Mercurial > repos > iuc > gem_extract_exchange
diff test-data/textbook_model_cobrapy.xml @ 0:d9893d41dd6a draft default tip
planemo upload for repository https://github.com/AlmaasLab/elixir-galaxy-tools-systemsbiology commit 3f7bec1264a86e1488ee1315dbac0f44675f5171
| author | iuc |
|---|---|
| date | Fri, 13 Dec 2024 21:33:34 +0000 |
| parents | |
| children |
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--- /dev/null Thu Jan 01 00:00:00 1970 +0000 +++ b/test-data/textbook_model_cobrapy.xml Fri Dec 13 21:33:34 2024 +0000 @@ -0,0 +1,5467 @@ +<?xml version="1.0" encoding="UTF-8"?> +<sbml xmlns="http://www.sbml.org/sbml/level3/version1/core" xmlns:fbc="http://www.sbml.org/sbml/level3/version1/fbc/version2" metaid="meta_" sboTerm="SBO:0000624" level="3" version="1" fbc:required="false"> + <model metaid="meta_e_coli_core" id="e_coli_core" fbc:strict="true"> + <listOfUnitDefinitions> + <unitDefinition id="mmol_per_gDW_per_hr"> + <listOfUnits> + <unit kind="mole" exponent="1" scale="-3" multiplier="1"/> + <unit kind="gram" exponent="-1" scale="0" multiplier="1"/> + <unit kind="second" exponent="-1" scale="0" multiplier="3600"/> + </listOfUnits> + </unitDefinition> + </listOfUnitDefinitions> + <listOfCompartments> + <compartment id="c" name="cytosol" constant="true"/> + <compartment id="e" name="extracellular" constant="true"/> + </listOfCompartments> + <listOfSpecies> + <species 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<speciesReference species="M_nad_c" stoichiometry="1" constant="true"/> + </listOfReactants> + <listOfProducts> + <speciesReference species="M_accoa_c" stoichiometry="1" constant="true"/> + <speciesReference species="M_h_c" stoichiometry="1" constant="true"/> + <speciesReference species="M_nadh_c" stoichiometry="1" constant="true"/> + </listOfProducts> + <fbc:geneProductAssociation> + <fbc:or> + <fbc:geneProductRef fbc:geneProduct="G_b0351"/> + <fbc:geneProductRef fbc:geneProduct="G_b1241"/> + </fbc:or> + </fbc:geneProductAssociation> + </reaction> + <reaction metaid="meta_R_ACALDt" id="R_ACALDt" name="R acetaldehyde reversible - transport" reversible="true" fast="false" fbc:lowerFluxBound="cobra_default_lb" fbc:upperFluxBound="cobra_default_ub"> + <annotation> + <rdf:RDF xmlns:rdf="http://www.w3.org/1999/02/22-rdf-syntax-ns#" xmlns:dcterms="http://purl.org/dc/terms/" xmlns:vCard="http://www.w3.org/2001/vcard-rdf/3.0#" xmlns:vCard4="http://www.w3.org/2006/vcard/ns#" xmlns:bqbiol="http://biomodels.net/biology-qualifiers/" xmlns:bqmodel="http://biomodels.net/model-qualifiers/"> + <rdf:Description rdf:about="#meta_R_ACALDt"> + <bqbiol:is> + <rdf:Bag> + <rdf:li rdf:resource="https://identifiers.org/bigg.reaction/ACALDt"/> + </rdf:Bag> + </bqbiol:is> + </rdf:Description> + </rdf:RDF> + </annotation> + <listOfReactants> + <speciesReference species="M_acald_e" stoichiometry="1" constant="true"/> + </listOfReactants> + <listOfProducts> + <speciesReference species="M_acald_c" stoichiometry="1" constant="true"/> + </listOfProducts> + <fbc:geneProductAssociation> + <fbc:geneProductRef fbc:geneProduct="G_s0001"/> + </fbc:geneProductAssociation> + </reaction> + <reaction metaid="meta_R_ACKr" id="R_ACKr" name="acetate kinase" reversible="true" fast="false" fbc:lowerFluxBound="cobra_default_lb" fbc:upperFluxBound="cobra_default_ub"> + <annotation> + <rdf:RDF xmlns:rdf="http://www.w3.org/1999/02/22-rdf-syntax-ns#" xmlns:dcterms="http://purl.org/dc/terms/" xmlns:vCard="http://www.w3.org/2001/vcard-rdf/3.0#" xmlns:vCard4="http://www.w3.org/2006/vcard/ns#" xmlns:bqbiol="http://biomodels.net/biology-qualifiers/" xmlns:bqmodel="http://biomodels.net/model-qualifiers/"> + <rdf:Description rdf:about="#meta_R_ACKr"> + <bqbiol:is> + <rdf:Bag> + <rdf:li rdf:resource="https://identifiers.org/bigg.reaction/ACKr"/> + </rdf:Bag> + </bqbiol:is> + </rdf:Description> + </rdf:RDF> + </annotation> + <listOfReactants> + <speciesReference species="M_ac_c" stoichiometry="1" constant="true"/> + <speciesReference species="M_atp_c" stoichiometry="1" constant="true"/> + </listOfReactants> + <listOfProducts> + <speciesReference species="M_actp_c" stoichiometry="1" constant="true"/> + <speciesReference species="M_adp_c" stoichiometry="1" constant="true"/> + </listOfProducts> + <fbc:geneProductAssociation> + <fbc:or> + <fbc:geneProductRef fbc:geneProduct="G_b2296"/> + <fbc:geneProductRef fbc:geneProduct="G_b3115"/> + <fbc:geneProductRef fbc:geneProduct="G_b1849"/> + </fbc:or> + </fbc:geneProductAssociation> + </reaction> + <reaction metaid="meta_R_ACONTa" id="R_ACONTa" name="aconitase (half-reaction A, Citrate hydro-lyase)" reversible="true" fast="false" fbc:lowerFluxBound="cobra_default_lb" fbc:upperFluxBound="cobra_default_ub"> + <annotation> + <rdf:RDF xmlns:rdf="http://www.w3.org/1999/02/22-rdf-syntax-ns#" xmlns:dcterms="http://purl.org/dc/terms/" xmlns:vCard="http://www.w3.org/2001/vcard-rdf/3.0#" xmlns:vCard4="http://www.w3.org/2006/vcard/ns#" xmlns:bqbiol="http://biomodels.net/biology-qualifiers/" xmlns:bqmodel="http://biomodels.net/model-qualifiers/"> + <rdf:Description rdf:about="#meta_R_ACONTa"> + <bqbiol:is> + <rdf:Bag> + <rdf:li rdf:resource="https://identifiers.org/bigg.reaction/ACONTa"/> + </rdf:Bag> + </bqbiol:is> + </rdf:Description> + </rdf:RDF> + </annotation> + <listOfReactants> + <speciesReference species="M_cit_c" stoichiometry="1" constant="true"/> + </listOfReactants> + <listOfProducts> + <speciesReference species="M_acon_C_c" stoichiometry="1" constant="true"/> + <speciesReference species="M_h2o_c" stoichiometry="1" constant="true"/> + </listOfProducts> + <fbc:geneProductAssociation> + <fbc:or> + <fbc:geneProductRef fbc:geneProduct="G_b0118"/> + <fbc:geneProductRef fbc:geneProduct="G_b1276"/> + </fbc:or> + </fbc:geneProductAssociation> + </reaction> + <reaction metaid="meta_R_ACONTb" id="R_ACONTb" name="aconitase (half-reaction B, Isocitrate hydro-lyase)" reversible="true" fast="false" fbc:lowerFluxBound="cobra_default_lb" fbc:upperFluxBound="cobra_default_ub"> + <annotation> + <rdf:RDF xmlns:rdf="http://www.w3.org/1999/02/22-rdf-syntax-ns#" xmlns:dcterms="http://purl.org/dc/terms/" xmlns:vCard="http://www.w3.org/2001/vcard-rdf/3.0#" xmlns:vCard4="http://www.w3.org/2006/vcard/ns#" xmlns:bqbiol="http://biomodels.net/biology-qualifiers/" xmlns:bqmodel="http://biomodels.net/model-qualifiers/"> + <rdf:Description rdf:about="#meta_R_ACONTb"> + <bqbiol:is> + <rdf:Bag> + <rdf:li rdf:resource="https://identifiers.org/bigg.reaction/ACONTb"/> + </rdf:Bag> + </bqbiol:is> + </rdf:Description> + </rdf:RDF> + </annotation> + <listOfReactants> + <speciesReference species="M_acon_C_c" stoichiometry="1" constant="true"/> + <speciesReference species="M_h2o_c" stoichiometry="1" constant="true"/> + </listOfReactants> + <listOfProducts> + <speciesReference