" stoichiometry="1" constant="true"/>
+          <speciesReference species="M_h2o_c" stoichiometry="1" constant="true"/>
+          <speciesReference species="M_nad_c" stoichiometry="1" constant="true"/>
+        </listOfProducts>
+        <fbc:geneProductAssociation>
+          <fbc:geneProductRef fbc:geneProduct="G_b1010"/>
+        </fbc:geneProductAssociation>
+      </reaction>
+      <reaction id="R_PYDXtex" fast="false" reversible="true" name="Pyridoxal transport via diffusion (extracellular)" metaid="R_PYDXtex" sboTerm="SBO:0000185" fbc:upperFluxBound="cobra_default_ub" fbc:lowerFluxBound="cobra_default_lb">
+        <sbml:annotation xmlns:sbml="http://www.sbml.org/sbml/level3/version1/core">
+          <rdf:RDF xmlns:rdf="http://www.w3.org/1999/02/22-rdf-syntax-ns#">
+            <rdf:Description rdf:about="#R_PYDXtex">
+              <bqbiol:is xmlns:bqbiol="http://biomodels.net/biology-qualifiers/">
+                <rdf:Bag>
+                  <rdf:li rdf:resource="http://identifiers.org/bigg.reaction/PYDXtex"/>
+                  <rdf:li rdf:resource="http://identifiers.org/biocyc/META:TRANS-RXN0-214"/>
+                  <rdf:li rdf:resource="http://identifiers.org/metanetx.reaction/MNXR103370"/>
+                  <rdf:li rdf:resource="http://identifiers.org/rhea/28462"/>
+                  <rdf:li rdf:resource="http://identifiers.org/rhea/28465"/>
+                  <rdf:li rdf:resource="http://identifiers.org/rhea/28463"/>
+                  <rdf:li rdf:resource="http://identifiers.org/rhea/28464"/>
+                  <rdf:li rdf:resource="http://identifiers.org/seed.reaction/rxn12666"/>
+                </rdf:Bag>
+              </bqbiol:is>
+            </rdf:Description>
+          </rdf:RDF>
+        </sbml:annotation>
+        <listOfReactants>
+          <speciesReference species="M_pydx_e" stoichiometry="1" constant="true"/>
+        </listOfReactants>
+        <listOfProducts>
+          <speciesReference species="M_pydx_p" stoichiometry="1" constant="true"/>
+        </listOfProducts>
+        <fbc:geneProductAssociation>
+          <fbc:or>
+            <fbc:geneProductRef fbc:geneProduct="G_b2215"/>
+            <fbc:geneProductRef fbc:geneProduct="G_b0929"/>
+            <fbc:geneProductRef fbc:geneProduct="G_b1377"/>
+            <fbc:geneProductRef fbc:geneProduct="G_b0241"/>
+          </fbc:or>
+        </fbc:geneProductAssociation>
+      </reaction>
+      <reaction id="R_PYDXtpp" fast="false" reversible="false" name="Pyridoxal import" metaid="R_PYDXtpp" sboTerm="SBO:0000185" fbc:upperFluxBound="cobra_default_ub" fbc:lowerFluxBound="cobra_0_bound">
+        <sbml:annotation xmlns:sbml="http://www.sbml.org/sbml/level3/version1/core">
+          <rdf:RDF xmlns:rdf="http://www.w3.org/1999/02/22-rdf-syntax-ns#">
+            <rdf:Description rdf:about="#R_PYDXtpp">
+              <bqbiol:is xmlns:bqbiol="http://biomodels.net/biology-qualifiers/">
+                <rdf:Bag>
+                  <rdf:li rdf:resource="http://identifiers.org/bigg.reaction/PYDXtpp"/>
+                  <rdf:li rdf:resource="http://identifiers.org/biocyc/META:TRANS-RXN0-214"/>
+                  <rdf:li rdf:resource="http://identifiers.org/metanetx.reaction/MNXR103370"/>
+                  <rdf:li rdf:resource="http://identifiers.org/rhea/28462"/>
+                  <rdf:li rdf:resource="http://identifiers.org/rhea/28465"/>
+                  <rdf:li rdf:resource="http://identifiers.org/rhea/28463"/>
+                  <rdf:li rdf:resource="http://identifiers.org/rhea/28464"/>
+                  <rdf:li rdf:resource="http://identifiers.org/seed.reaction/rxn12666"/>
+                </rdf:Bag>
+              </bqbiol:is>
+            </rdf:Description>
+          </rdf:RDF>
+        </sbml:annotation>
+        <listOfReactants>
+          <speciesReference species="M_pydx_p" stoichiometry="1" constant="true"/>
+        </listOfReactants>
+        <listOfProducts>
+          <speciesReference species="M_pydx_c" stoichiometry="1" constant="true"/>
+        </listOfProducts>
+      </reaction>
+      <reaction id="R_SUCASPtpp" fast="false" reversible="true" name="Succinate:aspartate antiporter (periplasm)" metaid="R_SUCASPtpp" sboTerm="SBO:0000185" fbc:upperFluxBound="cobra_default_ub" fbc:lowerFluxBound="cobra_default_lb">
+        <sbml:annotation xmlns:sbml="http://www.sbml.org/sbml/level3/version1/core">
+          <rdf:RDF xmlns:rdf="http://www.w3.org/1999/02/22-rdf-syntax-ns#">
+            <rdf:Description rdf:about="#R_SUCASPtpp">
+              <bqbiol:is xmlns:bqbiol="http://biomodels.net/biology-qualifiers/">
+                <rdf:Bag>
+                  <rdf:li rdf:resource="http://identifiers.org/bigg.reaction/SUCASPtpp"/>
+                  <rdf:li rdf:resource="http://identifiers.org/biocyc/META:TRANS-RXN-106A"/>
+                  <rdf:li rdf:resource="http://identifiers.org/metanetx.reaction/MNXR104611"/>
+                  <rdf:li rdf:resource="http://identifiers.org/rhea/29343"/>
+                  <rdf:li rdf:resource="http://identifiers.org/rhea/29345"/>
+                  <rdf:li rdf:resource="http://identifiers.org/rhea/29344"/>
+                  <rdf:li rdf:resource="http://identifiers.org/rhea/29346"/>
+                </rdf:Bag>
+              </bqbiol:is>
+            </rdf:Description>
+          </rdf:RDF>
+        </sbml:annotation>
+        <listOfReactants>
+          <speciesReference species="M_asp__L_p" stoichiometry="1" constant="true"/>
+          <speciesReference species="M_succ_c" stoichiometry="1" constant="true"/>
+        </listOfReactants>
+        <listOfProducts>
+          <speciesReference species="M_asp__L_c" stoichiometry="1" constant="true"/>
+          <speciesReference species="M_succ_p" stoichiometry="1" constant="true"/>
+        </listOfProducts>
+        <fbc:geneProductAssociation>
+          <fbc:or>
+            <fbc:geneProductRef fbc:geneProduct="G_b4138"/>
+            <fbc:geneProductRef fbc:geneProduct="G_b4123"/>
+            <fbc:geneProductRef fbc:geneProduct="G_b0621"/>
+          </fbc:or>
+        </fbc:geneProductAssociation>
+      </reaction>
+      <reaction id="R_METGLCUR" fast="false" reversible="false" name="1-O-Methyl-Beta-D-glucuronidase" metaid="R_METGLCUR" sboTerm="SBO:0000176" fbc:upperFluxBound="cobra_default_ub" fbc:lowerFluxBound="cobra_0_bound">
+        <sbml:annotation xmlns:sbml="http://www.sbml.org/sbml/level3/version1/core">
+          <rdf:RDF xmlns:rdf="http://www.w3.org/1999/02/22-rdf-syntax-ns#">
+            <rdf:Description rdf:about="#R_METGLCUR">
+              <bqbiol:is xmlns:bqbiol="http://biomodels.net/biology-qualifiers/">
+                <rdf:Bag>
+                  <rdf:li rdf:resource="http://identifiers.org/bigg.reaction/METGLCUR"/>
+                </rdf:Bag>
+              </bqbiol:is>
+            </rdf:Description>
+          </rdf:RDF>
+        </sbml:annotation>
+        <listOfReactants>
+          <speciesReference species="M_h2o_c" stoichiometry="1" constant="true"/>
+          <speciesReference species="M_metglcur_c" stoichiometry="1" constant="true"/>
+        </listOfReactants>
+        <listOfProducts>
+          <speciesReference species="M_glcur_c" stoichiometry="1" constant="true"/>
+          <speciesReference species="M_meoh_c" stoichiometry="1" constant="true"/>
+        </listOfProducts>
+        <fbc:geneProductAssociation>
+          <fbc:geneProductRef fbc:geneProduct="G_b1617"/>
+        </fbc:geneProductAssociation>
+      </reaction>
+      <reaction id="R_ACOAD1fr" fast="false" reversible="false" name="Acyl-CoA dehydrogenase (butanoyl-CoA)" metaid="R_ACOAD1fr" sboTerm="SBO:0000176" fbc:upperFluxBound="cobra_default_ub" fbc:lowerFluxBound="cobra_0_bound">
+        <sbml:annotation xmlns:sbml="http://www.sbml.org/sbml/level3/version1/core">
+          <rdf:RDF xmlns:rdf="http://www.w3.org/1999/02/22-rdf-syntax-ns#">
+            <rdf:Description rdf:about="#R_ACOAD1fr">
+              <bqbiol:is xmlns:bqbiol="http://biomodels.net/biology-qualifiers/">
+                <rdf:Bag>
+                  <rdf:li rdf:resource="http://identifiers.org/bigg.reaction/ACOAD1fr"/>
+                </rdf:Bag>
+              </bqbiol:is>
+            </rdf:Description>
+          </rdf:RDF>
+        </sbml:annotation>
+        <listOfReactants>
+          <speciesReference species="M_b2coa_c" stoichiometry="1" constant="true"/>
+          <speciesReference species="M_fadh2_c" stoichiometry="1" constant="true"/>
+        </listOfReactants>
+        <listOfProducts>
+          <speciesReference species="M_btcoa_c" stoichiometry="1" constant="true"/>
+          <speciesReference species="M_fad_c" stoichiometry="1" constant="true"/>
+        </listOfProducts>
+        <fbc:geneProductAssociation>
+          <fbc:geneProductRef fbc:geneProduct="G_b1695"/>
+        </fbc:geneProductAssociation>
+      </reaction>
+      <reaction id="R_23DOGULNt4pp" fast="false" reversible="false" name="Na+/ 2,3-Dioxo-L-gulonate symport (periplasm)" metaid="R_23DOGULNt4pp" sboTerm="SBO:0000185" fbc:upperFluxBound="cobra_default_ub" fbc:lowerFluxBound="cobra_0_bound">
+        <sbml:annotation xmlns:sbml="http://www.sbml.org/sbml/level3/version1/core">
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+            <rdf:Description rdf:about="#R_23DOGULNt4pp">
+              <bqbiol:is xmlns:bqbiol="http://biomodels.net/biology-qualifiers/">
+                <rdf:Bag>
+                  <rdf:li rdf:resource="http://identifiers.org/bigg.reaction/23DOGULNt4pp"/>
+                </rdf:Bag>
+              </bqbiol:is>
+            </rdf:Description>
+          </rdf:RDF>
+        </sbml:annotation>
+        <listOfReactants>
+          <speciesReference species="M_23doguln_p" stoichiometry="1" constant="true"/>
+          <speciesReference species="M_na1_p" stoichiometry="1" constant="true"/>
+        </listOfReactants>
+        <listOfProducts>
+          <speciesReference species="M_23doguln_c" stoichiometry="1" constant="true"/>
+          <speciesReference species="M_na1_c" stoichiometry="1" constant="true"/>
+        </listOfProducts>
+        <fbc:geneProductAssociation>
+          <fbc:and>
+            <fbc:geneProductRef fbc:geneProduct="G_b3577"/>
+            <fbc:geneProductRef fbc:geneProduct="G_b3579"/>
+            <fbc:geneProductRef fbc:geneProduct="G_b3578"/>
+          </fbc:and>
+        </fbc:geneProductAssociation>
+      </reaction>
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+          <speciesReference species="M_fe3_e" stoichiometry="1" constant="true"/>
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+        <fbc:geneProductAssociation>
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+      <reaction id="R_SUCMALtpp" fast="false" reversible="true" name="Succinate:malate antiporter (periplasm)" metaid="R_SUCMALtpp" sboTerm="SBO:0000185" fbc:upperFluxBound="cobra_default_ub" fbc:lowerFluxBound="cobra_default_lb">
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+                  <rdf:li rdf:resource="http://identifiers.org/rhea/29328"/>
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+          <speciesReference species="M_succ_c" stoichiometry="1" constant="true"/>
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+        <listOfProducts>
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+          <speciesReference species="M_succ_p" stoichiometry="1" constant="true"/>
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+            <fbc:geneProductRef fbc:geneProduct="G_b4123"/>
+            <fbc:geneProductRef fbc:geneProduct="G_b0621"/>
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+        </fbc:geneProductAssociation>
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+            <fbc:geneProductRef fbc:geneProduct="G_b0929"/>
+            <fbc:geneProductRef fbc:geneProduct="G_b1377"/>
+            <fbc:geneProductRef fbc:geneProduct="G_b0241"/>
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+        </fbc:geneProductAssociation>
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+        <listOfProducts>
+          <speciesReference species="M_fe3dhbzs3_c" stoichiometry="1" constant="true"/>
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+          <fbc:geneProductRef fbc:geneProduct="G_b0585"/>
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+        <listOfProducts>
+          <speciesReference species="M_pydxn_c" stoichiometry="1" constant="true"/>
+        </listOfProducts>
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+        </sbml:annotation>
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+          <speciesReference species="M_nadph_c" stoichiometry="1" constant="true"/>
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+        <listOfProducts>
+          <speciesReference species="M_enter_c" stoichiometry="2" constant="true"/>
+          <speciesReference species="M_fe2_c" stoichiometry="2" constant="true"/>
+          <speciesReference species="M_h_c" stoichiometry="1" constant="true"/>
+          <speciesReference species="M_nadp_c" stoichiometry="1" constant="true"/>
+        </listOfProducts>
+        <fbc:geneProductAssociation>
+          <fbc:geneProductRef fbc:geneProduct="G_b3070"/>
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+      <reaction id="R_ACPPAT160" fast="false" reversible="false" name="Acyl-(acyl carrier protein):phosphate acyltransferase (C16:0)" metaid="R_ACPPAT160" sboTerm="SBO:0000176" fbc:upperFluxBound="cobra_default_ub" fbc:lowerFluxBound="cobra_0_bound">
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+          <speciesReference species="M_palmACP_c" stoichiometry="1" constant="true"/>
+          <speciesReference species="M_pi_c" stoichiometry="1" constant="true"/>
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+        <listOfProducts>
+          <speciesReference species="M_ACP_c" stoichiometry="1" constant="true"/>
+          <speciesReference species="M_hdcap_c" stoichiometry="1" constant="true"/>
+        </listOfProducts>
+        <fbc:geneProductAssociation>
+          <fbc:and>
+            <fbc:geneProductRef fbc:geneProduct="G_b1094"/>
+            <fbc:geneProductRef fbc:geneProduct="G_b1090"/>
+          </fbc:and>
+        </fbc:geneProductAssociation>
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+      <reaction id="R_DXYLONtex" fast="false" reversible="true" name="D-xylonate transport via diffusion (extracellular)" metaid="R_DXYLONtex" sboTerm="SBO:0000185" fbc:upperFluxBound="cobra_default_ub" fbc:lowerFluxBound="cobra_default_lb">
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+        <listOfProducts>
+          <speciesReference species="M_dxylnt_p" stoichiometry="1" constant="true"/>
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+            <fbc:geneProductRef fbc:geneProduct="G_b2215"/>
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+        </fbc:geneProductAssociation>
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+      <reaction id="R_PYDAMtex" fast="false" reversible="true" name="Pyridoxamine transport via diffusion (extracellular)" metaid="R_PYDAMtex" sboTerm="SBO:0000185" fbc:upperFluxBound="cobra_default_ub" fbc:lowerFluxBound="cobra_default_lb">
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+        <listOfProducts>
+          <speciesReference species="M_pydam_p" stoichiometry="1" constant="true"/>
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+            <fbc:geneProductRef fbc:geneProduct="G_b0241"/>
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+        </fbc:geneProductAssociation>
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+        </listOfProducts>
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+      <reaction id="R_PSURItex" fast="false" reversible="true" name="Pseudouridine transport via diffusion (extracellular to periplasm)" metaid="R_PSURItex" sboTerm="SBO:0000185" fbc:upperFluxBound="cobra_default_ub" fbc:lowerFluxBound="cobra_default_lb">
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+        <listOfProducts>
+          <speciesReference species="M_psuri_p" stoichiometry="1" constant="true"/>
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+            <fbc:geneProductRef fbc:geneProduct="G_b0241"/>
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+        </fbc:geneProductAssociation>
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+          <speciesReference species="M_mthgxl_c" stoichiometry="1" constant="true"/>
+          <speciesReference species="M_nadh_c" stoichiometry="1" constant="true"/>
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+          <speciesReference species="M_acetol_c" stoichiometry="1" constant="true"/>
+          <speciesReference species="M_nad_c" stoichiometry="1" constant="true"/>
+        </listOfProducts>
+        <fbc:geneProductAssociation>
+          <fbc:geneProductRef fbc:geneProduct="G_b1771"/>
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+      <reaction id="R_OMPHHXy" fast="false" reversible="false" name="2-octaprenyl-6-methoxyphenol hydroxylase (NADPH)" metaid="R_OMPHHXy" sboTerm="SBO:0000176" fbc:upperFluxBound="cobra_default_ub" fbc:lowerFluxBound="cobra_0_bound">
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+          <speciesReference species="M_nadph_c" stoichiometry="1" constant="true"/>
+          <speciesReference species="M_o2_c" stoichiometry="1" constant="true"/>
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+        <listOfProducts>
+          <speciesReference species="M_2ombzl_c" stoichiometry="1" constant="true"/>
+          <speciesReference species="M_h2o_c" stoichiometry="1" constant="true"/>
+          <speciesReference species="M_nadp_c" stoichiometry="1" constant="true"/>
+        </listOfProducts>
+        <fbc:geneProductAssociation>
+          <fbc:geneProductRef fbc:geneProduct="G_b2907"/>
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+      </reaction>
+      <reaction id="R_CHLt3pp" fast="false" reversible="false" name="Choline transport via proton antiport (periplasm)" metaid="R_CHLt3pp" sboTerm="SBO:0000185" fbc:upperFluxBound="cobra_default_ub" fbc:lowerFluxBound="cobra_0_bound">
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+                <rdf:Bag>
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+          <speciesReference species="M_h_c" stoichiometry="1" constant="true"/>
+        </listOfProducts>
+        <fbc:geneProductAssociation>
+          <fbc:geneProductRef fbc:geneProduct="G_b0543"/>
+        </fbc:geneProductAssociation>
+      </reaction>
+      <reaction id="R_13PPDH2" fast="false" reversible="true" name="1,3-propanediol dehydrogenase" metaid="R_13PPDH2" sboTerm="SBO:0000176" fbc:upperFluxBound="cobra_default_ub" fbc:lowerFluxBound="cobra_default_lb">
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+          <speciesReference species="M_h_c" stoichiometry="1" constant="true"/>
+          <speciesReference species="M_nadph_c" stoichiometry="1" constant="true"/>
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+        <listOfProducts>
+          <speciesReference species="M_13ppd_c" stoichiometry="1" constant="true"/>
+          <speciesReference species="M_nadp_c" stoichiometry="1" constant="true"/>
+        </listOfProducts>
+        <fbc:geneProductAssociation>
+          <fbc:geneProductRef fbc:geneProduct="G_b3011"/>
+        </fbc:geneProductAssociation>
+      </reaction>
+      <reaction id="R_TARTt2_3pp" fast="false" reversible="false" name="D-tartrate transport via proton symport (3 H) (periplasm)" metaid="R_TARTt2_3pp" sboTerm="SBO:0000185" fbc:upperFluxBound="cobra_default_ub" fbc:lowerFluxBound="cobra_0_bound">
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+        </sbml:annotation>
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+          <speciesReference species="M_tartr__D_p" stoichiometry="1" constant="true"/>
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+        <listOfProducts>
+          <speciesReference species="M_h_c" stoichiometry="3" constant="true"/>
+          <speciesReference species="M_tartr__D_c" stoichiometry="1" constant="true"/>
+        </listOfProducts>
+        <fbc:geneProductAssociation>
+          <fbc:geneProductRef fbc:geneProduct="G_b4123"/>
+        </fbc:geneProductAssociation>
+      </reaction>
+      <reaction id="R_SUCTARTtpp" fast="false" reversible="true" name="Succinate:D-tartrate antiporter (periplasm)" metaid="R_SUCTARTtpp" sboTerm="SBO:0000185" fbc:upperFluxBound="cobra_default_ub" fbc:lowerFluxBound="cobra_default_lb">
