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changeset 0:ef4112ead31c draft

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planemo upload for repository https://github.com/brsynth/selenzy-wrapper commit 71e08a724df679ce0b7e7e01d5994de9ea4012a3
author tduigou
date Tue, 23 May 2023 15:02:50 +0000
parents
children 9d092acc97ec
files selenzy_wrapper.xml test-data/pathway.xml test-data/taxID.tsv test-data/uniprod_ids_out.csv test-data/uniprod_ids_out.xml
diffstat 5 files changed, 10204 insertions(+), 0 deletions(-) [+]
line wrap: on
line diff
--- /dev/null	Thu Jan 01 00:00:00 1970 +0000
+++ b/selenzy_wrapper.xml	Tue May 23 15:02:50 2023 +0000
@@ -0,0 +1,122 @@
+<tool id="selenzy-wrapper" name="Selenzyme" version="@TOOL_VERSION@+galaxy@VERSION_SUFFIX@" profile="21.09">
+    <description>Performs enzyme selection from a reaction query</description>
+    <macros>
+        <token name="@VERSION_SUFFIX@">0</token>
+        <token name="@TOOL_VERSION@">0.3.0</token>
+    </macros>
+    <requirements>
+        <requirement type="package" version="@TOOL_VERSION@">selenzy_wrapper</requirement>
+    </requirements>
+    <command detect_errors="exit_code"><![CDATA[
+        python -m selenzy_wrapper '$pathway' '$uniprot_ids'
+        --nb_targets '$adv.nb_targets'
+        --d '$adv.direction'
+        $adv.NoMSA
+        #if str($host_taxID_type_conditional.host_taxID_type) == "tsv":
+            --host_taxID `sed 1d ${host_taxID_type_conditional.host_taxID_file}`
+        #else:
+            --host_taxID '$host_taxID_type_conditional.host_taxID_int'
+        #end if
+        #if str($adv.enzyme_taxIDs) != "":
+            --enzyme_taxIDs '$adv.enzyme_taxIDs'
+        #end if
+        --nb_ids '$adv.nb_ids'
+        --to_csv '$uniprot_ids_csv'
+        --data-path "\${TMPDIR:-.}"
+    ]]></command>
+    <inputs>
+        <param name="pathway" type="data" format="sbml" label="Pathway (SBML)" />
+        <conditional name="host_taxID_type_conditional">
+            <param name="host_taxID_type" type="select" label="Host taxon ID type">
+                <option value="integer" selected="True">Value</option>
+                <option value="tsv">File</option>
+            </param>
+            <when value="integer">
+                <param name="host_taxID_int" type="integer" label="Host taxon ID value" value="83333" help="default: 83333 [E. coli K12]" />
+            </when>
+            <when value="tsv">
+                <param name="host_taxID_file" type="data" format="tsv" label="Host taxon ID file" />
+            </when>
+        </conditional>
+        <section name="adv" title="Advanced Options" expanded="false">
+            <param name="enzyme_taxIDs" type="text" value="" label="Comma separated taxon IDs of output enzyme sequences" />
+            <param name="nb_ids" type="integer" value="-1" label="Number of uniprot IDs with top score to keep" help=" Number of enzyme IDs to display in results (after taxon IDs filtering) [default = -1 (no limit)]" />
+            <param name="nb_targets" type="integer" value="500" min="1" label="Number of targets to display in results" help="Number of targets to display in results (before taxon IDs filtering) [default = 500]" />
+            <param name="direction" type="float" value="0" label="Use similarity values for preferred reaction direction only" help="You can choose to rank similarities in both reaction directions or to use only the direction of the reaction based on a consensus list that has been generated according to reaction information based on curated information from MetaCyc (Metabolic Pathway Database) [default=0 (OFF)]" />
+            <param argument="--NoMSA" type="boolean" falsevalue="--NoMSA" truevalue="" checked="true" display="checkboxes" label="Do not compute MSA/conservation scores ?" help="Do not compute Multiple Sequence Alignment and conservation scores ? (MSA scores are computed by default)" />
+        </section>
+    </inputs>
+    <outputs>
+        <data name="uniprot_ids" format="sbml" label="Uniprot IDs (SBML)" />
+        <data name="uniprot_ids_csv" format="csv" label="Uniprot IDs (CSV)" />
+    </outputs>
+    <tests>
+        <test>
+        <!-- test 1: check if identical outputs are produced with default parameters  -->
+            <param name="pathway" value="pathway.xml" />
+            <output name="uniprot_ids" file="uniprod_ids_out.xml" compare="diff" sort="true"/>
+            <output name="uniprot_ids_csv" file="uniprod_ids_out.csv" ftype="csv" compare="diff"/>
+        </test>
+        <test>
+        <!-- test 2: check with taxon ID from a file  -->
+            <param name="pathway" value="pathway.xml" />
+            <conditional name="input_sim_type">
+                <param name="host_taxID_type" value="tsv" />
+            </conditional>
+            <param name="host_taxID_file" value="taxID.tsv" />
+            <output name="uniprot_ids" file="uniprod_ids_out.xml" compare="diff" sort="true"/>
+            <output name="uniprot_ids_csv" file="uniprod_ids_out.csv" ftype="csv" compare="diff"/>
+        </test>
+    </tests>
+    <help><![CDATA[
+Selenzyme
+================
+
+Selenzyme searches for enzymes corresponding to each reaction of the pathway. It performs a reaction similarity search in the reference reaction database `MetaNetX <https://www.metanetx.org/>`_ and outputs an updated SBML file annotated with the enzyme UniProt IDs, as well as in CSV format.
+
+Input
+-----
+
+* **Pathway (SBML)**\ : SBML pathway file
+* **Number of targets to display in results**\ : (integer) Number of targets to display in results (before taxon IDs filtering) [default = 500]
+* **Number of uniprot IDs with top score to keep**\ : (integer) Number of enzyme IDs to display in results (after taxon IDs filtering) [default = -1 (no limit)]
+* **Use similarity values for preferred reaction direction only**\ : (float) Use similarity values for preferred reaction direction only [default=0 (OFF)]
+* **Do not compute MSA/conservation scores ?**\ : (boolean) Do not compute Multiple Sequence Alignment and conservation scores ? (MSA scores are computed by default)
+* **Host taxon ID**\ : (string) Taxon ID of the chassis (default: 83333 [E. coli K12])
+* **Comma separated taxon IDs of output enzyme sequences**\ : (string) Comma separated taxon IDs of output enzyme sequences
+
+Output
+------
+
+* **Uniprot IDs (SBML)**\ : Annotated SBML pathway.
+* **Uniprot IDs (CSV)**\ : Annotated CSV pathway.
+
+Project Links
+------------------
+
+* `GitHub <https://github.com/brsynth/selenzy-wrapper>`_
+
+Version
+----------
+
+0.3.0
+
+Authors
+-------
+* **Joan Hérisson**
+
+License
+-------
+
+* `MIT <https://github.com/brsynth/selenzy-wrapper/blob/master/LICENSE>`_
+
+Acknowledgments
+---------------
+
+* Thomas Duigou
+
+    ]]></help>
+    <citations>
+        <citation type="doi">10.1093/bioinformatics/bty065</citation>
+    </citations>
+</tool>
\ No newline at end of file
--- /dev/null	Thu Jan 01 00:00:00 1970 +0000
+++ b/test-data/pathway.xml	Tue May 23 15:02:50 2023 +0000
@@ -0,0 +1,626 @@
+<?xml version="1.0" encoding="UTF-8"?>
+<sbml xmlns="http://www.sbml.org/sbml/level3/version1/core" xmlns:groups="http://www.sbml.org/sbml/level3/version1/groups/version1" xmlns:fbc="http://www.sbml.org/sbml/level3/version1/fbc/version2" level="3" version="1" groups:required="false" fbc:required="false">
+  <model metaid="ab7a7ab71c6ccfe1bb89180d9a6fb504a8ea4784c1ace396ce99cb6892d1b81e" id="RP_model_003_0261" name="003_0261" substanceUnits="mole" timeUnits="second" extentUnits="mole" fbc:strict="true">
+    <listOfCompartments>
+      <compartment metaid="_2e7d2c03a9507ae265ecf5b5356885a53393a2029d241394997265a1a25aefc6" sboTerm="SBO:0000290" id="c" name="cytosol" size="1" constant="true">
+        <annotation>
+          <rdf:RDF xmlns:rdf="http://www.w3.org/1999/02/22-rdf-syntax-ns#" xmlns:bqbiol="http://biomodels.net/biology-qualifiers/">
+            <rdf:Description rdf:about="#_2e7d2c03a9507ae265ecf5b5356885a53393a2029d241394997265a1a25aefc6">
+              <bqbiol:is>
+                <rdf:Bag>
+                  <rdf:li rdf:resource="http://identifiers.org/bigg.compartment/c"/>
+                  <rdf:li rdf:resource="http://identifiers.org/bigg.compartment/c_c"/>
+                  <rdf:li rdf:resource="http://identifiers.org/metanetx.compartment/MNXC3"/>
+                  <rdf:li rdf:resource="http://identifiers.org/seed/c"/>
+                  <rdf:li rdf:resource="http://identifiers.org/seed/c0"/>
+                  <rdf:li rdf:resource="http://identifiers.org/seed/cytosol"/>
+                  <rdf:li rdf:resource="http://identifiers.org/name/cytosol"/>
+                </rdf:Bag>
+              </bqbiol:is>
+            </rdf:Description>
+          </rdf:RDF>
+        </annotation>
+      </compartment>
+    </listOfCompartments>
+    <listOfSpecies>
+      <species metaid="_2c27bb432be6149f648dcec0e702fd9bdf6449fb9f730bd86eeb0b63b93d8858" id="CMPD_0000000003" name="CMPD_0000000003" compartment="c" initialConcentration="1" hasOnlySubstanceUnits="false" boundaryCondition="false" constant="false">
+        <annotation>
+          <rdf:RDF xmlns:rdf="http://www.w3.org/1999/02/22-rdf-syntax-ns#" xmlns:bqbiol="http://biomodels.net/biology-qualifiers/">
+            <rdf:Description rdf:about="#_2c27bb432be6149f648dcec0e702fd9bdf6449fb9f730bd86eeb0b63b93d8858">
+              <bqbiol:is>
+                <rdf:Bag/>
+              </bqbiol:is>
+            </rdf:Description>
+            <rdf:BRSynth rdf:about="#_2c27bb432be6149f648dcec0e702fd9bdf6449fb9f730bd86eeb0b63b93d8858">
+              <brsynth:brsynth xmlns:brsynth="http://brsynth.eu">
+                <brsynth:smiles value="[H]OP(=O)(O[H])OP(=O)(O[H])OC([H])([H])C([H])=C(C([H])([H])[H])C([H])([H])C([H])([H])C([H])=C(C([H])([H])[H])C([H])([H])C([H])([H])C([H])=C(C([H])([H])[H])C([H])([H])C([H])([H])C([H])=C(C([H])([H])[H])C([H])([H])[H]"/>
+                <brsynth:inchi value="InChI=1S/C20H36O7P2/c1-17(2)9-6-10-18(3)11-7-12-19(4)13-8-14-20(5)15-16-26-29(24,25)27-28(21,22)23/h9,11,13,15H,6-8,10,12,14,16H2,1-5H3,(H,24,25)(H2,21,22,23)"/>
+                <brsynth:inchikey value="OINNEUNVOZHBOX-UHFFFAOYSA-N"/>
+                <brsynth:fba_biomass_shadow_price>
+                  <brsynth:value value="-0.4636266049503492"/>
+                </brsynth:fba_biomass_shadow_price>
+                <brsynth:fba_fraction_shadow_price>
+                  <brsynth:value value="-0.9959432048681541"/>
+                </brsynth:fba_fraction_shadow_price>
+                <brsynth:thermo_standard_dg_formation>
+                  <brsynth:value value="-1495.8281099920857"/>
+                  <brsynth:units value="kilojoule / mole"/>
+                </brsynth:thermo_standard_dg_formation>
+              </brsynth:brsynth>
+            </rdf:BRSynth>
+          </rdf:RDF>
+        </annotation>
+      </species>
+      <species metaid="b0098569a07f786a6e9b2294639668cd4ee564dd642a38bdf429c4c6bb560b46" id="CMPD_0000000001" name="CMPD_0000000001" compartment="c" initialConcentration="1" hasOnlySubstanceUnits="false" boundaryCondition="false" constant="false">
+        <annotation>
+          <rdf:RDF xmlns:rdf="http://www.w3.org/1999/02/22-rdf-syntax-ns#" xmlns:bqbiol="http://biomodels.net/biology-qualifiers/">
+            <rdf:Description rdf:about="#b0098569a07f786a6e9b2294639668cd4ee564dd642a38bdf429c4c6bb560b46">
+              <bqbiol:is>
+                <rdf:Bag/>
+              </bqbiol:is>
+            </rdf:Description>
+            <rdf:BRSynth rdf:about="#b0098569a07f786a6e9b2294639668cd4ee564dd642a38bdf429c4c6bb560b46">
+              <brsynth:brsynth xmlns:brsynth="http://brsynth.eu">
+                <brsynth:smiles value="[H]C(=C([H])C([H])=C(C([H])([H])[H])C([H])([H])C([H])([H])C([H])=C(C([H])([H])[H])C([H])([H])C([H])([H])C([H])=C(C([H])([H])[H])C([H])([H])C([H])([H])C([H])=C(C([H])([H])[H])C([H])([H])[H])C([H])=C(C([H])([H])[H])C([H])([H])C([H])([H])C([H])=C(C([H])([H])[H])C([H])([H])C([H])([H])C([H])=C(C([H])([H])[H])C([H])([H])C([H])([H])C([H])=C(C([H])([H])[H])C([H])([H])[H]"/>
+                <brsynth:inchi value="InChI=1S/C40H64/c1-33(2)19-13-23-37(7)27-17-31-39(9)29-15-25-35(5)21-11-12-22-36(6)26-16-30-40(10)32-18-28-38(8)24-14-20-34(3)4/h11-12,19-22,27-30H,13-18,23-26,31-32H2,1-10H3"/>
+                <brsynth:inchikey value="YVLPJIGOMTXXLP-UHFFFAOYSA-N"/>
+                <brsynth:fba_biomass_shadow_price>
+                  <brsynth:value value="-0.46174576679639245"/>
+                </brsynth:fba_biomass_shadow_price>
+                <brsynth:fba_fraction_shadow_price>
+                  <brsynth:value value="-1.0"/>
+                </brsynth:fba_fraction_shadow_price>
+                <brsynth:thermo_standard_dg_formation>