species="M_icit_c" stoichiometry="1" constant="true"/> + </listOfProducts> + <fbc:geneProductAssociation> + <fbc:or> + <fbc:geneProductRef fbc:geneProduct="G_b0118"/> + <fbc:geneProductRef fbc:geneProduct="G_b1276"/> + </fbc:or> + </fbc:geneProductAssociation> + </reaction> + <reaction metaid="meta_R_ACt2r" id="R_ACt2r" name="R acetate reversible transport via proton - symport" reversible="true" fast="false" fbc:lowerFluxBound="cobra_default_lb" fbc:upperFluxBound="cobra_default_ub"> + <annotation> + <rdf:RDF xmlns:rdf="http://www.w3.org/1999/02/22-rdf-syntax-ns#" xmlns:dcterms="http://purl.org/dc/terms/" xmlns:vCard="http://www.w3.org/2001/vcard-rdf/3.0#" xmlns:vCard4="http://www.w3.org/2006/vcard/ns#" xmlns:bqbiol="http://biomodels.net/biology-qualifiers/" xmlns:bqmodel="http://biomodels.net/model-qualifiers/"> + <rdf:Description rdf:about="#meta_R_ACt2r"> + <bqbiol:is> + <rdf:Bag> + <rdf:li rdf:resource="https://identifiers.org/bigg.reaction/ACt2r"/> + </rdf:Bag> + </bqbiol:is> + </rdf:Description> + </rdf:RDF> + </annotation> + <listOfReactants> + <speciesReference species="M_ac_e" stoichiometry="1" constant="true"/> + <speciesReference species="M_h_e" stoichiometry="1" constant="true"/> + </listOfReactants> + <listOfProducts> + <speciesReference species="M_ac_c" stoichiometry="1" constant="true"/> + <speciesReference species="M_h_c" stoichiometry="1" constant="true"/> + </listOfProducts> + </reaction> + <reaction metaid="meta_R_ADK1" id="R_ADK1" name="adenylate kinase" reversible="true" fast="false" fbc:lowerFluxBound="cobra_default_lb" fbc:upperFluxBound="cobra_default_ub"> + <annotation> + <rdf:RDF xmlns:rdf="http://www.w3.org/1999/02/22-rdf-syntax-ns#" xmlns:dcterms="http://purl.org/dc/terms/" xmlns:vCard="http://www.w3.org/2001/vcard-rdf/3.0#" xmlns:vCard4="http://www.w3.org/2006/vcard/ns#" xmlns:bqbiol="http://biomodels.net/biology-qualifiers/" xmlns:bqmodel="http://biomodels.net/model-qualifiers/"> + <rdf:Description rdf:about="#meta_R_ADK1"> + <bqbiol:is> + <rdf:Bag> + <rdf:li rdf:resource="https://identifiers.org/bigg.reaction/ADK1"/> + </rdf:Bag> + </bqbiol:is> + </rdf:Description> + </rdf:RDF> + </annotation> + <listOfReactants> + <speciesReference species="M_amp_c" stoichiometry="1" constant="true"/> + <speciesReference species="M_atp_c" stoichiometry="1" constant="true"/> + </listOfReactants> + <listOfProducts> + <speciesReference species="M_adp_c" stoichiometry="2" constant="true"/> + </listOfProducts> + <fbc:geneProductAssociation> + <fbc:geneProductRef fbc:geneProduct="G_b0474"/> + </fbc:geneProductAssociation> + </reaction> + <reaction metaid="meta_R_AKGDH" id="R_AKGDH" name="2-Oxogluterate dehydrogenase" reversible="false" fast="false" fbc:lowerFluxBound="cobra_0_bound" fbc:upperFluxBound="cobra_default_ub"> + <annotation> + <rdf:RDF xmlns:rdf="http://www.w3.org/1999/02/22-rdf-syntax-ns#" xmlns:dcterms="http://purl.org/dc/terms/" xmlns:vCard="http://www.w3.org/2001/vcard-rdf/3.0#" xmlns:vCard4="http://www.w3.org/2006/vcard/ns#" xmlns:bqbiol="http://biomodels.net/biology-qualifiers/" xmlns:bqmodel="http://biomodels.net/model-qualifiers/"> + <rdf:Description rdf:about="#meta_R_AKGDH"> + <bqbiol:is> + <rdf:Bag> + <rdf:li rdf:resource="https://identifiers.org/bigg.reaction/AKGDH"/> + </rdf:Bag> + </bqbiol:is> + </rdf:Description> + </rdf:RDF> + </annotation> + <listOfReactants> + <speciesReference species="M_akg_c" stoichiometry="1" constant="true"/> + <speciesReference species="M_coa_c" stoichiometry="1" constant="true"/> + <speciesReference species="M_nad_c" stoichiometry="1" constant="true"/> + </listOfReactants> + <listOfProducts> + <speciesReference species="M_co2_c" stoichiometry="1" constant="true"/> + <speciesReference species="M_nadh_c" stoichiometry="1" constant="true"/> + <speciesReference species="M_succoa_c" stoichiometry="1" constant="true"/> + </listOfProducts> + <fbc:geneProductAssociation> + <fbc:and> + <fbc:geneProductRef fbc:geneProduct="G_b0726"/> + <fbc:geneProductRef fbc:geneProduct="G_b0116"/> + <fbc:geneProductRef fbc:geneProduct="G_b0727"/> + </fbc:and> + </fbc:geneProductAssociation> + </reaction> + <reaction metaid="meta_R_AKGt2r" id="R_AKGt2r" name="R 2 oxoglutarate reversible transport via - symport" reversible="true" fast="false" fbc:lowerFluxBound="cobra_default_lb" fbc:upperFluxBound="cobra_default_ub"> + <annotation> + <rdf:RDF xmlns:rdf="http://www.w3.org/1999/02/22-rdf-syntax-ns#" xmlns:dcterms="http://purl.org/dc/terms/" xmlns:vCard="http://www.w3.org/2001/vcard-rdf/3.0#" xmlns:vCard4="http://www.w3.org/2006/vcard/ns#" xmlns:bqbiol="http://biomodels.net/biology-qualifiers/" xmlns:bqmodel="http://biomodels.net/model-qualifiers/"> + <rdf:Description rdf:about="#meta_R_AKGt2r"> + <bqbiol:is> + <rdf:Bag> + <rdf:li rdf:resource="https://identifiers.org/bigg.reaction/AKGt2r"/> + </rdf:Bag> + </bqbiol:is> + </rdf:Description> + </rdf:RDF> + </annotation> + <listOfReactants> + <speciesReference species="M_akg_e" stoichiometry="1" constant="true"/> + <speciesReference species="M_h_e" stoichiometry="1" constant="true"/> + </listOfReactants> + <listOfProducts> + <speciesReference species="M_akg_c" stoichiometry="1" constant="true"/> + <speciesReference species="M_h_c" stoichiometry="1" constant="true"/> + </listOfProducts> + <fbc:geneProductAssociation> + <fbc:geneProductRef fbc:geneProduct="G_b2587"/> + </fbc:geneProductAssociation> + </reaction> + <reaction metaid="meta_R_ALCD2x" id="R_ALCD2x" name="alcohol dehydrogenase (ethanol)" reversible="true" fast="false" fbc:lowerFluxBound="cobra_default_lb" fbc:upperFluxBound="cobra_default_ub"> + <annotation> + <rdf:RDF xmlns:rdf="http://www.w3.org/1999/02/22-rdf-syntax-ns#" xmlns:dcterms="http://purl.org/dc/terms/" xmlns:vCard="http://www.w3.org/2001/vcard-rdf/3.0#" xmlns:vCard4="http://www.w3.org/2006/vcard/ns#" xmlns:bqbiol="http://biomodels.net/biology-qualifiers/" xmlns:bqmodel="http://biomodels.net/model-qualifiers/"> + <rdf:Description rdf:about="#meta_R_ALCD2x"> + <bqbiol:is> + <rdf:Bag> + <rdf:li rdf:resource="https://identifiers.org/bigg.reaction/ALCD2x"/> + </rdf:Bag> + </bqbiol:is> + </rdf:Description> + </rdf:RDF> + </annotation> + <listOfReactants> + <speciesReference species="M_etoh_c" stoichiometry="1" constant="true"/> + <speciesReference species="M_nad_c" stoichiometry="1" constant="true"/> + </listOfReactants> + <listOfProducts> + <speciesReference species="M_acald_c" stoichiometry="1" constant="true"/> + <speciesReference species="M_h_c" stoichiometry="1" constant="true"/> + <speciesReference species="M_nadh_c" stoichiometry="1" constant="true"/> + </listOfProducts> + <fbc:geneProductAssociation> + <fbc:or> + <fbc:geneProductRef fbc:geneProduct="G_b1478"/> + <fbc:geneProductRef fbc:geneProduct="G_b0356"/> + <fbc:geneProductRef fbc:geneProduct="G_b1241"/> + </fbc:or> + </fbc:geneProductAssociation> + </reaction> + <reaction