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+                  <rdf:li rdf:resource="http://identifiers.org/rhea/34764"/>
+                  <rdf:li rdf:resource="http://identifiers.org/rhea/34765"/>
+                  <rdf:li rdf:resource="http://identifiers.org/rhea/34766"/>
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+        </sbml:annotation>
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+          <speciesReference species="M_tartr__D_p" stoichiometry="1" constant="true"/>
+        </listOfReactants>
+        <listOfProducts>
+          <speciesReference species="M_succ_p" stoichiometry="1" constant="true"/>
+          <speciesReference species="M_tartr__D_c" stoichiometry="1" constant="true"/>
+        </listOfProducts>
+        <fbc:geneProductAssociation>
+          <fbc:geneProductRef fbc:geneProduct="G_b4123"/>
+        </fbc:geneProductAssociation>
+      </reaction>
+      <reaction id="R_APCS" fast="false" reversible="false" name="Aminopropylcadaverine synthase" metaid="R_APCS" sboTerm="SBO:0000176" fbc:upperFluxBound="cobra_default_ub" fbc:lowerFluxBound="cobra_0_bound">
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+                  <rdf:li rdf:resource="http://identifiers.org/biocyc/META:RXN0-5217"/>
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+                  <rdf:li rdf:resource="http://identifiers.org/kegg.reaction/R08359"/>
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+                  <rdf:li rdf:resource="http://identifiers.org/rhea/33387"/>
+                  <rdf:li rdf:resource="http://identifiers.org/rhea/33389"/>
+                  <rdf:li rdf:resource="http://identifiers.org/rhea/33390"/>
+                  <rdf:li rdf:resource="http://identifiers.org/rhea/33388"/>
+                  <rdf:li rdf:resource="http://identifiers.org/sabiork/14104"/>
+                  <rdf:li rdf:resource="http://identifiers.org/seed.reaction/rxn12049"/>
+                </rdf:Bag>
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+          </rdf:RDF>
+        </sbml:annotation>
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+          <speciesReference species="M_15dap_c" stoichiometry="1" constant="true"/>
+          <speciesReference species="M_ametam_c" stoichiometry="1" constant="true"/>
+        </listOfReactants>
+        <listOfProducts>
+          <speciesReference species="M_5mta_c" stoichiometry="1" constant="true"/>
+          <speciesReference species="M_h_c" stoichiometry="1" constant="true"/>
+          <speciesReference species="M_na15dap_c" stoichiometry="1" constant="true"/>
+        </listOfProducts>
+        <fbc:geneProductAssociation>
+          <fbc:geneProductRef fbc:geneProduct="G_b0121"/>
+        </fbc:geneProductAssociation>
+      </reaction>
+      <reaction id="R_CHTBSptspp" fast="false" reversible="false" name="Chitobiose transport via PEP:Pyr PTS (periplasm)" metaid="R_CHTBSptspp" sboTerm="SBO:0000185" fbc:upperFluxBound="cobra_default_ub" fbc:lowerFluxBound="cobra_0_bound">
+        <sbml:annotation xmlns:sbml="http://www.sbml.org/sbml/level3/version1/core">
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+            <rdf:Description rdf:about="#R_CHTBSptspp">
+              <bqbiol:is xmlns:bqbiol="http://biomodels.net/biology-qualifiers/">
+                <rdf:Bag>
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+                  <rdf:li rdf:resource="http://identifiers.org/metanetx.reaction/MNXR138170"/>
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+        </sbml:annotation>
+        <listOfReactants>
+          <speciesReference species="M_chtbs_p" stoichiometry="1" constant="true"/>
+          <speciesReference species="M_pep_c" stoichiometry="1" constant="true"/>
+        </listOfReactants>
+        <listOfProducts>
+          <speciesReference species="M_chtbs6p_c" stoichiometry="1" constant="true"/>
+          <speciesReference species="M_pyr_c" stoichiometry="1" constant="true"/>
+        </listOfProducts>
+        <fbc:geneProductAssociation>
+          <fbc:and>
+            <fbc:and>
+              <fbc:geneProductRef fbc:geneProduct="G_b1738"/>
+              <fbc:geneProductRef fbc:geneProduct="G_b1737"/>
+              <fbc:geneProductRef fbc:geneProduct="G_b1736"/>
+            </fbc:and>
+            <fbc:geneProductRef fbc:geneProduct="G_b2415"/>
+            <fbc:geneProductRef fbc:geneProduct="G_b2416"/>
+          </fbc:and>
+        </fbc:geneProductAssociation>
+      </reaction>
+      <reaction id="R_GLYBt3pp" fast="false" reversible="false" name="Glycine betaine transport via proton antiport (periplasm)" metaid="R_GLYBt3pp" sboTerm="SBO:0000185" fbc:upperFluxBound="cobra_default_ub" fbc:lowerFluxBound="cobra_0_bound">
+        <sbml:annotation xmlns:sbml="http://www.sbml.org/sbml/level3/version1/core">
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+              <bqbiol:is xmlns:bqbiol="http://biomodels.net/biology-qualifiers/">
+                <rdf:Bag>
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+        </sbml:annotation>
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+          <speciesReference species="M_glyb_c" stoichiometry="1" constant="true"/>
+          <speciesReference species="M_h_p" stoichiometry="1" constant="true"/>
+        </listOfReactants>
+        <listOfProducts>
+          <speciesReference species="M_glyb_p" stoichiometry="1" constant="true"/>
+          <speciesReference species="M_h_c" stoichiometry="1" constant="true"/>
+        </listOfProducts>
+        <fbc:geneProductAssociation>
+          <fbc:geneProductRef fbc:geneProduct="G_b0543"/>
+        </fbc:geneProductAssociation>
+      </reaction>
+      <reaction id="R_AI2tpp" fast="false" reversible="false" name="Quorum signal AI-2 exporter" metaid="R_AI2tpp" sboTerm="SBO:0000185" fbc:upperFluxBound="cobra_default_ub" fbc:lowerFluxBound="cobra_0_bound">
+        <sbml:annotation xmlns:sbml="http://www.sbml.org/sbml/level3/version1/core">
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+              <bqbiol:is xmlns:bqbiol="http://biomodels.net/biology-qualifiers/">
+                <rdf:Bag>
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+              </bqbiol:is>
+            </rdf:Description>
+          </rdf:RDF>
+        </sbml:annotation>
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+          <speciesReference species="M_mththf_c" stoichiometry="1" constant="true"/>
+        </listOfReactants>
+        <listOfProducts>
+          <speciesReference species="M_mththf_p" stoichiometry="1" constant="true"/>
+        </listOfProducts>
+        <fbc:geneProductAssociation>
+          <fbc:geneProductRef fbc:geneProduct="G_b1601"/>
+        </fbc:geneProductAssociation>
+      </reaction>
+      <reaction id="R_ACPPAT181" fast="false" reversible="false" name="Acyl-(acyl carrier protein):phosphate acyltransferase (C18:1)" metaid="R_ACPPAT181" sboTerm="SBO:0000176" fbc:upperFluxBound="cobra_default_ub" fbc:lowerFluxBound="cobra_0_bound">
+        <sbml:annotation xmlns:sbml="http://www.sbml.org/sbml/level3/version1/core">
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+                  <rdf:li rdf:resource="http://identifiers.org/metanetx.reaction/MNXR95401"/>
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+            </rdf:Description>
+          </rdf:RDF>
+        </sbml:annotation>
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+          <speciesReference species="M_h_c" stoichiometry="1" constant="true"/>
+          <speciesReference species="M_octeACP_c" stoichiometry="1" constant="true"/>
+          <speciesReference species="M_pi_c" stoichiometry="1" constant="true"/>
+        </listOfReactants>
+        <listOfProducts>
+          <speciesReference species="M_ACP_c" stoichiometry="1" constant="true"/>
+          <speciesReference species="M_ocdceap_c" stoichiometry="1" constant="true"/>
+        </listOfProducts>
+        <fbc:geneProductAssociation>
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+            <fbc:geneProductRef fbc:geneProduct="G_b1094"/>
+            <fbc:geneProductRef fbc:geneProduct="G_b1090"/>
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+        </fbc:geneProductAssociation>
+      </reaction>
+      <reaction id="R_Ftpp" fast="false" reversible="false" name="F- efflux transport" metaid="R_Ftpp" sboTerm="SBO:0000185" fbc:upperFluxBound="cobra_default_ub" fbc:lowerFluxBound="cobra_0_bound">
+        <sbml:annotation xmlns:sbml="http://www.sbml.org/sbml/level3/version1/core">
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+        </listOfReactants>
+        <listOfProducts>
+          <speciesReference species="M_f_p" stoichiometry="1" constant="true"/>
+        </listOfProducts>
+        <fbc:geneProductAssociation>
+          <fbc:geneProductRef fbc:geneProduct="G_b0624"/>
+        </fbc:geneProductAssociation>
+      </reaction>
+      <reaction id="R_SQVOSI" fast="false" reversible="false" name="Sulfoquinovose isomerase" metaid="R_SQVOSI" sboTerm="SBO:0000176" fbc:upperFluxBound="cobra_default_ub" fbc:lowerFluxBound="cobra_0_bound">
+        <sbml:annotation xmlns:sbml="http://www.sbml.org/sbml/level3/version1/core">
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+          <speciesReference species="M_sq_c" stoichiometry="1" constant="true"/>
+        </listOfReactants>
+        <listOfProducts>
+          <speciesReference species="M_sf_c" stoichiometry="1" constant="true"/>
+        </listOfProducts>
+        <fbc:geneProductAssociation>
+          <fbc:geneProductRef fbc:geneProduct="G_b3880"/>
+        </fbc:geneProductAssociation>
+      </reaction>
+      <reaction id="R_6D6SPA" fast="false" reversible="false" name="6-deoxy-6-sulfofructose-1-phosphate aldolase" metaid="R_6D6SPA" sboTerm="SBO:0000176" fbc:upperFluxBound="cobra_default_ub" fbc:lowerFluxBound="cobra_0_bound">
+        <sbml:annotation xmlns:sbml="http://www.sbml.org/sbml/level3/version1/core">
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+              <bqbiol:is xmlns:bqbiol="http://biomodels.net/biology-qualifiers/">
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+        </listOfReactants>
+        <listOfProducts>
+          <speciesReference species="M_dhap_c" stoichiometry="1" constant="true"/>
+          <speciesReference species="M_sla_c" stoichiometry="1" constant="true"/>
+        </listOfProducts>
+        <fbc:geneProductAssociation>
+          <fbc:geneProductRef fbc:geneProduct="G_b3881"/>
+        </fbc:geneProductAssociation>
+      </reaction>
+      <reaction id="R_CHTBStex" fast="false" reversible="true" name="Chitobiose transport via diffusion (extracellular to periplasm)" metaid="R_CHTBStex" sboTerm="SBO:0000185" fbc:upperFluxBound="cobra_default_ub" fbc:lowerFluxBound="cobra_default_lb">
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+            <rdf:Description rdf:about="#R_CHTBStex">
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+                  <rdf:li rdf:resource="http://identifiers.org/metanetx.reaction/MNXR138171"/>
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+          </rdf:RDF>
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+          <speciesReference species="M_chtbs_e" stoichiometry="1" constant="true"/>
+        </listOfReactants>
+        <listOfProducts>
+          <speciesReference species="M_chtbs_p" stoichiometry="1" constant="true"/>
+        </listOfProducts>
+        <fbc:geneProductAssociation>
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+            <fbc:geneProductRef fbc:geneProduct="G_b2215"/>
+            <fbc:geneProductRef fbc:geneProduct="G_b0929"/>
+            <fbc:geneProductRef fbc:geneProduct="G_b1377"/>
+            <fbc:geneProductRef fbc:geneProduct="G_b0241"/>
+            <fbc:geneProductRef fbc:geneProduct="G_b0681"/>
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+        </fbc:geneProductAssociation>
+      </reaction>
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+        <sbml:annotation xmlns:sbml="http://www.sbml.org/sbml/level3/version1/core">
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+            <rdf:Description rdf:about="#R_TRPtipp">
+              <bqbiol:is xmlns:bqbiol="http://biomodels.net/biology-qualifiers/">
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+          <speciesReference species="M_trp__L_p" stoichiometry="1" constant="true"/>
+        </listOfProducts>
+        <fbc:geneProductAssociation>
+          <fbc:geneProductRef fbc:geneProduct="G_b1473"/>
+        </fbc:geneProductAssociation>
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+      <reaction id="R_TYRtipp" fast="false" reversible="false" name="L-tyrosine transport out (periplasm)" metaid="R_TYRtipp" sboTerm="SBO:0000185" fbc:upperFluxBound="cobra_default_ub" fbc:lowerFluxBound="cobra_0_bound">
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+          <speciesReference species="M_tyr__L_p" stoichiometry="1" constant="true"/>
+        </listOfProducts>
+        <fbc:geneProductAssociation>
+          <fbc:geneProductRef fbc:geneProduct="G_b1473"/>
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+      </reaction>
+      <reaction id="R_ThDPAT" fast="false" reversible="false" name="ThDP adenylyl transferase" metaid="R_ThDPAT" sboTerm="SBO:0000176" fbc:upperFluxBound="cobra_default_ub" fbc:lowerFluxBound="cobra_0_bound">
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+            <fbc:geneProductRef fbc:geneProduct="G_b1599"/>
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+            <fbc:geneProductRef fbc:geneProduct="G_b0241"/>
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+            <fbc:geneProductRef fbc:geneProduct="G_b1377"/>
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+          <speciesReference species="M_dhptdp_c" stoichiometry="1" constant="true"/>
+          <speciesReference species="M_h_c" stoichiometry="1" constant="true"/>
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+          <fbc:geneProductRef fbc:geneProduct="G_b1511"/>
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+        </sbml:annotation>
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+        <listOfProducts>
+          <speciesReference species="M_cit_p" stoichiometry="1" constant="true"/>
+          <speciesReference species="M_h_c" stoichiometry="1" constant="true"/>
+        </listOfProducts>
+      </reaction>
+      <reaction id="R_APH161" fast="false" reversible="false" name="Acylphosphatase (C16:1)" metaid="R_APH161" sboTerm="SBO:0000176" fbc:upperFluxBound="cobra_default_ub" fbc:lowerFluxBound="cobra_0_bound">
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+          <speciesReference species="M_hdceap_c" stoichiometry="1" constant="true"/>
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+        <listOfProducts>
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+          <speciesReference species="M_hdcea_c" stoichiometry="1" constant="true"/>
+          <speciesReference species="M_pi_c" stoichiometry="1" constant="true"/>
+        </listOfProducts>
+        <fbc:geneProductAssociation>
+          <fbc:geneProductRef fbc:geneProduct="G_b0968"/>
+        </fbc:geneProductAssociation>
+      </reaction>
+      <reaction id="R_DHNPA2r" fast="false" reversible="true" name="Dihydroneopterin aldolase reversible" metaid="R_DHNPA2r" sboTerm="SBO:0000176" fbc:upperFluxBound="cobra_default_ub" fbc:lowerFluxBound="cobra_default_lb">
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+                  <rdf:li rdf:resource="http://identifiers.org/kegg.reaction/R03504"/>
+                  <rdf:li rdf:resource="http://identifiers.org/metanetx.reaction/MNXR125603"/>
+                  <rdf:li rdf:resource="http://identifiers.org/rhea/10541"/>
+                  <rdf:li rdf:resource="http://identifiers.org/rhea/10540"/>
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+                  <rdf:li rdf:resource="http://identifiers.org/rhea/10543"/>
+                  <rdf:li rdf:resource="http://identifiers.org/sabiork/3293"/>
+                  <rdf:li rdf:resource="http://identifiers.org/seed.reaction/rxn02504"/>
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+        <listOfProducts>
+          <speciesReference species="M_6hmhpt_c" stoichiometry="1" constant="true"/>
+          <speciesReference species="M_gcald_c" stoichiometry="1" constant="true"/>
+        </listOfProducts>
+        <fbc:geneProductAssociation>
+          <fbc:geneProductRef fbc:geneProduct="G_b3058"/>
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+      <reaction id="R_QUIN2tpp" fast="false" reversible="true" name="Quinate transport (periplasm)" metaid="R_QUIN2tpp" sboTerm="SBO:0000185" fbc:upperFluxBound="cobra_default_ub" fbc:lowerFluxBound="cobra_default_lb">
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+                  <rdf:li rdf:resource="http://identifiers.org/rhea/35195"/>
+                  <rdf:li rdf:resource="http://identifiers.org/rhea/35196"/>
+                  <rdf:li rdf:resource="http://identifiers.org/rhea/35198"/>
+                  <rdf:li rdf:resource="http://identifiers.org/seed.reaction/rxn12452"/>
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+        <listOfProducts>
+          <speciesReference species="M_quin_c" stoichiometry="1" constant="true"/>
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+      <reaction id="R_GLYC2Pabcpp" fast="false" reversible="false" name="Sn-Glycerol 2-phosphate transport via ABC system (periplasm)" metaid="R_GLYC2Pabcpp" sboTerm="SBO:0000185" fbc:upperFluxBound="cobra_default_ub" fbc:lowerFluxBound="cobra_0_bound">
+        <sbml:annotation xmlns:sbml="http://www.sbml.org/sbml/level3/version1/core">
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+                  <rdf:li rdf:resource="http://identifiers.org/metanetx.reaction/MNXR100318"/>
+                  <rdf:li rdf:resource="http://identifiers.org/rhea/34761#1"/>
+                  <rdf:li rdf:resource="http://identifiers.org/rhea/34759#1"/>
+                  <rdf:li rdf:resource="http://identifiers.org/rhea/34760#1"/>
+                  <rdf:li rdf:resource="http://identifiers.org/rhea/34762#1"/>
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+        </sbml:annotation>
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+          <speciesReference species="M_atp_c" stoichiometry="1" constant="true"/>
+          <speciesReference species="M_glyc2p_p" stoichiometry="1" constant="true"/>
+          <speciesReference species="M_h2o_c" stoichiometry="1" constant="true"/>
+        </listOfReactants>
+        <listOfProducts>
+          <speciesReference species="M_adp_c" stoichiometry="1" constant="true"/>
+          <speciesReference species="M_glyc2p_c" stoichiometry="1" constant="true"/>
+          <speciesReference species="M_h_c" stoichiometry="1" constant="true"/>
+          <speciesReference species="M_pi_c" stoichiometry="1" constant="true"/>
+        </listOfProducts>
+        <fbc:geneProductAssociation>
+          <fbc:and>
+            <fbc:geneProductRef fbc:geneProduct="G_b3450"/>
+            <fbc:geneProductRef fbc:geneProduct="G_b3453"/>
+            <fbc:geneProductRef fbc:geneProduct="G_b3451"/>
+            <fbc:geneProductRef fbc:geneProduct="G_b3452"/>
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+        </fbc:geneProductAssociation>
+      </reaction>
+      <reaction id="R_CRNDtex" fast="false" reversible="true" name="D-carnitine transport via diffusion (extracellular to periplasm)" metaid="R_CRNDtex" sboTerm="SBO:0000185" fbc:upperFluxBound="cobra_default_ub" fbc:lowerFluxBound="cobra_default_lb">
+        <sbml:annotation xmlns:sbml="http://www.sbml.org/sbml/level3/version1/core">
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+                  <rdf:li rdf:resource="http://identifiers.org/metanetx.reaction/MNXR96904"/>
+                  <rdf:li rdf:resource="http://identifiers.org/rhea/35067"/>
+                  <rdf:li rdf:resource="http://identifiers.org/rhea/35068"/>
+                  <rdf:li rdf:resource="http://identifiers.org/rhea/35070"/>
+                  <rdf:li rdf:resource="http://identifiers.org/rhea/35069"/>
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+        <listOfProducts>
+          <speciesReference species="M_crn__D_p" stoichiometry="1" constant="true"/>
+        </listOfProducts>
+        <fbc:geneProductAssociation>