+                  <brsynth:value value="936.7141451846444"/>
+                  <brsynth:units value="kilojoule / mole"/>
+                </brsynth:thermo_standard_dg_formation>
+              </brsynth:brsynth>
+            </rdf:BRSynth>
+          </rdf:RDF>
+        </annotation>
+      </species>
+      <species metaid="_61841f05183ff06dbe77a0e01f6d73d7a890997d823ac18d9fd56bac3d4bcc39" id="MNXM24" name="MNXM24" compartment="c" initialConcentration="1" hasOnlySubstanceUnits="false" boundaryCondition="false" constant="false">
+        <annotation>
+          <rdf:RDF xmlns:rdf="http://www.w3.org/1999/02/22-rdf-syntax-ns#" xmlns:bqbiol="http://biomodels.net/biology-qualifiers/">
+            <rdf:Description rdf:about="#_61841f05183ff06dbe77a0e01f6d73d7a890997d823ac18d9fd56bac3d4bcc39">
+              <bqbiol:is>
+                <rdf:Bag/>
+              </bqbiol:is>
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+            <rdf:BRSynth rdf:about="#_61841f05183ff06dbe77a0e01f6d73d7a890997d823ac18d9fd56bac3d4bcc39">
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+                <brsynth:smiles/>
+                <brsynth:inchi/>
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+                <brsynth:fba_biomass_shadow_price>
+                  <brsynth:value value="None"/>
+                </brsynth:fba_biomass_shadow_price>
+                <brsynth:fba_fraction_shadow_price>
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+                <brsynth:thermo_standard_dg_formation>
+                  <brsynth:value value="-2256.1898491337233"/>
+                  <brsynth:units value="kilojoule / mole"/>
+                </brsynth:thermo_standard_dg_formation>
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+        </annotation>
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+      <species metaid="_10a025d408ecc91b5894e1d66d8a31d96e4ac530a63de61f99720be74086a29f" id="MNXM34" name="MNXM34" compartment="c" initialConcentration="1" hasOnlySubstanceUnits="false" boundaryCondition="false" constant="false">
+        <annotation>
+          <rdf:RDF xmlns:rdf="http://www.w3.org/1999/02/22-rdf-syntax-ns#" xmlns:bqbiol="http://biomodels.net/biology-qualifiers/">
+            <rdf:Description rdf:about="#_10a025d408ecc91b5894e1d66d8a31d96e4ac530a63de61f99720be74086a29f">
+              <bqbiol:is>
+                <rdf:Bag/>
+              </bqbiol:is>
+            </rdf:Description>
+            <rdf:BRSynth rdf:about="#_10a025d408ecc91b5894e1d66d8a31d96e4ac530a63de61f99720be74086a29f">
+              <brsynth:brsynth xmlns:brsynth="http://brsynth.eu">
+                <brsynth:smiles value="[H]OP(=O)(O[H])OP(=O)(O[H])OC([H])([H])C([H])=C(C([H])([H])[H])C([H])([H])C([H])([H])C([H])=C(C([H])([H])[H])C([H])([H])C([H])([H])C([H])=C(C([H])([H])[H])C([H])([H])[H]"/>
+                <brsynth:inchi value="InChI=1S/C15H28O7P2/c1-13(2)7-5-8-14(3)9-6-10-15(4)11-12-21-24(19,20)22-23(16,17)18/h7,9,11H,5-6,8,10,12H2,1-4H3,(H,19,20)(H2,16,17,18)"/>
+                <brsynth:inchikey value="VWFJDQUYCIWHTN-UHFFFAOYSA-N"/>
+                <brsynth:fba_biomass_shadow_price>
+                  <brsynth:value value="None"/>
+                </brsynth:fba_biomass_shadow_price>
+                <brsynth:fba_fraction_shadow_price>
+                  <brsynth:value value="None"/>
+                </brsynth:fba_fraction_shadow_price>
+                <brsynth:thermo_standard_dg_formation>
+                  <brsynth:value value="-1607.8991259717538"/>
+                  <brsynth:units value="kilojoule / mole"/>
+                </brsynth:thermo_standard_dg_formation>
+              </brsynth:brsynth>
+            </rdf:BRSynth>
+          </rdf:RDF>
+        </annotation>
+      </species>
+      <species metaid="_6817bb5f7133f50744b232330f1f3009343f785b8f77602ce5f44cdd9458f002" id="TARGET_0000000001" name="TARGET_0000000001" compartment="c" initialConcentration="1" hasOnlySubstanceUnits="false" boundaryCondition="false" constant="false">
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+            <rdf:Description rdf:about="#_6817bb5f7133f50744b232330f1f3009343f785b8f77602ce5f44cdd9458f002">
+              <bqbiol:is>
+                <rdf:Bag/>
+              </bqbiol:is>
+            </rdf:Description>
+            <rdf:BRSynth rdf:about="#_6817bb5f7133f50744b232330f1f3009343f785b8f77602ce5f44cdd9458f002">
+              <brsynth:brsynth xmlns:brsynth="http://brsynth.eu">
+                <brsynth:smiles value="[H]C(=C([H])C([H])=C(C([H])=C([H])C([H])=C(C([H])=C([H])C([H])=C(C([H])([H])[H])C([H])([H])C([H])([H])C([H])=C(C([H])([H])[H])C([H])([H])[H])C([H])([H])[H])C([H])([H])[H])C([H])=C(C([H])=C([H])C([H])=C(C([H])=C([H])C([H])=C(C([H])([H])[H])C([H])([H])C([H])([H])C([H])=C(C([H])([H])[H])C([H])([H])[H])C([H])([H])[H])C([H])([H])[H]"/>
+                <brsynth:inchi value="InChI=1S/C40H56/c1-33(2)19-13-23-37(7)27-17-31-39(9)29-15-25-35(5)21-11-12-22-36(6)26-16-30-40(10)32-18-28-38(8)24-14-20-34(3)4/h11-12,15-22,25-32H,13-14,23-24H2,1-10H3"/>
+                <brsynth:inchikey value="OAIJSZIZWZSQBC-UHFFFAOYSA-N"/>
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+                <brsynth:fba_fraction_shadow_price>
+                  <brsynth:value value="-1.0"/>
+                </brsynth:fba_fraction_shadow_price>
+                <brsynth:thermo_standard_dg_formation>
+                  <brsynth:value value="1245.5794452419402"/>
+                  <brsynth:units value="kilojoule / mole"/>
+                </brsynth:thermo_standard_dg_formation>
+              </brsynth:brsynth>
+            </rdf:BRSynth>
+          </rdf:RDF>
+        </annotation>
+      </species>
+      <species metaid="_53be86b11fa13c25dcb440bba6ef77b51b257a3674e6b2a0b88d272dc0a014cb" id="MNXM35" name="MNXM35" compartment="c" initialConcentration="1" hasOnlySubstanceUnits="false" boundaryCondition="false" constant="false">
+        <annotation>
+          <rdf:RDF xmlns:rdf="http://www.w3.org/1999/02/22-rdf-syntax-ns#" xmlns:bqbiol="http://biomodels.net/biology-qualifiers/">
+            <rdf:Description rdf:about="#_53be86b11fa13c25dcb440bba6ef77b51b257a3674e6b2a0b88d272dc0a014cb">
+              <bqbiol:is>
+                <rdf:Bag/>
+              </bqbiol:is>
+            </rdf:Description>
+            <rdf:BRSynth rdf:about="#_53be86b11fa13c25dcb440bba6ef77b51b257a3674e6b2a0b88d272dc0a014cb">
+              <brsynth:brsynth xmlns:brsynth="http://brsynth.eu">
+                <brsynth:smiles/>
+                <brsynth:inchi/>
+                <brsynth:inchikey/>
+                <brsynth:fba_biomass_shadow_price>
+                  <brsynth:value value="None"/>
+                </brsynth:fba_biomass_shadow_price>
+                <brsynth:fba_fraction_shadow_price>
+                  <brsynth:value value="None"/>
+                </brsynth:fba_fraction_shadow_price>
+                <brsynth:thermo_standard_dg_formation>
+                  <brsynth:value value="-2172.1728715236113"/>
+                  <brsynth:units value="kilojoule / mole"/>
+                </brsynth:thermo_standard_dg_formation>
+              </brsynth:brsynth>
+            </rdf:BRSynth>
+          </rdf:RDF>
+        </annotation>
+      </species>
+      <species metaid="_47d72a86d31940edf1cc42c7a7361a7a96211dc2a6679326b8ad27a7e216ada0" id="MNXM83" name="MNXM83" compartment="c" initialConcentration="1" hasOnlySubstanceUnits="false" boundaryCondition="false" constant="false">
+        <annotation>
+          <rdf:RDF xmlns:rdf="http://www.w3.org/1999/02/22-rdf-syntax-ns#" xmlns:bqbiol="http://biomodels.net/biology-qualifiers/">
+            <rdf:Description rdf:about="#_47d72a86d31940edf1cc42c7a7361a7a96211dc2a6679326b8ad27a7e216ada0">
+              <bqbiol:is>
+                <rdf:Bag/>
+              </bqbiol:is>
+            </rdf:Description>
+            <rdf:BRSynth rdf:about="#_47d72a86d31940edf1cc42c7a7361a7a96211dc2a6679326b8ad27a7e216ada0">
+              <brsynth:brsynth xmlns:brsynth="http://brsynth.eu">
+                <brsynth:smiles value="[H]OP(=O)(O[H])OP(=O)(O[H])OC([H])([H])C([H])([H])C(=C([H])[H])C([H])([H])[H]"/>
+                <brsynth:inchi value="InChI=1S/C5H12O7P2/c1-5(2)3-4-11-14(9,10)12-13(6,7)8/h1,3-4H2,2H3,(H,9,10)(H2,6,7,8)"/>
+                <brsynth:inchikey value="NUHSROFQTUXZQQ-UHFFFAOYSA-N"/>
+                <brsynth:fba_biomass_shadow_price>
+                  <brsynth:value value="None"/>
+                </brsynth:fba_biomass_shadow_price>
+                <brsynth:fba_fraction_shadow_price>
+                  <brsynth:value value="None"/>
+                </brsynth:fba_fraction_shadow_price>
+                <brsynth:thermo_standard_dg_formation>
+                  <brsynth:value value="-1828.3274439664424"/>
+                  <brsynth:units value="kilojoule / mole"/>
+                </brsynth:thermo_standard_dg_formation>
+              </brsynth:brsynth>
+            </rdf:BRSynth>
+          </rdf:RDF>
+        </annotation>
+      </species>
+      <species metaid="a6e267be12defb7184259624f5adc519108c6c6adfe6be13f64b649567cb6df1" id="MNXM11" name="MNXM11" compartment="c" initialConcentration="1" hasOnlySubstanceUnits="false" boundaryCondition="false" constant="false">
+        <annotation>
+          <rdf:RDF xmlns:rdf="http://www.w3.org/1999/02/22-rdf-syntax-ns#" xmlns:bqbiol="http://biomodels.net/biology-qualifiers/">
+            <rdf:Description rdf:about="#a6e267be12defb7184259624f5adc519108c6c6adfe6be13f64b649567cb6df1">
+              <bqbiol:is>
+                <rdf:Bag/>
+              </bqbiol:is>
+            </rdf:Description>
+            <rdf:BRSynth rdf:about="#a6e267be12defb7184259624f5adc519108c6c6adfe6be13f64b649567cb6df1">
+              <brsynth:brsynth xmlns:brsynth="http://brsynth.eu">
+                <brsynth:smiles value="O=P(O)(O)OP(=O)(O)O"/>
+                <brsynth:inchi value="InChI=1S/H4O7P2/c1-8(2,3)7-9(4,5)6/h(H2,1,2,3)(H2,4,5,6)"/>
+                <brsynth:inchikey value="XPPKVPWEQAFLFU-UHFFFAOYSA-N"/>
+                <brsynth:fba_biomass_shadow_price>
+                  <brsynth:value value="None"/>
+                </brsynth:fba_biomass_shadow_price>
+                <brsynth:fba_fraction_shadow_price>
+                  <brsynth:value value="None"/>
+                </brsynth:fba_fraction_shadow_price>
+                <brsynth:thermo_standard_dg_formation>
+                  <brsynth:value value="-1966.8036657706114"/>
+                  <brsynth:units value="kilojoule / mole"/>
+                </brsynth:thermo_standard_dg_formation>
+              </brsynth:brsynth>
+            </rdf:BRSynth>
+          </rdf:RDF>
+        </annotation>
+      </species>
+    </listOfSpecies>
+    <listOfParameters>
+      <parameter metaid="dc937b59892604f5a86ac96936cd7ff09e25f18ae6b758e8014a24c7fa039e91" sboTerm="SBO:0000625" id="BRS_FBC_10000_0" value="10000" constant="true"/>
+      <parameter metaid="dc937b59892604f5a86ac96936cd7ff09e25f18ae6b758e8014a24c7fa039e91" sboTerm="SBO:0000625" id="BRS_FBC_0_0" value="0" constant="true"/>
+    </listOfParameters>
+    <listOfReactions>
+      <reaction metaid="_7af1776cbbaecbf874d7f576d21891f6ad79e3b7c2e726cfd2ee9f5bd6f483c4" sboTerm="SBO:0000176" id="rxn_1" reversible="false" fast="false" fbc:lowerFluxBound="BRS_FBC_0_0" fbc:upperFluxBound="BRS_FBC_10000_0">
+        <annotation>
+          <rdf:RDF xmlns:rdf="http://www.w3.org/1999/02/22-rdf-syntax-ns#" xmlns:bqbiol="http://biomodels.net/biology-qualifiers/">
+            <rdf:Description rdf:about="#_7af1776cbbaecbf874d7f576d21891f6ad79e3b7c2e726cfd2ee9f5bd6f483c4">
+              <bqbiol:is>
+                <rdf:Bag>
+                  <rdf:li rdf:resource="http://identifiers.org/ec-code/2.5.1.92"/>
+                  <rdf:li rdf:resource="http://identifiers.org/ec-code/2.5.1.85"/>
+                  <rdf:li rdf:resource="http://identifiers.org/ec-code/2.5.1.84"/>
+                  <rdf:li rdf:resource="http://identifiers.org/ec-code/2.5.1.31"/>
+                  <rdf:li rdf:resource="http://identifiers.org/ec-code/2.5.1.81"/>
+                  <rdf:li rdf:resource="http://identifiers.org/ec-code/2.5.1.88"/>
+                  <rdf:li rdf:resource="http://identifiers.org/ec-code/2.5.1.-"/>
+                  <rdf:li rdf:resource="http://identifiers.org/ec-code/2.5.1"/>
+                  <rdf:li rdf:resource="http://identifiers.org/ec-code/2.5.1.29"/>
+                  <rdf:li rdf:resource="http://identifiers.org/ec-code/2.5.1.68"/>
+                  <rdf:li rdf:resource="http://identifiers.org/ec-code/2.5.1.10"/>
+                </rdf:Bag>
+              </bqbiol:is>
+            </rdf:Description>
+            <rdf:BRSynth rdf:about="#_7af1776cbbaecbf874d7f576d21891f6ad79e3b7c2e726cfd2ee9f5bd6f483c4">
+              <brsynth:brsynth xmlns:brsynth="http://brsynth.eu">