metaid="meta_R_ATPM" id="R_ATPM" name="ATP maintenance requirement" reversible="false" fast="false" fbc:lowerFluxBound="R_ATPM_lower_bound" fbc:upperFluxBound="cobra_default_ub"> + <annotation> + <rdf:RDF xmlns:rdf="http://www.w3.org/1999/02/22-rdf-syntax-ns#" xmlns:dcterms="http://purl.org/dc/terms/" xmlns:vCard="http://www.w3.org/2001/vcard-rdf/3.0#" xmlns:vCard4="http://www.w3.org/2006/vcard/ns#" xmlns:bqbiol="http://biomodels.net/biology-qualifiers/" xmlns:bqmodel="http://biomodels.net/model-qualifiers/"> + <rdf:Description rdf:about="#meta_R_ATPM"> + <bqbiol:is> + <rdf:Bag> + <rdf:li rdf:resource="https://identifiers.org/bigg.reaction/ATPM"/> + </rdf:Bag> + </bqbiol:is> + </rdf:Description> + </rdf:RDF> + </annotation> + <listOfReactants> + <speciesReference species="M_atp_c" stoichiometry="1" constant="true"/> + <speciesReference species="M_h2o_c" stoichiometry="1" constant="true"/> + </listOfReactants> + <listOfProducts> + <speciesReference species="M_adp_c" stoichiometry="1" constant="true"/> + <speciesReference species="M_h_c" stoichiometry="1" constant="true"/> + <speciesReference species="M_pi_c" stoichiometry="1" constant="true"/> + </listOfProducts> + </reaction> + <reaction metaid="meta_R_ATPS4r" id="R_ATPS4r" name="ATP synthase (four protons for one ATP)" reversible="true" fast="false" fbc:lowerFluxBound="cobra_default_lb" fbc:upperFluxBound="cobra_default_ub"> + <annotation> + <rdf:RDF xmlns:rdf="http://www.w3.org/1999/02/22-rdf-syntax-ns#" xmlns:dcterms="http://purl.org/dc/terms/" xmlns:vCard="http://www.w3.org/2001/vcard-rdf/3.0#" xmlns:vCard4="http://www.w3.org/2006/vcard/ns#" xmlns:bqbiol="http://biomodels.net/biology-qualifiers/" xmlns:bqmodel="http://biomodels.net/model-qualifiers/"> + <rdf:Description rdf:about="#meta_R_ATPS4r"> + <bqbiol:is> + <rdf:Bag> + <rdf:li rdf:resource="https://identifiers.org/bigg.reaction/ATPS4r"/> + </rdf:Bag> + </bqbiol:is> + </rdf:Description> + </rdf:RDF> + </annotation> + <listOfReactants> + <speciesReference species="M_adp_c" stoichiometry="1" constant="true"/> + <speciesReference species="M_h_e" stoichiometry="4" constant="true"/> + <speciesReference species="M_pi_c" stoichiometry="1" constant="true"/> + </listOfReactants> + <listOfProducts> + <speciesReference species="M_atp_c" stoichiometry="1" constant="true"/> + <speciesReference species="M_h2o_c" stoichiometry="1" constant="true"/> + <speciesReference species="M_h_c" stoichiometry="3" constant="true"/> + </listOfProducts> + <fbc:geneProductAssociation> + <fbc:or> + <fbc:and> + <fbc:geneProductRef fbc:geneProduct="G_b3738"/> + <fbc:geneProductRef fbc:geneProduct="G_b3736"/> + <fbc:geneProductRef fbc:geneProduct="G_b3737"/> + <fbc:geneProductRef fbc:geneProduct="G_b3735"/> + <fbc:geneProductRef fbc:geneProduct="G_b3733"/> + <fbc:geneProductRef fbc:geneProduct="G_b3731"/> + <fbc:geneProductRef fbc:geneProduct="G_b3732"/> + <fbc:geneProductRef fbc:geneProduct="G_b3734"/> + </fbc:and> + <fbc:and> + <fbc:geneProductRef fbc:geneProduct="G_b3734"/> + <fbc:geneProductRef fbc:geneProduct="G_b3732"/> + <fbc:geneProductRef fbc:geneProduct="G_b3731"/> + <fbc:geneProductRef fbc:geneProduct="G_b3733"/> + <fbc:geneProductRef fbc:geneProduct="G_b3735"/> + <fbc:geneProductRef fbc:geneProduct="G_b3737"/> + <fbc:geneProductRef fbc:geneProduct="G_b3736"/> + <fbc:geneProductRef fbc:geneProduct="G_b3738"/> + <fbc:geneProductRef fbc:geneProduct="G_b3739"/> + </fbc:and> + </fbc:or> + </fbc:geneProductAssociation> + </reaction> + <reaction metaid="meta_R_Biomass_Ecoli_core" sboTerm="SBO:0000629" id="R_Biomass_Ecoli_core" name="Biomass Objective Function with GAM" reversible="false" fast="false" fbc:lowerFluxBound="cobra_0_bound" fbc:upperFluxBound="cobra_default_ub"> + <annotation> + <rdf:RDF xmlns:rdf="http://www.w3.org/1999/02/22-rdf-syntax-ns#" xmlns:dcterms="http://purl.org/dc/terms/" xmlns:vCard="http://www.w3.org/2001/vcard-rdf/3.0#" xmlns:vCard4="http://www.w3.org/2006/vcard/ns#" xmlns:bqbiol="http://biomodels.net/biology-qualifiers/" xmlns:bqmodel="http://biomodels.net/model-qualifiers/"> + <rdf:Description rdf:about="#meta_R_Biomass_Ecoli_core"> + <bqbiol:is> + <rdf:Bag> + <rdf:li rdf:resource="https://identifiers.org/bigg.reaction/Ecoli_core_w_GAM"/> + </rdf:Bag> + </bqbiol:is> + </rdf:Description> + </rdf:RDF> + </annotation> + <listOfReactants> + <speciesReference species="M_3pg_c" stoichiometry="1.496" constant="true"/> + <speciesReference species="M_accoa_c" stoichiometry="3.7478" constant="true"/> + <speciesReference species="M_atp_c" stoichiometry="59.81" constant="true"/> + <speciesReference species="M_e4p_c" stoichiometry="0.361" constant="true"/> + <speciesReference species="M_f6p_c" stoichiometry="0.0709" constant="true"/> + <speciesReference species="M_g3p_c" stoichiometry="0.129" constant="true"/> + <speciesReference species="M_g6p_c" stoichiometry="0.205" constant="true"/> + <speciesReference species="M_gln__L_c" stoichiometry="0.2557" constant="true"/> + <speciesReference species="M_glu__L_c" stoichiometry="4.9414" constant="true"/> + <speciesReference species="M_h2o_c" stoichiometry="59.81" constant="true"/> + <speciesReference species="M_nad_c" stoichiometry="3.547" constant="true"/> + <speciesReference species="M_nadph_c" stoichiometry="13.0279" constant="true"/> + <speciesReference species="M_oaa_c" stoichiometry="1.7867" constant="true"/> + <speciesReference species="M_pep_c" stoichiometry="0.5191" constant="true"/> + <speciesReference species="M_pyr_c" stoichiometry="2.8328" constant="true"/> + <speciesReference species="M_r5p_c" stoichiometry="0.8977" constant="true"/> + </listOfReactants> + <listOfProducts> + <speciesReference species="M_adp_c" stoichiometry="59.81" constant="true"/> + <speciesReference species="M_akg_c" stoichiometry="4.1182" constant="true"/> + <speciesReference species="M_coa_c" stoichiometry="3.7478" constant="true"/> + <speciesReference species="M_h_c" stoichiometry="59.81" constant="true"/> + <speciesReference species="M_nadh_c" stoichiometry="3.547" constant="true"/> + <speciesReference species="M_nadp_c" stoichiometry="13.0279" constant="true"/> + <speciesReference species="M_pi_c" stoichiometry="59.81" constant="true"/> + </listOfProducts> + </reaction> + <reaction metaid="meta_R_CO2t" id="R_CO2t" name="R CO2 transporter via - diffusion" reversible="true" fast="false" fbc:lowerFluxBound="cobra_default_lb" fbc:upperFluxBound="cobra_default_ub"> + <annotation> + <rdf:RDF xmlns:rdf="http://www.w3.org/1999/02/22-rdf-syntax-ns#" xmlns:dcterms="http://purl.org/dc/terms/" xmlns:vCard="http://www.w3.org/2001/vcard-rdf/3.0#" 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<fbc:geneProductAssociation> + <fbc:geneProductRef fbc:geneProduct="G_b0720"/> + </fbc:geneProductAssociation> + </reaction> + <reaction