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+            <fbc:geneProductRef fbc:geneProduct="G_b1377"/>
+            <fbc:geneProductRef fbc:geneProduct="G_b2215"/>
+            <fbc:geneProductRef fbc:geneProduct="G_b0241"/>
+            <fbc:geneProductRef fbc:geneProduct="G_b0929"/>
+          </fbc:or>
+        </fbc:geneProductAssociation>
+      </reaction>
+      <reaction id="R_SHGO" fast="false" reversible="false" name="S-2-hydroxyglutarate oxidase" metaid="R_SHGO" sboTerm="SBO:0000176" fbc:upperFluxBound="cobra_default_ub" fbc:lowerFluxBound="cobra_0_bound">
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+        </sbml:annotation>
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+          <speciesReference species="M_o2_c" stoichiometry="1" constant="true"/>
+        </listOfReactants>
+        <listOfProducts>
+          <speciesReference species="M_akg_c" stoichiometry="1" constant="true"/>
+          <speciesReference species="M_h2o2_c" stoichiometry="1" constant="true"/>
+        </listOfProducts>
+        <fbc:geneProductAssociation>
+          <fbc:geneProductRef fbc:geneProduct="G_b2660"/>
+        </fbc:geneProductAssociation>
+      </reaction>
+      <reaction id="R_CLBtex" fast="false" reversible="true" name="Cellobiose transport transport via diffusion extracellular to periplasm " metaid="R_CLBtex" sboTerm="SBO:0000185" fbc:upperFluxBound="cobra_default_ub" fbc:lowerFluxBound="cobra_default_lb">
+        <sbml:annotation xmlns:sbml="http://www.sbml.org/sbml/level3/version1/core">
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+                <rdf:Bag>
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+                  <rdf:li rdf:resource="http://identifiers.org/metanetx.reaction/MNXR96760"/>
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+          <speciesReference species="M_cellb_e" stoichiometry="1" constant="true"/>
+        </listOfReactants>
+        <listOfProducts>
+          <speciesReference species="M_cellb_p" stoichiometry="1" constant="true"/>
+        </listOfProducts>
+        <fbc:geneProductAssociation>
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+            <fbc:geneProductRef fbc:geneProduct="G_b1377"/>
+            <fbc:geneProductRef fbc:geneProduct="G_b0929"/>
+            <fbc:geneProductRef fbc:geneProduct="G_b2215"/>
+          </fbc:or>
+        </fbc:geneProductAssociation>
+      </reaction>
+      <reaction id="R_ACOXT" fast="false" reversible="true" name="Acetyl-CoA:oxalate CoA-transferase" metaid="R_ACOXT" sboTerm="SBO:0000176" fbc:upperFluxBound="cobra_default_ub" fbc:lowerFluxBound="cobra_default_lb">
+        <sbml:annotation xmlns:sbml="http://www.sbml.org/sbml/level3/version1/core">
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+              <bqbiol:is xmlns:bqbiol="http://biomodels.net/biology-qualifiers/">
+                <rdf:Bag>
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+        </sbml:annotation>
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+          <speciesReference species="M_accoa_c" stoichiometry="1" constant="true"/>
+          <speciesReference species="M_oxa_c" stoichiometry="1" constant="true"/>
+        </listOfReactants>
+        <listOfProducts>
+          <speciesReference species="M_ac_c" stoichiometry="1" constant="true"/>
+          <speciesReference species="M_oxalcoa_c" stoichiometry="1" constant="true"/>
+        </listOfProducts>
+        <fbc:geneProductAssociation>
+          <fbc:geneProductRef fbc:geneProduct="G_b2371"/>
+        </fbc:geneProductAssociation>
+      </reaction>
+      <reaction id="R_EX_mththf_e" fast="false" reversible="false" name="(2R,4S)-2-methyl-2,3,3,4-tetrahydroxytetrahydrofuran exchange" metaid="R_EX_mththf_e" sboTerm="SBO:0000627" fbc:upperFluxBound="cobra_default_ub" fbc:lowerFluxBound="cobra_0_bound">
+        <sbml:annotation xmlns:sbml="http://www.sbml.org/sbml/level3/version1/core">
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+              <bqbiol:is xmlns:bqbiol="http://biomodels.net/biology-qualifiers/">
+                <rdf:Bag>
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+            </rdf:Description>
+          </rdf:RDF>
+        </sbml:annotation>
+        <listOfReactants>
+          <speciesReference species="M_mththf_e" stoichiometry="1" constant="true"/>
+        </listOfReactants>
+      </reaction>
+      <reaction id="R_2HESR" fast="false" reversible="false" name="2-hydroxyethyldisulfide reductase" metaid="R_2HESR" sboTerm="SBO:0000176" fbc:upperFluxBound="cobra_default_ub" fbc:lowerFluxBound="cobra_0_bound">
+        <sbml:annotation xmlns:sbml="http://www.sbml.org/sbml/level3/version1/core">
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+              <bqbiol:is xmlns:bqbiol="http://biomodels.net/biology-qualifiers/">
+                <rdf:Bag>
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+        </sbml:annotation>
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+          <speciesReference species="M_dtgcl_c" stoichiometry="1" constant="true"/>
+          <speciesReference species="M_gthrd_c" stoichiometry="2" constant="true"/>
+        </listOfReactants>
+        <listOfProducts>
+          <speciesReference species="M_gthox_c" stoichiometry="1" constant="true"/>
+          <speciesReference species="M_mercpeth_c" stoichiometry="2" constant="true"/>
+        </listOfProducts>
+        <fbc:geneProductAssociation>
+          <fbc:or>
+            <fbc:geneProductRef fbc:geneProduct="G_b2989"/>
+            <fbc:geneProductRef fbc:geneProduct="G_b2302"/>
+          </fbc:or>
+        </fbc:geneProductAssociation>
+      </reaction>
+      <reaction id="R_CHOLID" fast="false" reversible="false" name="7-?-hydroxysteroid dehydrogenase" metaid="R_CHOLID" sboTerm="SBO:0000176" fbc:upperFluxBound="cobra_default_ub" fbc:lowerFluxBound="cobra_0_bound">
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+            <rdf:Description rdf:about="#R_CHOLID">
+              <bqbiol:is xmlns:bqbiol="http://biomodels.net/biology-qualifiers/">
+                <rdf:Bag>
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+          <speciesReference species="M_nad_c" stoichiometry="1" constant="true"/>
+        </listOfReactants>
+        <listOfProducts>
+          <speciesReference species="M_dhcholn_c" stoichiometry="1" constant="true"/>
+          <speciesReference species="M_h_c" stoichiometry="1" constant="true"/>
+          <speciesReference species="M_nadh_c" stoichiometry="1" constant="true"/>
+        </listOfProducts>
+        <fbc:geneProductAssociation>
+          <fbc:geneProductRef fbc:geneProduct="G_b1619"/>
+        </fbc:geneProductAssociation>
+      </reaction>
+      <reaction id="R_CHOLATEtpp" fast="false" reversible="false" name="Cholate transport via proton antiport" metaid="R_CHOLATEtpp" sboTerm="SBO:0000185" fbc:upperFluxBound="cobra_default_ub" fbc:lowerFluxBound="cobra_0_bound">
+        <sbml:annotation xmlns:sbml="http://www.sbml.org/sbml/level3/version1/core">
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+                <rdf:Bag>
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+        </sbml:annotation>
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+          <speciesReference species="M_cholate_c" stoichiometry="1" constant="true"/>
+          <speciesReference species="M_h_p" stoichiometry="1" constant="true"/>
+        </listOfReactants>
+        <listOfProducts>
+          <speciesReference species="M_cholate_p" stoichiometry="1" constant="true"/>
+          <speciesReference species="M_h_c" stoichiometry="1" constant="true"/>
+        </listOfProducts>
+        <fbc:geneProductAssociation>
+          <fbc:geneProductRef fbc:geneProduct="G_b4337"/>
+        </fbc:geneProductAssociation>
+      </reaction>
+      <reaction id="R_NADHXD" fast="false" reversible="false" name="NADHX dehydratase" metaid="R_NADHXD" sboTerm="SBO:0000176" fbc:upperFluxBound="cobra_default_ub" fbc:lowerFluxBound="cobra_0_bound">
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+                <rdf:Bag>
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+        </sbml:annotation>
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+          <speciesReference species="M_adp_c" stoichiometry="1" constant="true"/>
+          <speciesReference species="M_nadhx__S_c" stoichiometry="1" constant="true"/>
+        </listOfReactants>
+        <listOfProducts>
+          <speciesReference species="M_amp_c" stoichiometry="1" constant="true"/>
+          <speciesReference species="M_h_c" stoichiometry="1" constant="true"/>
+          <speciesReference species="M_nadh_c" stoichiometry="1" constant="true"/>
+          <speciesReference species="M_pi_c" stoichiometry="1" constant="true"/>
+        </listOfProducts>
+        <fbc:geneProductAssociation>
+          <fbc:geneProductRef fbc:geneProduct="G_b4167"/>
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+      </reaction>
+      <reaction id="R_NADPHHR" fast="false" reversible="false" name="NADPH hydratase" metaid="R_NADPHHR" sboTerm="SBO:0000176" fbc:upperFluxBound="cobra_default_ub" fbc:lowerFluxBound="cobra_0_bound">
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+          <speciesReference species="M_nadph_c" stoichiometry="1" constant="true"/>
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+        </fbc:geneProductAssociation>
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+        </fbc:geneProductAssociation>
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+      <reaction id="R_4ABZGLUH" fast="false" reversible="true" name="P-aminobenzoyl-glutamate hydrolase" metaid="R_4ABZGLUH" sboTerm="SBO:0000176" fbc:upperFluxBound="cobra_default_ub" fbc:lowerFluxBound="cobra_default_lb">
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+          <speciesReference species="M_glu__L_c" stoichiometry="1" constant="true"/>
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+            <fbc:geneProductRef fbc:geneProduct="G_b1338"/>
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+        </fbc:geneProductAssociation>
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+          <fbc:geneProductRef fbc:geneProduct="G_b1336"/>
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+          <speciesReference species="M_nadh_c" stoichiometry="1" constant="true"/>
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+            <fbc:geneProductRef fbc:geneProduct="G_b1779"/>
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+          <speciesReference species="M_ocdca_c" stoichiometry="1" constant="true"/>
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+        </listOfProducts>
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+          <fbc:geneProductRef fbc:geneProduct="G_b0968"/>
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+      <reaction id="R_SELabcpp" fast="false" reversible="false" name="Selenatenate transport via ABC system (periplasm)" metaid="R_SELabcpp" sboTerm="SBO:0000185" fbc:upperFluxBound="cobra_default_ub" fbc:lowerFluxBound="cobra_0_bound">
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+              <fbc:geneProductRef fbc:geneProduct="G_b2422"/>
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+              <fbc:geneProductRef fbc:geneProduct="G_b2424"/>
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+        </fbc:geneProductAssociation>
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+          <speciesReference species="M_mteo2_c" stoichiometry="1" constant="true"/>
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+          <fbc:geneProductRef fbc:geneProduct="G_b1430"/>
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+          <speciesReference species="M_thptdn_c" stoichiometry="1" constant="true"/>
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+          <speciesReference species="M_nadh_c" stoichiometry="1" constant="true"/>
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+          <speciesReference species="M_nad_c" stoichiometry="1" constant="true"/>
+          <speciesReference species="M_thptdn_c" stoichiometry="1" constant="true"/>
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+        <fbc:geneProductAssociation>
+          <fbc:geneProductRef fbc:geneProduct="G_b0578"/>
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+          <speciesReference species="M_h2o2_c" stoichiometry="1" constant="true"/>
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+        <listOfProducts>
+          <speciesReference species="M_gthox_c" stoichiometry="1" constant="true"/>
+          <speciesReference species="M_h2o_c" stoichiometry="2" constant="true"/>
+        </listOfProducts>
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+          <fbc:geneProductRef fbc:geneProduct="G_b1710"/>
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+          <speciesReference species="M_ichor_c" stoichiometry="1" constant="true"/>
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+        <listOfProducts>
+          <speciesReference species="M_2sephchc_c" stoichiometry="1" constant="true"/>
+          <speciesReference species="M_co2_c" stoichiometry="1" constant="true"/>
+        </listOfProducts>
+        <fbc:geneProductAssociation>
+          <fbc:geneProductRef fbc:geneProduct="G_b2264"/>
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+          <speciesReference species="M_sbzcoa_c" stoichiometry="1" constant="true"/>
+        </listOfReactants>
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+          <speciesReference species="M_h2o_c" stoichiometry="1" constant="true"/>
+        </listOfProducts>
+        <fbc:geneProductAssociation>
+          <fbc:geneProductRef fbc:geneProduct="G_b2262"/>
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+          <speciesReference species="M_prpncoa_c" stoichiometry="1" constant="true"/>
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+          <speciesReference species="M_pep_c" stoichiometry="1" constant="true"/>
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+          <speciesReference species="M_pyr_c" stoichiometry="1" constant="true"/>
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+          <speciesReference species="M_h_c" stoichiometry="1" constant="true"/>
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+            </rdf:Description>
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+        </sbml:annotation>
+        <listOfReactants>
+          <speciesReference species="M_34dphacoa_c" stoichiometry="1" constant="true"/>
+          <speciesReference species="M_h2o_c" stoichiometry="1" constant="true"/>
+        </listOfReactants>
+        <listOfProducts>
+          <speciesReference species="M_34dhpha_c" stoichiometry="1" constant="true"/>
+          <speciesReference species="M_coa_c" stoichiometry="1" constant="true"/>
+          <speciesReference species="M_h_c" stoichiometry="1" constant="true"/>
+        </listOfProducts>
+        <fbc:geneProductAssociation>
+          <fbc:geneProductRef fbc:geneProduct="G_b1396"/>
+        </fbc:geneProductAssociation>
+      </reaction>
+      <reaction id="R_PUACGAMtr" fast="false" reversible="false" name="Transport of poly-?-1,6-N-acetyl-D-glucosamine (poly-?-1,6-N-acetyl-D-glucosamine synthase)" metaid="R_PUACGAMtr" sboTerm="SBO:0000185" fbc:upperFluxBound="cobra_default_ub" fbc:lowerFluxBound="cobra_0_bound">
+        <sbml:annotation xmlns:sbml="http://www.sbml.org/sbml/level3/version1/core">
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+          <speciesReference species="M_puacgam_c" stoichiometry="1" constant="true"/>
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+        <listOfProducts>
+          <speciesReference species="M_puacgam_p" stoichiometry="1" constant="true"/>
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+        <fbc:geneProductAssociation>
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+            <fbc:geneProductRef fbc:geneProduct="G_b1022"/>
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+        </fbc:geneProductAssociation>
+      </reaction>
+      <reaction id="R_DC6PDA" fast="false" reversible="false" name="Chito-oligosaccharide mono-deacetylase" metaid="R_DC6PDA" sboTerm="SBO:0000176" fbc:upperFluxBound="cobra_default_ub" fbc:lowerFluxBound="cobra_0_bound">
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+        </sbml:annotation>
+        <listOfReactants>
+          <speciesReference species="M_chtbs6p_c" stoichiometry="1" constant="true"/>
+          <speciesReference species="M_h2o_c" stoichiometry="1" constant="true"/>
+        </listOfReactants>
+        <listOfProducts>
+          <speciesReference species="M_ac_c" stoichiometry="1" constant="true"/>
+          <speciesReference species="M_mchtbs6p_c" stoichiometry="1" constant="true"/>
+        </listOfProducts>
+        <fbc:geneProductAssociation>
+          <fbc:geneProductRef fbc:geneProduct="G_b1733"/>
+        </fbc:geneProductAssociation>
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+      <reaction id="R_5DGLCNR" fast="false" reversible="false" name="5-dehydro-D-gluconate reductase" metaid="R_5DGLCNR" sboTerm="SBO:0000176" fbc:upperFluxBound="cobra_default_ub" fbc:lowerFluxBound="cobra_0_bound">
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+                  <rdf:li rdf:resource="http://identifiers.org/ec-code/1.1.1"/>
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+                  <rdf:li rdf:resource="http://identifiers.org/kegg.reaction/R01740"/>
+                  <rdf:li rdf:resource="http://identifiers.org/metanetx.reaction/MNXR95065"/>
+                  <rdf:li rdf:resource="http://identifiers.org/rhea/23937"/>
+                  <rdf:li rdf:resource="http://identifiers.org/rhea/23939"/>
+                  <rdf:li rdf:resource="http://identifiers.org/rhea/23936"/>
+                  <rdf:li rdf:resource="http://identifiers.org/rhea/23938"/>
+                  <rdf:li rdf:resource="http://identifiers.org/seed.reaction/rxn01278"/>
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+        </sbml:annotation>
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+          <speciesReference species="M_5dglcn_c" stoichiometry="1" constant="true"/>
+          <speciesReference species="M_h_c" stoichiometry="1" constant="true"/>
+          <speciesReference species="M_nadph_c" stoichiometry="1" constant="true"/>
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+        <listOfProducts>
+          <speciesReference species="M_glcn_c" stoichiometry="1" constant="true"/>
+          <speciesReference species="M_nadp_c" stoichiometry="1" constant="true"/>
+        </listOfProducts>
+        <fbc:geneProductAssociation>
+          <fbc:geneProductRef fbc:geneProduct="G_b4266"/>
+        </fbc:geneProductAssociation>
+      </reaction>
+      <reaction id="R_PIt2rpp" fast="false" reversible="false" name="Phosphate reversible transport via symport (periplasm)" metaid="R_PIt2rpp" sboTerm="SBO:0000185" fbc:upperFluxBound="cobra_default_ub" fbc:lowerFluxBound="cobra_0_bound">
+        <sbml:annotation xmlns:sbml="http://www.sbml.org/sbml/level3/version1/core">
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+                  <rdf:li rdf:resource="http://identifiers.org/rhea/29941"/>
+                  <rdf:li rdf:resource="http://identifiers.org/rhea/29940"/>
+                  <rdf:li rdf:resource="http://identifiers.org/rhea/29942"/>
+                  <rdf:li rdf:resource="http://identifiers.org/seed.reaction/rxn05312"/>
+                  <rdf:li rdf:resource="http://identifiers.org/seed.reaction/rxn09833"/>
+                  <rdf:li rdf:resource="http://identifiers.org/seed.reaction/rxn09811"/>
+                  <rdf:li rdf:resource="http://identifiers.org/seed.reaction/rxn09872"/>
+                  <rdf:li rdf:resource="http://identifiers.org/seed.reaction/rxn09723"/>
+                  <rdf:li rdf:resource="http://identifiers.org/seed.reaction/rxn09120"/>
+                </rdf:Bag>
+              </bqbiol:is>
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+        </sbml:annotation>
+        <listOfReactants>
+          <speciesReference species="M_h_p" stoichiometry="1" constant="true"/>
+          <speciesReference species="M_pi_p" stoichiometry="1" constant="true"/>
+        </listOfReactants>
+        <listOfProducts>
+          <speciesReference species="M_h_c" stoichiometry="1" constant="true"/>