+                <brsynth:smiles value="[H]OP(=O)(O[H])OP(=O)(O[H])OC([H])([H])C([H])=C(C([H])([H])[H])C([H])([H])C([H])([H])C([H])=C(C([H])([H])[H])C([H])([H])C([H])([H])C([H])=C(C([H])([H])[H])C([H])([H])[H].[H]OP(=O)(O[H])OP(=O)(O[H])OC([H])([H])C([H])([H])C(=C([H])[H])C([H])([H])[H]&gt;&gt;[H]OP(=O)(O[H])OP(=O)(O[H])OC([H])([H])C([H])=C(C([H])([H])[H])C([H])([H])C([H])([H])C([H])=C(C([H])([H])[H])C([H])([H])C([H])([H])C([H])=C(C([H])([H])[H])C([H])([H])C([H])([H])C([H])=C(C([H])([H])[H])C([H])([H])[H].O=P(O)(O)OP(=O)(O)O"/>
+                <brsynth:rp2_transfo_id value="TRS_0_2_742"/>
+                <brsynth:rule_ids>
+                  <brsynth:RR-02-07adee9ac9c42c7d-14-F/>
+                  <brsynth:RR-02-1494429c7e6e0694-14-F/>
+                  <brsynth:RR-02-1d50852f3f343682-14-F/>
+                  <brsynth:RR-02-3bf131230c6b2bf2-14-F/>
+                  <brsynth:RR-02-58d0f0d25e47b74a-14-F/>
+                  <brsynth:RR-02-b3db29f084fc7a81-14-F/>
+                  <brsynth:RR-02-f9759fe03c57b29f-14-F/>
+                </brsynth:rule_ids>
+                <brsynth:tmpl_rxn_ids>
+                  <brsynth:MNXR100137/>
+                  <brsynth:MNXR112247/>
+                  <brsynth:MNXR116653/>
+                  <brsynth:MNXR100621/>
+                  <brsynth:MNXR99634/>
+                  <brsynth:MNXR112069/>
+                  <brsynth:MNXR99650/>
+                  <brsynth:MNXR109677/>
+                  <brsynth:MNXR113141/>
+                  <brsynth:MNXR105052/>
+                  <brsynth:MNXR109713/>
+                  <brsynth:MNXR110950/>
+                  <brsynth:MNXR110952/>
+                  <brsynth:MNXR112246/>
+                  <brsynth:MNXR112250/>
+                  <brsynth:MNXR112251/>
+                  <brsynth:MNXR112252/>
+                  <brsynth:MNXR116656/>
+                  <brsynth:MNXR117266/>
+                  <brsynth:MNXR139515/>
+                  <brsynth:MNXR139637/>
+                  <brsynth:MNXR112249/>
+                  <brsynth:MNXR116655/>
+                  <brsynth:MNXR103150/>
+                  <brsynth:MNXR112248/>
+                  <brsynth:MNXR116654/>
+                </brsynth:tmpl_rxn_ids>
+                <brsynth:rule_score value="0.7358363677022237"/>
+                <brsynth:idx_in_path value="1"/>
+                <brsynth:selenzy/>
+                <brsynth:fba_biomass>
+                  <brsynth:value value="0.0"/>
+                  <brsynth:units value="gDW / gDW / hour"/>
+                </brsynth:fba_biomass>
+                <brsynth:fba_fraction>
+                  <brsynth:value value="0.4741875610167627"/>
+                  <brsynth:units value="milimole / gDW / hour"/>
+                </brsynth:fba_fraction>
+                <brsynth:thermo_dG0_prime>
+                  <brsynth:value value="-71.55654770059041"/>
+                  <brsynth:error value="2.9407032504945367"/>
+                  <brsynth:units value="kilojoule / mole"/>
+                </brsynth:thermo_dG0_prime>
+                <brsynth:thermo_dGm_prime>
+                  <brsynth:value value="-71.55654770059041"/>
+                  <brsynth:error value="2.9407032504945367"/>
+                  <brsynth:units value="kilojoule / mole"/>
+                </brsynth:thermo_dGm_prime>
+                <brsynth:thermo_dG_prime>
+                  <brsynth:value value="-71.55654770059041"/>
+                  <brsynth:error value="2.9407032504945367"/>
+                  <brsynth:units value="kilojoule / mole"/>
+                </brsynth:thermo_dG_prime>
+                <brsynth:thermo_dG>
+                  <brsynth:value value="-26.40520582450108"/>
+                  <brsynth:error value="2.9407032504945367"/>
+                  <brsynth:units value="kilojoule / mole"/>
+                </brsynth:thermo_dG>
+              </brsynth:brsynth>
+            </rdf:BRSynth>
+          </rdf:RDF>
+        </annotation>
+        <listOfReactants>
+          <speciesReference species="MNXM34" stoichiometry="1" constant="true"/>
+          <speciesReference species="MNXM83" stoichiometry="1" constant="true"/>
+        </listOfReactants>
+        <listOfProducts>
+          <speciesReference species="CMPD_0000000003" stoichiometry="1" constant="true"/>
+          <speciesReference species="MNXM11" stoichiometry="1" constant="true"/>
+        </listOfProducts>
+      </reaction>
+      <reaction metaid="c9c2d56fd0ad9d5b8cd80acad4b5df22945ab4de50db7b24db52a91a7560c3ff" sboTerm="SBO:0000176" id="rxn_2" reversible="false" fast="false" fbc:lowerFluxBound="BRS_FBC_0_0" fbc:upperFluxBound="BRS_FBC_10000_0">
+        <annotation>
+          <rdf:RDF xmlns:rdf="http://www.w3.org/1999/02/22-rdf-syntax-ns#" xmlns:bqbiol="http://biomodels.net/biology-qualifiers/">
+            <rdf:Description rdf:about="#c9c2d56fd0ad9d5b8cd80acad4b5df22945ab4de50db7b24db52a91a7560c3ff">
+              <bqbiol:is>
+                <rdf:Bag>
+                  <rdf:li rdf:resource="http://identifiers.org/ec-code/2.5.1.32"/>
+                  <rdf:li rdf:resource="http://identifiers.org/ec-code/2.5.1.99"/>
+                  <rdf:li rdf:resource="http://identifiers.org/ec-code/2.5.1.96"/>
+                </rdf:Bag>
+              </bqbiol:is>
+            </rdf:Description>
+            <rdf:BRSynth rdf:about="#c9c2d56fd0ad9d5b8cd80acad4b5df22945ab4de50db7b24db52a91a7560c3ff">
+              <brsynth:brsynth xmlns:brsynth="http://brsynth.eu">
+                <brsynth:smiles value="[H]OP(=O)(O[H])OP(=O)(O[H])OC([H])([H])C([H])=C(C([H])([H])[H])C([H])([H])C([H])([H])C([H])=C(C([H])([H])[H])C([H])([H])C([H])([H])C([H])=C(C([H])([H])[H])C([H])([H])C([H])([H])C([H])=C(C([H])([H])[H])C([H])([H])[H]&gt;&gt;[H]C(=C([H])C([H])=C(C([H])([H])[H])C([H])([H])C([H])([H])C([H])=C(C([H])([H])[H])C([H])([H])C([H])([H])C([H])=C(C([H])([H])[H])C([H])([H])C([H])([H])C([H])=C(C([H])([H])[H])C([H])([H])[H])C([H])=C(C([H])([H])[H])C([H])([H])C([H])([H])C([H])=C(C([H])([H])[H])C([H])([H])C([H])([H])C([H])=C(C([H])([H])[H])C([H])([H])C([H])([H])C([H])=C(C([H])([H])[H])C([H])([H])[H].O=P(O)(O)OP(=O)(O)O.O=P(O)(O)OP(=O)(O)O"/>
+                <brsynth:rp2_transfo_id value="TRS_0_1_9"/>
+                <brsynth:rule_ids>
+                  <brsynth:RR-02-bedda4e2f5001e0c-14-F/>
+                </brsynth:rule_ids>
+                <brsynth:tmpl_rxn_ids>
+                  <brsynth:MNXR111250/>
+                  <brsynth:MNXR111499/>
+                  <brsynth:MNXR113543/>
+                  <brsynth:MNXR118024/>
+                  <brsynth:MNXR139549/>
+                </brsynth:tmpl_rxn_ids>
+                <brsynth:rule_score value="0.5518755963407151"/>
+                <brsynth:idx_in_path value="2"/>
+                <brsynth:selenzy/>
+                <brsynth:fba_biomass>
+                  <brsynth:value value="0.0"/>
+                  <brsynth:units value="gDW / gDW / hour"/>
+                </brsynth:fba_biomass>
+                <brsynth:fba_fraction>
+                  <brsynth:value value="0.4741875610167627"/>
+                  <brsynth:units value="milimole / gDW / hour"/>
+                </brsynth:fba_fraction>
+                <brsynth:thermo_dG0_prime>
+                  <brsynth:value value="-119.13360567395966"/>
+                  <brsynth:error value="11.000567449695138"/>
+                  <brsynth:units value="kilojoule / mole"/>
+                </brsynth:thermo_dG0_prime>
+                <brsynth:thermo_dGm_prime>
+                  <brsynth:value value="-153.36328074340173"/>
+                  <brsynth:error value="11.000567449695138"/>
+                  <brsynth:units value="kilojoule / mole"/>
+                </brsynth:thermo_dGm_prime>
+                <brsynth:thermo_dG_prime>
+                  <brsynth:value value="-119.13360567395966"/>
+                  <brsynth:error value="11.000567449695138"/>
+                  <brsynth:units value="kilojoule / mole"/>
+                </brsynth:thermo_dG_prime>
+                <brsynth:thermo_dG>
+                  <brsynth:value value="-1501.0650763644926"/>
+                  <brsynth:error value="11.000567449695138"/>
+                  <brsynth:units value="kilojoule / mole"/>
+                </brsynth:thermo_dG>
+              </brsynth:brsynth>
+            </rdf:BRSynth>
+          </rdf:RDF>
+        </annotation>
+        <listOfReactants>
+          <speciesReference species="CMPD_0000000003" stoichiometry="1" constant="true"/>
+        </listOfReactants>
+        <listOfProducts>
+          <speciesReference species="CMPD_0000000001" stoichiometry="1" constant="true"/>
+          <speciesReference species="MNXM11" stoichiometry="2" constant="true"/>
+        </listOfProducts>
+      </reaction>
+      <reaction metaid="_376841fa42ba139764a5509b9d817e2e540d0e228582c970025c73ae1ee77c0d" sboTerm="SBO:0000176" id="rxn_3" reversible="false" fast="false" fbc:lowerFluxBound="BRS_FBC_0_0" fbc:upperFluxBound="BRS_FBC_10000_0">
+        <annotation>
+          <rdf:RDF xmlns:rdf="http://www.w3.org/1999/02/22-rdf-syntax-ns#" xmlns:bqbiol="http://biomodels.net/biology-qualifiers/">
+            <rdf:Description rdf:about="#_376841fa42ba139764a5509b9d817e2e540d0e228582c970025c73ae1ee77c0d">
+              <bqbiol:is>
+                <rdf:Bag>
+                  <rdf:li rdf:resource="http://identifiers.org/ec-code/1.3.99.31"/>
+                </rdf:Bag>
+              </bqbiol:is>
+            </rdf:Description>
+            <rdf:BRSynth rdf:about="#_376841fa42ba139764a5509b9d817e2e540d0e228582c970025c73ae1ee77c0d">
+              <brsynth:brsynth xmlns:brsynth="http://brsynth.eu">
+                <brsynth:smiles value="[H]C(=C([H])C([H])=C(C([H])([H])[H])C([H])([H])C([H])([H])C([H])=C(C([H])([H])[H])C([H])([H])C([H])([H])C([H])=C(C([H])([H])[H])C([H])([H])C([H])([H])C([H])=C(C([H])([H])[H])C([H])([H])[H])C([H])=C(C([H])([H])[H])C([H])([H])C([H])([H])C([H])=C(C([H])([H])[H])C([H])([H])C([H])([H])C([H])=C(C([H])([H])[H])C([H])([H])C([H])([H])C([H])=C(C([H])([H])[H])C([H])([H])[H]&gt;&gt;[H]C(=C([H])C([H])=C(C([H])=C([H])C([H])=C(C([H])=C([H])C([H])=C(C([H])([H])[H])C([H])([H])C([H])([H])C([H])=C(C([H])([H])[H])C([H])([H])[H])C([H])([H])[H])C([H])([H])[H])C([H])=C(C([H])=C([H])C([H])=C(C([H])=C([H])C([H])=C(C([H])([H])[H])C([H])([H])C([H])([H])C([H])=C(C([H])([H])[H])C([H])([H])[H])C([H])([H])[H])C([H])([H])[H]"/>
+                <brsynth:rp2_transfo_id value="TRS_0_0_1"/>
+                <brsynth:rule_ids>
+                  <brsynth:RR-02-ae41ec5771136ea5-14-F/>
+                </brsynth:rule_ids>
+                <brsynth:tmpl_rxn_ids>
+                  <brsynth:MNXR125832/>
+                </brsynth:tmpl_rxn_ids>
+                <brsynth:rule_score value="0.7358363677022237"/>
+                <brsynth:idx_in_path value="3"/>
+                <brsynth:selenzy/>
+                <brsynth:fba_biomass>
+                  <brsynth:value value="0.0"/>
+                  <brsynth:units value="gDW / gDW / hour"/>
+                </brsynth:fba_biomass>
+                <brsynth:fba_fraction>
+                  <brsynth:value value="0.4741875610167627"/>
+                  <brsynth:units value="milimole / gDW / hour"/>
+                </brsynth:fba_fraction>
+                <brsynth:thermo_dG0_prime>
+                  <brsynth:value value="162.18254376952495"/>
+                  <brsynth:error value="12.808033567928218"/>
+                  <brsynth:units value="kilojoule / mole"/>
+                </brsynth:thermo_dG0_prime>
+                <brsynth:thermo_dGm_prime>
+                  <brsynth:value value="162.18254376952495"/>
+                  <brsynth:error value="12.808033567928218"/>
+                  <brsynth:units value="kilojoule / mole"/>
+                </brsynth:thermo_dGm_prime>
+                <brsynth:thermo_dG_prime>
+                  <brsynth:value value="162.18254376952495"/>
+                  <brsynth:error value="12.808033567928218"/>
+                  <brsynth:units value="kilojoule / mole"/>
+                </brsynth:thermo_dG_prime>
+                <brsynth:thermo_dG>
+                  <brsynth:value value="-27.202610383152432"/>
+                  <brsynth:error value="12.808033567928218"/>
+                  <brsynth:units value="kilojoule / mole"/>
+                </brsynth:thermo_dG>
+              </brsynth:brsynth>
+            </rdf:BRSynth>
+          </rdf:RDF>
+        </annotation>
+        <listOfReactants>
+          <speciesReference species="CMPD_0000000001" stoichiometry="1" constant="true"/>
+          <speciesReference species="MNXM35" stoichiometry="4" constant="true"/>
+        </listOfReactants>
+        <listOfProducts>
+          <speciesReference species="MNXM24" stoichiometry="4" constant="true"/>