metaid="meta_R_CYTBD" id="R_CYTBD" name="cytochrome oxidase bd (ubiquinol-8: 2 protons)" reversible="false" fast="false" fbc:lowerFluxBound="cobra_0_bound" fbc:upperFluxBound="cobra_default_ub"> + <annotation> + <rdf:RDF xmlns:rdf="http://www.w3.org/1999/02/22-rdf-syntax-ns#" xmlns:dcterms="http://purl.org/dc/terms/" xmlns:vCard="http://www.w3.org/2001/vcard-rdf/3.0#" xmlns:vCard4="http://www.w3.org/2006/vcard/ns#" xmlns:bqbiol="http://biomodels.net/biology-qualifiers/" xmlns:bqmodel="http://biomodels.net/model-qualifiers/"> + <rdf:Description rdf:about="#meta_R_CYTBD"> + <bqbiol:is> + <rdf:Bag> + <rdf:li rdf:resource="https://identifiers.org/bigg.reaction/CYTBD"/> + </rdf:Bag> + </bqbiol:is> + </rdf:Description> + </rdf:RDF> + </annotation> + <listOfReactants> + <speciesReference species="M_h_c" stoichiometry="2" constant="true"/> + <speciesReference species="M_o2_c" stoichiometry="0.5" constant="true"/> + <speciesReference species="M_q8h2_c" stoichiometry="1" constant="true"/> + </listOfReactants> + <listOfProducts> + <speciesReference species="M_h2o_c" stoichiometry="1" constant="true"/> + <speciesReference species="M_h_e" stoichiometry="2" constant="true"/> + <speciesReference species="M_q8_c" stoichiometry="1" constant="true"/> + </listOfProducts> + <fbc:geneProductAssociation> + <fbc:or> + <fbc:and> + <fbc:geneProductRef fbc:geneProduct="G_b0978"/> + <fbc:geneProductRef fbc:geneProduct="G_b0979"/> + </fbc:and> + <fbc:and> + <fbc:geneProductRef fbc:geneProduct="G_b0733"/> + <fbc:geneProductRef fbc:geneProduct="G_b0734"/> + </fbc:and> + </fbc:or> + </fbc:geneProductAssociation> + </reaction> + <reaction metaid="meta_R_D_LACt2" id="R_D_LACt2" name="R D lactate transport via proton - symport" reversible="true" fast="false" fbc:lowerFluxBound="cobra_default_lb" fbc:upperFluxBound="cobra_default_ub"> + <annotation> + <rdf:RDF xmlns:rdf="http://www.w3.org/1999/02/22-rdf-syntax-ns#" xmlns:dcterms="http://purl.org/dc/terms/" xmlns:vCard="http://www.w3.org/2001/vcard-rdf/3.0#" xmlns:vCard4="http://www.w3.org/2006/vcard/ns#" xmlns:bqbiol="http://biomodels.net/biology-qualifiers/" xmlns:bqmodel="http://biomodels.net/model-qualifiers/"> + <rdf:Description rdf:about="#meta_R_D_LACt2"> + <bqbiol:is> + <rdf:Bag> + <rdf:li rdf:resource="https://identifiers.org/bigg.reaction/D_LACt2"/> + </rdf:Bag> + </bqbiol:is> + </rdf:Description> + </rdf:RDF> + </annotation> + <listOfReactants> + <speciesReference species="M_h_e" stoichiometry="1" constant="true"/> + <speciesReference species="M_lac__D_e" stoichiometry="1" constant="true"/> + </listOfReactants> + <listOfProducts> + <speciesReference species="M_h_c" stoichiometry="1" constant="true"/> + <speciesReference species="M_lac__D_c" stoichiometry="1" constant="true"/> + </listOfProducts> + <fbc:geneProductAssociation> + <fbc:or> + <fbc:geneProductRef fbc:geneProduct="G_b2975"/> + <fbc:geneProductRef fbc:geneProduct="G_b3603"/> + </fbc:or> + </fbc:geneProductAssociation> + </reaction> + <reaction metaid="meta_R_ENO" id="R_ENO" name="enolase" reversible="true" fast="false" fbc:lowerFluxBound="cobra_default_lb" fbc:upperFluxBound="cobra_default_ub"> + <annotation> + <rdf:RDF xmlns:rdf="http://www.w3.org/1999/02/22-rdf-syntax-ns#" xmlns:dcterms="http://purl.org/dc/terms/" xmlns:vCard="http://www.w3.org/2001/vcard-rdf/3.0#" xmlns:vCard4="http://www.w3.org/2006/vcard/ns#" xmlns:bqbiol="http://biomodels.net/biology-qualifiers/" xmlns:bqmodel="http://biomodels.net/model-qualifiers/"> + <rdf:Description rdf:about="#meta_R_ENO"> + <bqbiol:is> + <rdf:Bag> + <rdf:li rdf:resource="https://identifiers.org/bigg.reaction/ENO"/> + </rdf:Bag> + </bqbiol:is> + </rdf:Description> + </rdf:RDF> + </annotation> + <listOfReactants> + <speciesReference species="M_2pg_c" stoichiometry="1" constant="true"/> + </listOfReactants> + <listOfProducts> + <speciesReference species="M_h2o_c" stoichiometry="1" constant="true"/> + <speciesReference species="M_pep_c" stoichiometry="1" constant="true"/> + </listOfProducts> + <fbc:geneProductAssociation> + <fbc:geneProductRef fbc:geneProduct="G_b2779"/> + </fbc:geneProductAssociation> + </reaction> + <reaction metaid="meta_R_ETOHt2r" id="R_ETOHt2r" name="ETOHt2r" reversible="true" fast="false" fbc:lowerFluxBound="cobra_default_lb" fbc:upperFluxBound="cobra_default_ub"> + <annotation> + <rdf:RDF xmlns:rdf="http://www.w3.org/1999/02/22-rdf-syntax-ns#" xmlns:dcterms="http://purl.org/dc/terms/" xmlns:vCard="http://www.w3.org/2001/vcard-rdf/3.0#" xmlns:vCard4="http://www.w3.org/2006/vcard/ns#" xmlns:bqbiol="http://biomodels.net/biology-qualifiers/" xmlns:bqmodel="http://biomodels.net/model-qualifiers/"> + <rdf:Description rdf:about="#meta_R_ETOHt2r"> + <bqbiol:is> + <rdf:Bag> + <rdf:li rdf:resource="https://identifiers.org/bigg.reaction/ETOHt2r"/> + </rdf:Bag> + </bqbiol:is> + </rdf:Description> + </rdf:RDF> + </annotation> + <listOfReactants> + <speciesReference species="M_etoh_e" stoichiometry="1" constant="true"/> + <speciesReference species="M_h_e" stoichiometry="1" constant="true"/> + </listOfReactants> + <listOfProducts> + <speciesReference species="M_etoh_c" stoichiometry="1" constant="true"/> + <speciesReference species="M_h_c" stoichiometry="1" constant="true"/> + </listOfProducts> + </reaction> + <reaction metaid="meta_R_EX_ac_e" sboTerm="SBO:0000627" id="R_EX_ac_e" name="Acetate exchange" reversible="false" fast="false" fbc:lowerFluxBound="cobra_0_bound" fbc:upperFluxBound="cobra_default_ub"> + <annotation> + <rdf:RDF xmlns:rdf="http://www.w3.org/1999/02/22-rdf-syntax-ns#" xmlns:dcterms="http://purl.org/dc/terms/" xmlns:vCard="http://www.w3.org/2001/vcard-rdf/3.0#" xmlns:vCard4="http://www.w3.org/2006/vcard/ns#" xmlns:bqbiol="http://biomodels.net/biology-qualifiers/" xmlns:bqmodel="http://biomodels.net/model-qualifiers/"> + <rdf:Description rdf:about="#meta_R_EX_ac_e"> + <bqbiol:is> + <rdf:Bag> + <rdf:li rdf:resource="https://identifiers.org/bigg.reaction/ac"/> + </rdf:Bag> + </bqbiol:is> + </rdf:Description> + </rdf:RDF> + </annotation> + <listOfReactants> + <speciesReference species="M_ac_e" stoichiometry="1" constant="true"/> + </listOfReactants> + </reaction> + <reaction metaid="meta_R_EX_acald_e" sboTerm="SBO:0000627" id="R_EX_acald_e" name="Acetaldehyde exchange" reversible="false" fast="false" fbc:lowerFluxBound="cobra_0_bound" fbc:upperFluxBound="cobra_default_ub"> + <annotation> + <rdf:RDF xmlns:rdf="http://www.w3.org/1999/02/22-rdf-syntax-ns#" xmlns:dcterms="http://purl.org/dc/terms/" xmlns:vCard="http://www.w3.org/2001/vcard-rdf/3.0#" xmlns:vCard4="http://www.w3.org/2006/vcard/ns#" xmlns:bqbiol="http://biomodels.net/biology-qualifiers/" xmlns:bqmodel="http://biomodels.net/model-qualifiers/"> + <rdf:Description rdf:about="#meta_R_EX_acald_e"> + <bqbiol:is> + <rdf:Bag> + <rdf:li