+          <speciesReference species="M_pi_c" stoichiometry="1" constant="true"/>
+        </listOfProducts>
+        <fbc:geneProductAssociation>
+          <fbc:or>
+            <fbc:geneProductRef fbc:geneProduct="G_b3493"/>
+            <fbc:geneProductRef fbc:geneProduct="G_b2987"/>
+          </fbc:or>
+        </fbc:geneProductAssociation>
+      </reaction>
+      <reaction id="R_FADtex" fast="false" reversible="true" name="FAD transport, outer membrane" metaid="R_FADtex" sboTerm="SBO:0000185" fbc:upperFluxBound="cobra_default_ub" fbc:lowerFluxBound="cobra_default_lb">
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+              <bqbiol:is xmlns:bqbiol="http://biomodels.net/biology-qualifiers/">
+                <rdf:Bag>
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+            </rdf:Description>
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+        </sbml:annotation>
+        <listOfReactants>
+          <speciesReference species="M_fad_p" stoichiometry="1" constant="true"/>
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+        <listOfProducts>
+          <speciesReference species="M_fad_e" stoichiometry="1" constant="true"/>
+        </listOfProducts>
+        <fbc:geneProductAssociation>
+          <fbc:or>
+            <fbc:geneProductRef fbc:geneProduct="G_b0241"/>
+            <fbc:geneProductRef fbc:geneProduct="G_b2215"/>
+            <fbc:geneProductRef fbc:geneProduct="G_b1377"/>
+            <fbc:geneProductRef fbc:geneProduct="G_b0929"/>
+          </fbc:or>
+        </fbc:geneProductAssociation>
+      </reaction>
+      <reaction id="R_AI2abcpp" fast="false" reversible="false" name="Autoinducer-2 ABC transporter" metaid="R_AI2abcpp" sboTerm="SBO:0000185" fbc:upperFluxBound="cobra_default_ub" fbc:lowerFluxBound="cobra_0_bound">
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+              <bqbiol:is xmlns:bqbiol="http://biomodels.net/biology-qualifiers/">
+                <rdf:Bag>
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+            </rdf:Description>
+          </rdf:RDF>
+        </sbml:annotation>
+        <listOfReactants>
+          <speciesReference species="M_atp_c" stoichiometry="1" constant="true"/>
+          <speciesReference species="M_h2o_c" stoichiometry="1" constant="true"/>
+          <speciesReference species="M_mththf_p" stoichiometry="1" constant="true"/>
+        </listOfReactants>
+        <listOfProducts>
+          <speciesReference species="M_adp_c" stoichiometry="1" constant="true"/>
+          <speciesReference species="M_h_c" stoichiometry="1" constant="true"/>
+          <speciesReference species="M_mththf_c" stoichiometry="1" constant="true"/>
+          <speciesReference species="M_pi_c" stoichiometry="1" constant="true"/>
+        </listOfProducts>
+        <fbc:geneProductAssociation>
+          <fbc:and>
+            <fbc:geneProductRef fbc:geneProduct="G_b1516"/>
+            <fbc:geneProductRef fbc:geneProduct="G_b1513"/>
+            <fbc:geneProductRef fbc:geneProduct="G_b1515"/>
+            <fbc:geneProductRef fbc:geneProduct="G_b1514"/>
+          </fbc:and>
+        </fbc:geneProductAssociation>
+      </reaction>
+      <reaction id="R_PAI2I" fast="false" reversible="false" name="Phospho-AI-2 isomerase" metaid="R_PAI2I" sboTerm="SBO:0000176" fbc:upperFluxBound="cobra_default_ub" fbc:lowerFluxBound="cobra_0_bound">
+        <sbml:annotation xmlns:sbml="http://www.sbml.org/sbml/level3/version1/core">
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+              <bqbiol:is xmlns:bqbiol="http://biomodels.net/biology-qualifiers/">
+                <rdf:Bag>
+                  <rdf:li rdf:resource="http://identifiers.org/bigg.reaction/PAI2I"/>
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+            </rdf:Description>
+          </rdf:RDF>
+        </sbml:annotation>
+        <listOfReactants>
+          <speciesReference species="M_dhptdp_c" stoichiometry="1" constant="true"/>
+        </listOfReactants>
+        <listOfProducts>
+          <speciesReference species="M_dhptdd_c" stoichiometry="1" constant="true"/>
+        </listOfProducts>
+        <fbc:geneProductAssociation>
+          <fbc:geneProductRef fbc:geneProduct="G_b1518"/>
+        </fbc:geneProductAssociation>
+      </reaction>
+      <reaction id="R_4HBZt3pp" fast="false" reversible="false" name="4-hydroxybenzoate transport out via antiporter" metaid="R_4HBZt3pp" sboTerm="SBO:0000185" fbc:upperFluxBound="cobra_default_ub" fbc:lowerFluxBound="cobra_0_bound">
+        <sbml:annotation xmlns:sbml="http://www.sbml.org/sbml/level3/version1/core">
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+              <bqbiol:is xmlns:bqbiol="http://biomodels.net/biology-qualifiers/">
+                <rdf:Bag>
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+                </rdf:Bag>
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+            </rdf:Description>
+          </rdf:RDF>
+        </sbml:annotation>
+        <listOfReactants>
+          <speciesReference species="M_4hbz_c" stoichiometry="1" constant="true"/>
+          <speciesReference species="M_h_p" stoichiometry="1" constant="true"/>
+        </listOfReactants>
+        <listOfProducts>
+          <speciesReference species="M_4hbz_p" stoichiometry="1" constant="true"/>
+          <speciesReference species="M_h_c" stoichiometry="1" constant="true"/>
+        </listOfProducts>
+        <fbc:geneProductAssociation>
+          <fbc:and>
+            <fbc:geneProductRef fbc:geneProduct="G_b3240"/>
+            <fbc:geneProductRef fbc:geneProduct="G_b3241"/>
+          </fbc:and>
+        </fbc:geneProductAssociation>
+      </reaction>
+      <reaction id="R_CURR" fast="false" reversible="false" name="NADPH-dependent curcumin reductase" metaid="R_CURR" sboTerm="SBO:0000176" fbc:upperFluxBound="cobra_default_ub" fbc:lowerFluxBound="cobra_0_bound">
+        <sbml:annotation xmlns:sbml="http://www.sbml.org/sbml/level3/version1/core">
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+            <rdf:Description rdf:about="#R_CURR">
+              <bqbiol:is xmlns:bqbiol="http://biomodels.net/biology-qualifiers/">
+                <rdf:Bag>
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+                </rdf:Bag>
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+            </rdf:Description>
+          </rdf:RDF>
+        </sbml:annotation>
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+          <speciesReference species="M_cur_c" stoichiometry="1" constant="true"/>
+          <speciesReference species="M_h_c" stoichiometry="1" constant="true"/>
+          <speciesReference species="M_nadph_c" stoichiometry="1" constant="true"/>
+        </listOfReactants>
+        <listOfProducts>
+          <speciesReference species="M_dhcur_c" stoichiometry="1" constant="true"/>
+          <speciesReference species="M_nadp_c" stoichiometry="1" constant="true"/>
+        </listOfProducts>
+        <fbc:geneProductAssociation>
+          <fbc:geneProductRef fbc:geneProduct="G_b1449"/>
+        </fbc:geneProductAssociation>
+      </reaction>
+      <reaction id="R_LKDRA" fast="false" reversible="true" name="2-keto-3-deoxy-L-rhamnonate aldolase" metaid="R_LKDRA" sboTerm="SBO:0000176" fbc:upperFluxBound="cobra_default_ub" fbc:lowerFluxBound="cobra_default_lb">
+        <sbml:annotation xmlns:sbml="http://www.sbml.org/sbml/level3/version1/core">
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+              <bqbiol:is xmlns:bqbiol="http://biomodels.net/biology-qualifiers/">
+                <rdf:Bag>
+                  <rdf:li rdf:resource="http://identifiers.org/bigg.reaction/LKDRA"/>
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+            </rdf:Description>
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+        </sbml:annotation>
+        <listOfReactants>
+          <speciesReference species="M_lkdr_c" stoichiometry="1" constant="true"/>
+        </listOfReactants>
+        <listOfProducts>
+          <speciesReference species="M_lald__L_c" stoichiometry="1" constant="true"/>
+          <speciesReference species="M_pyr_c" stoichiometry="1" constant="true"/>
+        </listOfProducts>
+        <fbc:geneProductAssociation>
+          <fbc:geneProductRef fbc:geneProduct="G_b2245"/>
+        </fbc:geneProductAssociation>
+      </reaction>
+      <reaction id="R_LEUt2rpp" fast="false" reversible="false" name="L-leucine reversible transport via proton symport (periplasm)" metaid="R_LEUt2rpp" sboTerm="SBO:0000185" fbc:upperFluxBound="cobra_default_ub" fbc:lowerFluxBound="cobra_0_bound">
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+              <bqbiol:is xmlns:bqbiol="http://biomodels.net/biology-qualifiers/">
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+                  <rdf:li rdf:resource="http://identifiers.org/metanetx.reaction/MNXR101055"/>
+                  <rdf:li rdf:resource="http://identifiers.org/seed.reaction/rxn05243"/>
+                  <rdf:li rdf:resource="http://identifiers.org/seed.reaction/rxn08785"/>
+                  <rdf:li rdf:resource="http://identifiers.org/seed.reaction/rxn11119"/>
+                  <rdf:li rdf:resource="http://identifiers.org/seed.reaction/rxn13340"/>
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+          <speciesReference species="M_leu__L_p" stoichiometry="1" constant="true"/>
+        </listOfReactants>
+        <listOfProducts>
+          <speciesReference species="M_h_c" stoichiometry="1" constant="true"/>
+          <speciesReference species="M_leu__L_c" stoichiometry="1" constant="true"/>
+        </listOfProducts>
+        <fbc:geneProductAssociation>
+          <fbc:geneProductRef fbc:geneProduct="G_b0401"/>
+        </fbc:geneProductAssociation>
+      </reaction>
+      <reaction id="R_LCTStpp" fast="false" reversible="false" name="Lactose transport via proton symport (periplasm)" metaid="R_LCTStpp" sboTerm="SBO:0000185" fbc:upperFluxBound="cobra_default_ub" fbc:lowerFluxBound="cobra_0_bound">
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+                  <rdf:li rdf:resource="http://identifiers.org/metanetx.reaction/MNXR101025"/>
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+                  <rdf:li rdf:resource="http://identifiers.org/rhea/28868"/>
+                  <rdf:li rdf:resource="http://identifiers.org/rhea/28870"/>
+                  <rdf:li rdf:resource="http://identifiers.org/rhea/28867"/>
+                  <rdf:li rdf:resource="http://identifiers.org/seed.reaction/rxn10169"/>
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+          <speciesReference species="M_lcts_p" stoichiometry="1" constant="true"/>
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+        <listOfProducts>
+          <speciesReference species="M_h_c" stoichiometry="1" constant="true"/>
+          <speciesReference species="M_lcts_c" stoichiometry="1" constant="true"/>
+        </listOfProducts>
+        <fbc:geneProductAssociation>
+          <fbc:geneProductRef fbc:geneProduct="G_b0343"/>
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+      </reaction>
+      <reaction id="R_ILEt3pp" fast="false" reversible="false" name="L-isoleucine transport out via proton antiport (periplasm)" metaid="R_ILEt3pp" sboTerm="SBO:0000185" fbc:upperFluxBound="cobra_default_ub" fbc:lowerFluxBound="cobra_0_bound">
+        <sbml:annotation xmlns:sbml="http://www.sbml.org/sbml/level3/version1/core">
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+        </sbml:annotation>
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+          <speciesReference species="M_ile__L_c" stoichiometry="1" constant="true"/>
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+        </listOfProducts>
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+          <fbc:geneProductRef fbc:geneProduct="G_b4141"/>
+        </fbc:geneProductAssociation>
+      </reaction>
+      <reaction id="R_METNA" fast="false" reversible="true" name="L-amino acid N-acyltransferase" metaid="R_METNA" sboTerm="SBO:0000176" fbc:upperFluxBound="cobra_default_ub" fbc:lowerFluxBound="cobra_default_lb">
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+          <speciesReference species="M_met__L_c" stoichiometry="1" constant="true"/>
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+        <listOfProducts>
+          <speciesReference species="M_acmet_c" stoichiometry="1" constant="true"/>
+          <speciesReference species="M_coa_c" stoichiometry="1" constant="true"/>
+          <speciesReference species="M_h_c" stoichiometry="1" constant="true"/>
+        </listOfProducts>
+        <fbc:geneProductAssociation>
+          <fbc:geneProductRef fbc:geneProduct="G_b1448"/>
+        </fbc:geneProductAssociation>
+      </reaction>
+      <reaction id="R_METt3pp" fast="false" reversible="false" name="L-methionine tranport out via proton antiport (periplasm)" metaid="R_METt3pp" sboTerm="SBO:0000185" fbc:upperFluxBound="cobra_default_ub" fbc:lowerFluxBound="cobra_0_bound">
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+          <speciesReference species="M_met__L_c" stoichiometry="1" constant="true"/>
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+        <listOfProducts>
+          <speciesReference species="M_h_c" stoichiometry="1" constant="true"/>
+          <speciesReference species="M_met__L_p" stoichiometry="1" constant="true"/>
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+            <fbc:geneProductRef fbc:geneProduct="G_b4141"/>
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+        </fbc:geneProductAssociation>
+      </reaction>
+      <reaction id="R_FESD1s" fast="false" reversible="false" name="Iron-sulfur cluster damage (peroxide, spontaneous)" metaid="R_FESD1s" sboTerm="SBO:0000176" fbc:upperFluxBound="cobra_default_ub" fbc:lowerFluxBound="cobra_0_bound">
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+          <speciesReference species="M_4fe4s_c" stoichiometry="2" constant="true"/>
+          <speciesReference species="M_h2o2_c" stoichiometry="1" constant="true"/>
+          <speciesReference species="M_h_c" stoichiometry="2" constant="true"/>
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+        <listOfProducts>
+          <speciesReference species="M_3fe4s_c" stoichiometry="2" constant="true"/>
+          <speciesReference species="M_fe3_c" stoichiometry="2" constant="true"/>
+          <speciesReference species="M_h2o_c" stoichiometry="2" constant="true"/>
+        </listOfProducts>
+        <fbc:geneProductAssociation>
+          <fbc:geneProductRef fbc:geneProduct="G_s0001"/>
+        </fbc:geneProductAssociation>
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+      <reaction id="R_GSNt3pp" fast="false" reversible="false" name="Guanosine transport out via proton antiport (periplasm)" metaid="R_GSNt3pp" sboTerm="SBO:0000185" fbc:upperFluxBound="cobra_default_ub" fbc:lowerFluxBound="cobra_0_bound">
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+          <speciesReference species="M_h_p" stoichiometry="1" constant="true"/>
+        </listOfReactants>
+        <listOfProducts>
+          <speciesReference species="M_gsn_p" stoichiometry="1" constant="true"/>
+          <speciesReference species="M_h_c" stoichiometry="1" constant="true"/>
+        </listOfProducts>
+        <fbc:geneProductAssociation>
+          <fbc:geneProductRef fbc:geneProduct="G_b3662"/>
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+      </reaction>
+      <reaction id="R_CLtipp" fast="false" reversible="false" name="Chloride ion transport in via diffusion (periplasm)" metaid="R_CLtipp" sboTerm="SBO:0000185" fbc:upperFluxBound="cobra_default_ub" fbc:lowerFluxBound="cobra_0_bound">
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+        <listOfReactants>
+          <speciesReference species="M_cl_p" stoichiometry="1" constant="true"/>
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+        <listOfProducts>
+          <speciesReference species="M_cl_c" stoichiometry="1" constant="true"/>
+        </listOfProducts>
+        <fbc:geneProductAssociation>
+          <fbc:geneProductRef fbc:geneProduct="G_b1592"/>
+        </fbc:geneProductAssociation>
+      </reaction>
+      <reaction id="R_5DKGR" fast="false" reversible="true" name="5-keto-D-gluconate 5-reductase" metaid="R_5DKGR" sboTerm="SBO:0000176" fbc:upperFluxBound="cobra_default_ub" fbc:lowerFluxBound="cobra_default_lb">
+        <sbml:annotation xmlns:sbml="http://www.sbml.org/sbml/level3/version1/core">
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+          </rdf:RDF>
+        </sbml:annotation>
+        <listOfReactants>
+          <speciesReference species="M_glcn_c" stoichiometry="1" constant="true"/>
+          <speciesReference species="M_nad_c" stoichiometry="1" constant="true"/>
+        </listOfReactants>
+        <listOfProducts>
+          <speciesReference species="M_5dglcn_c" stoichiometry="1" constant="true"/>
+          <speciesReference species="M_h_c" stoichiometry="1" constant="true"/>
+          <speciesReference species="M_nadh_c" stoichiometry="1" constant="true"/>
+        </listOfProducts>
+        <fbc:geneProductAssociation>
+          <fbc:or>
+            <fbc:geneProductRef fbc:geneProduct="G_b2842"/>
+            <fbc:geneProductRef fbc:geneProduct="G_b4266"/>
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+        </fbc:geneProductAssociation>
+      </reaction>
+      <reaction id="R_XYHDL" fast="false" reversible="false" name="?-D-xyloside xylohydrolase" metaid="R_XYHDL" sboTerm="SBO:0000176" fbc:upperFluxBound="cobra_default_ub" fbc:lowerFluxBound="cobra_0_bound">
+        <sbml:annotation xmlns:sbml="http://www.sbml.org/sbml/level3/version1/core">
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+            <rdf:Description rdf:about="#R_XYHDL">
+              <bqbiol:is xmlns:bqbiol="http://biomodels.net/biology-qualifiers/">
+                <rdf:Bag>
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+        </sbml:annotation>
+        <listOfReactants>
+          <speciesReference species="M_h2o_c" stoichiometry="1" constant="true"/>
+          <speciesReference species="M_iprimv_c" stoichiometry="1" constant="true"/>
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+        <listOfProducts>
+          <speciesReference species="M_glc__D_c" stoichiometry="1" constant="true"/>
+          <speciesReference species="M_xyl__D_c" stoichiometry="1" constant="true"/>
+        </listOfProducts>
+        <fbc:geneProductAssociation>
+          <fbc:geneProductRef fbc:geneProduct="G_b3656"/>
+        </fbc:geneProductAssociation>
+      </reaction>
+      <reaction id="R_2DGLCtex" fast="false" reversible="true" name="2-Deoxy-D-glucose transport via diffusion (extracellular)" metaid="R_2DGLCtex" sboTerm="SBO:0000185" fbc:upperFluxBound="cobra_default_ub" fbc:lowerFluxBound="cobra_default_lb">
+        <sbml:annotation xmlns:sbml="http://www.sbml.org/sbml/level3/version1/core">
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+              <bqbiol:is xmlns:bqbiol="http://biomodels.net/biology-qualifiers/">
+                <rdf:Bag>
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+        <listOfReactants>
+          <speciesReference species="M_2dglc_e" stoichiometry="1" constant="true"/>
+        </listOfReactants>
+        <listOfProducts>
+          <speciesReference species="M_2dglc_p" stoichiometry="1" constant="true"/>
+        </listOfProducts>
+        <fbc:geneProductAssociation>
+          <fbc:or>
+            <fbc:geneProductRef fbc:geneProduct="G_b1377"/>
+            <fbc:geneProductRef fbc:geneProduct="G_b0241"/>
+            <fbc:geneProductRef fbc:geneProduct="G_b2215"/>
+            <fbc:geneProductRef fbc:geneProduct="G_b0929"/>
+          </fbc:or>
+        </fbc:geneProductAssociation>
+      </reaction>
+      <reaction id="R_E4PP" fast="false" reversible="false" name="Erythrose-4-phosphate phosphatase" metaid="R_E4PP" sboTerm="SBO:0000176" fbc:upperFluxBound="cobra_default_ub" fbc:lowerFluxBound="cobra_0_bound">
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+        </sbml:annotation>
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+          <speciesReference species="M_h2o_c" stoichiometry="1" constant="true"/>
+        </listOfReactants>
+        <listOfProducts>
+          <speciesReference species="M_erthrs_c" stoichiometry="1" constant="true"/>
+          <speciesReference species="M_pi_c" stoichiometry="1" constant="true"/>