+          <speciesReference species="TARGET_0000000001" stoichiometry="1" constant="true"/>
+        </listOfProducts>
+      </reaction>
+    </listOfReactions>
+    <groups:listOfGroups>
+      <groups:group metaid="_93eef40c447d295fa61df9270c5fd909ec2ba7ee9883090552c0466873cd4299" groups:id="rp_pathway" groups:kind="collection">
+        <annotation>
+          <rdf:RDF xmlns:rdf="http://www.w3.org/1999/02/22-rdf-syntax-ns#" xmlns:bqbiol="http://biomodels.net/biology-qualifiers/">
+            <rdf:BRSynth rdf:about="#_93eef40c447d295fa61df9270c5fd909ec2ba7ee9883090552c0466873cd4299">
+              <brsynth:brsynth xmlns:brsynth="http://brsynth.eu">
+                <brsynth:fba_biomass>
+                  <brsynth:value value="0.8769972144269784"/>
+                  <brsynth:units value="gDW / gDW / hour"/>
+                </brsynth:fba_biomass>
+                <brsynth:fba_fraction>
+                  <brsynth:value value="0.4741875610167627"/>
+                  <brsynth:units value="milimole / gDW / hour"/>
+                </brsynth:fba_fraction>
+                <brsynth:thermo_dG0_prime>
+                  <brsynth:value value="-28.507609605022708"/>
+                  <brsynth:error value="19.469504383090346"/>
+                  <brsynth:units value="kilojoule / mole"/>
+                </brsynth:thermo_dG0_prime>
+                <brsynth:thermo_dGm_prime>
+                  <brsynth:value value="-62.737284674464775"/>
+                  <brsynth:error value="19.469504383090346"/>
+                  <brsynth:units value="kilojoule / mole"/>
+                </brsynth:thermo_dGm_prime>
+                <brsynth:thermo_dG_prime>
+                  <brsynth:value value="-28.507609605022708"/>
+                  <brsynth:error value="19.469504383090346"/>
+                  <brsynth:units value="kilojoule / mole"/>
+                </brsynth:thermo_dG_prime>
+                <brsynth:thermo_dG>
+                  <brsynth:value value="-1554.6728925721447"/>
+                  <brsynth:error value="19.469504383090346"/>
+                  <brsynth:units value="kilojoule / mole"/>
+                </brsynth:thermo_dG>
+                <brsynth:global_score value="0.9863117098808288"/>
+              </brsynth:brsynth>
+            </rdf:BRSynth>
+          </rdf:RDF>
+        </annotation>
+        <groups:listOfMembers>
+          <groups:member groups:idRef="rxn_1"/>
+          <groups:member groups:idRef="rxn_2"/>
+          <groups:member groups:idRef="rxn_3"/>
+        </groups:listOfMembers>
+      </groups:group>
+      <groups:group metaid="_613b064337553014ede418c67180137a4561ff11b13f3bfa1a2765ef37ac375a" groups:id="rp_intermediate_species" groups:kind="collection">
+        <annotation>
+          <rdf:RDF xmlns:rdf="http://www.w3.org/1999/02/22-rdf-syntax-ns#" xmlns:bqbiol="http://biomodels.net/biology-qualifiers/">
+            <rdf:BRSynth rdf:about="#_613b064337553014ede418c67180137a4561ff11b13f3bfa1a2765ef37ac375a">
+              <brsynth:brsynth xmlns:brsynth="http://brsynth.eu"/>
+            </rdf:BRSynth>
+          </rdf:RDF>
+        </annotation>
+        <groups:listOfMembers>
+          <groups:member groups:idRef="CMPD_0000000001"/>
+          <groups:member groups:idRef="CMPD_0000000003"/>
+        </groups:listOfMembers>
+      </groups:group>
+      <groups:group metaid="_564fce39b23c6cf87d12dc2c612448384fd2cd980fe3fc07829e2ef802645579" groups:id="rp_trunk_species" groups:kind="collection">
+        <annotation>
+          <rdf:RDF xmlns:rdf="http://www.w3.org/1999/02/22-rdf-syntax-ns#" xmlns:bqbiol="http://biomodels.net/biology-qualifiers/">
+            <rdf:BRSynth rdf:about="#_564fce39b23c6cf87d12dc2c612448384fd2cd980fe3fc07829e2ef802645579">
+              <brsynth:brsynth xmlns:brsynth="http://brsynth.eu"/>
+            </rdf:BRSynth>
+          </rdf:RDF>
+        </annotation>
+        <groups:listOfMembers>
+          <groups:member groups:idRef="CMPD_0000000003"/>
+          <groups:member groups:idRef="CMPD_0000000001"/>
+          <groups:member groups:idRef="MNXM34"/>
+          <groups:member groups:idRef="TARGET_0000000001"/>
+          <groups:member groups:idRef="MNXM83"/>
+        </groups:listOfMembers>
+      </groups:group>
+      <groups:group metaid="_9e3154173c97366b3980dd1642e1e35d0bdfc3274abc744e89ecb518bcd48378" groups:id="rp_completed_species" groups:kind="collection">
+        <annotation>
+          <rdf:RDF xmlns:rdf="http://www.w3.org/1999/02/22-rdf-syntax-ns#" xmlns:bqbiol="http://biomodels.net/biology-qualifiers/">
+            <rdf:BRSynth rdf:about="#_9e3154173c97366b3980dd1642e1e35d0bdfc3274abc744e89ecb518bcd48378">
+              <brsynth:brsynth xmlns:brsynth="http://brsynth.eu"/>
+            </rdf:BRSynth>
+          </rdf:RDF>
+        </annotation>
+        <groups:listOfMembers>
+          <groups:member groups:idRef="MNXM35"/>
+          <groups:member groups:idRef="MNXM24"/>
+          <groups:member groups:idRef="MNXM11"/>
+        </groups:listOfMembers>
+      </groups:group>
+      <groups:group metaid="_58b3b59284e0d918d6d3f3bcadc2d757726da7594cd899cad4e745836ac967a3" groups:id="rp_sink_species" groups:kind="collection">
+        <annotation>
+          <rdf:RDF xmlns:rdf="http://www.w3.org/1999/02/22-rdf-syntax-ns#" xmlns:bqbiol="http://biomodels.net/biology-qualifiers/">
+            <rdf:BRSynth rdf:about="#_58b3b59284e0d918d6d3f3bcadc2d757726da7594cd899cad4e745836ac967a3">
+              <brsynth:brsynth xmlns:brsynth="http://brsynth.eu"/>
+            </rdf:BRSynth>
+          </rdf:RDF>
+        </annotation>
+        <groups:listOfMembers>
+          <groups:member groups:idRef="MNXM83"/>
+          <groups:member groups:idRef="MNXM34"/>
+          <groups:member groups:idRef="MNXM11"/>
+        </groups:listOfMembers>
+      </groups:group>
+      <groups:group metaid="a0f48a6fe4f833a3d15abd7ee5b944b97d629570ac09588e9fb6fdf6196ab189" groups:id="rp_fba_ignored_species" groups:kind="collection">
+        <annotation>
+          <rdf:RDF xmlns:rdf="http://www.w3.org/1999/02/22-rdf-syntax-ns#" xmlns:bqbiol="http://biomodels.net/biology-qualifiers/">
+            <rdf:BRSynth rdf:about="#a0f48a6fe4f833a3d15abd7ee5b944b97d629570ac09588e9fb6fdf6196ab189">
+              <brsynth:brsynth xmlns:brsynth="http://brsynth.eu"/>
+            </rdf:BRSynth>
+          </rdf:RDF>
+        </annotation>
+        <groups:listOfMembers>
+          <groups:member groups:idRef="MNXM35"/>
+          <groups:member groups:idRef="MNXM24"/>
+        </groups:listOfMembers>
+      </groups:group>
+      <groups:group metaid="fb9b29ba20af773fed953f1d6726905a453f235c9a4baa7217f02760bc2057f8" groups:id="rp_thermo_substituted_species" groups:kind="collection">
+        <annotation>
+          <rdf:RDF xmlns:rdf="http://www.w3.org/1999/02/22-rdf-syntax-ns#" xmlns:bqbiol="http://biomodels.net/biology-qualifiers/">
+            <rdf:BRSynth rdf:about="#fb9b29ba20af773fed953f1d6726905a453f235c9a4baa7217f02760bc2057f8">
+              <brsynth:brsynth xmlns:brsynth="http://brsynth.eu"/>
+            </rdf:BRSynth>
+          </rdf:RDF>
+        </annotation>
+        <groups:listOfMembers>
+          <groups:member groups:idRef="MNXM35"/>
+          <groups:member groups:idRef="MNXM24"/>
+          <groups:member groups:idRef="TARGET_0000000001"/>
+        </groups:listOfMembers>
+      </groups:group>
+    </groups:listOfGroups>
+  </model>
+</sbml>
--- /dev/null	Thu Jan 01 00:00:00 1970 +0000
+++ b/test-data/taxID.tsv	Tue May 23 15:02:50 2023 +0000
@@ -0,0 +1,2 @@
+#ID
+83333
\ No newline at end of file
--- /dev/null	Thu Jan 01 00:00:00 1970 +0000
+++ b/test-data/uniprod_ids_out.csv	Tue May 23 15:02:50 2023 +0000
@@ -0,0 +1,1486 @@
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--- /dev/null	Thu Jan 01 00:00:00 1970 +0000
+++ b/test-data/uniprod_ids_out.xml	Tue May 23 15:02:50 2023 +0000
@@ -0,0 +1,7968 @@
+<?xml version="1.0" encoding="UTF-8"?>
+<sbml xmlns="http://www.sbml.org/sbml/level3/version1/core" xmlns:groups="http://www.sbml.org/sbml/level3/version1/groups/version1" xmlns:fbc="http://www.sbml.org/sbml/level3/version1/fbc/version2" level="3" version="1" groups:required="false" fbc:required="false">
+  <model metaid="ab7a7ab71c6ccfe1bb89180d9a6fb504a8ea4784c1ace396ce99cb6892d1b81e" id="RP_model_003_0261" name="003_0261" substanceUnits="mole" timeUnits="second" extentUnits="mole" fbc:strict="true">
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+                  <rdf:li rdf:resource="http://identifiers.org/bigg.compartment/c_c"/>
+                  <rdf:li rdf:resource="http://identifiers.org/metanetx.compartment/MNXC3"/>
+                  <rdf:li rdf:resource="http://identifiers.org/seed/c"/>
+                  <rdf:li rdf:resource="http://identifiers.org/seed/c0"/>
+                  <rdf:li rdf:resource="http://identifiers.org/seed/cytosol"/>
+                  <rdf:li rdf:resource="http://identifiers.org/name/cytosol"/>
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+            <rdf:BRSynth rdf:about="#b0098569a07f786a6e9b2294639668cd4ee564dd642a38bdf429c4c6bb560b46">
+              <brsynth:brsynth xmlns:brsynth="http://brsynth.eu">
+                <brsynth:smiles value="[H]C(=C([H])C([H])=C(C([H])([H])[H])C([H])([H])C([H])([H])C([H])=C(C([H])([H])[H])C([H])([H])C([H])([H])C([H])=C(C([H])([H])[H])C([H])([H])C([H])([H])C([H])=C(C([H])([H])[H])C([H])([H])[H])C([H])=C(C([H])([H])[H])C([H])([H])C([H])([H])C([H])=C(C([H])([H])[H])C([H])([H])C([H])([H])C([H])=C(C([H])([H])[H])C([H])([H])C([H])([H])C([H])=C(C([H])([H])[H])C([H])([H])[H]"/>
+                <brsynth:inchi value="InChI=1S/C40H64/c1-33(2)19-13-23-37(7)27-17-31-39(9)29-15-25-35(5)21-11-12-22-36(6)26-16-30-40(10)32-18-28-38(8)24-14-20-34(3)4/h11-12,19-22,27-30H,13-18,23-26,31-32H2,1-10H3"/>
+                <brsynth:inchikey value="YVLPJIGOMTXXLP-UHFFFAOYSA-N"/>
+              </brsynth:brsynth>
+            </rdf:BRSynth>
+          </rdf:RDF>
+        </annotation>
+      </species>
+      <species metaid="_47d72a86d31940edf1cc42c7a7361a7a96211dc2a6679326b8ad27a7e216ada0" id="MNXM83" name="MNXM83" compartment="c" initialConcentration="1" hasOnlySubstanceUnits="false" boundaryCondition="false" constant="false">
+        <annotation>
+          <rdf:RDF xmlns:rdf="http://www.w3.org/1999/02/22-rdf-syntax-ns#" xmlns:bqbiol="http://biomodels.net/biology-qualifiers/">
+            <rdf:Description rdf:about="#_47d72a86d31940edf1cc42c7a7361a7a96211dc2a6679326b8ad27a7e216ada0">
+              <bqbiol:is>
+                <rdf:Bag/>
+              </bqbiol:is>
+            </rdf:Description>
+            <rdf:BRSynth rdf:about="#_47d72a86d31940edf1cc42c7a7361a7a96211dc2a6679326b8ad27a7e216ada0">
+              <brsynth:brsynth xmlns:brsynth="http://brsynth.eu">
+                <brsynth:smiles value="[H]OP(=O)(O[H])OP(=O)(O[H])OC([H])([H])C([H])([H])C(=C([H])[H])C([H])([H])[H]"/>
+                <brsynth:inchi value="InChI=1S/C5H12O7P2/c1-5(2)3-4-11-14(9,10)12-13(6,7)8/h1,3-4H2,2H3,(H,9,10)(H2,6,7,8)"/>
+                <brsynth:inchikey value="NUHSROFQTUXZQQ-UHFFFAOYSA-N"/>
+              </brsynth:brsynth>
+            </rdf:BRSynth>
+          </rdf:RDF>
+        </annotation>
+      </species>
+    </listOfSpecies>
+    <listOfParameters>
+      <parameter metaid="dc937b59892604f5a86ac96936cd7ff09e25f18ae6b758e8014a24c7fa039e91" sboTerm="SBO:0000625" id="BRS_FBC_10000_0" value="10000" constant="true"/>
+      <parameter metaid="dc937b59892604f5a86ac96936cd7ff09e25f18ae6b758e8014a24c7fa039e91" sboTerm="SBO:0000625" id="BRS_FBC_0_0" value="0" constant="true"/>
+    </listOfParameters>
+    <listOfReactions>
+      <reaction metaid="_7af1776cbbaecbf874d7f576d21891f6ad79e3b7c2e726cfd2ee9f5bd6f483c4" sboTerm="SBO:0000176" id="rxn_1" reversible="false" fast="false" fbc:lowerFluxBound="BRS_FBC_0_0" fbc:upperFluxBound="BRS_FBC_10000_0">
+        <annotation>
+          <rdf:RDF xmlns:rdf="http://www.w3.org/1999/02/22-rdf-syntax-ns#" xmlns:bqbiol="http://biomodels.net/biology-qualifiers/">
+            <rdf:Description rdf:about="#_7af1776cbbaecbf874d7f576d21891f6ad79e3b7c2e726cfd2ee9f5bd6f483c4">
+              <bqbiol:is>
+                <rdf:Bag>
+                  <rdf:li rdf:resource="http://identifiers.org/uniprot/Q298G6"/>
+                  <rdf:li rdf:resource="http://identifiers.org/uniprot/Q9VHS7"/>
+                  <rdf:li rdf:resource="http://identifiers.org/uniprot/Q66JT7"/>
+                  <rdf:li rdf:resource="http://identifiers.org/uniprot/Q96H96"/>
+                  <rdf:li rdf:resource="http://identifiers.org/uniprot/Q499N4"/>
+                  <rdf:li rdf:resource="http://identifiers.org/uniprot/Q2KIQ4"/>
+                  <rdf:li rdf:resource="http://identifiers.org/uniprot/Q16QL3"/>