rdf:resource="https://identifiers.org/bigg.reaction/acald"/> + </rdf:Bag> + </bqbiol:is> + </rdf:Description> + </rdf:RDF> + </annotation> + <listOfReactants> + <speciesReference species="M_acald_e" stoichiometry="1" constant="true"/> + </listOfReactants> + </reaction> + <reaction metaid="meta_R_EX_akg_e" sboTerm="SBO:0000627" id="R_EX_akg_e" name="2-Oxoglutarate exchange" reversible="false" fast="false" fbc:lowerFluxBound="cobra_0_bound" fbc:upperFluxBound="cobra_default_ub"> + <annotation> + <rdf:RDF xmlns:rdf="http://www.w3.org/1999/02/22-rdf-syntax-ns#" xmlns:dcterms="http://purl.org/dc/terms/" xmlns:vCard="http://www.w3.org/2001/vcard-rdf/3.0#" xmlns:vCard4="http://www.w3.org/2006/vcard/ns#" xmlns:bqbiol="http://biomodels.net/biology-qualifiers/" xmlns:bqmodel="http://biomodels.net/model-qualifiers/"> + <rdf:Description rdf:about="#meta_R_EX_akg_e"> + <bqbiol:is> + <rdf:Bag> + <rdf:li rdf:resource="https://identifiers.org/bigg.reaction/akg"/> + </rdf:Bag> + </bqbiol:is> + </rdf:Description> + </rdf:RDF> + </annotation> + <listOfReactants> + <speciesReference species="M_akg_e" stoichiometry="1" constant="true"/> + </listOfReactants> + </reaction> + <reaction metaid="meta_R_EX_co2_e" sboTerm="SBO:0000627" id="R_EX_co2_e" name="CO2 exchange" reversible="true" fast="false" fbc:lowerFluxBound="cobra_default_lb" fbc:upperFluxBound="cobra_default_ub"> + <annotation> + <rdf:RDF xmlns:rdf="http://www.w3.org/1999/02/22-rdf-syntax-ns#" xmlns:dcterms="http://purl.org/dc/terms/" xmlns:vCard="http://www.w3.org/2001/vcard-rdf/3.0#" xmlns:vCard4="http://www.w3.org/2006/vcard/ns#" xmlns:bqbiol="http://biomodels.net/biology-qualifiers/" xmlns:bqmodel="http://biomodels.net/model-qualifiers/"> + <rdf:Description rdf:about="#meta_R_EX_co2_e"> + <bqbiol:is> + <rdf:Bag> + <rdf:li rdf:resource="https://identifiers.org/bigg.reaction/co2"/> + </rdf:Bag> + </bqbiol:is> + </rdf:Description> + </rdf:RDF> + </annotation> + <listOfReactants> + <speciesReference species="M_co2_e" stoichiometry="1" constant="true"/> + </listOfReactants> + </reaction> + <reaction metaid="meta_R_EX_etoh_e" sboTerm="SBO:0000627" id="R_EX_etoh_e" name="Ethanol exchange" reversible="false" fast="false" fbc:lowerFluxBound="cobra_0_bound" fbc:upperFluxBound="cobra_default_ub"> + <annotation> + <rdf:RDF xmlns:rdf="http://www.w3.org/1999/02/22-rdf-syntax-ns#" xmlns:dcterms="http://purl.org/dc/terms/" xmlns:vCard="http://www.w3.org/2001/vcard-rdf/3.0#" xmlns:vCard4="http://www.w3.org/2006/vcard/ns#" xmlns:bqbiol="http://biomodels.net/biology-qualifiers/" xmlns:bqmodel="http://biomodels.net/model-qualifiers/"> + <rdf:Description rdf:about="#meta_R_EX_etoh_e"> + <bqbiol:is> + <rdf:Bag> + <rdf:li rdf:resource="https://identifiers.org/bigg.reaction/etoh"/> + </rdf:Bag> + </bqbiol:is> + </rdf:Description> + </rdf:RDF> + </annotation> + <listOfReactants> + <speciesReference species="M_etoh_e" stoichiometry="1" constant="true"/> + </listOfReactants> + </reaction> + <reaction metaid="meta_R_EX_for_e" sboTerm="SBO:0000627" id="R_EX_for_e" name="Formate exchange" reversible="false" fast="false" fbc:lowerFluxBound="cobra_0_bound" fbc:upperFluxBound="cobra_default_ub"> + <annotation> + <rdf:RDF xmlns:rdf="http://www.w3.org/1999/02/22-rdf-syntax-ns#" xmlns:dcterms="http://purl.org/dc/terms/" xmlns:vCard="http://www.w3.org/2001/vcard-rdf/3.0#" xmlns:vCard4="http://www.w3.org/2006/vcard/ns#" xmlns:bqbiol="http://biomodels.net/biology-qualifiers/" xmlns:bqmodel="http://biomodels.net/model-qualifiers/"> + <rdf:Description rdf:about="#meta_R_EX_for_e"> + <bqbiol:is> + <rdf:Bag> + <rdf:li rdf:resource="https://identifiers.org/bigg.reaction/for"/> + </rdf:Bag> + </bqbiol:is> + </rdf:Description> + </rdf:RDF> + </annotation> + <listOfReactants> + <speciesReference species="M_for_e" stoichiometry="1" constant="true"/> + </listOfReactants> + </reaction> + <reaction metaid="meta_R_EX_fru_e" sboTerm="SBO:0000627" id="R_EX_fru_e" name="D-Fructose exchange" reversible="false" fast="false" fbc:lowerFluxBound="cobra_0_bound" fbc:upperFluxBound="cobra_default_ub"> + <annotation> + <rdf:RDF xmlns:rdf="http://www.w3.org/1999/02/22-rdf-syntax-ns#" xmlns:dcterms="http://purl.org/dc/terms/" xmlns:vCard="http://www.w3.org/2001/vcard-rdf/3.0#" xmlns:vCard4="http://www.w3.org/2006/vcard/ns#" xmlns:bqbiol="http://biomodels.net/biology-qualifiers/" xmlns:bqmodel="http://biomodels.net/model-qualifiers/"> + <rdf:Description rdf:about="#meta_R_EX_fru_e"> + <bqbiol:is> + <rdf:Bag> + <rdf:li rdf:resource="https://identifiers.org/bigg.reaction/fru"/> + </rdf:Bag> + </bqbiol:is> + </rdf:Description> + </rdf:RDF> + </annotation> + <listOfReactants> + <speciesReference species="M_fru_e" stoichiometry="1" constant="true"/> + </listOfReactants> + </reaction> + <reaction metaid="meta_R_EX_fum_e" sboTerm="SBO:0000627" id="R_EX_fum_e" name="Fumarate exchange" reversible="false" fast="false" fbc:lowerFluxBound="cobra_0_bound" fbc:upperFluxBound="cobra_default_ub"> + <annotation> + <rdf:RDF xmlns:rdf="http://www.w3.org/1999/02/22-rdf-syntax-ns#" xmlns:dcterms="http://purl.org/dc/terms/" xmlns:vCard="http://www.w3.org/2001/vcard-rdf/3.0#" xmlns:vCard4="http://www.w3.org/2006/vcard/ns#" xmlns:bqbiol="http://biomodels.net/biology-qualifiers/" xmlns:bqmodel="http://biomodels.net/model-qualifiers/"> + <rdf:Description rdf:about="#meta_R_EX_fum_e"> + <bqbiol:is> + <rdf:Bag> + <rdf:li rdf:resource="https://identifiers.org/bigg.reaction/fum"/> + </rdf:Bag> + </bqbiol:is> + </rdf:Description> + </rdf:RDF> + </annotation> + <listOfReactants> + <speciesReference species="M_fum_e" stoichiometry="1" constant="true"/> + </listOfReactants> + </reaction> + <reaction metaid="meta_R_EX_glc__D_e" sboTerm="SBO:0000627" id="R_EX_glc__D_e" name="D-Glucose exchange" reversible="true" fast="false" fbc:lowerFluxBound="R_EX_glc__D_e_lower_bound" fbc:upperFluxBound="cobra_default_ub"> + <annotation> + <rdf:RDF xmlns:rdf="http://www.w3.org/1999/02/22-rdf-syntax-ns#" xmlns:dcterms="http://purl.org/dc/terms/" xmlns:vCard="http://www.w3.org/2001/vcard-rdf/3.0#" xmlns:vCard4="http://www.w3.org/2006/vcard/ns#" xmlns:bqbiol="http://biomodels.net/biology-qualifiers/" xmlns:bqmodel="http://biomodels.net/model-qualifiers/"> + <rdf:Description rdf:about="#meta_R_EX_glc__D_e"> + <bqbiol:is> + <rdf:Bag> + <rdf:li rdf:resource="https://identifiers.org/bigg.reaction/glc"/> + </rdf:Bag> + </bqbiol:is> + </rdf:Description> + </rdf:RDF> + </annotation> + <listOfReactants> + <speciesReference species="M_glc__D_e" stoichiometry="1" constant="true"/> + </listOfReactants> + </reaction> + <reaction metaid="meta_R_EX_gln__L_e" sboTerm="SBO:0000627" id="R_EX_gln__L_e" name="L-Glutamine exchange" reversible="false" fast="false" fbc:lowerFluxBound="cobra_0_bound" fbc:upperFluxBound="cobra_default_ub"> + <annotation> + <rdf:RDF