+        </listOfProducts>
+        <fbc:geneProductAssociation>
+          <fbc:or>
+            <fbc:geneProductRef fbc:geneProduct="G_b0822"/>
+            <fbc:geneProductRef fbc:geneProduct="G_b2293"/>
+            <fbc:geneProductRef fbc:geneProduct="G_b2690"/>
+            <fbc:geneProductRef fbc:geneProduct="G_b3826"/>
+            <fbc:geneProductRef fbc:geneProduct="G_b1727"/>
+          </fbc:or>
+        </fbc:geneProductAssociation>
+      </reaction>
+      <reaction id="R_PUACGAMS" fast="false" reversible="true" name="Poly-?-1,6-N-acetyl-D-glucosamine synthase" metaid="R_PUACGAMS" sboTerm="SBO:0000176" fbc:upperFluxBound="cobra_default_ub" fbc:lowerFluxBound="cobra_default_lb">
+        <sbml:annotation xmlns:sbml="http://www.sbml.org/sbml/level3/version1/core">
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+            <rdf:Description rdf:about="#R_PUACGAMS">
+              <bqbiol:is xmlns:bqbiol="http://biomodels.net/biology-qualifiers/">
+                <rdf:Bag>
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+        </sbml:annotation>
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+          <speciesReference species="M_puacgam_c" stoichiometry="1" constant="true"/>
+          <speciesReference species="M_udp_c" stoichiometry="1" constant="true"/>
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+        <listOfProducts>
+          <speciesReference species="M_uacgam_c" stoichiometry="1" constant="true"/>
+        </listOfProducts>
+        <fbc:geneProductAssociation>
+          <fbc:and>
+            <fbc:geneProductRef fbc:geneProduct="G_b1021"/>
+            <fbc:geneProductRef fbc:geneProduct="G_b1022"/>
+          </fbc:and>
+        </fbc:geneProductAssociation>
+      </reaction>
+      <reaction id="R_PItpp" fast="false" reversible="false" name="Phosphate export via facillated diffusion (periplasm)" metaid="R_PItpp" sboTerm="SBO:0000185" fbc:upperFluxBound="cobra_default_ub" fbc:lowerFluxBound="cobra_0_bound">
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+        <listOfReactants>
+          <speciesReference species="M_pi_c" stoichiometry="1" constant="true"/>
+        </listOfReactants>
+        <listOfProducts>
+          <speciesReference species="M_pi_p" stoichiometry="1" constant="true"/>
+        </listOfProducts>
+        <fbc:geneProductAssociation>
+          <fbc:geneProductRef fbc:geneProduct="G_b4020"/>
+        </fbc:geneProductAssociation>
+      </reaction>
+      <reaction id="R_RU5PP" fast="false" reversible="false" name="Ribulose-5-Phosphate Phosphatase" metaid="R_RU5PP" sboTerm="SBO:0000176" fbc:upperFluxBound="cobra_default_ub" fbc:lowerFluxBound="cobra_0_bound">
+        <sbml:annotation xmlns:sbml="http://www.sbml.org/sbml/level3/version1/core">
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+          <speciesReference species="M_h2o_c" stoichiometry="1" constant="true"/>
+          <speciesReference species="M_ru5p__D_c" stoichiometry="1" constant="true"/>
+        </listOfReactants>
+        <listOfProducts>
+          <speciesReference species="M_pi_c" stoichiometry="1" constant="true"/>
+          <speciesReference species="M_rbl__D_c" stoichiometry="1" constant="true"/>
+        </listOfProducts>
+        <fbc:geneProductAssociation>
+          <fbc:geneProductRef fbc:geneProduct="G_b2293"/>
+        </fbc:geneProductAssociation>
+      </reaction>
+      <reaction id="R_EX_doxrbcn_e" fast="false" reversible="false" name="Doxorubicin exchange" metaid="R_EX_doxrbcn_e" sboTerm="SBO:0000627" fbc:upperFluxBound="cobra_default_ub" fbc:lowerFluxBound="cobra_0_bound">
+        <sbml:annotation xmlns:sbml="http://www.sbml.org/sbml/level3/version1/core">
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+              <bqbiol:is xmlns:bqbiol="http://biomodels.net/biology-qualifiers/">
+                <rdf:Bag>
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+                  <rdf:li rdf:resource="http://identifiers.org/metanetx.reaction/MNXR97760"/>
+                  <rdf:li rdf:resource="http://identifiers.org/rhea/35079"/>
+                  <rdf:li rdf:resource="http://identifiers.org/rhea/35081"/>
+                  <rdf:li rdf:resource="http://identifiers.org/rhea/35080"/>
+                  <rdf:li rdf:resource="http://identifiers.org/rhea/35082"/>
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+          <speciesReference species="M_doxrbcn_e" stoichiometry="1" constant="true"/>
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+      <reaction id="R_6D6SFK" fast="false" reversible="false" name="6-deoxy-6-sulfofructose kinase" metaid="R_6D6SFK" sboTerm="SBO:0000176" fbc:upperFluxBound="cobra_default_ub" fbc:lowerFluxBound="cobra_0_bound">
+        <sbml:annotation xmlns:sbml="http://www.sbml.org/sbml/level3/version1/core">
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+          <speciesReference species="M_sf_c" stoichiometry="1" constant="true"/>
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+        <listOfProducts>
+          <speciesReference species="M_adp_c" stoichiometry="1" constant="true"/>
+          <speciesReference species="M_h_c" stoichiometry="1" constant="true"/>
+          <speciesReference species="M_sfp_c" stoichiometry="1" constant="true"/>
+        </listOfProducts>
+        <fbc:geneProductAssociation>
+          <fbc:geneProductRef fbc:geneProduct="G_b3883"/>
+        </fbc:geneProductAssociation>
+      </reaction>
+      <reaction id="R_3SLAR" fast="false" reversible="false" name="3-sulfolactaldehyde reductase" metaid="R_3SLAR" sboTerm="SBO:0000176" fbc:upperFluxBound="cobra_default_ub" fbc:lowerFluxBound="cobra_0_bound">
+        <sbml:annotation xmlns:sbml="http://www.sbml.org/sbml/level3/version1/core">
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+          <speciesReference species="M_h_c" stoichiometry="1" constant="true"/>
+          <speciesReference species="M_nadh_c" stoichiometry="1" constant="true"/>
+          <speciesReference species="M_sla_c" stoichiometry="1" constant="true"/>
+        </listOfReactants>
+        <listOfProducts>
+          <speciesReference species="M_dhps_c" stoichiometry="1" constant="true"/>
+          <speciesReference species="M_nad_c" stoichiometry="1" constant="true"/>
+        </listOfProducts>
+        <fbc:geneProductAssociation>
+          <fbc:geneProductRef fbc:geneProduct="G_b3882"/>
+        </fbc:geneProductAssociation>
+      </reaction>
+      <reaction id="R_LEUt3pp" fast="false" reversible="false" name="L-leucine transport out via proton antiport (periplasm)" metaid="R_LEUt3pp" sboTerm="SBO:0000185" fbc:upperFluxBound="cobra_default_ub" fbc:lowerFluxBound="cobra_0_bound">
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+        </sbml:annotation>
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+          <speciesReference species="M_leu__L_c" stoichiometry="1" constant="true"/>
+        </listOfReactants>
+        <listOfProducts>
+          <speciesReference species="M_h_c" stoichiometry="1" constant="true"/>
+          <speciesReference species="M_leu__L_p" stoichiometry="1" constant="true"/>
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+        <fbc:geneProductAssociation>
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+            <fbc:geneProductRef fbc:geneProduct="G_b4141"/>
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+        </fbc:geneProductAssociation>
+      </reaction>
+      <reaction id="R_INSt3pp" fast="false" reversible="false" name="Inosine transport out via proton antiport (perisplasm)" metaid="R_INSt3pp" sboTerm="SBO:0000185" fbc:upperFluxBound="cobra_default_ub" fbc:lowerFluxBound="cobra_0_bound">
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+        </sbml:annotation>
+        <listOfReactants>
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+          <speciesReference species="M_ins_c" stoichiometry="1" constant="true"/>
+        </listOfReactants>
+        <listOfProducts>
+          <speciesReference species="M_h_c" stoichiometry="1" constant="true"/>
+          <speciesReference species="M_ins_p" stoichiometry="1" constant="true"/>
+        </listOfProducts>
+        <fbc:geneProductAssociation>
+          <fbc:geneProductRef fbc:geneProduct="G_b3662"/>
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+      </reaction>
+      <reaction id="R_INDOLEt2rpp" fast="false" reversible="false" name="Indole transport via proton symport, reversible (periplasm)" metaid="R_INDOLEt2rpp" sboTerm="SBO:0000185" fbc:upperFluxBound="cobra_default_ub" fbc:lowerFluxBound="cobra_0_bound">
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+                  <rdf:li rdf:resource="http://identifiers.org/rhea/29227"/>
+                  <rdf:li rdf:resource="http://identifiers.org/rhea/29230"/>
+                  <rdf:li rdf:resource="http://identifiers.org/rhea/29229"/>
+                  <rdf:li rdf:resource="http://identifiers.org/seed.reaction/rxn08750"/>
+                  <rdf:li rdf:resource="http://identifiers.org/seed.reaction/rxn10176"/>
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+        </sbml:annotation>
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+          <speciesReference species="M_indole_p" stoichiometry="1" constant="true"/>
+        </listOfReactants>
+        <listOfProducts>
+          <speciesReference species="M_h_c" stoichiometry="1" constant="true"/>
+          <speciesReference species="M_indole_c" stoichiometry="1" constant="true"/>
+        </listOfProducts>
+        <fbc:geneProductAssociation>
+          <fbc:geneProductRef fbc:geneProduct="G_b3161"/>
+        </fbc:geneProductAssociation>
+      </reaction>
+      <reaction id="R_SQtex" fast="false" reversible="true" name="Sulphoquinovose transport via diffusion" metaid="R_SQtex" sboTerm="SBO:0000185" fbc:upperFluxBound="cobra_default_ub" fbc:lowerFluxBound="cobra_default_lb">
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+        <listOfProducts>
+          <speciesReference species="M_sq_p" stoichiometry="1" constant="true"/>
+        </listOfProducts>
+        <fbc:geneProductAssociation>
+          <fbc:geneProductRef fbc:geneProduct="G_b3875"/>
+        </fbc:geneProductAssociation>
+      </reaction>
+      <reaction id="R_ILEt2rpp" fast="false" reversible="false" name="L-isoleucine reversible transport via proton symport (periplasm)" metaid="R_ILEt2rpp" sboTerm="SBO:0000185" fbc:upperFluxBound="cobra_default_ub" fbc:lowerFluxBound="cobra_0_bound">
+        <sbml:annotation xmlns:sbml="http://www.sbml.org/sbml/level3/version1/core">
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+                  <rdf:li rdf:resource="http://identifiers.org/metanetx.reaction/MNXR100822"/>
+                  <rdf:li rdf:resource="http://identifiers.org/seed.reaction/rxn13322"/>
+                  <rdf:li rdf:resource="http://identifiers.org/seed.reaction/rxn05244"/>
+                  <rdf:li rdf:resource="http://identifiers.org/seed.reaction/rxn08746"/>
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+            </rdf:Description>
+          </rdf:RDF>
+        </sbml:annotation>
+        <listOfReactants>
+          <speciesReference species="M_h_p" stoichiometry="1" constant="true"/>
+          <speciesReference species="M_ile__L_p" stoichiometry="1" constant="true"/>
+        </listOfReactants>
+        <listOfProducts>
+          <speciesReference species="M_h_c" stoichiometry="1" constant="true"/>
+          <speciesReference species="M_ile__L_c" stoichiometry="1" constant="true"/>
+        </listOfProducts>
+        <fbc:geneProductAssociation>
+          <fbc:geneProductRef fbc:geneProduct="G_b0401"/>
+        </fbc:geneProductAssociation>
+      </reaction>
+      <reaction id="R_GLYtpp" fast="false" reversible="true" name="Glycine transport via facillitated diffusion" metaid="R_GLYtpp" sboTerm="SBO:0000185" fbc:upperFluxBound="cobra_default_ub" fbc:lowerFluxBound="cobra_default_lb">
+        <sbml:annotation xmlns:sbml="http://www.sbml.org/sbml/level3/version1/core">
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+              <bqbiol:is xmlns:bqbiol="http://biomodels.net/biology-qualifiers/">
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+        </sbml:annotation>
+        <listOfReactants>
+          <speciesReference species="M_gly_c" stoichiometry="1" constant="true"/>
+        </listOfReactants>
+        <listOfProducts>
+          <speciesReference species="M_gly_p" stoichiometry="1" constant="true"/>
+        </listOfProducts>
+        <fbc:geneProductAssociation>
+          <fbc:geneProductRef fbc:geneProduct="G_b3927"/>
+        </fbc:geneProductAssociation>
+      </reaction>
+      <reaction id="R_EX_dhps_e" fast="false" reversible="false" name="2,3-Dihydroxypropane-1-sulfonate exchange" metaid="R_EX_dhps_e" sboTerm="SBO:0000627" fbc:upperFluxBound="cobra_default_ub" fbc:lowerFluxBound="cobra_0_bound">
+        <sbml:annotation xmlns:sbml="http://www.sbml.org/sbml/level3/version1/core">
+          <rdf:RDF xmlns:rdf="http://www.w3.org/1999/02/22-rdf-syntax-ns#">
+            <rdf:Description rdf:about="#R_EX_dhps_e">
+              <bqbiol:is xmlns:bqbiol="http://biomodels.net/biology-qualifiers/">
+                <rdf:Bag>
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+              </bqbiol:is>
+            </rdf:Description>
+          </rdf:RDF>
+        </sbml:annotation>
+        <listOfReactants>
+          <speciesReference species="M_dhps_e" stoichiometry="1" constant="true"/>
+        </listOfReactants>
+      </reaction>
+      <reaction id="R_MOX" fast="false" reversible="false" name="Malate oxidase" metaid="R_MOX" sboTerm="SBO:0000176" fbc:upperFluxBound="cobra_default_ub" fbc:lowerFluxBound="cobra_0_bound">
+        <sbml:annotation xmlns:sbml="http://www.sbml.org/sbml/level3/version1/core">
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+              <bqbiol:is xmlns:bqbiol="http://biomodels.net/biology-qualifiers/">
+                <rdf:Bag>
+                  <rdf:li rdf:resource="http://identifiers.org/bigg.reaction/MOX"/>
+                  <rdf:li rdf:resource="http://identifiers.org/ec-code/1.1.5.4"/>
+                  <rdf:li rdf:resource="http://identifiers.org/kegg.reaction/R00360"/>
+                  <rdf:li rdf:resource="http://identifiers.org/metanetx.reaction/MNXR101715"/>
+                  <rdf:li rdf:resource="http://identifiers.org/rhea/10513"/>
+                  <rdf:li rdf:resource="http://identifiers.org/rhea/10512"/>
+                  <rdf:li rdf:resource="http://identifiers.org/rhea/10515"/>
+                  <rdf:li rdf:resource="http://identifiers.org/rhea/10514"/>
+                  <rdf:li rdf:resource="http://identifiers.org/seed.reaction/rxn00264"/>
+                </rdf:Bag>
+              </bqbiol:is>
+            </rdf:Description>
+          </rdf:RDF>
+        </sbml:annotation>
+        <listOfReactants>
+          <speciesReference species="M_mal__L_c" stoichiometry="1" constant="true"/>
+          <speciesReference species="M_o2_c" stoichiometry="1" constant="true"/>
+        </listOfReactants>
+        <listOfProducts>
+          <speciesReference species="M_h2o2_c" stoichiometry="1" constant="true"/>
+          <speciesReference species="M_oaa_c" stoichiometry="1" constant="true"/>
+        </listOfProducts>
+      </reaction>
+      <reaction id="R_URATEtex" fast="false" reversible="true" name="Uric acid transport" metaid="R_URATEtex" sboTerm="SBO:0000185" fbc:upperFluxBound="cobra_default_ub" fbc:lowerFluxBound="cobra_default_lb">
+        <sbml:annotation xmlns:sbml="http://www.sbml.org/sbml/level3/version1/core">
+          <rdf:RDF xmlns:rdf="http://www.w3.org/1999/02/22-rdf-syntax-ns#">
+            <rdf:Description rdf:about="#R_URATEtex">
+              <bqbiol:is xmlns:bqbiol="http://biomodels.net/biology-qualifiers/">
+                <rdf:Bag>
+                  <rdf:li rdf:resource="http://identifiers.org/bigg.reaction/URATEtex"/>
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+          </rdf:RDF>
+        </sbml:annotation>
+        <listOfReactants>
+          <speciesReference species="M_urate_e" stoichiometry="1" constant="true"/>
+        </listOfReactants>
+        <listOfProducts>
+          <speciesReference species="M_urate_p" stoichiometry="1" constant="true"/>
+        </listOfProducts>
+        <fbc:geneProductAssociation>
+          <fbc:or>
+            <fbc:geneProductRef fbc:geneProduct="G_b2215"/>
+            <fbc:geneProductRef fbc:geneProduct="G_b0241"/>
+            <fbc:geneProductRef fbc:geneProduct="G_b0929"/>
+            <fbc:geneProductRef fbc:geneProduct="G_b1377"/>
+          </fbc:or>
+        </fbc:geneProductAssociation>
+      </reaction>
+      <reaction id="R_EX_cs1_e" fast="false" reversible="false" name="Cesium ion exchange" metaid="R_EX_cs1_e" sboTerm="SBO:0000627" fbc:upperFluxBound="cobra_default_ub" fbc:lowerFluxBound="cobra_0_bound">
+        <sbml:annotation xmlns:sbml="http://www.sbml.org/sbml/level3/version1/core">
+          <rdf:RDF xmlns:rdf="http://www.w3.org/1999/02/22-rdf-syntax-ns#">
+            <rdf:Description rdf:about="#R_EX_cs1_e">
+              <bqbiol:is xmlns:bqbiol="http://biomodels.net/biology-qualifiers/">
+                <rdf:Bag>
+                  <rdf:li rdf:resource="http://identifiers.org/bigg.reaction/EX_cs1_e"/>
+                </rdf:Bag>
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+          </rdf:RDF>
+        </sbml:annotation>
+        <listOfReactants>
+          <speciesReference species="M_cs1_e" stoichiometry="1" constant="true"/>
+        </listOfReactants>
+      </reaction>
+      <reaction id="R_EX_fusa_e" fast="false" reversible="false" name="Fusidic acid exchange" metaid="R_EX_fusa_e" sboTerm="SBO:0000627" fbc:upperFluxBound="cobra_default_ub" fbc:lowerFluxBound="cobra_0_bound">
+        <sbml:annotation xmlns:sbml="http://www.sbml.org/sbml/level3/version1/core">
+          <rdf:RDF xmlns:rdf="http://www.w3.org/1999/02/22-rdf-syntax-ns#">
+            <rdf:Description rdf:about="#R_EX_fusa_e">
+              <bqbiol:is xmlns:bqbiol="http://biomodels.net/biology-qualifiers/">
+                <rdf:Bag>
+                  <rdf:li rdf:resource="http://identifiers.org/bigg.reaction/EX_fusa_e"/>
+                  <rdf:li rdf:resource="http://identifiers.org/metanetx.reaction/MNXR99717"/>
+                  <rdf:li rdf:resource="http://identifiers.org/rhea/35106"/>
+                  <rdf:li rdf:resource="http://identifiers.org/rhea/35105"/>
+                  <rdf:li rdf:resource="http://identifiers.org/rhea/35104"/>
+                  <rdf:li rdf:resource="http://identifiers.org/rhea/35103"/>
+                </rdf:Bag>
+              </bqbiol:is>
+            </rdf:Description>
+          </rdf:RDF>
+        </sbml:annotation>
+        <listOfReactants>
+          <speciesReference species="M_fusa_e" stoichiometry="1" constant="true"/>
+        </listOfReactants>
+      </reaction>
+      <reaction id="R_CBL1tonex" fast="false" reversible="false" name="Cob(1)alamin transport via ton system (extermal)" metaid="R_CBL1tonex" sboTerm="SBO:0000185" fbc:upperFluxBound="cobra_default_ub" fbc:lowerFluxBound="cobra_0_bound">
+        <sbml:annotation xmlns:sbml="http://www.sbml.org/sbml/level3/version1/core">
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+              <bqbiol:is xmlns:bqbiol="http://biomodels.net/biology-qualifiers/">
+                <rdf:Bag>
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+                  <rdf:li rdf:resource="http://identifiers.org/metanetx.reaction/MNXR96472"/>
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+        </sbml:annotation>
+        <listOfReactants>
+          <speciesReference species="M_cbl1_e" stoichiometry="1" constant="true"/>
+          <speciesReference species="M_h_p" stoichiometry="1" constant="true"/>
+        </listOfReactants>
+        <listOfProducts>
+          <speciesReference species="M_cbl1_p" stoichiometry="1" constant="true"/>
+          <speciesReference species="M_h_c" stoichiometry="1" constant="true"/>
+        </listOfProducts>
+        <fbc:geneProductAssociation>
+          <fbc:and>
+            <fbc:and>
+              <fbc:geneProductRef fbc:geneProduct="G_b1252"/>
+              <fbc:geneProductRef fbc:geneProduct="G_b3005"/>
+              <fbc:geneProductRef fbc:geneProduct="G_b3006"/>
+            </fbc:and>
+            <fbc:geneProductRef fbc:geneProduct="G_b3966"/>
+          </fbc:and>