+                  <rdf:li rdf:resource="http://identifiers.org/uniprot/Q5R6U3"/>
+                  <rdf:li rdf:resource="http://identifiers.org/uniprot/P53798"/>
+                  <rdf:li rdf:resource="http://identifiers.org/uniprot/P37268"/>
+                  <rdf:li rdf:resource="http://identifiers.org/uniprot/Q02769"/>
+                  <rdf:li rdf:resource="http://identifiers.org/uniprot/Q32KR6"/>
+                  <rdf:li rdf:resource="http://identifiers.org/uniprot/B2C4D4"/>
+                  <rdf:li rdf:resource="http://identifiers.org/uniprot/Q9SSU8"/>
+                  <rdf:li rdf:resource="http://identifiers.org/uniprot/I6RAQ6"/>
+                  <rdf:li rdf:resource="http://identifiers.org/uniprot/I6QPS5"/>
+                  <rdf:li rdf:resource="http://identifiers.org/uniprot/I6QSN0"/>
+                  <rdf:li rdf:resource="http://identifiers.org/uniprot/Q6ZJL3"/>
+                  <rdf:li rdf:resource="http://identifiers.org/uniprot/D5KXD2"/>
+                  <rdf:li rdf:resource="http://identifiers.org/uniprot/B2C4D5"/>
+                  <rdf:li rdf:resource="http://identifiers.org/uniprot/B2C4D0"/>
+                  <rdf:li rdf:resource="http://identifiers.org/uniprot/Q8SA63"/>
+                  <rdf:li rdf:resource="http://identifiers.org/uniprot/Q5GJ60"/>
+                  <rdf:li rdf:resource="http://identifiers.org/uniprot/Q2NM15"/>
+                  <rdf:li rdf:resource="http://identifiers.org/uniprot/Q9FQ26"/>
+                  <rdf:li rdf:resource="http://identifiers.org/uniprot/Q70EZ7"/>
+                  <rdf:li rdf:resource="http://identifiers.org/uniprot/Q70EZ6"/>
+                  <rdf:li rdf:resource="http://identifiers.org/uniprot/C7E5V8"/>
+                  <rdf:li rdf:resource="http://identifiers.org/uniprot/C7E5V7"/>
+                  <rdf:li rdf:resource="http://identifiers.org/uniprot/Q4U3F6"/>
+                  <rdf:li rdf:resource="http://identifiers.org/uniprot/Q8S3A6"/>
+                  <rdf:li rdf:resource="http://identifiers.org/uniprot/Q8S3A5"/>
+                  <rdf:li rdf:resource="http://identifiers.org/uniprot/Q1PDD2"/>
+                  <rdf:li rdf:resource="http://identifiers.org/uniprot/F8UL80"/>
+                  <rdf:li rdf:resource="http://identifiers.org/uniprot/Q9FQ27"/>
+                  <rdf:li rdf:resource="http://identifiers.org/uniprot/Q8LSC3"/>
+                  <rdf:li rdf:resource="http://identifiers.org/uniprot/Q8LSC2"/>
+                  <rdf:li rdf:resource="http://identifiers.org/uniprot/Q4U3F7"/>
+                  <rdf:li rdf:resource="http://identifiers.org/uniprot/B0FGA9"/>
+                  <rdf:li rdf:resource="http://identifiers.org/uniprot/O64961"/>
+                  <rdf:li rdf:resource="http://identifiers.org/uniprot/K4LMW2"/>
+                  <rdf:li rdf:resource="http://identifiers.org/uniprot/Q7XB13"/>
+                  <rdf:li rdf:resource="http://identifiers.org/uniprot/Q0DAK7"/>
+                  <rdf:li rdf:resource="http://identifiers.org/uniprot/Q7XB14"/>
+                  <rdf:li rdf:resource="http://identifiers.org/uniprot/P49085"/>
+                  <rdf:li rdf:resource="http://identifiers.org/uniprot/P37273"/>
+                  <rdf:li rdf:resource="http://identifiers.org/uniprot/P08196"/>
+                  <rdf:li rdf:resource="http://identifiers.org/uniprot/Q49SP3"/>
+                  <rdf:li rdf:resource="http://identifiers.org/uniprot/Q5SBP6"/>
+                  <rdf:li rdf:resource="http://identifiers.org/uniprot/Q49SP6"/>
+                  <rdf:li rdf:resource="http://identifiers.org/uniprot/Q49SP4"/>
+                  <rdf:li rdf:resource="http://identifiers.org/uniprot/Q9FXY7"/>
+                  <rdf:li rdf:resource="http://identifiers.org/uniprot/Q84ZW8"/>
+                  <rdf:li rdf:resource="http://identifiers.org/uniprot/C7E5W0"/>
+                  <rdf:li rdf:resource="http://identifiers.org/uniprot/C7E5V9"/>
+                  <rdf:li rdf:resource="http://identifiers.org/uniprot/P59287"/>
+                  <rdf:li rdf:resource="http://identifiers.org/uniprot/E2E2N7"/>
+                  <rdf:li rdf:resource="http://identifiers.org/uniprot/Q49SP5"/>
+                  <rdf:li rdf:resource="http://identifiers.org/uniprot/Q7XYS8"/>
+                  <rdf:li rdf:resource="http://identifiers.org/uniprot/P0C565"/>
+                  <rdf:li rdf:resource="http://identifiers.org/uniprot/Q84LB2"/>
+                  <rdf:li rdf:resource="http://identifiers.org/uniprot/B9RXW0"/>
+                  <rdf:li rdf:resource="http://identifiers.org/uniprot/Q66PX8"/>
+                  <rdf:li rdf:resource="http://identifiers.org/uniprot/Q93YP7"/>
+                  <rdf:li rdf:resource="http://identifiers.org/uniprot/P0CV96"/>
+                  <rdf:li rdf:resource="http://identifiers.org/uniprot/P0CV95"/>
+                  <rdf:li rdf:resource="http://identifiers.org/uniprot/P0CV94"/>
+                  <rdf:li rdf:resource="http://identifiers.org/uniprot/Q84UU4"/>
+                  <rdf:li rdf:resource="http://identifiers.org/uniprot/P37272"/>
+                  <rdf:li rdf:resource="http://identifiers.org/uniprot/Q4KSH9"/>
+                  <rdf:li rdf:resource="http://identifiers.org/uniprot/Q38833"/>
+                  <rdf:li rdf:resource="http://identifiers.org/uniprot/O48935"/>
+                  <rdf:li rdf:resource="http://identifiers.org/uniprot/Q9LX33"/>
+                  <rdf:li rdf:resource="http://identifiers.org/uniprot/Q38920"/>
+                  <rdf:li rdf:resource="http://identifiers.org/uniprot/O80642"/>
+                  <rdf:li rdf:resource="http://identifiers.org/uniprot/Q9T0K1"/>
+                  <rdf:li rdf:resource="http://identifiers.org/uniprot/Q9T0J9"/>
+                  <rdf:li rdf:resource="http://identifiers.org/uniprot/B4YYR2"/>
+                  <rdf:li rdf:resource="http://identifiers.org/uniprot/J7LMP2"/>
+                  <rdf:li rdf:resource="http://identifiers.org/uniprot/Q0WUA3"/>
+                  <rdf:li rdf:resource="http://identifiers.org/uniprot/Q66PX9"/>
+                  <rdf:li rdf:resource="http://identifiers.org/uniprot/P0CJ43"/>
+                  <rdf:li rdf:resource="http://identifiers.org/uniprot/A4FVP2"/>
+                  <rdf:li rdf:resource="http://identifiers.org/uniprot/Q1ACB3"/>
+                  <rdf:li rdf:resource="http://identifiers.org/uniprot/B2KSJ6"/>
+                  <rdf:li rdf:resource="http://identifiers.org/uniprot/P49293"/>
+                  <rdf:li rdf:resource="http://identifiers.org/uniprot/P37271"/>
+                  <rdf:li rdf:resource="http://identifiers.org/uniprot/D0VMR8"/>
+                  <rdf:li rdf:resource="http://identifiers.org/uniprot/D0VMR7"/>
+                  <rdf:li rdf:resource="http://identifiers.org/uniprot/D0VMR6"/>
+                  <rdf:li rdf:resource="http://identifiers.org/uniprot/Q6Q3H3"/>
+                  <rdf:li rdf:resource="http://identifiers.org/uniprot/J9RLZ7"/>
+                  <rdf:li rdf:resource="http://identifiers.org/uniprot/E5GAG1"/>
+                  <rdf:li rdf:resource="http://identifiers.org/uniprot/Q94JS8"/>
+                  <rdf:li rdf:resource="http://identifiers.org/uniprot/Q4JHG3"/>
+                  <rdf:li rdf:resource="http://identifiers.org/uniprot/Q308N0"/>
+                  <rdf:li rdf:resource="http://identifiers.org/uniprot/Q6USK1"/>
+                  <rdf:li rdf:resource="http://identifiers.org/uniprot/E4ZUB5"/>
+                  <rdf:li rdf:resource="http://identifiers.org/uniprot/Q52QW5"/>
+                  <rdf:li rdf:resource="http://identifiers.org/uniprot/Q93YV0"/>
+                  <rdf:li rdf:resource="http://identifiers.org/uniprot/B1B1U3"/>
+                  <rdf:li rdf:resource="http://identifiers.org/uniprot/D2YZP9"/>
+                  <rdf:li rdf:resource="http://identifiers.org/uniprot/Q0VHD6"/>
+                  <rdf:li rdf:resource="http://identifiers.org/uniprot/P53800"/>
+                  <rdf:li rdf:resource="http://identifiers.org/uniprot/Q0V6M5"/>
+                  <rdf:li rdf:resource="http://identifiers.org/uniprot/B2WAQ3"/>
+                  <rdf:li rdf:resource="http://identifiers.org/uniprot/P53797"/>
+                  <rdf:li rdf:resource="http://identifiers.org/uniprot/C9K2Q3"/>
+                  <rdf:li rdf:resource="http://identifiers.org/uniprot/O48666"/>
+                  <rdf:li rdf:resource="http://identifiers.org/uniprot/P53799"/>
+                  <rdf:li rdf:resource="http://identifiers.org/uniprot/Q8I7J4"/>
+                  <rdf:li rdf:resource="http://identifiers.org/uniprot/E3Q717"/>
+                  <rdf:li rdf:resource="http://identifiers.org/uniprot/D1Z4K7"/>
+                  <rdf:li rdf:resource="http://identifiers.org/uniprot/B2ATB0"/>
+                  <rdf:li rdf:resource="http://identifiers.org/uniprot/Q8X0Z1"/>
+                  <rdf:li rdf:resource="http://identifiers.org/uniprot/P37295"/>
+                  <rdf:li rdf:resource="http://identifiers.org/uniprot/A2PZA5"/>
+                  <rdf:li rdf:resource="http://identifiers.org/uniprot/Q2U4X9"/>
+                  <rdf:li rdf:resource="http://identifiers.org/uniprot/E4UPP6"/>
+                  <rdf:li rdf:resource="http://identifiers.org/uniprot/D4D802"/>
+                  <rdf:li rdf:resource="http://identifiers.org/uniprot/A2QM49"/>
+                  <rdf:li rdf:resource="http://identifiers.org/uniprot/Q84KL5"/>
+                  <rdf:li rdf:resource="http://identifiers.org/uniprot/O23118"/>
+                  <rdf:li rdf:resource="http://identifiers.org/uniprot/O64404"/>
+                  <rdf:li rdf:resource="http://identifiers.org/uniprot/O64405"/>
+                  <rdf:li rdf:resource="http://identifiers.org/uniprot/Q675L6"/>
+                  <rdf:li rdf:resource="http://identifiers.org/uniprot/Q4QSN4"/>
+                  <rdf:li rdf:resource="http://identifiers.org/uniprot/P85964"/>
+                  <rdf:li rdf:resource="http://identifiers.org/uniprot/O81086"/>
+                  <rdf:li rdf:resource="http://identifiers.org/uniprot/A0A097ZPE3"/>
+                  <rdf:li rdf:resource="http://identifiers.org/uniprot/Q675K8"/>
+                  <rdf:li rdf:resource="http://identifiers.org/uniprot/P32378"/>
+                  <rdf:li rdf:resource="http://identifiers.org/uniprot/Q675L0"/>
+                  <rdf:li rdf:resource="http://identifiers.org/uniprot/A8NE23"/>
+                  <rdf:li rdf:resource="http://identifiers.org/uniprot/Q8GUE4"/>
+                  <rdf:li rdf:resource="http://identifiers.org/uniprot/Q9C448"/>
+                  <rdf:li rdf:resource="http://identifiers.org/uniprot/Q10252"/>
+                  <rdf:li rdf:resource="http://identifiers.org/uniprot/Q7S4Z6"/>
+                  <rdf:li rdf:resource="http://identifiers.org/uniprot/Q4P0S6"/>
+                  <rdf:li rdf:resource="http://identifiers.org/uniprot/E6ZZ11"/>
+                  <rdf:li rdf:resource="http://identifiers.org/uniprot/D8SAZ5"/>
+                  <rdf:li rdf:resource="http://identifiers.org/uniprot/G1DGI7"/>
+                  <rdf:li rdf:resource="http://identifiers.org/uniprot/D8RLD3"/>
+                  <rdf:li rdf:resource="http://identifiers.org/uniprot/Q9UUQ6"/>
+                  <rdf:li rdf:resource="http://identifiers.org/uniprot/Q7Z859"/>
+                  <rdf:li rdf:resource="http://identifiers.org/uniprot/Q67GH9"/>
+                  <rdf:li rdf:resource="http://identifiers.org/uniprot/Q9HGZ6"/>
+                  <rdf:li rdf:resource="http://identifiers.org/uniprot/P11491"/>
+                  <rdf:li rdf:resource="http://identifiers.org/uniprot/D8RNZ9"/>
+                  <rdf:li rdf:resource="http://identifiers.org/uniprot/Q9P854"/>
+                  <rdf:li rdf:resource="http://identifiers.org/uniprot/O34707"/>
+                  <rdf:li rdf:resource="http://identifiers.org/uniprot/Q9Y753"/>
+                  <rdf:li rdf:resource="http://identifiers.org/uniprot/Q752X9"/>
+                  <rdf:li rdf:resource="http://identifiers.org/uniprot/P78589"/>
+                  <rdf:li rdf:resource="http://identifiers.org/uniprot/P39582"/>
+                  <rdf:li rdf:resource="http://identifiers.org/uniprot/P29704"/>
+                  <rdf:li rdf:resource="http://identifiers.org/uniprot/Q92459"/>
+                  <rdf:li rdf:resource="http://identifiers.org/uniprot/O74165"/>
+                  <rdf:li rdf:resource="http://identifiers.org/uniprot/Q9X839"/>
+                  <rdf:li rdf:resource="http://identifiers.org/uniprot/P9WIP2"/>
+                  <rdf:li rdf:resource="http://identifiers.org/uniprot/P65651"/>
+                  <rdf:li rdf:resource="http://identifiers.org/uniprot/P36596"/>
+                  <rdf:li rdf:resource="http://identifiers.org/uniprot/P9WIP3"/>
+                  <rdf:li rdf:resource="http://identifiers.org/uniprot/A1JHN0"/>