xmlns:rdf="http://www.w3.org/1999/02/22-rdf-syntax-ns#" xmlns:dcterms="http://purl.org/dc/terms/" xmlns:vCard="http://www.w3.org/2001/vcard-rdf/3.0#" xmlns:vCard4="http://www.w3.org/2006/vcard/ns#" xmlns:bqbiol="http://biomodels.net/biology-qualifiers/" xmlns:bqmodel="http://biomodels.net/model-qualifiers/"> + <rdf:Description rdf:about="#meta_R_EX_gln__L_e"> + <bqbiol:is> + <rdf:Bag> + <rdf:li rdf:resource="https://identifiers.org/bigg.reaction/gln__L"/> + </rdf:Bag> + </bqbiol:is> + </rdf:Description> + </rdf:RDF> + </annotation> + <listOfReactants> + <speciesReference species="M_gln__L_e" stoichiometry="1" constant="true"/> + </listOfReactants> + </reaction> + <reaction metaid="meta_R_EX_glu__L_e" sboTerm="SBO:0000627" id="R_EX_glu__L_e" name="L-Glutamate exchange" reversible="false" fast="false" fbc:lowerFluxBound="cobra_0_bound" fbc:upperFluxBound="cobra_default_ub"> + <annotation> + <rdf:RDF xmlns:rdf="http://www.w3.org/1999/02/22-rdf-syntax-ns#" xmlns:dcterms="http://purl.org/dc/terms/" xmlns:vCard="http://www.w3.org/2001/vcard-rdf/3.0#" xmlns:vCard4="http://www.w3.org/2006/vcard/ns#" xmlns:bqbiol="http://biomodels.net/biology-qualifiers/" xmlns:bqmodel="http://biomodels.net/model-qualifiers/"> + <rdf:Description rdf:about="#meta_R_EX_glu__L_e"> + <bqbiol:is> + <rdf:Bag> + <rdf:li rdf:resource="https://identifiers.org/bigg.reaction/glu__L"/> + </rdf:Bag> + </bqbiol:is> + </rdf:Description> + </rdf:RDF> + </annotation> + <listOfReactants> + <speciesReference species="M_glu__L_e" stoichiometry="1" constant="true"/> + </listOfReactants> + </reaction> + <reaction metaid="meta_R_EX_h_e" sboTerm="SBO:0000627" id="R_EX_h_e" name="H+ exchange" reversible="true" fast="false" fbc:lowerFluxBound="cobra_default_lb" fbc:upperFluxBound="cobra_default_ub"> + <annotation> + <rdf:RDF xmlns:rdf="http://www.w3.org/1999/02/22-rdf-syntax-ns#" xmlns:dcterms="http://purl.org/dc/terms/" xmlns:vCard="http://www.w3.org/2001/vcard-rdf/3.0#" xmlns:vCard4="http://www.w3.org/2006/vcard/ns#" xmlns:bqbiol="http://biomodels.net/biology-qualifiers/" xmlns:bqmodel="http://biomodels.net/model-qualifiers/"> + <rdf:Description rdf:about="#meta_R_EX_h_e"> + <bqbiol:is> + <rdf:Bag> + <rdf:li rdf:resource="https://identifiers.org/bigg.reaction/h"/> + </rdf:Bag> + </bqbiol:is> + </rdf:Description> + </rdf:RDF> + </annotation> + <listOfReactants> + <speciesReference species="M_h_e" stoichiometry="1" constant="true"/> + </listOfReactants> + </reaction> + <reaction metaid="meta_R_EX_h2o_e" sboTerm="SBO:0000627" id="R_EX_h2o_e" name="H2O exchange" reversible="true" fast="false" fbc:lowerFluxBound="cobra_default_lb" fbc:upperFluxBound="cobra_default_ub"> + <annotation> + <rdf:RDF xmlns:rdf="http://www.w3.org/1999/02/22-rdf-syntax-ns#" xmlns:dcterms="http://purl.org/dc/terms/" xmlns:vCard="http://www.w3.org/2001/vcard-rdf/3.0#" xmlns:vCard4="http://www.w3.org/2006/vcard/ns#" xmlns:bqbiol="http://biomodels.net/biology-qualifiers/" xmlns:bqmodel="http://biomodels.net/model-qualifiers/"> + <rdf:Description rdf:about="#meta_R_EX_h2o_e"> + <bqbiol:is> + <rdf:Bag> + <rdf:li rdf:resource="https://identifiers.org/bigg.reaction/h2o"/> + </rdf:Bag> + </bqbiol:is> + </rdf:Description> + </rdf:RDF> + </annotation> + <listOfReactants> + <speciesReference species="M_h2o_e" stoichiometry="1" constant="true"/> + </listOfReactants> + </reaction> + <reaction metaid="meta_R_EX_lac__D_e" sboTerm="SBO:0000627" id="R_EX_lac__D_e" name="D-lactate exchange" reversible="false" fast="false" fbc:lowerFluxBound="cobra_0_bound" fbc:upperFluxBound="cobra_default_ub"> + <annotation> + <rdf:RDF xmlns:rdf="http://www.w3.org/1999/02/22-rdf-syntax-ns#" xmlns:dcterms="http://purl.org/dc/terms/" xmlns:vCard="http://www.w3.org/2001/vcard-rdf/3.0#" xmlns:vCard4="http://www.w3.org/2006/vcard/ns#" xmlns:bqbiol="http://biomodels.net/biology-qualifiers/" xmlns:bqmodel="http://biomodels.net/model-qualifiers/"> + <rdf:Description rdf:about="#meta_R_EX_lac__D_e"> + <bqbiol:is> + <rdf:Bag> + <rdf:li rdf:resource="https://identifiers.org/bigg.reaction/lac__D"/> + </rdf:Bag> + </bqbiol:is> + </rdf:Description> + </rdf:RDF> + </annotation> + <listOfReactants> + <speciesReference species="M_lac__D_e" stoichiometry="1" constant="true"/> + </listOfReactants> + </reaction> + <reaction metaid="meta_R_EX_mal__L_e" sboTerm="SBO:0000627" id="R_EX_mal__L_e" name="L-Malate exchange" reversible="false" fast="false" fbc:lowerFluxBound="cobra_0_bound" fbc:upperFluxBound="cobra_default_ub"> + <annotation> + <rdf:RDF xmlns:rdf="http://www.w3.org/1999/02/22-rdf-syntax-ns#" xmlns:dcterms="http://purl.org/dc/terms/" xmlns:vCard="http://www.w3.org/2001/vcard-rdf/3.0#" xmlns:vCard4="http://www.w3.org/2006/vcard/ns#" xmlns:bqbiol="http://biomodels.net/biology-qualifiers/" xmlns:bqmodel="http://biomodels.net/model-qualifiers/"> + <rdf:Description rdf:about="#meta_R_EX_mal__L_e"> + <bqbiol:is> + <rdf:Bag> + <rdf:li rdf:resource="https://identifiers.org/bigg.reaction/mal__L"/> + </rdf:Bag> + </bqbiol:is> + </rdf:Description> + </rdf:RDF> + </annotation> + <listOfReactants> + <speciesReference species="M_mal__L_e" stoichiometry="1" constant="true"/> + </listOfReactants> + </reaction> + <reaction metaid="meta_R_EX_nh4_e" sboTerm="SBO:0000627" id="R_EX_nh4_e" name="Ammonia exchange" reversible="true" fast="false" fbc:lowerFluxBound="cobra_default_lb" fbc:upperFluxBound="cobra_default_ub"> + <annotation> + <rdf:RDF xmlns:rdf="http://www.w3.org/1999/02/22-rdf-syntax-ns#" xmlns:dcterms="http://purl.org/dc/terms/" xmlns:vCard="http://www.w3.org/2001/vcard-rdf/3.0#" xmlns:vCard4="http://www.w3.org/2006/vcard/ns#" xmlns:bqbiol="http://biomodels.net/biology-qualifiers/" xmlns:bqmodel="http://biomodels.net/model-qualifiers/"> + <rdf:Description rdf:about="#meta_R_EX_nh4_e"> + <bqbiol:is> + <rdf:Bag> + <rdf:li rdf:resource="https://identifiers.org/bigg.reaction/nh4"/> + </rdf:Bag> + </bqbiol:is> + </rdf:Description> + </rdf:RDF> + </annotation> + <listOfReactants> + <speciesReference species="M_nh4_e" stoichiometry="1" constant="true"/> + </listOfReactants> + </reaction> + <reaction metaid="meta_R_EX_o2_e" sboTerm="SBO:0000627" id="R_EX_o2_e" name="O2 exchange" reversible="true" fast="false" fbc:lowerFluxBound="cobra_default_lb" fbc:upperFluxBound="cobra_default_ub"> + <annotation> + <rdf:RDF xmlns:rdf="http://www.w3.org/1999/02/22-rdf-syntax-ns#" xmlns:dcterms="http://purl.org/dc/terms/" xmlns:vCard="http://www.w3.org/2001/vcard-rdf/3.0#" xmlns:vCard4="http://www.w3.org/2006/vcard/ns#" xmlns:bqbiol="http://biomodels.net/biology-qualifiers/" xmlns:bqmodel="http://biomodels.net/model-qualifiers/"> + <rdf:Description rdf:about="#meta_R_EX_o2_e"> + <bqbiol:is> + <rdf:Bag> + <rdf:li rdf:resource="https://identifiers.org/bigg.reaction/o2"/> + </rdf:Bag> + </bqbiol:is> + </rdf:Description> + </rdf:RDF> + </annotation> + <listOfReactants> + <speciesReference