+        </fbc:geneProductAssociation>
+      </reaction>
+      <reaction id="R_CBItonex" fast="false" reversible="false" name="Cobinamide transport via ton system (extermal)" metaid="R_CBItonex" sboTerm="SBO:0000185" fbc:upperFluxBound="cobra_default_ub" fbc:lowerFluxBound="cobra_0_bound">
+        <sbml:annotation xmlns:sbml="http://www.sbml.org/sbml/level3/version1/core">
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+              <bqbiol:is xmlns:bqbiol="http://biomodels.net/biology-qualifiers/">
+                <rdf:Bag>
+                  <rdf:li rdf:resource="http://identifiers.org/bigg.reaction/CBItonex"/>
+                  <rdf:li rdf:resource="http://identifiers.org/metanetx.reaction/MNXR96468"/>
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+              </bqbiol:is>
+            </rdf:Description>
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+          <speciesReference species="M_cbi_e" stoichiometry="1" constant="true"/>
+          <speciesReference species="M_h_p" stoichiometry="1" constant="true"/>
+        </listOfReactants>
+        <listOfProducts>
+          <speciesReference species="M_cbi_p" stoichiometry="1" constant="true"/>
+          <speciesReference species="M_h_c" stoichiometry="1" constant="true"/>
+        </listOfProducts>
+        <fbc:geneProductAssociation>
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+              <fbc:geneProductRef fbc:geneProduct="G_b1252"/>
+              <fbc:geneProductRef fbc:geneProduct="G_b3005"/>
+              <fbc:geneProductRef fbc:geneProduct="G_b3006"/>
+            </fbc:and>
+            <fbc:geneProductRef fbc:geneProduct="G_b3966"/>
+          </fbc:and>
+        </fbc:geneProductAssociation>
+      </reaction>
+      <reaction id="R_ARHGDx" fast="false" reversible="true" name="(R)-alpha-hydroxyglutarate dehydrogenase" metaid="R_ARHGDx" sboTerm="SBO:0000176" fbc:upperFluxBound="cobra_default_ub" fbc:lowerFluxBound="cobra_default_lb">
+        <sbml:annotation xmlns:sbml="http://www.sbml.org/sbml/level3/version1/core">
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+              <bqbiol:is xmlns:bqbiol="http://biomodels.net/biology-qualifiers/">
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+        </sbml:annotation>
+        <listOfReactants>
+          <speciesReference species="M_nad_c" stoichiometry="1" constant="true"/>
+          <speciesReference species="M_r2hglut_c" stoichiometry="1" constant="true"/>
+        </listOfReactants>
+        <listOfProducts>
+          <speciesReference species="M_akg_c" stoichiometry="1" constant="true"/>
+          <speciesReference species="M_h_c" stoichiometry="1" constant="true"/>
+          <speciesReference species="M_nadh_c" stoichiometry="1" constant="true"/>
+        </listOfProducts>
+        <fbc:geneProductAssociation>
+          <fbc:geneProductRef fbc:geneProduct="G_b2913"/>
+        </fbc:geneProductAssociation>
+      </reaction>
+      <reaction id="R_CPL" fast="false" reversible="false" name="Carbon-phosphorous lyase" metaid="R_CPL" sboTerm="SBO:0000176" fbc:upperFluxBound="cobra_default_ub" fbc:lowerFluxBound="cobra_0_bound">
+        <sbml:annotation xmlns:sbml="http://www.sbml.org/sbml/level3/version1/core">
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+                <rdf:Bag>
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+            </rdf:Description>
+          </rdf:RDF>
+        </sbml:annotation>
+        <listOfReactants>
+          <speciesReference species="M_prpmn_c" stoichiometry="1" constant="true"/>
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+        <listOfProducts>
+          <speciesReference species="M_ch4_c" stoichiometry="1" constant="true"/>
+          <speciesReference species="M_prcp_c" stoichiometry="1" constant="true"/>
+        </listOfProducts>
+        <fbc:geneProductAssociation>
+          <fbc:geneProductRef fbc:geneProduct="G_b4098"/>
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+      </reaction>
+      <reaction id="R_EX_mepn_e" fast="false" reversible="false" name="Methylphosphonic acid exchange" metaid="R_EX_mepn_e" sboTerm="SBO:0000627" fbc:upperFluxBound="cobra_default_ub" fbc:lowerFluxBound="cobra_0_bound">
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+        <fbc:geneProductAssociation>
+          <fbc:geneProductRef fbc:geneProduct="G_b2164"/>
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+      <reaction id="R_CYSTA" fast="false" reversible="false" name="Cysteine transaminase" metaid="R_CYSTA" sboTerm="SBO:0000176" fbc:upperFluxBound="cobra_default_ub" fbc:lowerFluxBound="cobra_0_bound">
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+          <speciesReference species="M_cys__L_c" stoichiometry="1" constant="true"/>
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+        <listOfProducts>
+          <speciesReference species="M_glu__L_c" stoichiometry="1" constant="true"/>
+          <speciesReference species="M_mercppyr_c" stoichiometry="1" constant="true"/>
+        </listOfProducts>
+        <fbc:geneProductAssociation>
+          <fbc:geneProductRef fbc:geneProduct="G_b0928"/>
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+      <reaction id="R_FE3DCITR5" fast="false" reversible="false" name="Ferric-dicitrate reductase via nadph" metaid="R_FE3DCITR5" sboTerm="SBO:0000176" fbc:upperFluxBound="cobra_default_ub" fbc:lowerFluxBound="cobra_0_bound">
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+          <speciesReference species="M_fe2_c" stoichiometry="2" constant="true"/>
+          <speciesReference species="M_h_c" stoichiometry="1" constant="true"/>
+          <speciesReference species="M_nadp_c" stoichiometry="1" constant="true"/>
+        </listOfProducts>
+        <fbc:geneProductAssociation>
+          <fbc:geneProductRef fbc:geneProduct="G_b3070"/>
+        </fbc:geneProductAssociation>
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+      <reaction id="R_CH4t2pp" fast="false" reversible="false" name="Methane Transport(periplasm)" metaid="R_CH4t2pp" sboTerm="SBO:0000185" fbc:upperFluxBound="cobra_default_ub" fbc:lowerFluxBound="cobra_0_bound">
+        <sbml:annotation xmlns:sbml="http://www.sbml.org/sbml/level3/version1/core">
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+        <listOfProducts>
+          <speciesReference species="M_ch4_p" stoichiometry="1" constant="true"/>
+        </listOfProducts>
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+      <reaction id="R_EX_cm_e" fast="false" reversible="false" name="Chloramphenicol exchange" metaid="R_EX_cm_e" sboTerm="SBO:0000627" fbc:upperFluxBound="cobra_default_ub" fbc:lowerFluxBound="cobra_0_bound">
+        <sbml:annotation xmlns:sbml="http://www.sbml.org/sbml/level3/version1/core">
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+                  <rdf:li rdf:resource="http://identifiers.org/rhea/35290"/>
+                  <rdf:li rdf:resource="http://identifiers.org/rhea/35287"/>
+                  <rdf:li rdf:resource="http://identifiers.org/rhea/35289"/>
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+      <reaction id="R_4HTHRA" fast="false" reversible="true" name="4-hydroxy-L-threonine aldolase" metaid="R_4HTHRA" sboTerm="SBO:0000176" fbc:upperFluxBound="cobra_default_ub" fbc:lowerFluxBound="cobra_default_lb">
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+          <speciesReference species="M_4hthr_c" stoichiometry="1" constant="true"/>
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+        <listOfProducts>
+          <speciesReference species="M_gcald_c" stoichiometry="1" constant="true"/>
+          <speciesReference species="M_gly_c" stoichiometry="1" constant="true"/>
+        </listOfProducts>
+        <fbc:geneProductAssociation>
+          <fbc:geneProductRef fbc:geneProduct="G_b0870"/>
+        </fbc:geneProductAssociation>
+      </reaction>
+      <reaction id="R_EX_novbcn_e" fast="false" reversible="false" name="Novobiocin exchange" metaid="R_EX_novbcn_e" sboTerm="SBO:0000627" fbc:upperFluxBound="cobra_default_ub" fbc:lowerFluxBound="cobra_0_bound">
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+              <bqbiol:is xmlns:bqbiol="http://biomodels.net/biology-qualifiers/">
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+                  <rdf:li rdf:resource="http://identifiers.org/rhea/35175"/>
+                  <rdf:li rdf:resource="http://identifiers.org/rhea/35177"/>
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+          <speciesReference species="M_novbcn_e" stoichiometry="1" constant="true"/>
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+        <sbml:annotation xmlns:sbml="http://www.sbml.org/sbml/level3/version1/core">
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+          <speciesReference species="M_2fe1s_c" stoichiometry="1" constant="true"/>
+          <speciesReference species="M_iscssh_c" stoichiometry="1" constant="true"/>
+          <speciesReference species="M_iscu_c" stoichiometry="1" constant="true"/>
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+        <listOfProducts>
+          <speciesReference species="M_h_c" stoichiometry="4" constant="true"/>
+          <speciesReference species="M_iscs_c" stoichiometry="1" constant="true"/>
+          <speciesReference species="M_iscu_2fe2s_c" stoichiometry="1" constant="true"/>
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+        <fbc:geneProductAssociation>
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+            <fbc:geneProductRef fbc:geneProduct="G_b2530"/>
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+        </fbc:geneProductAssociation>
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+          <speciesReference species="M_glyald_c" stoichiometry="1" constant="true"/>
+          <speciesReference species="M_pi_c" stoichiometry="1" constant="true"/>
+        </listOfProducts>
+        <fbc:geneProductAssociation>
+          <fbc:geneProductRef fbc:geneProduct="G_b1727"/>
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+                  <rdf:li rdf:resource="http://identifiers.org/rhea/26363"/>
+                  <rdf:li rdf:resource="http://identifiers.org/rhea/26362"/>
+                  <rdf:li rdf:resource="http://identifiers.org/rhea/26364"/>
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+          <speciesReference species="M_tyr__L_c" stoichiometry="1" constant="true"/>
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+          <speciesReference species="M_4crsol_c" stoichiometry="1" constant="true"/>
+          <speciesReference species="M_dad_5_c" stoichiometry="1" constant="true"/>
+          <speciesReference species="M_dhgly_c" stoichiometry="1" constant="true"/>
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+          <speciesReference species="M_met__L_c" stoichiometry="1" constant="true"/>
+          <speciesReference species="M_nadp_c" stoichiometry="1" constant="true"/>
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+          <fbc:geneProductRef fbc:geneProduct="G_b3991"/>
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+          <speciesReference species="M_metglcur_p" stoichiometry="1" constant="true"/>
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+          <speciesReference species="M_metglcur_c" stoichiometry="1" constant="true"/>
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+        <fbc:geneProductAssociation>
+          <fbc:geneProductRef fbc:geneProduct="G_b1616"/>
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+      <reaction id="R_METGLCURtex" fast="false" reversible="true" name="1-O-methyl-Beta-D-glucuronate via diffusion (extracellular)" metaid="R_METGLCURtex" sboTerm="SBO:0000185" fbc:upperFluxBound="cobra_default_ub" fbc:lowerFluxBound="cobra_default_lb">
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+          <speciesReference species="M_metglcur_p" stoichiometry="1" constant="true"/>
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+            <fbc:geneProductRef fbc:geneProduct="G_b0241"/>
+            <fbc:geneProductRef fbc:geneProduct="G_b2215"/>
+            <fbc:geneProductRef fbc:geneProduct="G_b0929"/>
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+        </fbc:geneProductAssociation>
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+          <speciesReference species="M_o2_c" stoichiometry="1" constant="true"/>
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+          <speciesReference species="M_h2o_c" stoichiometry="1" constant="true"/>
+          <speciesReference species="M_h_c" stoichiometry="1" constant="true"/>
+        </listOfProducts>
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+          <fbc:geneProductRef fbc:geneProduct="G_b3488"/>
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+      <reaction id="R_THZPSN3" fast="false" reversible="false" name="Thiazole phosphate synthesis" metaid="R_THZPSN3" sboTerm="SBO:0000176" fbc:upperFluxBound="cobra_default_ub" fbc:lowerFluxBound="cobra_0_bound">
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+          <speciesReference species="M_dxyl5p_c" stoichiometry="1" constant="true"/>
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+          <speciesReference species="M_nadph_c" stoichiometry="1" constant="true"/>
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+          <speciesReference species="M_ppi_c" stoichiometry="1" constant="true"/>
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+            <fbc:geneProductRef fbc:geneProduct="G_b3992"/>
+            <fbc:geneProductRef fbc:geneProduct="G_b4407"/>
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+          <speciesReference species="M_psd5p_c" stoichiometry="1" constant="true"/>
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+            <fbc:geneProductRef fbc:geneProduct="G_b4159"/>
+            <fbc:geneProductRef fbc:geneProduct="G_b2924"/>
+            <fbc:geneProductRef fbc:geneProduct="G_b0808"/>
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+          <speciesReference species="M_glyc3p_c" stoichiometry="1" constant="true"/>
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+          <fbc:geneProductRef fbc:geneProduct="G_b3059"/>
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+          <speciesReference species="M_ser__L_p" stoichiometry="1" constant="true"/>
+        </listOfProducts>
+        <fbc:geneProductAssociation>
+          <fbc:geneProductRef fbc:geneProduct="G_b1533"/>
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+      <reaction id="R_QUINDHyi" fast="false" reversible="false" name="Quinate dehydrogenase (NADP)" metaid="R_QUINDHyi" sboTerm="SBO:0000176" fbc:upperFluxBound="cobra_default_ub" fbc:lowerFluxBound="cobra_0_bound">
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+          <speciesReference species="M_quin_c" stoichiometry="1" constant="true"/>
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+          <speciesReference species="M_3dhq_c" stoichiometry="1" constant="true"/>
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+          <speciesReference species="M_nadph_c" stoichiometry="1" constant="true"/>
+        </listOfProducts>
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+          <fbc:geneProductRef fbc:geneProduct="G_b1692"/>
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+          <speciesReference species="M_thcur_c" stoichiometry="1" constant="true"/>
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+        <fbc:geneProductAssociation>
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+          <speciesReference species="M_h2o_c" stoichiometry="1" constant="true"/>
+          <speciesReference species="M_lkdr_c" stoichiometry="1" constant="true"/>
+        </listOfProducts>
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+          <fbc:geneProductRef fbc:geneProduct="G_b2247"/>
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+          <speciesReference species="M_coa_c" stoichiometry="1" constant="true"/>
+        </listOfProducts>
+        <fbc:geneProductAssociation>
+          <fbc:geneProductRef fbc:geneProduct="G_b0597"/>
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+          <speciesReference species="M_h2o_c" stoichiometry="1" constant="true"/>
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+        </listOfProducts>
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+          <fbc:geneProductRef fbc:geneProduct="G_b1870"/>
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+          <speciesReference species="M_thr__L_c" stoichiometry="1" constant="true"/>
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+          <fbc:geneProductRef fbc:geneProduct="G_b3116"/>
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+                  <rdf:li rdf:resource="http://identifiers.org/seed.reaction/rxn09246"/>
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+          <speciesReference species="M_ser__L_p" stoichiometry="1" constant="true"/>
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+        <listOfProducts>
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+          <speciesReference species="M_ser__L_c" stoichiometry="1" constant="true"/>
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+            <fbc:geneProductRef fbc:geneProduct="G_b3116"/>
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+        </fbc:geneProductAssociation>
+      </reaction>
+      <reaction id="R_DHGLYH" fast="false" reversible="false" name="Dehydroglycine Hydratase" metaid="R_DHGLYH" sboTerm="SBO:0000176" fbc:upperFluxBound="cobra_default_ub" fbc:lowerFluxBound="cobra_0_bound">
+        <sbml:annotation xmlns:sbml="http://www.sbml.org/sbml/level3/version1/core">
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+          <speciesReference species="M_h2o_c" stoichiometry="1" constant="true"/>
+          <speciesReference species="M_h_c" stoichiometry="1" constant="true"/>
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+          <speciesReference species="M_glx_c" stoichiometry="1" constant="true"/>
+          <speciesReference species="M_nh4_c" stoichiometry="1" constant="true"/>
+        </listOfProducts>
+        <fbc:geneProductAssociation>
+          <fbc:geneProductRef fbc:geneProduct="G_s0001"/>
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+      <reaction id="R_PNSPA" fast="false" reversible="false" name="Purine Nucleoside Phorphoramidase" metaid="R_PNSPA" sboTerm="SBO:0000176" fbc:upperFluxBound="cobra_default_ub" fbc:lowerFluxBound="cobra_0_bound">
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+            </rdf:Description>
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+        </sbml:annotation>
+        <listOfReactants>
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+          <speciesReference species="M_h2o_c" stoichiometry="1" constant="true"/>
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+        <listOfProducts>
+          <speciesReference species="M_gmp_c" stoichiometry="1" constant="true"/>
+          <speciesReference species="M_nalme_c" stoichiometry="1" constant="true"/>
+        </listOfProducts>
+        <fbc:geneProductAssociation>
+          <fbc:geneProductRef fbc:geneProduct="G_b1103"/>
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+                  <rdf:li rdf:resource="http://identifiers.org/rhea/28790"/>
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+          <speciesReference species="M_atp_c" stoichiometry="1" constant="true"/>
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+          <speciesReference species="M_h_c" stoichiometry="1" constant="true"/>
+          <speciesReference species="M_phthr_c" stoichiometry="1" constant="true"/>
+        </listOfProducts>
+        <fbc:geneProductAssociation>
+          <fbc:geneProductRef fbc:geneProduct="G_b0003"/>
+        </fbc:geneProductAssociation>
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+          <speciesReference species="M_fadh2_c" stoichiometry="1" constant="true"/>
+        </listOfProducts>
+        <fbc:geneProductAssociation>
+          <fbc:geneProductRef fbc:geneProduct="G_b0221"/>
+        </fbc:geneProductAssociation>
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+      <reaction id="R_AMPNTAT" fast="false" reversible="false" name="Aminoalkylphosphonate N-acetyltransferase" metaid="R_AMPNTAT" sboTerm="SBO:0000176" fbc:upperFluxBound="cobra_default_ub" fbc:lowerFluxBound="cobra_0_bound">