+                  <rdf:li rdf:resource="http://identifiers.org/uniprot/Q9ACU1"/>
+                  <rdf:li rdf:resource="http://identifiers.org/uniprot/Q99R75"/>
+                  <rdf:li rdf:resource="http://identifiers.org/uniprot/Q8NUQ5"/>
+                  <rdf:li rdf:resource="http://identifiers.org/uniprot/Q7A3E1"/>
+                  <rdf:li rdf:resource="http://identifiers.org/uniprot/Q6G6B2"/>
+                  <rdf:li rdf:resource="http://identifiers.org/uniprot/Q5HCY8"/>
+                  <rdf:li rdf:resource="http://identifiers.org/uniprot/Q2FDU5"/>
+                  <rdf:li rdf:resource="http://identifiers.org/uniprot/O07854"/>
+                  <rdf:li rdf:resource="http://identifiers.org/uniprot/Q55500"/>
+                  <rdf:li rdf:resource="http://identifiers.org/uniprot/Q2FV59"/>
+                  <rdf:li rdf:resource="http://identifiers.org/uniprot/Q9K498"/>
+                  <rdf:li rdf:resource="http://identifiers.org/uniprot/O07134"/>
+                  <rdf:li rdf:resource="http://identifiers.org/uniprot/W0LV34"/>
+                  <rdf:li rdf:resource="http://identifiers.org/uniprot/Q54U71"/>
+                  <rdf:li rdf:resource="http://identifiers.org/uniprot/Q4L976"/>
+                  <rdf:li rdf:resource="http://identifiers.org/uniprot/Q2YWE7"/>
+                  <rdf:li rdf:resource="http://identifiers.org/uniprot/O07333"/>
+                  <rdf:li rdf:resource="http://identifiers.org/uniprot/P37294"/>
+                  <rdf:li rdf:resource="http://identifiers.org/uniprot/P37269"/>
+                  <rdf:li rdf:resource="http://identifiers.org/uniprot/Q2L6E3"/>
+                  <rdf:li rdf:resource="http://identifiers.org/uniprot/P55350"/>
+                  <rdf:li rdf:resource="http://identifiers.org/uniprot/A9JQL9"/>
+                  <rdf:li rdf:resource="http://identifiers.org/uniprot/P26170"/>
+                  <rdf:li rdf:resource="http://identifiers.org/uniprot/Q9SDW9"/>
+                  <rdf:li rdf:resource="http://identifiers.org/uniprot/Q88C65"/>
+                  <rdf:li rdf:resource="http://identifiers.org/uniprot/P54975"/>
+                  <rdf:li rdf:resource="http://identifiers.org/uniprot/G0Y286"/>
+                  <rdf:li rdf:resource="http://identifiers.org/uniprot/Q54DR1"/>
+                  <rdf:li rdf:resource="http://identifiers.org/uniprot/P44739"/>
+                  <rdf:li rdf:resource="http://identifiers.org/uniprot/Q971A3"/>
+                  <rdf:li rdf:resource="http://identifiers.org/uniprot/Q4J8K2"/>
+                  <rdf:li rdf:resource="http://identifiers.org/uniprot/A8A9J7"/>
+                  <rdf:li rdf:resource="http://identifiers.org/uniprot/A4YI21"/>
+                  <rdf:li rdf:resource="http://identifiers.org/uniprot/A2BIU7"/>
+                  <rdf:li rdf:resource="http://identifiers.org/uniprot/A1S066"/>
+                  <rdf:li rdf:resource="http://identifiers.org/uniprot/Q9UWY6"/>
+                  <rdf:li rdf:resource="http://identifiers.org/uniprot/Q9V2P5"/>
+                  <rdf:li rdf:resource="http://identifiers.org/uniprot/Q9HRP0"/>
+                  <rdf:li rdf:resource="http://identifiers.org/uniprot/Q8TZM7"/>
+                  <rdf:li rdf:resource="http://identifiers.org/uniprot/Q8TWS9"/>
+                  <rdf:li rdf:resource="http://identifiers.org/uniprot/Q8TS44"/>
+                  <rdf:li rdf:resource="http://identifiers.org/uniprot/Q8PV96"/>
+                  <rdf:li rdf:resource="http://identifiers.org/uniprot/Q6LWN2"/>
+                  <rdf:li rdf:resource="http://identifiers.org/uniprot/Q5JDN5"/>
+                  <rdf:li rdf:resource="http://identifiers.org/uniprot/Q57727"/>
+                  <rdf:li rdf:resource="http://identifiers.org/uniprot/Q46BD9"/>
+                  <rdf:li rdf:resource="http://identifiers.org/uniprot/Q3INH7"/>
+                  <rdf:li rdf:resource="http://identifiers.org/uniprot/Q2NGM1"/>
+                  <rdf:li rdf:resource="http://identifiers.org/uniprot/Q2FN44"/>
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+                  <brsynth:units value="milimole / gDW / hour"/>
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+                  <brsynth:units value="kilojoule / mole"/>
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+                  <brsynth:units value="kilojoule / mole"/>
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+                  <brsynth:units value="kilojoule / mole"/>
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+                  <brsynth:units value="kilojoule / mole"/>
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+            </rdf:BRSynth>
+          </rdf:RDF>
+        </annotation>
+        <listOfReactants>
+          <speciesReference species="CMPD_0000000003" stoichiometry="1" constant="true"/>
+        </listOfReactants>
+        <listOfProducts>
+          <speciesReference species="CMPD_0000000001" stoichiometry="1" constant="true"/>
+          <speciesReference species="MNXM11" stoichiometry="2" constant="true"/>
+        </listOfProducts>
+      </reaction>
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+        <annotation>
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+                  <rdf:li rdf:resource="http://identifiers.org/uniprot/C7E5V9"/>
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+                  <rdf:li rdf:resource="http://identifiers.org/uniprot/Q675L3"/>
+                  <rdf:li rdf:resource="http://identifiers.org/uniprot/Q675L1"/>
+                  <rdf:li rdf:resource="http://identifiers.org/uniprot/Q675K9"/>
+                  <rdf:li rdf:resource="http://identifiers.org/uniprot/Q67GH9"/>
+                  <rdf:li rdf:resource="http://identifiers.org/uniprot/O24474"/>
+                  <rdf:li rdf:resource="http://identifiers.org/uniprot/Q8VWZ7"/>
+                  <rdf:li rdf:resource="http://identifiers.org/uniprot/G5CN54"/>
+                  <rdf:li rdf:resource="http://identifiers.org/uniprot/O48935"/>
+                  <rdf:li rdf:resource="http://identifiers.org/uniprot/B8B6G5"/>
+                  <rdf:li rdf:resource="http://identifiers.org/uniprot/A2XWN6"/>
+                  <rdf:li rdf:resource="http://identifiers.org/uniprot/Q7XUH5"/>
+                  <rdf:li rdf:resource="http://identifiers.org/uniprot/Q7F0Q2"/>
+                  <rdf:li rdf:resource="http://identifiers.org/uniprot/Q9P854"/>
+                  <rdf:li rdf:resource="http://identifiers.org/uniprot/Q94JS8"/>
+                  <rdf:li rdf:resource="http://identifiers.org/uniprot/P53800"/>
+                  <rdf:li rdf:resource="http://identifiers.org/uniprot/D1MI46"/>
+                  <rdf:li rdf:resource="http://identifiers.org/uniprot/Q2KNL6"/>
+                  <rdf:li rdf:resource="http://identifiers.org/uniprot/Q2KNL5"/>
+                  <rdf:li rdf:resource="http://identifiers.org/uniprot/Q9HNE5"/>
+                  <rdf:li rdf:resource="http://identifiers.org/uniprot/Q9CAH5"/>
+                  <rdf:li rdf:resource="http://identifiers.org/uniprot/B0R753"/>
+                  <rdf:li rdf:resource="http://identifiers.org/uniprot/Q9SI62"/>
+                  <rdf:li rdf:resource="http://identifiers.org/uniprot/O23118"/>
+                  <rdf:li rdf:resource="http://identifiers.org/uniprot/P74334"/>
+                  <rdf:li rdf:resource="http://identifiers.org/uniprot/O48666"/>
+                  <rdf:li rdf:resource="http://identifiers.org/uniprot/P53799"/>
+                  <rdf:li rdf:resource="http://identifiers.org/uniprot/Q55276"/>
+                  <rdf:li rdf:resource="http://identifiers.org/uniprot/P11491"/>
+                  <rdf:li rdf:resource="http://identifiers.org/uniprot/B2NI93"/>
+                  <rdf:li rdf:resource="http://identifiers.org/uniprot/Q84LB2"/>
+                  <rdf:li rdf:resource="http://identifiers.org/uniprot/B9RXW0"/>
+                  <rdf:li rdf:resource="http://identifiers.org/uniprot/Q1PID4"/>
+                  <rdf:li rdf:resource="http://identifiers.org/uniprot/O65727"/>
+                  <rdf:li rdf:resource="http://identifiers.org/uniprot/O65726"/>
+                  <rdf:li rdf:resource="http://identifiers.org/uniprot/O65404"/>
+                  <rdf:li rdf:resource="http://identifiers.org/uniprot/O65403"/>
+                  <rdf:li rdf:resource="http://identifiers.org/uniprot/O65402"/>
+                  <rdf:li rdf:resource="http://identifiers.org/uniprot/O48651"/>
+                  <rdf:li rdf:resource="http://identifiers.org/uniprot/Q9SM02"/>
+                  <rdf:li rdf:resource="http://identifiers.org/uniprot/Q8VYH2"/>
+                  <rdf:li rdf:resource="http://identifiers.org/uniprot/O81000"/>
+                  <rdf:li rdf:resource="http://identifiers.org/uniprot/Q83YH3"/>
+                  <rdf:li rdf:resource="http://identifiers.org/uniprot/Q66PX9"/>
+                  <rdf:li rdf:resource="http://identifiers.org/uniprot/P0CJ43"/>
+                  <rdf:li rdf:resource="http://identifiers.org/uniprot/A4FVP2"/>
+                  <rdf:li rdf:resource="http://identifiers.org/uniprot/P21688"/>
+                  <rdf:li rdf:resource="http://identifiers.org/uniprot/B2KSJ6"/>
+                  <rdf:li rdf:resource="http://identifiers.org/uniprot/P17055"/>
+                  <rdf:li rdf:resource="http://identifiers.org/uniprot/P33247"/>
+                  <rdf:li rdf:resource="http://identifiers.org/uniprot/Q4PNI0"/>
+                  <rdf:li rdf:resource="http://identifiers.org/uniprot/Q7S4Z6"/>
+                  <rdf:li rdf:resource="http://identifiers.org/uniprot/G5CKL3"/>
+                  <rdf:li rdf:resource="http://identifiers.org/uniprot/H2E7T6"/>
+                  <rdf:li rdf:resource="http://identifiers.org/uniprot/H2E7T5"/>
+                  <rdf:li rdf:resource="http://identifiers.org/uniprot/A8R7G4"/>
+                  <rdf:li rdf:resource="http://identifiers.org/uniprot/Q675L0"/>
+                  <rdf:li rdf:resource="http://identifiers.org/uniprot/Q17428"/>
+                  <rdf:li rdf:resource="http://identifiers.org/uniprot/A8X8R3"/>
+                  <rdf:li rdf:resource="http://identifiers.org/uniprot/A4XES9"/>
+                  <rdf:li rdf:resource="http://identifiers.org/uniprot/Q9HGZ6"/>
+                  <rdf:li rdf:resource="http://identifiers.org/uniprot/Q83YH7"/>
+                  <rdf:li rdf:resource="http://identifiers.org/uniprot/B3Y522"/>
+                  <rdf:li rdf:resource="http://identifiers.org/uniprot/P40526"/>
+                  <rdf:li rdf:resource="http://identifiers.org/uniprot/Q4VKV0"/>
+                  <rdf:li rdf:resource="http://identifiers.org/uniprot/Q9Y753"/>
+                  <rdf:li rdf:resource="http://identifiers.org/uniprot/Q752X9"/>
+                  <rdf:li rdf:resource="http://identifiers.org/uniprot/P78589"/>
+                  <rdf:li rdf:resource="http://identifiers.org/uniprot/P95618"/>
+                  <rdf:li rdf:resource="http://identifiers.org/uniprot/P29704"/>
+                  <rdf:li rdf:resource="http://identifiers.org/uniprot/Q53590"/>
+                  <rdf:li rdf:resource="http://identifiers.org/uniprot/E1XUJ2"/>
+                  <rdf:li rdf:resource="http://identifiers.org/uniprot/P19638"/>
+                  <rdf:li rdf:resource="http://identifiers.org/uniprot/Q84KL5"/>
+                  <rdf:li rdf:resource="http://identifiers.org/uniprot/Q92459"/>
+                  <rdf:li rdf:resource="http://identifiers.org/uniprot/O74165"/>
+                  <rdf:li rdf:resource="http://identifiers.org/uniprot/P36596"/>
+                  <rdf:li rdf:resource="http://identifiers.org/uniprot/Q92206"/>
+                  <rdf:li rdf:resource="http://identifiers.org/uniprot/O13306"/>
+                  <rdf:li rdf:resource="http://identifiers.org/uniprot/P21687"/>
+                  <rdf:li rdf:resource="http://identifiers.org/uniprot/Q675K8"/>
+                  <rdf:li rdf:resource="http://identifiers.org/uniprot/Q9LSF8"/>
+                  <rdf:li rdf:resource="http://identifiers.org/uniprot/Q8NUQ3"/>
+                  <rdf:li rdf:resource="http://identifiers.org/uniprot/Q6GDN5"/>
+                  <rdf:li rdf:resource="http://identifiers.org/uniprot/Q6G6B0"/>
+                  <rdf:li rdf:resource="http://identifiers.org/uniprot/Q5HCY6"/>
+                  <rdf:li rdf:resource="http://identifiers.org/uniprot/Q53589"/>
+                  <rdf:li rdf:resource="http://identifiers.org/uniprot/Q2FDU3"/>
+                  <rdf:li rdf:resource="http://identifiers.org/uniprot/Q99R73"/>
+                  <rdf:li rdf:resource="http://identifiers.org/uniprot/Q7A3D9"/>
+                  <rdf:li rdf:resource="http://identifiers.org/uniprot/Q2FV57"/>
+                  <rdf:li rdf:resource="http://identifiers.org/uniprot/Q75F69"/>