species="M_o2_e" stoichiometry="1" constant="true"/> + </listOfReactants> + </reaction> + <reaction metaid="meta_R_EX_pi_e" sboTerm="SBO:0000627" id="R_EX_pi_e" name="Phosphate exchange" reversible="true" fast="false" fbc:lowerFluxBound="cobra_default_lb" fbc:upperFluxBound="cobra_default_ub"> + <annotation> + <rdf:RDF xmlns:rdf="http://www.w3.org/1999/02/22-rdf-syntax-ns#" xmlns:dcterms="http://purl.org/dc/terms/" xmlns:vCard="http://www.w3.org/2001/vcard-rdf/3.0#" xmlns:vCard4="http://www.w3.org/2006/vcard/ns#" xmlns:bqbiol="http://biomodels.net/biology-qualifiers/" xmlns:bqmodel="http://biomodels.net/model-qualifiers/"> + <rdf:Description rdf:about="#meta_R_EX_pi_e"> + <bqbiol:is> + <rdf:Bag> + <rdf:li rdf:resource="https://identifiers.org/bigg.reaction/pi"/> + </rdf:Bag> + </bqbiol:is> + </rdf:Description> + </rdf:RDF> + </annotation> + <listOfReactants> + <speciesReference species="M_pi_e" stoichiometry="1" constant="true"/> + </listOfReactants> + </reaction> + <reaction metaid="meta_R_EX_pyr_e" sboTerm="SBO:0000627" id="R_EX_pyr_e" name="Pyruvate exchange" reversible="false" fast="false" fbc:lowerFluxBound="cobra_0_bound" fbc:upperFluxBound="cobra_default_ub"> + <annotation> + <rdf:RDF xmlns:rdf="http://www.w3.org/1999/02/22-rdf-syntax-ns#" xmlns:dcterms="http://purl.org/dc/terms/" xmlns:vCard="http://www.w3.org/2001/vcard-rdf/3.0#" xmlns:vCard4="http://www.w3.org/2006/vcard/ns#" xmlns:bqbiol="http://biomodels.net/biology-qualifiers/" xmlns:bqmodel="http://biomodels.net/model-qualifiers/"> + <rdf:Description rdf:about="#meta_R_EX_pyr_e"> + <bqbiol:is> + <rdf:Bag> + <rdf:li rdf:resource="https://identifiers.org/bigg.reaction/pyr"/> + </rdf:Bag> + </bqbiol:is> + </rdf:Description> + </rdf:RDF> + </annotation> + <listOfReactants> + <speciesReference species="M_pyr_e" stoichiometry="1" constant="true"/> + </listOfReactants> + </reaction> + <reaction metaid="meta_R_EX_succ_e" sboTerm="SBO:0000627" id="R_EX_succ_e" name="Succinate exchange" reversible="false" fast="false" fbc:lowerFluxBound="cobra_0_bound" fbc:upperFluxBound="cobra_default_ub"> + <annotation> + <rdf:RDF xmlns:rdf="http://www.w3.org/1999/02/22-rdf-syntax-ns#" xmlns:dcterms="http://purl.org/dc/terms/" xmlns:vCard="http://www.w3.org/2001/vcard-rdf/3.0#" xmlns:vCard4="http://www.w3.org/2006/vcard/ns#" xmlns:bqbiol="http://biomodels.net/biology-qualifiers/" xmlns:bqmodel="http://biomodels.net/model-qualifiers/"> + <rdf:Description rdf:about="#meta_R_EX_succ_e"> + <bqbiol:is> + <rdf:Bag> + <rdf:li rdf:resource="https://identifiers.org/bigg.reaction/succ"/> + </rdf:Bag> + </bqbiol:is> + </rdf:Description> + </rdf:RDF> + </annotation> + <listOfReactants> + <speciesReference species="M_succ_e" stoichiometry="1" constant="true"/> + </listOfReactants> + </reaction> + <reaction metaid="meta_R_FBA" id="R_FBA" name="fructose-bisphosphate aldolase" reversible="true" fast="false" fbc:lowerFluxBound="cobra_default_lb" fbc:upperFluxBound="cobra_default_ub"> + <annotation> + <rdf:RDF xmlns:rdf="http://www.w3.org/1999/02/22-rdf-syntax-ns#" xmlns:dcterms="http://purl.org/dc/terms/" xmlns:vCard="http://www.w3.org/2001/vcard-rdf/3.0#" xmlns:vCard4="http://www.w3.org/2006/vcard/ns#" xmlns:bqbiol="http://biomodels.net/biology-qualifiers/" xmlns:bqmodel="http://biomodels.net/model-qualifiers/"> + <rdf:Description rdf:about="#meta_R_FBA"> + <bqbiol:is> + <rdf:Bag> + <rdf:li rdf:resource="https://identifiers.org/bigg.reaction/FBA"/> + </rdf:Bag> + </bqbiol:is> + </rdf:Description> + </rdf:RDF> + </annotation> + <listOfReactants> + <speciesReference species="M_fdp_c" stoichiometry="1" constant="true"/> + </listOfReactants> + <listOfProducts> + <speciesReference species="M_dhap_c" stoichiometry="1" constant="true"/> + <speciesReference species="M_g3p_c" stoichiometry="1" constant="true"/> + </listOfProducts> + <fbc:geneProductAssociation> + <fbc:or> + <fbc:geneProductRef fbc:geneProduct="G_b1773"/> + <fbc:geneProductRef fbc:geneProduct="G_b2097"/> + <fbc:geneProductRef fbc:geneProduct="G_b2925"/> + </fbc:or> + </fbc:geneProductAssociation> + </reaction> + <reaction metaid="meta_R_FBP" id="R_FBP" name="fructose-bisphosphatase" reversible="false" fast="false" fbc:lowerFluxBound="cobra_0_bound" fbc:upperFluxBound="cobra_default_ub"> + <annotation> + <rdf:RDF xmlns:rdf="http://www.w3.org/1999/02/22-rdf-syntax-ns#" xmlns:dcterms="http://purl.org/dc/terms/" xmlns:vCard="http://www.w3.org/2001/vcard-rdf/3.0#" xmlns:vCard4="http://www.w3.org/2006/vcard/ns#" xmlns:bqbiol="http://biomodels.net/biology-qualifiers/" xmlns:bqmodel="http://biomodels.net/model-qualifiers/"> + <rdf:Description rdf:about="#meta_R_FBP"> + <bqbiol:is> + <rdf:Bag> + <rdf:li rdf:resource="https://identifiers.org/bigg.reaction/FBP"/> + </rdf:Bag> + </bqbiol:is> + </rdf:Description> + </rdf:RDF> + </annotation> + <listOfReactants> + <speciesReference species="M_fdp_c" stoichiometry="1" constant="true"/> + <speciesReference species="M_h2o_c" stoichiometry="1" constant="true"/> + </listOfReactants> + <listOfProducts> + <speciesReference species="M_f6p_c" stoichiometry="1" constant="true"/> + <speciesReference species="M_pi_c" stoichiometry="1" constant="true"/> + </listOfProducts> + <fbc:geneProductAssociation> + <fbc:or> + <fbc:geneProductRef fbc:geneProduct="G_b3925"/> + <fbc:geneProductRef fbc:geneProduct="G_b4232"/> + </fbc:or> + </fbc:geneProductAssociation> + </reaction> + <reaction metaid="meta_R_FORt2" id="R_FORt2" name="formate transport in via proton symport" reversible="false" fast="false" fbc:lowerFluxBound="cobra_0_bound" fbc:upperFluxBound="cobra_default_ub"> + <annotation> + <rdf:RDF xmlns:rdf="http://www.w3.org/1999/02/22-rdf-syntax-ns#" xmlns:dcterms="http://purl.org/dc/terms/" xmlns:vCard="http://www.w3.org/2001/vcard-rdf/3.0#" xmlns:vCard4="http://www.w3.org/2006/vcard/ns#" xmlns:bqbiol="http://biomodels.net/biology-qualifiers/" xmlns:bqmodel="http://biomodels.net/model-qualifiers/"> + <rdf:Description rdf:about="#meta_R_FORt2"> + <bqbiol:is> + <rdf:Bag> + <rdf:li rdf:resource="https://identifiers.org/bigg.reaction/FORt2"/> + </rdf:Bag> + </bqbiol:is> + </rdf:Description> + </rdf:RDF> + </annotation> + <listOfReactants> + <speciesReference species="M_for_e" stoichiometry="1" constant="true"/> + <speciesReference species="M_h_e" stoichiometry="1" constant="true"/> + </listOfReactants> + <listOfProducts> + <speciesReference species="M_for_c" stoichiometry="1" constant="true"/> + <speciesReference species="M_h_c" stoichiometry="1" constant="true"/> + </listOfProducts> + <fbc:geneProductAssociation> + <fbc:or> + <fbc:geneProductRef fbc:geneProduct="G_b0904"/> + <fbc:geneProductRef fbc:geneProduct="G_b2492"/> + </fbc:or> + </fbc:geneProductAssociation> + </reaction> + <reaction metaid="meta_R_FORti" id="R_FORti" name="formate