+        <sbml:annotation xmlns:sbml="http://www.sbml.org/sbml/level3/version1/core">
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+          <speciesReference species="M_accoa_c" stoichiometry="1" constant="true"/>
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+          <speciesReference species="M_acampnt_c" stoichiometry="1" constant="true"/>
+          <speciesReference species="M_coa_c" stoichiometry="1" constant="true"/>
+        </listOfProducts>
+        <fbc:geneProductAssociation>
+          <fbc:geneProductRef fbc:geneProduct="G_b4093"/>
+        </fbc:geneProductAssociation>
+      </reaction>
+      <reaction id="R_EX_sq_e" fast="false" reversible="false" name="Sulphoquinovose exchange" metaid="R_EX_sq_e" sboTerm="SBO:0000627" fbc:upperFluxBound="cobra_default_ub" fbc:lowerFluxBound="cobra_0_bound">
+        <sbml:annotation xmlns:sbml="http://www.sbml.org/sbml/level3/version1/core">
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+                <rdf:Bag>
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+        </sbml:annotation>
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+          <speciesReference species="M_sq_e" stoichiometry="1" constant="true"/>
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+                <rdf:Bag>
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+                  <rdf:li rdf:resource="http://identifiers.org/metanetx.reaction/MNXR95876"/>
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+          <speciesReference species="M_h2o_c" stoichiometry="1" constant="true"/>
+        </listOfReactants>
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+          <speciesReference species="M_ddca_c" stoichiometry="1" constant="true"/>
+          <speciesReference species="M_h_c" stoichiometry="2" constant="true"/>
+          <speciesReference species="M_pi_c" stoichiometry="1" constant="true"/>
+        </listOfProducts>
+        <fbc:geneProductAssociation>
+          <fbc:geneProductRef fbc:geneProduct="G_b0968"/>
+        </fbc:geneProductAssociation>
+      </reaction>
+      <reaction id="R_URATEtpp" fast="false" reversible="false" name="Uric acid transporter" metaid="R_URATEtpp" sboTerm="SBO:0000185" fbc:upperFluxBound="cobra_default_ub" fbc:lowerFluxBound="cobra_0_bound">
+        <sbml:annotation xmlns:sbml="http://www.sbml.org/sbml/level3/version1/core">
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+                <rdf:Bag>
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+          <speciesReference species="M_h_c" stoichiometry="1" constant="true"/>
+          <speciesReference species="M_urate_c" stoichiometry="1" constant="true"/>
+        </listOfProducts>
+        <fbc:geneProductAssociation>
+          <fbc:geneProductRef fbc:geneProduct="G_b2888"/>
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+      </reaction>
+      <reaction id="R_CS1tex" fast="false" reversible="true" name="Cesium transport via diffusion" metaid="R_CS1tex" sboTerm="SBO:0000185" fbc:upperFluxBound="cobra_default_ub" fbc:lowerFluxBound="cobra_default_lb">
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+              <bqbiol:is xmlns:bqbiol="http://biomodels.net/biology-qualifiers/">
+                <rdf:Bag>
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+        </sbml:annotation>
+        <listOfReactants>
+          <speciesReference species="M_cs1_e" stoichiometry="1" constant="true"/>
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+        <listOfProducts>
+          <speciesReference species="M_cs1_p" stoichiometry="1" constant="true"/>
+        </listOfProducts>
+        <fbc:geneProductAssociation>
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+            <fbc:geneProductRef fbc:geneProduct="G_b2215"/>
+            <fbc:geneProductRef fbc:geneProduct="G_b0241"/>
+            <fbc:geneProductRef fbc:geneProduct="G_b1377"/>
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+        </fbc:geneProductAssociation>
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+          <speciesReference species="M_nadph_c" stoichiometry="1" constant="true"/>
+          <speciesReference species="M_o2_c" stoichiometry="1" constant="true"/>
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+          <speciesReference species="M_h2o_c" stoichiometry="1" constant="true"/>
+          <speciesReference species="M_nadp_c" stoichiometry="1" constant="true"/>
+        </listOfProducts>
+        <fbc:geneProductAssociation>
+          <fbc:geneProductRef fbc:geneProduct="G_b2906"/>
+        </fbc:geneProductAssociation>
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+        <listOfProducts>
+          <speciesReference species="M_1pyr5c_c" stoichiometry="1" constant="true"/>
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+          <speciesReference species="M_q8h2_c" stoichiometry="1" constant="true"/>
+        </listOfProducts>
+        <fbc:geneProductAssociation>
+          <fbc:geneProductRef fbc:geneProduct="G_b1014"/>
+        </fbc:geneProductAssociation>
+      </reaction>
+      <reaction id="R_NOVBCNtex" fast="false" reversible="true" name="Novobiocin transport via diffusion (extracellular to periplasm)" metaid="R_NOVBCNtex" sboTerm="SBO:0000185" fbc:upperFluxBound="cobra_default_ub" fbc:lowerFluxBound="cobra_default_lb">
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+                  <rdf:li rdf:resource="http://identifiers.org/rhea/35175"/>
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+        <fbc:geneProductAssociation>
+          <fbc:geneProductRef fbc:geneProduct="G_s0001"/>
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+      <reaction id="R_F1PP" fast="false" reversible="false" name="D-fructose 1-phosphate phosphatase" metaid="R_F1PP" sboTerm="SBO:0000176" fbc:upperFluxBound="cobra_default_ub" fbc:lowerFluxBound="cobra_0_bound">
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+          <speciesReference species="M_h2o_c" stoichiometry="1" constant="true"/>
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+        <listOfProducts>
+          <speciesReference species="M_fru_c" stoichiometry="1" constant="true"/>
+          <speciesReference species="M_pi_c" stoichiometry="1" constant="true"/>
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+        <fbc:geneProductAssociation>
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+            <fbc:geneProductRef fbc:geneProduct="G_b2293"/>
+            <fbc:geneProductRef fbc:geneProduct="G_b0822"/>
+            <fbc:geneProductRef fbc:geneProduct="G_b3697"/>
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+        </fbc:geneProductAssociation>
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+      <reaction id="R_ACP1p" fast="false" reversible="false" name="Acid phosphatase (FMN)" metaid="R_ACP1p" sboTerm="SBO:0000176" fbc:upperFluxBound="cobra_default_ub" fbc:lowerFluxBound="cobra_0_bound">
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+          <speciesReference species="M_h2o_p" stoichiometry="1" constant="true"/>
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+        <listOfProducts>
+          <speciesReference species="M_pi_p" stoichiometry="1" constant="true"/>
+          <speciesReference species="M_ribflv_p" stoichiometry="1" constant="true"/>
+        </listOfProducts>
+        <fbc:geneProductAssociation>
+          <fbc:geneProductRef fbc:geneProduct="G_b0383"/>
+        </fbc:geneProductAssociation>
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+      <reaction id="R_EX_4abzglu_e" fast="false" reversible="false" name="4-aminobenzoyl-glutamate exchange" metaid="R_EX_4abzglu_e" sboTerm="SBO:0000627" fbc:upperFluxBound="cobra_default_ub" fbc:lowerFluxBound="cobra_0_bound">
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+                  <rdf:li rdf:resource="http://identifiers.org/rhea/35231"/>
+                  <rdf:li rdf:resource="http://identifiers.org/rhea/35232"/>
+                  <rdf:li rdf:resource="http://identifiers.org/rhea/35233"/>
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+          <speciesReference species="M_rfamp_e" stoichiometry="1" constant="true"/>
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+      <reaction id="R_3HPADHi" fast="false" reversible="false" name="3-Hydroxypropanal Dehydrogenase" metaid="R_3HPADHi" sboTerm="SBO:0000176" fbc:upperFluxBound="cobra_default_ub" fbc:lowerFluxBound="cobra_0_bound">
+        <sbml:annotation xmlns:sbml="http://www.sbml.org/sbml/level3/version1/core">
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+          <speciesReference species="M_h2o_c" stoichiometry="1" constant="true"/>
+          <speciesReference species="M_nad_c" stoichiometry="1" constant="true"/>
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+        <listOfProducts>
+          <speciesReference species="M_3hpp_c" stoichiometry="1" constant="true"/>
+          <speciesReference species="M_h_c" stoichiometry="2" constant="true"/>
+          <speciesReference species="M_nadh_c" stoichiometry="1" constant="true"/>
+        </listOfProducts>
+        <fbc:geneProductAssociation>
+          <fbc:geneProductRef fbc:geneProduct="G_b1300"/>
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+      <reaction id="R_4ABZGLUtex" fast="false" reversible="true" name="P-aminobenzoyl glutamate transport via diffusion (extracellular to periplasm)" metaid="R_4ABZGLUtex" sboTerm="SBO:0000185" fbc:upperFluxBound="cobra_default_ub" fbc:lowerFluxBound="cobra_default_lb">
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+        <listOfProducts>
+          <speciesReference species="M_4abzglu_p" stoichiometry="1" constant="true"/>
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+            <fbc:geneProductRef fbc:geneProduct="G_b1377"/>
+            <fbc:geneProductRef fbc:geneProduct="G_b2215"/>
+            <fbc:geneProductRef fbc:geneProduct="G_b0929"/>
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+        </fbc:geneProductAssociation>
+      </reaction>
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+            <fbc:geneProductRef fbc:geneProduct="G_b1377"/>
+            <fbc:geneProductRef fbc:geneProduct="G_b0241"/>
+            <fbc:geneProductRef fbc:geneProduct="G_b0929"/>
+          </fbc:or>
+        </fbc:geneProductAssociation>
+      </reaction>
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+          <speciesReference species="M_h2o_c" stoichiometry="1" constant="true"/>
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+        <listOfProducts>
+          <speciesReference species="M_2hptcl_c" stoichiometry="1" constant="true"/>
+          <speciesReference species="M_coa_c" stoichiometry="1" constant="true"/>
+        </listOfProducts>
+        <fbc:geneProductAssociation>
+          <fbc:geneProductRef fbc:geneProduct="G_b1400"/>
+        </fbc:geneProductAssociation>
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+      <reaction id="R_EX_metglcur_e" fast="false" reversible="false" name="1-O-methyl-Beta-D-glucuronate exchange" metaid="R_EX_metglcur_e" sboTerm="SBO:0000627" fbc:upperFluxBound="cobra_default_ub" fbc:lowerFluxBound="cobra_0_bound">
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+        </sbml:annotation>
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+          <speciesReference species="M_metglcur_e" stoichiometry="1" constant="true"/>
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+          <speciesReference species="M_mchtbs6p_c" stoichiometry="1" constant="true"/>
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+          <speciesReference species="M_acgam6p_c" stoichiometry="1" constant="true"/>
+          <speciesReference species="M_gam_c" stoichiometry="1" constant="true"/>
+        </listOfProducts>
+        <fbc:geneProductAssociation>
+          <fbc:geneProductRef fbc:geneProduct="G_b1734"/>
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+      </reaction>
+      <reaction id="R_FORCT" fast="false" reversible="true" name="Formyl-CoA Transferase" metaid="R_FORCT" sboTerm="SBO:0000176" fbc:upperFluxBound="cobra_default_ub" fbc:lowerFluxBound="cobra_default_lb">
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+          <speciesReference species="M_oxa_c" stoichiometry="1" constant="true"/>
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+          <speciesReference species="M_for_c" stoichiometry="1" constant="true"/>
+          <speciesReference species="M_oxalcoa_c" stoichiometry="1" constant="true"/>
+        </listOfProducts>
+        <fbc:geneProductAssociation>
+          <fbc:geneProductRef fbc:geneProduct="G_b2374"/>
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+                </rdf:Bag>
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+        </sbml:annotation>
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+          <speciesReference species="M_h2o_c" stoichiometry="1" constant="true"/>
+          <speciesReference species="M_slnt_p" stoichiometry="1" constant="true"/>
+        </listOfReactants>
+        <listOfProducts>
+          <speciesReference species="M_adp_c" stoichiometry="1" constant="true"/>
+          <speciesReference species="M_h_c" stoichiometry="1" constant="true"/>
+          <speciesReference species="M_pi_c" stoichiometry="1" constant="true"/>
+          <speciesReference species="M_slnt_c" stoichiometry="1" constant="true"/>
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+        <fbc:geneProductAssociation>
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+              <fbc:geneProductRef fbc:geneProduct="G_b2422"/>
+              <fbc:geneProductRef fbc:geneProduct="G_b2425"/>
+              <fbc:geneProductRef fbc:geneProduct="G_b2424"/>
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+            <fbc:and>
+              <fbc:geneProductRef fbc:geneProduct="G_b2423"/>
+              <fbc:geneProductRef fbc:geneProduct="G_b2422"/>
+              <fbc:geneProductRef fbc:geneProduct="G_b3917"/>
+              <fbc:geneProductRef fbc:geneProduct="G_b2424"/>
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+          </fbc:or>
+        </fbc:geneProductAssociation>
+      </reaction>
+      <reaction id="R_VALt2rpp" fast="false" reversible="false" name="L-valine reversible transport via proton symport (periplasm)" metaid="R_VALt2rpp" sboTerm="SBO:0000185" fbc:upperFluxBound="cobra_default_ub" fbc:lowerFluxBound="cobra_0_bound">
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+                  <rdf:li rdf:resource="http://identifiers.org/seed.reaction/rxn09707"/>
+                  <rdf:li rdf:resource="http://identifiers.org/seed.reaction/rxn11190"/>
+                  <rdf:li rdf:resource="http://identifiers.org/seed.reaction/rxn09374"/>
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+          <speciesReference species="M_val__L_c" stoichiometry="1" constant="true"/>
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+        <fbc:geneProductAssociation>
+          <fbc:geneProductRef fbc:geneProduct="G_b0401"/>
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+      <reaction id="R_DHPTDCs2" fast="false" reversible="false" name="4,5-dihydroxy-2,3-pentanedione cyclization (spontaneous)" metaid="R_DHPTDCs2" sboTerm="SBO:0000176" fbc:upperFluxBound="cobra_default_ub" fbc:lowerFluxBound="cobra_0_bound">
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+                  <rdf:li rdf:resource="http://identifiers.org/rhea/35158"/>
+                  <rdf:li rdf:resource="http://identifiers.org/rhea/35155"/>
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+        <listOfProducts>
+          <speciesReference species="M_mdhdhf_c" stoichiometry="1" constant="true"/>
+        </listOfProducts>
+        <fbc:geneProductAssociation>
+          <fbc:geneProductRef fbc:geneProduct="G_s0001"/>
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+      <reaction id="R_VALt3pp" fast="false" reversible="false" name="L-valine transport out via proton antiport (periplasm)" metaid="R_VALt3pp" sboTerm="SBO:0000185" fbc:upperFluxBound="cobra_default_ub" fbc:lowerFluxBound="cobra_0_bound">
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+          <speciesReference species="M_val__L_c" stoichiometry="1" constant="true"/>
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+        <listOfProducts>
+          <speciesReference species="M_h_c" stoichiometry="1" constant="true"/>
+          <speciesReference species="M_val__L_p" stoichiometry="1" constant="true"/>
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+              <fbc:geneProductRef fbc:geneProduct="G_b2682"/>
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+            <fbc:geneProductRef fbc:geneProduct="G_b4141"/>
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+        </fbc:geneProductAssociation>
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+      <reaction id="R_MN2tipp" fast="false" reversible="false" name="Manganese transport in via permease (no H+)" metaid="R_MN2tipp" sboTerm="SBO:0000185" fbc:upperFluxBound="cobra_default_ub" fbc:lowerFluxBound="cobra_0_bound">
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+        <listOfProducts>
+          <speciesReference species="M_mn2_p" stoichiometry="1" constant="true"/>
+        </listOfProducts>
+        <fbc:geneProductAssociation>
+          <fbc:geneProductRef fbc:geneProduct="G_b1821"/>
+        </fbc:geneProductAssociation>
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+      <reaction id="R_EX_3hpp_e" fast="false" reversible="false" name="3-Hydroxypropanoate exchange" metaid="R_EX_3hpp_e" sboTerm="SBO:0000627" fbc:upperFluxBound="cobra_default_ub" fbc:lowerFluxBound="cobra_0_bound">
+        <sbml:annotation xmlns:sbml="http://www.sbml.org/sbml/level3/version1/core">
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+              <bqbiol:is xmlns:bqbiol="http://biomodels.net/biology-qualifiers/">
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+                  <rdf:li rdf:resource="http://identifiers.org/metanetx.reaction/MNXR94904"/>
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+                  <rdf:li rdf:resource="http://identifiers.org/rhea/34953"/>
+                  <rdf:li rdf:resource="http://identifiers.org/rhea/34952"/>
+                  <rdf:li rdf:resource="http://identifiers.org/rhea/34954"/>
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+          <speciesReference species="M_3hpp_e" stoichiometry="1" constant="true"/>
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+      <reaction id="R_PACCOAE" fast="false" reversible="false" name="Ring 1,2-phenylacetyl-CoA epoxidase (NADPH)" metaid="R_PACCOAE" sboTerm="SBO:0000176" fbc:upperFluxBound="cobra_default_ub" fbc:lowerFluxBound="cobra_0_bound">
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+                  <rdf:li rdf:resource="http://identifiers.org/metanetx.reaction/MNXR102314"/>
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+          <speciesReference species="M_nadph_c" stoichiometry="1" constant="true"/>
+          <speciesReference species="M_o2_c" stoichiometry="1" constant="true"/>
+          <speciesReference species="M_phaccoa_c" stoichiometry="1" constant="true"/>
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+        <listOfProducts>
+          <speciesReference species="M_h2o_c" stoichiometry="1" constant="true"/>
+          <speciesReference species="M_nadp_c" stoichiometry="1" constant="true"/>
+          <speciesReference species="M_rephaccoa_c" stoichiometry="1" constant="true"/>
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+        <fbc:geneProductAssociation>
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+            <fbc:geneProductRef fbc:geneProduct="G_b1388"/>
+            <fbc:geneProductRef fbc:geneProduct="G_b1392"/>
+            <fbc:geneProductRef fbc:geneProduct="G_b1389"/>
+            <fbc:geneProductRef fbc:geneProduct="G_b1390"/>
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+        </fbc:geneProductAssociation>
+      </reaction>
+      <reaction id="R_OXDHCOAT" fast="false" reversible="false" name="3-oxo-5,6-dehydrosuberyl-CoA thiolase" metaid="R_OXDHCOAT" sboTerm="SBO:0000176" fbc:upperFluxBound="cobra_default_ub" fbc:lowerFluxBound="cobra_0_bound">
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+                  <rdf:li rdf:resource="http://identifiers.org/metanetx.reaction/MNXR102241"/>