+                  <rdf:li rdf:resource="http://identifiers.org/uniprot/P32476"/>
+                  <rdf:li rdf:resource="http://identifiers.org/uniprot/Q05888"/>
+                  <rdf:li rdf:resource="http://identifiers.org/uniprot/Q4L978"/>
+                  <rdf:li rdf:resource="http://identifiers.org/uniprot/Q2YWE5"/>
+                  <rdf:li rdf:resource="http://identifiers.org/uniprot/Q9C1W3"/>
+                  <rdf:li rdf:resource="http://identifiers.org/uniprot/Q9K498"/>
+                  <rdf:li rdf:resource="http://identifiers.org/uniprot/Q9SDW9"/>
+                  <rdf:li rdf:resource="http://identifiers.org/uniprot/G0Y287"/>
+                  <rdf:li rdf:resource="http://identifiers.org/uniprot/H1ZV37"/>
+                  <rdf:li rdf:resource="http://identifiers.org/uniprot/P55348"/>
+                  <rdf:li rdf:resource="http://identifiers.org/uniprot/Q54DR1"/>
+                  <rdf:li rdf:resource="http://identifiers.org/uniprot/A5A545"/>
+                  <rdf:li rdf:resource="http://identifiers.org/uniprot/P33990"/>
+                  <rdf:li rdf:resource="http://identifiers.org/uniprot/B3QHC3"/>
+                  <rdf:li rdf:resource="http://identifiers.org/uniprot/P54924"/>
+                  <rdf:li rdf:resource="http://identifiers.org/uniprot/Q4VKU9"/>
+                  <rdf:li rdf:resource="http://identifiers.org/uniprot/P95619"/>
+                  <rdf:li rdf:resource="http://identifiers.org/uniprot/H1ZV38"/>
+                  <rdf:li rdf:resource="http://identifiers.org/uniprot/Q9SSU8"/>
+                  <rdf:li rdf:resource="http://identifiers.org/uniprot/Q603D5"/>
+                  <rdf:li rdf:resource="http://identifiers.org/uniprot/P49085"/>
+                  <rdf:li rdf:resource="http://identifiers.org/uniprot/P17059"/>
+                  <rdf:li rdf:resource="http://identifiers.org/uniprot/P37273"/>
+                  <rdf:li rdf:resource="http://identifiers.org/uniprot/P08196"/>
+                  <rdf:li rdf:resource="http://identifiers.org/uniprot/P37272"/>
+                  <rdf:li rdf:resource="http://identifiers.org/uniprot/P49293"/>
+                  <rdf:li rdf:resource="http://identifiers.org/uniprot/P37271"/>
+                  <rdf:li rdf:resource="http://identifiers.org/uniprot/Q01670"/>
+                  <rdf:li rdf:resource="http://identifiers.org/uniprot/P17058"/>
+                  <rdf:li rdf:resource="http://identifiers.org/uniprot/P0AFP4"/>
+                  <rdf:li rdf:resource="http://identifiers.org/uniprot/Q38932"/>
+                  <rdf:li rdf:resource="http://identifiers.org/uniprot/Q52QW5"/>
+                  <rdf:li rdf:resource="http://identifiers.org/uniprot/Q46856"/>
+                  <rdf:li rdf:resource="http://identifiers.org/uniprot/P75691"/>
+                  <rdf:li rdf:resource="http://identifiers.org/uniprot/P27250"/>
+                  <rdf:li rdf:resource="http://identifiers.org/uniprot/P0CY89"/>
+                  <rdf:li rdf:resource="http://identifiers.org/uniprot/P53797"/>
+                  <rdf:li rdf:resource="http://identifiers.org/uniprot/Q7X3G5"/>
+                  <rdf:li rdf:resource="http://identifiers.org/uniprot/P54906"/>
+                  <rdf:li rdf:resource="http://identifiers.org/uniprot/D5AP78"/>
+                  <rdf:li rdf:resource="http://identifiers.org/uniprot/Q70YP8"/>
+                  <rdf:li rdf:resource="http://identifiers.org/uniprot/Q9JPB5"/>
+                  <rdf:li rdf:resource="http://identifiers.org/uniprot/Q01671"/>
+                  <rdf:li rdf:resource="http://identifiers.org/uniprot/Q9ACU1"/>
+                  <rdf:li rdf:resource="http://identifiers.org/uniprot/Q99R75"/>
+                  <rdf:li rdf:resource="http://identifiers.org/uniprot/Q8NUQ5"/>
+                  <rdf:li rdf:resource="http://identifiers.org/uniprot/Q7A3E1"/>
+                  <rdf:li rdf:resource="http://identifiers.org/uniprot/Q6G6B2"/>
+                  <rdf:li rdf:resource="http://identifiers.org/uniprot/Q5HCY8"/>
+                  <rdf:li rdf:resource="http://identifiers.org/uniprot/Q2FDU5"/>
+                  <rdf:li rdf:resource="http://identifiers.org/uniprot/O07854"/>
+                  <rdf:li rdf:resource="http://identifiers.org/uniprot/Q2FV59"/>
+                  <rdf:li rdf:resource="http://identifiers.org/uniprot/Q4L976"/>
+                  <rdf:li rdf:resource="http://identifiers.org/uniprot/Q2YWE7"/>
+                  <rdf:li rdf:resource="http://identifiers.org/uniprot/O07333"/>
+                  <rdf:li rdf:resource="http://identifiers.org/uniprot/P37294"/>
+                  <rdf:li rdf:resource="http://identifiers.org/uniprot/P37269"/>
+                  <rdf:li rdf:resource="http://identifiers.org/uniprot/P55350"/>
+                  <rdf:li rdf:resource="http://identifiers.org/uniprot/A9JQL9"/>
+                  <rdf:li rdf:resource="http://identifiers.org/uniprot/Q50892"/>
+                  <rdf:li rdf:resource="http://identifiers.org/uniprot/Q2VEX9"/>
+                  <rdf:li rdf:resource="http://identifiers.org/uniprot/P17056"/>
+                  <rdf:li rdf:resource="http://identifiers.org/uniprot/Q99R76"/>
+                  <rdf:li rdf:resource="http://identifiers.org/uniprot/Q8NUQ6"/>
+                  <rdf:li rdf:resource="http://identifiers.org/uniprot/Q6GDN7"/>
+                  <rdf:li rdf:resource="http://identifiers.org/uniprot/Q6G6B3"/>
+                  <rdf:li rdf:resource="http://identifiers.org/uniprot/Q5HCY9"/>
+                  <rdf:li rdf:resource="http://identifiers.org/uniprot/Q2FV60"/>
+                  <rdf:li rdf:resource="http://identifiers.org/uniprot/Q2FDU6"/>
+                  <rdf:li rdf:resource="http://identifiers.org/uniprot/Q7A3E2"/>
+                  <rdf:li rdf:resource="http://identifiers.org/uniprot/O07855"/>
+                  <rdf:li rdf:resource="http://identifiers.org/uniprot/Q9ZTP4"/>
+                  <rdf:li rdf:resource="http://identifiers.org/uniprot/Q9SE20"/>
+                  <rdf:li rdf:resource="http://identifiers.org/uniprot/Q9FV46"/>
+                  <rdf:li rdf:resource="http://identifiers.org/uniprot/Q8S4R4"/>
+                  <rdf:li rdf:resource="http://identifiers.org/uniprot/B4FHU1"/>
+                  <rdf:li rdf:resource="http://identifiers.org/uniprot/P54975"/>
+                  <rdf:li rdf:resource="http://identifiers.org/uniprot/Q4L975"/>
+                  <rdf:li rdf:resource="http://identifiers.org/uniprot/Q2YWE8"/>
+                  <rdf:li rdf:resource="http://identifiers.org/uniprot/Q9SMJ3"/>
+                  <rdf:li rdf:resource="http://identifiers.org/uniprot/P80093"/>
+                  <rdf:li rdf:resource="http://identifiers.org/uniprot/Q9M9Y8"/>
+                  <rdf:li rdf:resource="http://identifiers.org/uniprot/Q9SAC0"/>
+                  <rdf:li rdf:resource="http://identifiers.org/uniprot/Q38893"/>
+                  <rdf:li rdf:resource="http://identifiers.org/uniprot/Q07356"/>
+                  <rdf:li rdf:resource="http://identifiers.org/uniprot/C3VEQ0"/>
+                  <rdf:li rdf:resource="http://identifiers.org/uniprot/C3VEP9"/>
+                  <rdf:li rdf:resource="http://identifiers.org/uniprot/Q52QW3"/>
+                  <rdf:li rdf:resource="http://identifiers.org/uniprot/Q52QW2"/>
+                  <rdf:li rdf:resource="http://identifiers.org/uniprot/D5KXJ0"/>
+                  <rdf:li rdf:resource="http://identifiers.org/uniprot/P21683"/>
+                  <rdf:li rdf:resource="http://identifiers.org/uniprot/G3G010"/>
+                  <rdf:li rdf:resource="http://identifiers.org/uniprot/O49901"/>
+                  <rdf:li rdf:resource="http://identifiers.org/uniprot/P21334"/>
+                  <rdf:li rdf:resource="http://identifiers.org/uniprot/Q4VKV1"/>
+                  <rdf:li rdf:resource="http://identifiers.org/uniprot/B1XHV0"/>
+                  <rdf:li rdf:resource="http://identifiers.org/uniprot/P48537"/>
+                  <rdf:li rdf:resource="http://identifiers.org/uniprot/P54982"/>
+                  <rdf:li rdf:resource="http://identifiers.org/uniprot/Q31N27"/>
+                  <rdf:li rdf:resource="http://identifiers.org/uniprot/P74306"/>
+                  <rdf:li rdf:resource="http://identifiers.org/uniprot/P26294"/>
+                  <rdf:li rdf:resource="http://identifiers.org/uniprot/Q9R6X4"/>
+                  <rdf:li rdf:resource="http://identifiers.org/uniprot/Q02861"/>
+                  <rdf:li rdf:resource="http://identifiers.org/uniprot/P54979"/>
+                  <rdf:li rdf:resource="http://identifiers.org/uniprot/Q9JP98"/>
+                  <rdf:li rdf:resource="http://identifiers.org/uniprot/P54980"/>
+                  <rdf:li rdf:resource="http://identifiers.org/uniprot/P17054"/>
+                  <rdf:li rdf:resource="http://identifiers.org/uniprot/P54978"/>
+                  <rdf:li rdf:resource="http://identifiers.org/uniprot/P21685"/>
+                  <rdf:li rdf:resource="http://identifiers.org/uniprot/P22871"/>
+                  <rdf:li rdf:resource="http://identifiers.org/ec-code/1.3.99.31"/>
+                </rdf:Bag>
+              </bqbiol:is>
+            </rdf:Description>
+            <rdf:BRSynth rdf:about="#_376841fa42ba139764a5509b9d817e2e540d0e228582c970025c73ae1ee77c0d">
+              <brsynth:brsynth xmlns:brsynth="http://brsynth.eu">
+                <brsynth:smiles value="[H]C(=C([H])C([H])=C(C([H])([H])[H])C([H])([H])C([H])([H])C([H])=C(C([H])([H])[H])C([H])([H])C([H])([H])C([H])=C(C([H])([H])[H])C([H])([H])C([H])([H])C([H])=C(C([H])([H])[H])C([H])([H])[H])C([H])=C(C([H])([H])[H])C([H])([H])C([H])([H])C([H])=C(C([H])([H])[H])C([H])([H])C([H])([H])C([H])=C(C([H])([H])[H])C([H])([H])C([H])([H])C([H])=C(C([H])([H])[H])C([H])([H])[H]&gt;&gt;[H]C(=C([H])C([H])=C(C([H])=C([H])C([H])=C(C([H])=C([H])C([H])=C(C([H])([H])[H])C([H])([H])C([H])([H])C([H])=C(C([H])([H])[H])C([H])([H])[H])C([H])([H])[H])C([H])([H])[H])C([H])=C(C([H])=C([H])C([H])=C(C([H])=C([H])C([H])=C(C([H])([H])[H])C([H])([H])C([H])([H])C([H])=C(C([H])([H])[H])C([H])([H])[H])C([H])([H])[H])C([H])([H])[H]"/>
+                <brsynth:rp2_transfo_id value="TRS_0_0_1"/>
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+                  <brsynth:RR-02-ae41ec5771136ea5-14-F/>
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+                <brsynth:tmpl_rxn_ids>
+                  <brsynth:MNXR125832/>
+                </brsynth:tmpl_rxn_ids>
+                <brsynth:rule_score value="0.7358363677022237"/>
+                <brsynth:idx_in_path value="3"/>
+                <brsynth:selenzy_P22871>
+                  <brsynth:score value="85.62"/>
+                  <brsynth:target_ID value="566"/>
+                </brsynth:selenzy_P22871>
+                <brsynth:selenzy_P21685>
+                  <brsynth:score value="81.82"/>
+                  <brsynth:target_ID value="553"/>
+                </brsynth:selenzy_P21685>
+                <brsynth:selenzy_P54978>
+                  <brsynth:score value="77.62"/>
+                  <brsynth:target_ID value="81397"/>
+                </brsynth:selenzy_P54978>
+                <brsynth:selenzy_P17054>
+                  <brsynth:score value="76.82"/>
+                  <brsynth:target_ID value="272942"/>
+                </brsynth:selenzy_P17054>
+                <brsynth:selenzy_P54980>
+                  <brsynth:score value="76.62"/>
+                  <brsynth:target_ID value="272943"/>
+                </brsynth:selenzy_P54980>
+                <brsynth:selenzy_Q9JP98>
+                  <brsynth:score value="76.52"/>
+                  <brsynth:target_ID value="28068"/>
+                </brsynth:selenzy_Q9JP98>
+                <brsynth:selenzy_P54979>
+                  <brsynth:score value="75.82"/>
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+                </brsynth:selenzy_Q9HAY6>
+                <brsynth:selenzy_Q9JJS6>
+                  <brsynth:score value="-8.135"/>
+                  <brsynth:target_ID value="10090"/>
+                </brsynth:selenzy_Q9JJS6>
+                <brsynth:selenzy_Q62148>
+                  <brsynth:score value="-8.138"/>
+                  <brsynth:target_ID value="10090"/>
+                </brsynth:selenzy_Q62148>
+                <brsynth:selenzy_Q8HYE4>
+                  <brsynth:score value="-8.138"/>
+                  <brsynth:target_ID value="9541"/>
+                </brsynth:selenzy_Q8HYE4>
+                <brsynth:selenzy_O75907>
+                  <brsynth:score value="-8.441"/>
+                  <brsynth:target_ID value="9606"/>
+                </brsynth:selenzy_O75907>
+                <brsynth:selenzy_P16233>
+                  <brsynth:score value="-8.441"/>
+                  <brsynth:target_ID value="9606"/>