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+                  <rdf:li rdf:resource="http://identifiers.org/rhea/34440"/>
+                  <rdf:li rdf:resource="http://identifiers.org/rhea/34439"/>
+                  <rdf:li rdf:resource="http://identifiers.org/rhea/34442"/>
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+          <speciesReference species="M_coa_c" stoichiometry="1" constant="true"/>
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+        <listOfProducts>
+          <speciesReference species="M_23dhacoa_c" stoichiometry="1" constant="true"/>
+          <speciesReference species="M_accoa_c" stoichiometry="1" constant="true"/>
+        </listOfProducts>
+        <fbc:geneProductAssociation>
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+            <fbc:geneProductRef fbc:geneProduct="G_b1397"/>
+            <fbc:geneProductRef fbc:geneProduct="G_b1394"/>
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+        </fbc:geneProductAssociation>
+      </reaction>
+      <reaction id="R_HADPCOADH3" fast="false" reversible="true" name="3-hydroxyadipyl-CoA dehydrogenase (NAD+)" metaid="R_HADPCOADH3" sboTerm="SBO:0000176" fbc:upperFluxBound="cobra_default_ub" fbc:lowerFluxBound="cobra_default_lb">
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+                  <rdf:li rdf:resource="http://identifiers.org/biocyc/META:RXN0-2044"/>
+                  <rdf:li rdf:resource="http://identifiers.org/ec-code/1.1.1.35"/>
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+                  <rdf:li rdf:resource="http://identifiers.org/kegg.reaction/R06941"/>
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+                  <rdf:li rdf:resource="http://identifiers.org/rhea/34852"/>
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+                  <rdf:li rdf:resource="http://identifiers.org/rhea/34854"/>
+                  <rdf:li rdf:resource="http://identifiers.org/seed.reaction/rxn04750"/>
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+          <speciesReference species="M_nad_c" stoichiometry="1" constant="true"/>
+        </listOfReactants>
+        <listOfProducts>
+          <speciesReference species="M_h_c" stoichiometry="1" constant="true"/>
+          <speciesReference species="M_nadh_c" stoichiometry="1" constant="true"/>
+          <speciesReference species="M_oxadpcoa_c" stoichiometry="1" constant="true"/>
+        </listOfProducts>
+        <fbc:geneProductAssociation>
+          <fbc:geneProductRef fbc:geneProduct="G_b1395"/>
+        </fbc:geneProductAssociation>
+      </reaction>
+      <reaction id="R_O16A4COLIPAabctex" fast="false" reversible="false" name="O16 antigen (x4) core oligosaccharide lipid A transport via ABC system (periplasm to extracellular)" metaid="R_O16A4COLIPAabctex" sboTerm="SBO:0000185" fbc:upperFluxBound="cobra_default_ub" fbc:lowerFluxBound="cobra_0_bound">
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+                <rdf:Bag>
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+          <speciesReference species="M_o16a4colipa_p" stoichiometry="1" constant="true"/>
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+          <speciesReference species="M_adp_c" stoichiometry="1" constant="true"/>
+          <speciesReference species="M_h_c" stoichiometry="1" constant="true"/>
+          <speciesReference species="M_o16a4colipa_e" stoichiometry="1" constant="true"/>
+          <speciesReference species="M_pi_c" stoichiometry="1" constant="true"/>
+        </listOfProducts>
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+            <fbc:geneProductRef fbc:geneProduct="G_b4261"/>
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+            <fbc:geneProductRef fbc:geneProduct="G_b3201"/>
+            <fbc:geneProductRef fbc:geneProduct="G_b3200"/>
+            <fbc:geneProductRef fbc:geneProduct="G_b0054"/>
+            <fbc:geneProductRef fbc:geneProduct="G_b0641"/>
+          </fbc:and>
+        </fbc:geneProductAssociation>
+      </reaction>
+      <reaction id="R_COLIPAabctex" fast="false" reversible="false" name="Core oligosaccharide lipid A transport via ABC system (periplasm to extracellular)" metaid="R_COLIPAabctex" sboTerm="SBO:0000185" fbc:upperFluxBound="cobra_default_ub" fbc:lowerFluxBound="cobra_0_bound">
+        <sbml:annotation xmlns:sbml="http://www.sbml.org/sbml/level3/version1/core">
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+                <rdf:Bag>
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+                  <rdf:li rdf:resource="http://identifiers.org/metanetx.reaction/MNXR96845"/>
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+        </sbml:annotation>
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+          <speciesReference species="M_h2o_c" stoichiometry="1" constant="true"/>
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+        <listOfProducts>
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+          <speciesReference species="M_colipa_e" stoichiometry="1" constant="true"/>
+          <speciesReference species="M_h_c" stoichiometry="1" constant="true"/>
+          <speciesReference species="M_pi_c" stoichiometry="1" constant="true"/>
+        </listOfProducts>
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+            <fbc:geneProductRef fbc:geneProduct="G_b4261"/>
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+        </fbc:geneProductAssociation>
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+      <reaction id="R_ENLIPAabctex" fast="false" reversible="false" name="Phosphoethanolamine lipid A transport via ABC system (periplasm to extracellular)" metaid="R_ENLIPAabctex" sboTerm="SBO:0000185" fbc:upperFluxBound="cobra_default_ub" fbc:lowerFluxBound="cobra_0_bound">
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+                <rdf:Bag>
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+                </rdf:Bag>
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+        </sbml:annotation>
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+          <speciesReference species="M_atp_c" stoichiometry="1" constant="true"/>
+          <speciesReference species="M_enlipa_p" stoichiometry="1" constant="true"/>
+          <speciesReference species="M_h2o_c" stoichiometry="1" constant="true"/>
+        </listOfReactants>
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+          <speciesReference species="M_enlipa_e" stoichiometry="1" constant="true"/>
+          <speciesReference species="M_h_c" stoichiometry="1" constant="true"/>
+          <speciesReference species="M_pi_c" stoichiometry="1" constant="true"/>
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+            <fbc:geneProductRef fbc:geneProduct="G_b4261"/>
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+            <fbc:geneProductRef fbc:geneProduct="G_b0641"/>
+          </fbc:and>
+        </fbc:geneProductAssociation>
+      </reaction>
+      <reaction id="R_DM_mththf_c" fast="false" reversible="false" name="Sink needed to allow (2R,4S)-2-methyl-2,3,3,4-tetrahydroxytetrahydrofuran to leave system" metaid="R_DM_mththf_c" sboTerm="SBO:0000628" fbc:upperFluxBound="cobra_default_ub" fbc:lowerFluxBound="cobra_0_bound">
+        <sbml:annotation xmlns:sbml="http://www.sbml.org/sbml/level3/version1/core">
+          <rdf:RDF xmlns:rdf="http://www.w3.org/1999/02/22-rdf-syntax-ns#">
+            <rdf:Description rdf:about="#R_DM_mththf_c">
+              <bqbiol:is xmlns:bqbiol="http://biomodels.net/biology-qualifiers/">
+                <rdf:Bag>
+                  <rdf:li rdf:resource="http://identifiers.org/bigg.reaction/DM_mththf_c"/>
+                  <rdf:li rdf:resource="http://identifiers.org/biocyc/META:TRANS-RXN0-453"/>
+                  <rdf:li rdf:resource="http://identifiers.org/metanetx.reaction/MNXR124017"/>
+                  <rdf:li rdf:resource="http://identifiers.org/rhea/35148"/>
+                  <rdf:li rdf:resource="http://identifiers.org/rhea/35147"/>
+                  <rdf:li rdf:resource="http://identifiers.org/rhea/35149"/>
+                  <rdf:li rdf:resource="http://identifiers.org/rhea/35150"/>
+                </rdf:Bag>
+              </bqbiol:is>
+            </rdf:Description>
+          </rdf:RDF>
+        </sbml:annotation>
+        <listOfReactants>
+          <speciesReference species="M_mththf_c" stoichiometry="1" constant="true"/>
+        </listOfReactants>
+      </reaction>
+      <reaction id="R_PYROX" fast="false" reversible="false" name="Pyrimidine oxygenase" metaid="R_PYROX" sboTerm="SBO:0000176" fbc:upperFluxBound="cobra_default_ub" fbc:lowerFluxBound="cobra_0_bound">
+        <sbml:annotation xmlns:sbml="http://www.sbml.org/sbml/level3/version1/core">
+          <rdf:RDF xmlns:rdf="http://www.w3.org/1999/02/22-rdf-syntax-ns#">
+            <rdf:Description rdf:about="#R_PYROX">
+              <bqbiol:is xmlns:bqbiol="http://biomodels.net/biology-qualifiers/">
+                <rdf:Bag>
+                  <rdf:li rdf:resource="http://identifiers.org/bigg.reaction/PYROX"/>
+                  <rdf:li rdf:resource="http://identifiers.org/metanetx.reaction/MNXR103383"/>
+                </rdf:Bag>
+              </bqbiol:is>
+            </rdf:Description>
+          </rdf:RDF>
+        </sbml:annotation>
+        <listOfReactants>
+          <speciesReference species="M_h_c" stoichiometry="1" constant="true"/>
+          <speciesReference species="M_nadh_c" stoichiometry="1" constant="true"/>
+          <speciesReference species="M_o2_c" stoichiometry="1" constant="true"/>
+          <speciesReference species="M_ura_c" stoichiometry="1" constant="true"/>
+        </listOfReactants>
+        <listOfProducts>
+          <speciesReference species="M_nad_c" stoichiometry="1" constant="true"/>
+          <speciesReference species="M_uracp_c" stoichiometry="1" constant="true"/>
+        </listOfProducts>
+        <fbc:geneProductAssociation>
+          <fbc:and>
+            <fbc:geneProductRef fbc:geneProduct="G_b1007"/>
+            <fbc:geneProductRef fbc:geneProduct="G_b1012"/>
+          </fbc:and>
+        </fbc:geneProductAssociation>
+      </reaction>
+      <reaction id="R_BMOGDS1" fast="false" reversible="false" name="Bis-molybdopterin guanine dinucleotide synthase (single GDP)" metaid="R_BMOGDS1" sboTerm="SBO:0000176" fbc:upperFluxBound="cobra_default_ub" fbc:lowerFluxBound="cobra_0_bound">
+        <sbml:annotation xmlns:sbml="http://www.sbml.org/sbml/level3/version1/core">
+          <rdf:RDF xmlns:rdf="http://www.w3.org/1999/02/22-rdf-syntax-ns#">
+            <rdf:Description rdf:about="#R_BMOGDS1">
+              <bqbiol:is xmlns:bqbiol="http://biomodels.net/biology-qualifiers/">
+                <rdf:Bag>
+                  <rdf:li rdf:resource="http://identifiers.org/bigg.reaction/BMOGDS1"/>
+                  <rdf:li rdf:resource="http://identifiers.org/metanetx.reaction/MNXR96315"/>
+                </rdf:Bag>
+              </bqbiol:is>
+            </rdf:Description>
+          </rdf:RDF>
+        </sbml:annotation>
+        <listOfReactants>
+          <speciesReference species="M_bmoco_c" stoichiometry="1" constant="true"/>
+          <speciesReference species="M_gtp_c" stoichiometry="1" constant="true"/>
+          <speciesReference species="M_h_c" stoichiometry="1" constant="true"/>
+        </listOfReactants>
+        <listOfProducts>
+          <speciesReference species="M_bmoco1gdp_c" stoichiometry="1" constant="true"/>
+          <speciesReference species="M_ppi_c" stoichiometry="1" constant="true"/>
+        </listOfProducts>
+        <fbc:geneProductAssociation>
+          <fbc:or>
+            <fbc:geneProductRef fbc:geneProduct="G_b3857"/>
+            <fbc:and>
+              <fbc:geneProductRef fbc:geneProduct="G_b3857"/>
+              <fbc:geneProductRef fbc:geneProduct="G_b3856"/>
+            </fbc:and>
+          </fbc:or>
+        </fbc:geneProductAssociation>
+      </reaction>
+      <reaction id="R_MPTS" fast="false" reversible="false" name="Molybdopterin synthase" metaid="R_MPTS" sboTerm="SBO:0000176" fbc:upperFluxBound="cobra_default_ub" fbc:lowerFluxBound="cobra_0_bound">
+        <sbml:annotation xmlns:sbml="http://www.sbml.org/sbml/level3/version1/core">
+          <rdf:RDF xmlns:rdf="http://www.w3.org/1999/02/22-rdf-syntax-ns#">
+            <rdf:Description rdf:about="#R_MPTS">
+              <bqbiol:is xmlns:bqbiol="http://biomodels.net/biology-qualifiers/">
+                <rdf:Bag>
+                  <rdf:li rdf:resource="http://identifiers.org/bigg.reaction/MPTS"/>
+                  <rdf:li rdf:resource="http://identifiers.org/metanetx.reaction/MNXR143253"/>
+                </rdf:Bag>
+              </bqbiol:is>
+            </rdf:Description>
+          </rdf:RDF>
+        </sbml:annotation>
+        <listOfReactants>
+          <speciesReference species="M_cpmp_c" stoichiometry="1" constant="true"/>
+          <speciesReference species="M_cu2_c" stoichiometry="1" constant="true"/>
+          <speciesReference species="M_moadcosh_c" stoichiometry="2" constant="true"/>
+        </listOfReactants>
+        <listOfProducts>
+          <speciesReference species="M_h_c" stoichiometry="5" constant="true"/>
+          <speciesReference species="M_moadcoo_c" stoichiometry="2" constant="true"/>
+          <speciesReference species="M_mpt_c" stoichiometry="1" constant="true"/>
+        </listOfProducts>
+        <fbc:geneProductAssociation>
+          <fbc:and>
+            <fbc:geneProductRef fbc:geneProduct="G_b0785"/>
+            <fbc:geneProductRef fbc:geneProduct="G_b0784"/>
+          </fbc:and>
+        </fbc:geneProductAssociation>
+      </reaction>
+      <reaction id="R_MOCOS" fast="false" reversible="false" name="Molybdenum cofactor synthase" metaid="R_MOCOS" sboTerm="SBO:0000176" fbc:upperFluxBound="cobra_default_ub" fbc:lowerFluxBound="cobra_0_bound">
+        <sbml:annotation xmlns:sbml="http://www.sbml.org/sbml/level3/version1/core">
+          <rdf:RDF xmlns:rdf="http://www.w3.org/1999/02/22-rdf-syntax-ns#">
+            <rdf:Description rdf:about="#R_MOCOS">
+              <bqbiol:is xmlns:bqbiol="http://biomodels.net/biology-qualifiers/">
+                <rdf:Bag>
+                  <rdf:li rdf:resource="http://identifiers.org/bigg.reaction/MOCOS"/>
+                  <rdf:li rdf:resource="http://identifiers.org/metanetx.reaction/MNXR138626"/>
+                </rdf:Bag>
+              </bqbiol:is>
+            </rdf:Description>
+          </rdf:RDF>
+        </sbml:annotation>
+        <listOfReactants>
+          <speciesReference species="M_h_c" stoichiometry="2" constant="true"/>
+          <speciesReference species="M_mobd_c" stoichiometry="1" constant="true"/>
+          <speciesReference species="M_mptamp_c" stoichiometry="1" constant="true"/>
+        </listOfReactants>
+        <listOfProducts>
+          <speciesReference species="M_amp_c" stoichiometry="1" constant="true"/>
+          <speciesReference species="M_cu2_c" stoichiometry="1" constant="true"/>
+          <speciesReference species="M_h2o_c" stoichiometry="1" constant="true"/>
+          <speciesReference species="M_moco_c" stoichiometry="1" constant="true"/>
+        </listOfProducts>
+        <fbc:geneProductAssociation>
+          <fbc:geneProductRef fbc:geneProduct="G_b0827"/>
+        </fbc:geneProductAssociation>
+      </reaction>
+      <reaction id="R_BMOGDS2" fast="false" reversible="false" name="Bis-molybdopterin guanine dinucleotide synthase" metaid="R_BMOGDS2" sboTerm="SBO:0000176" fbc:upperFluxBound="cobra_default_ub" fbc:lowerFluxBound="cobra_0_bound">
+        <sbml:annotation xmlns:sbml="http://www.sbml.org/sbml/level3/version1/core">
+          <rdf:RDF xmlns:rdf="http://www.w3.org/1999/02/22-rdf-syntax-ns#">
+            <rdf:Description rdf:about="#R_BMOGDS2">
+              <bqbiol:is xmlns:bqbiol="http://biomodels.net/biology-qualifiers/">
+                <rdf:Bag>
+                  <rdf:li rdf:resource="http://identifiers.org/bigg.reaction/BMOGDS2"/>
+                  <rdf:li rdf:resource="http://identifiers.org/metanetx.reaction/MNXR96316"/>
+                </rdf:Bag>
+              </bqbiol:is>
+            </rdf:Description>
+          </rdf:RDF>
+        </sbml:annotation>
+        <listOfReactants>
+          <speciesReference species="M_bmoco1gdp_c" stoichiometry="1" constant="true"/>
+          <speciesReference species="M_gtp_c" stoichiometry="1" constant="true"/>
+          <speciesReference species="M_h_c" stoichiometry="1" constant="true"/>
+        </listOfReactants>
+        <listOfProducts>
+          <speciesReference species="M_bmocogdp_c" stoichiometry="1" constant="true"/>
+          <speciesReference species="M_ppi_c" stoichiometry="1" constant="true"/>
+        </listOfProducts>
+        <fbc:geneProductAssociation>
+          <fbc:or>
+            <fbc:and>
+              <fbc:geneProductRef fbc:geneProduct="G_b3857"/>
+              <fbc:geneProductRef fbc:geneProduct="G_b3856"/>
+            </fbc:and>
+            <fbc:geneProductRef fbc:geneProduct="G_b3857"/>
+          </fbc:or>
+        </fbc:geneProductAssociation>
+      </reaction>
+      <reaction id="R_FESD2s" fast="false" reversible="false" name="Iron-sulfur cluster damage (nitrous oxide, spontaneous)" metaid="R_FESD2s" sboTerm="SBO:0000176" fbc:upperFluxBound="cobra_default_ub" fbc:lowerFluxBound="cobra_0_bound">
+        <sbml:annotation xmlns:sbml="http://www.sbml.org/sbml/level3/version1/core">
+          <rdf:RDF xmlns:rdf="http://www.w3.org/1999/02/22-rdf-syntax-ns#">
+            <rdf:Description rdf:about="#R_FESD2s">
+              <bqbiol:is xmlns:bqbiol="http://biomodels.net/biology-qualifiers/">
+                <rdf:Bag>
+                  <rdf:li rdf:resource="http://identifiers.org/bigg.reaction/FESD2s"/>
+                  <rdf:li rdf:resource="http://identifiers.org/metanetx.reaction/MNXR99586"/>
+                </rdf:Bag>
+              </bqbiol:is>
+            </rdf:Description>
+          </rdf:RDF>
+        </sbml:annotation>
+        <listOfReactants>
+          <speciesReference species="M_4fe4s_c" stoichiometry="2" constant="true"/>
+          <speciesReference species="M_h_c" stoichiometry="2" constant="true"/>
+          <speciesReference species="M_no_c" stoichiometry="2" constant="true"/>
+        </listOfReactants>
+        <listOfProducts>
+          <speciesReference species="M_3fe4s_c" stoichiometry="2" constant="true"/>
+          <speciesReference species="M_fe3_c" stoichiometry="2" constant="true"/>
+          <speciesReference species="M_h2o_c" stoichiometry="1" constant="true"/>
+          <speciesReference species="M_n2o_c" stoichiometry="1" constant="true"/>
+        </listOfProducts>
+        <fbc:geneProductAssociation>
+          <fbc:geneProductRef fbc:geneProduct="G_s0001"/>
+        </fbc:geneProductAssociation>
+      </reaction>
+      <reaction id="R_OCTNLL" fast="false" reversible="false" name="Octanoate non-lipoylated apo domain ligase" metaid="R_OCTNLL" sboTerm="SBO:0000176" fbc:upperFluxBound="cobra_default_ub" fbc:lowerFluxBound="cobra_0_bound">
+        <sbml:annotation xmlns:sbml="http://www.sbml.org/sbml/level3/version1/core">
+          <rdf:RDF xmlns:rdf="http://www.w3.org/1999/02/22-rdf-syntax-ns#">
+            <rdf:Description rdf:about="#R_OCTNLL">
+              <bqbiol:is xmlns:bqbiol="http://biomodels.net/biology-qualifiers/">
+                <rdf:Bag>
+                  <rdf:li rdf:resource="http://identifiers.org/bigg.reaction/OCTNLL"/>
+                  <rdf:li rdf:resource="http://identifiers.org/metanetx.reaction/MNXR102155"/>
+                </rdf:Bag>
+              </bqbiol:is>
+            </rdf:Description>
+          </rdf:RDF>
+        </sbml:annotation>
+        <listOfReactants>
+          <speciesReference species="M_atp_c" stoichiometry="1" constant="true"/>
+          <speciesReference species="M_h_c" stoichiometry="1" constant="true"/>
+          <speciesReference species="M_octa_c" stoichiometry="1" constant="true"/>
+        </listOfReactants>
+        <listOfProducts>
+          <speciesReference species="M_amp_c" stoichiometry="1" constant="true"/>
+          <speciesReference species="M_octapb_c" stoichiometry="1" constant="true"/>
+          <speciesReference species="M_ppi_c" stoichiometry="1" constant="true"/>
+        </listOfProducts>
+        <fbc:geneProductAssociation>
+          <fbc:geneProductRef fbc:geneProduct="G_b4386"/>
+        </fbc:geneProductAssociation>
+      </reaction>
+    </listOfReactions>
+  </model>
+</sbml>