+                </brsynth:selenzy_P16233>
+                <brsynth:selenzy_Q6E213>
+                  <brsynth:score value="-8.441"/>
+                  <brsynth:target_ID value="9606"/>
+                </brsynth:selenzy_Q6E213>
+                <brsynth:selenzy_Q96PD7>
+                  <brsynth:score value="-8.441"/>
+                  <brsynth:target_ID value="9606"/>
+                </brsynth:selenzy_Q96PD7>
+                <brsynth:selenzy_Q9DCV3>
+                  <brsynth:score value="-8.441"/>
+                  <brsynth:target_ID value="10090"/>
+                </brsynth:selenzy_Q9DCV3>
+                <brsynth:selenzy_Q9Z2A7>
+                  <brsynth:score value="-8.441"/>
+                  <brsynth:target_ID value="10090"/>
+                </brsynth:selenzy_Q9Z2A7>
+                <brsynth:selenzy_Q9VFS2>
+                  <brsynth:score value="-8.482"/>
+                  <brsynth:target_ID value="7227"/>
+                </brsynth:selenzy_Q9VFS2>
+                <brsynth:selenzy_Q6E1M8>
+                  <brsynth:score value="-8.541"/>
+                  <brsynth:target_ID value="10090"/>
+                </brsynth:selenzy_Q6E1M8>
+                <brsynth:selenzy_Q9GMF1>
+                  <brsynth:score value="-8.541"/>
+                  <brsynth:target_ID value="9534"/>
+                </brsynth:selenzy_Q9GMF1>
+                <brsynth:selenzy_Q9NKW9>
+                  <brsynth:score value="-8.582"/>
+                  <brsynth:target_ID value="7227"/>
+                </brsynth:selenzy_Q9NKW9>
+                <brsynth:selenzy_P11712>
+                  <brsynth:score value="-8.823"/>
+                  <brsynth:target_ID value="9606"/>
+                </brsynth:selenzy_P11712>
+                <brsynth:selenzy_P33261>
+                  <brsynth:score value="-8.823"/>
+                  <brsynth:target_ID value="9606"/>
+                </brsynth:selenzy_P33261>
+                <brsynth:selenzy_O70276>
+                  <brsynth:score value="-8.926"/>
+                  <brsynth:target_ID value="10116"/>
+                </brsynth:selenzy_O70276>
+                <brsynth:selenzy_P23141>
+                  <brsynth:score value="-9.826"/>
+                  <brsynth:target_ID value="9606"/>
+                </brsynth:selenzy_P23141>
+                <brsynth:selenzy_Q16518>
+                  <brsynth:score value="-9.826"/>
+                  <brsynth:target_ID value="9606"/>
+                </brsynth:selenzy_Q16518>
+                <brsynth:selenzy_Q91ZQ5>
+                  <brsynth:score value="-9.826"/>
+                  <brsynth:target_ID value="10090"/>
+                </brsynth:selenzy_Q91ZQ5>
+                <brsynth:selenzy_Q9XT71>
+                  <brsynth:score value="-9.926"/>
+                  <brsynth:target_ID value="9534"/>
+                </brsynth:selenzy_Q9XT71>
+                <brsynth:selenzy_Q9I993>
+                  <brsynth:score value="-10.135"/>
+                  <brsynth:target_ID value="9031"/>
+                </brsynth:selenzy_Q9I993>
+                <brsynth:selenzy_O93344>
+                  <brsynth:score value="-10.138"/>
+                  <brsynth:target_ID value="9031"/>
+                </brsynth:selenzy_O93344>
+                <brsynth:selenzy_P27463>
+                  <brsynth:score value="-10.138"/>
+                  <brsynth:target_ID value="9031"/>
+                </brsynth:selenzy_P27463>
+                <brsynth:fba_biomass>
+                  <brsynth:value value="0.0"/>
+                  <brsynth:units value="gDW / gDW / hour"/>
+                </brsynth:fba_biomass>
+                <brsynth:fba_fraction>
+                  <brsynth:value value="0.4741875610167627"/>
+                  <brsynth:units value="milimole / gDW / hour"/>
+                </brsynth:fba_fraction>
+                <brsynth:thermo_dG0_prime>
+                  <brsynth:value value="162.18254376952495"/>
+                  <brsynth:error value="12.808033567928218"/>
+                  <brsynth:units value="kilojoule / mole"/>
+                </brsynth:thermo_dG0_prime>
+                <brsynth:thermo_dGm_prime>
+                  <brsynth:value value="162.18254376952495"/>
+                  <brsynth:error value="12.808033567928218"/>
+                  <brsynth:units value="kilojoule / mole"/>
+                </brsynth:thermo_dGm_prime>
+                <brsynth:thermo_dG_prime>
+                  <brsynth:value value="162.18254376952495"/>
+                  <brsynth:error value="12.808033567928218"/>
+                  <brsynth:units value="kilojoule / mole"/>
+                </brsynth:thermo_dG_prime>
+                <brsynth:thermo_dG>
+                  <brsynth:value value="-27.202610383152432"/>
+                  <brsynth:error value="12.808033567928218"/>
+                  <brsynth:units value="kilojoule / mole"/>
+                </brsynth:thermo_dG>
+              </brsynth:brsynth>
+            </rdf:BRSynth>
+          </rdf:RDF>
+        </annotation>
+        <listOfReactants>
+          <speciesReference species="CMPD_0000000001" stoichiometry="1" constant="true"/>
+          <speciesReference species="MNXM35" stoichiometry="4" constant="true"/>
+        </listOfReactants>
+        <listOfProducts>
+          <speciesReference species="MNXM24" stoichiometry="4" constant="true"/>
+          <speciesReference species="TARGET_0000000001" stoichiometry="1" constant="true"/>
+        </listOfProducts>
+      </reaction>
+    </listOfReactions>
+    <groups:listOfGroups>
+      <groups:group metaid="_93eef40c447d295fa61df9270c5fd909ec2ba7ee9883090552c0466873cd4299" groups:id="rp_pathway" groups:kind="collection">
+        <annotation>
+          <rdf:RDF xmlns:rdf="http://www.w3.org/1999/02/22-rdf-syntax-ns#" xmlns:bqbiol="http://biomodels.net/biology-qualifiers/">
+            <rdf:BRSynth rdf:about="#_93eef40c447d295fa61df9270c5fd909ec2ba7ee9883090552c0466873cd4299">
+              <brsynth:brsynth xmlns:brsynth="http://brsynth.eu">
+                <brsynth:fba_biomass>
+                  <brsynth:value value="0.8769972144269784"/>
+                  <brsynth:units value="gDW / gDW / hour"/>
+                </brsynth:fba_biomass>
+                <brsynth:fba_fraction>
+                  <brsynth:value value="0.4741875610167627"/>
+                  <brsynth:units value="milimole / gDW / hour"/>
+                </brsynth:fba_fraction>
+                <brsynth:thermo_dG0_prime>
+                  <brsynth:value value="-28.507609605022708"/>
+                  <brsynth:error value="19.469504383090346"/>
+                  <brsynth:units value="kilojoule / mole"/>
+                </brsynth:thermo_dG0_prime>
+                <brsynth:thermo_dGm_prime>
+                  <brsynth:value value="-62.737284674464775"/>
+                  <brsynth:error value="19.469504383090346"/>
+                  <brsynth:units value="kilojoule / mole"/>
+                </brsynth:thermo_dGm_prime>
+                <brsynth:thermo_dG_prime>
+                  <brsynth:value value="-28.507609605022708"/>
+                  <brsynth:error value="19.469504383090346"/>
+                  <brsynth:units value="kilojoule / mole"/>
+                </brsynth:thermo_dG_prime>
+                <brsynth:thermo_dG>
+                  <brsynth:value value="-1554.6728925721447"/>
+                  <brsynth:error value="19.469504383090346"/>
+                  <brsynth:units value="kilojoule / mole"/>
+                </brsynth:thermo_dG>
+                <brsynth:global_score value="0.9863117098808288"/>
+              </brsynth:brsynth>
+            </rdf:BRSynth>
+          </rdf:RDF>
+        </annotation>
+        <groups:listOfMembers>
+          <groups:member groups:idRef="rxn_1"/>
+          <groups:member groups:idRef="rxn_2"/>
+          <groups:member groups:idRef="rxn_3"/>
+        </groups:listOfMembers>
+      </groups:group>
+      <groups:group metaid="_613b064337553014ede418c67180137a4561ff11b13f3bfa1a2765ef37ac375a" groups:id="rp_intermediate_species" groups:kind="collection">
+        <annotation>
+          <rdf:RDF xmlns:rdf="http://www.w3.org/1999/02/22-rdf-syntax-ns#" xmlns:bqbiol="http://biomodels.net/biology-qualifiers/">
+            <rdf:BRSynth rdf:about="#_613b064337553014ede418c67180137a4561ff11b13f3bfa1a2765ef37ac375a">
+              <brsynth:brsynth xmlns:brsynth="http://brsynth.eu"/>
+            </rdf:BRSynth>
+          </rdf:RDF>
+        </annotation>
+        <groups:listOfMembers>
+          <groups:member groups:idRef="CMPD_0000000003"/>
+          <groups:member groups:idRef="CMPD_0000000001"/>
+        </groups:listOfMembers>
+      </groups:group>
+      <groups:group metaid="_564fce39b23c6cf87d12dc2c612448384fd2cd980fe3fc07829e2ef802645579" groups:id="rp_trunk_species" groups:kind="collection">
+        <annotation>
+          <rdf:RDF xmlns:rdf="http://www.w3.org/1999/02/22-rdf-syntax-ns#" xmlns:bqbiol="http://biomodels.net/biology-qualifiers/">
+            <rdf:BRSynth rdf:about="#_564fce39b23c6cf87d12dc2c612448384fd2cd980fe3fc07829e2ef802645579">
+              <brsynth:brsynth xmlns:brsynth="http://brsynth.eu"/>
+            </rdf:BRSynth>
+          </rdf:RDF>
+        </annotation>
+        <groups:listOfMembers>
+          <groups:member groups:idRef="MNXM34"/>
+          <groups:member groups:idRef="CMPD_0000000003"/>
+          <groups:member groups:idRef="TARGET_0000000001"/>
+          <groups:member groups:idRef="CMPD_0000000001"/>
+          <groups:member groups:idRef="MNXM83"/>
+        </groups:listOfMembers>
+      </groups:group>
+      <groups:group metaid="_9e3154173c97366b3980dd1642e1e35d0bdfc3274abc744e89ecb518bcd48378" groups:id="rp_completed_species" groups:kind="collection">
+        <annotation>
+          <rdf:RDF xmlns:rdf="http://www.w3.org/1999/02/22-rdf-syntax-ns#" xmlns:bqbiol="http://biomodels.net/biology-qualifiers/">
+            <rdf:BRSynth rdf:about="#_9e3154173c97366b3980dd1642e1e35d0bdfc3274abc744e89ecb518bcd48378">
+              <brsynth:brsynth xmlns:brsynth="http://brsynth.eu"/>
+            </rdf:BRSynth>
+          </rdf:RDF>
+        </annotation>
+        <groups:listOfMembers>
+          <groups:member groups:idRef="MNXM24"/>
+          <groups:member groups:idRef="MNXM11"/>
+          <groups:member groups:idRef="MNXM35"/>
+        </groups:listOfMembers>
+      </groups:group>
+      <groups:group metaid="_58b3b59284e0d918d6d3f3bcadc2d757726da7594cd899cad4e745836ac967a3" groups:id="rp_sink_species" groups:kind="collection">
+        <annotation>
+          <rdf:RDF xmlns:rdf="http://www.w3.org/1999/02/22-rdf-syntax-ns#" xmlns:bqbiol="http://biomodels.net/biology-qualifiers/">
+            <rdf:BRSynth rdf:about="#_58b3b59284e0d918d6d3f3bcadc2d757726da7594cd899cad4e745836ac967a3">
+              <brsynth:brsynth xmlns:brsynth="http://brsynth.eu"/>
+            </rdf:BRSynth>
+          </rdf:RDF>
+        </annotation>
+        <groups:listOfMembers>
+          <groups:member groups:idRef="MNXM34"/>
+          <groups:member groups:idRef="MNXM11"/>
+          <groups:member groups:idRef="MNXM83"/>
+        </groups:listOfMembers>
+      </groups:group>
+      <groups:group metaid="a0f48a6fe4f833a3d15abd7ee5b944b97d629570ac09588e9fb6fdf6196ab189" groups:id="rp_fba_ignored_species" groups:kind="collection">
+        <annotation>
+          <rdf:RDF xmlns:rdf="http://www.w3.org/1999/02/22-rdf-syntax-ns#" xmlns:bqbiol="http://biomodels.net/biology-qualifiers/">
+            <rdf:BRSynth rdf:about="#a0f48a6fe4f833a3d15abd7ee5b944b97d629570ac09588e9fb6fdf6196ab189">
+              <brsynth:brsynth xmlns:brsynth="http://brsynth.eu"/>
+            </rdf:BRSynth>
+          </rdf:RDF>
+        </annotation>
+        <groups:listOfMembers>
+          <groups:member groups:idRef="MNXM24"/>
+          <groups:member groups:idRef="MNXM35"/>
+        </groups:listOfMembers>
+      </groups:group>
+      <groups:group metaid="fb9b29ba20af773fed953f1d6726905a453f235c9a4baa7217f02760bc2057f8" groups:id="rp_thermo_substituted_species" groups:kind="collection">
+        <annotation>
+          <rdf:RDF xmlns:rdf="http://www.w3.org/1999/02/22-rdf-syntax-ns#" xmlns:bqbiol="http://biomodels.net/biology-qualifiers/">
+            <rdf:BRSynth rdf:about="#fb9b29ba20af773fed953f1d6726905a453f235c9a4baa7217f02760bc2057f8">
+              <brsynth:brsynth xmlns:brsynth="http://brsynth.eu"/>
+            </rdf:BRSynth>
+          </rdf:RDF>
+        </annotation>
+        <groups:listOfMembers>
+          <groups:member groups:idRef="MNXM24"/>
+          <groups:member groups:idRef="TARGET_0000000001"/>
+          <groups:member groups:idRef="MNXM35"/>
+        </groups:listOfMembers>
+      </groups:group>
+    </groups:listOfGroups>
+  </model>
+</sbml>