transport via diffusion" reversible="false" fast="false" fbc:lowerFluxBound="cobra_0_bound" fbc:upperFluxBound="cobra_default_ub"> + <annotation> + <rdf:RDF xmlns:rdf="http://www.w3.org/1999/02/22-rdf-syntax-ns#" xmlns:dcterms="http://purl.org/dc/terms/" xmlns:vCard="http://www.w3.org/2001/vcard-rdf/3.0#" xmlns:vCard4="http://www.w3.org/2006/vcard/ns#" xmlns:bqbiol="http://biomodels.net/biology-qualifiers/" xmlns:bqmodel="http://biomodels.net/model-qualifiers/"> + <rdf:Description rdf:about="#meta_R_FORti"> + <bqbiol:is> + <rdf:Bag> + <rdf:li rdf:resource="https://identifiers.org/bigg.reaction/FORti"/> + </rdf:Bag> + </bqbiol:is> + </rdf:Description> + </rdf:RDF> + </annotation> + <listOfReactants> + <speciesReference species="M_for_c" stoichiometry="1" constant="true"/> + </listOfReactants> + <listOfProducts> + <speciesReference species="M_for_e" stoichiometry="1" constant="true"/> + </listOfProducts> + <fbc:geneProductAssociation> + <fbc:or> + <fbc:geneProductRef fbc:geneProduct="G_b0904"/> + <fbc:geneProductRef fbc:geneProduct="G_b2492"/> + </fbc:or> + </fbc:geneProductAssociation> + </reaction> + <reaction metaid="meta_R_FRD7" id="R_FRD7" name="fumarate reductase" reversible="false" fast="false" fbc:lowerFluxBound="cobra_0_bound" fbc:upperFluxBound="cobra_default_ub"> + <annotation> + <rdf:RDF xmlns:rdf="http://www.w3.org/1999/02/22-rdf-syntax-ns#" xmlns:dcterms="http://purl.org/dc/terms/" xmlns:vCard="http://www.w3.org/2001/vcard-rdf/3.0#" xmlns:vCard4="http://www.w3.org/2006/vcard/ns#" xmlns:bqbiol="http://biomodels.net/biology-qualifiers/" xmlns:bqmodel="http://biomodels.net/model-qualifiers/"> + <rdf:Description rdf:about="#meta_R_FRD7"> + <bqbiol:is> + <rdf:Bag> + <rdf:li rdf:resource="https://identifiers.org/bigg.reaction/FRD7"/> + </rdf:Bag> + </bqbiol:is> + </rdf:Description> + </rdf:RDF> + </annotation> + <listOfReactants> + <speciesReference species="M_fum_c" stoichiometry="1" constant="true"/> + <speciesReference species="M_q8h2_c" stoichiometry="1" constant="true"/> + </listOfReactants> + <listOfProducts> + <speciesReference species="M_q8_c" stoichiometry="1" constant="true"/> + <speciesReference species="M_succ_c" stoichiometry="1" constant="true"/> + </listOfProducts> + <fbc:geneProductAssociation> + <fbc:and> + <fbc:geneProductRef fbc:geneProduct="G_b4153"/> + <fbc:geneProductRef fbc:geneProduct="G_b4151"/> + <fbc:geneProductRef fbc:geneProduct="G_b4152"/> + <fbc:geneProductRef fbc:geneProduct="G_b4154"/> + </fbc:and> + </fbc:geneProductAssociation> + </reaction> + <reaction metaid="meta_R_FRUpts2" id="R_FRUpts2" name="R Fructose transport via PEPPyr PTS-f6p - generating" reversible="false" fast="false" fbc:lowerFluxBound="cobra_0_bound" fbc:upperFluxBound="cobra_default_ub"> + <annotation> + <rdf:RDF xmlns:rdf="http://www.w3.org/1999/02/22-rdf-syntax-ns#" xmlns:dcterms="http://purl.org/dc/terms/" xmlns:vCard="http://www.w3.org/2001/vcard-rdf/3.0#" xmlns:vCard4="http://www.w3.org/2006/vcard/ns#" xmlns:bqbiol="http://biomodels.net/biology-qualifiers/" xmlns:bqmodel="http://biomodels.net/model-qualifiers/"> + <rdf:Description rdf:about="#meta_R_FRUpts2"> + <bqbiol:is> + <rdf:Bag> + <rdf:li rdf:resource="https://identifiers.org/bigg.reaction/FRUpts2"/> + </rdf:Bag> + </bqbiol:is> + </rdf:Description> + </rdf:RDF> + </annotation> + <listOfReactants> + <speciesReference species="M_fru_e" stoichiometry="1" constant="true"/> + <speciesReference species="M_pep_c" stoichiometry="1" constant="true"/> + </listOfReactants> + <listOfProducts> + <speciesReference species="M_f6p_c" stoichiometry="1" constant="true"/> + <speciesReference species="M_pyr_c" stoichiometry="1" constant="true"/> + </listOfProducts> + <fbc:geneProductAssociation> + <fbc:and> + <fbc:geneProductRef fbc:geneProduct="G_b2415"/> + <fbc:geneProductRef fbc:geneProduct="G_b1818"/> + <fbc:geneProductRef fbc:geneProduct="G_b1817"/> + <fbc:geneProductRef fbc:geneProduct="G_b1819"/> + <fbc:geneProductRef fbc:geneProduct="G_b2416"/> + </fbc:and> + </fbc:geneProductAssociation> + </reaction> + <reaction metaid="meta_R_FUM" id="R_FUM" name="fumarase" reversible="true" fast="false" fbc:lowerFluxBound="cobra_default_lb" fbc:upperFluxBound="cobra_default_ub"> + <annotation> + <rdf:RDF xmlns:rdf="http://www.w3.org/1999/02/22-rdf-syntax-ns#" xmlns:dcterms="http://purl.org/dc/terms/" xmlns:vCard="http://www.w3.org/2001/vcard-rdf/3.0#" xmlns:vCard4="http://www.w3.org/2006/vcard/ns#" xmlns:bqbiol="http://biomodels.net/biology-qualifiers/" xmlns:bqmodel="http://biomodels.net/model-qualifiers/"> + <rdf:Description rdf:about="#meta_R_FUM"> + <bqbiol:is> + <rdf:Bag> + <rdf:li rdf:resource="https://identifiers.org/bigg.reaction/FUM"/> + </rdf:Bag> + </bqbiol:is> + </rdf:Description> + </rdf:RDF> + </annotation> + <listOfReactants> + <speciesReference species="M_fum_c" stoichiometry="1" constant="true"/> + <speciesReference species="M_h2o_c" stoichiometry="1" constant="true"/> + </listOfReactants> + <listOfProducts> + <speciesReference species="M_mal__L_c" stoichiometry="1" constant="true"/> + </listOfProducts> + <fbc:geneProductAssociation> + <fbc:or> + <fbc:geneProductRef fbc:geneProduct="G_b4122"/> + <fbc:geneProductRef fbc:geneProduct="G_b1612"/> + <fbc:geneProductRef fbc:geneProduct="G_b1611"/> + </fbc:or> + </fbc:geneProductAssociation> + </reaction> + <reaction metaid="meta_R_FUMt2_2" id="R_FUMt2_2" name="R Fumarate transport via proton symport-2 - H" reversible="false" fast="false" fbc:lowerFluxBound="cobra_0_bound" fbc:upperFluxBound="cobra_default_ub"> + <annotation> + <rdf:RDF xmlns:rdf="http://www.w3.org/1999/02/22-rdf-syntax-ns#" xmlns:dcterms="http://purl.org/dc/terms/" xmlns:vCard="http://www.w3.org/2001/vcard-rdf/3.0#" xmlns:vCard4="http://www.w3.org/2006/vcard/ns#" xmlns:bqbiol="http://biomodels.net/biology-qualifiers/" xmlns:bqmodel="http://biomodels.net/model-qualifiers/"> + <rdf:Description rdf:about="#meta_R_FUMt2_2"> + <bqbiol:is> + <rdf:Bag> + <rdf:li rdf:resource="https://identifiers.org/bigg.reaction/FUMt2_2"/> + </rdf:Bag> + </bqbiol:is> + </rdf:Description> + </rdf:RDF> + </annotation> + <listOfReactants> + <speciesReference species="M_fum_e" stoichiometry="1" constant="true"/> + <speciesReference species="M_h_e" stoichiometry="2" constant="true"/> + </listOfReactants> + <listOfProducts> + <speciesReference species="M_fum_c" stoichiometry="1" constant="true"/> + <speciesReference species="M_h_c" stoichiometry="2" constant="true"/> + </listOfProducts> + <fbc:geneProductAssociation> + <fbc:geneProductRef fbc:geneProduct="G_b3528"/> + </fbc:geneProductAssociation> + </reaction> + <reaction metaid="meta_R_G6PDH2r" id="R_G6PDH2r" name="glucose 6-phosphate dehydrogenase" reversible="true" fast="false" fbc:lowerFluxBound="cobra_default_lb" fbc:upperFluxBound="cobra_default_ub"> + <annotation> + <rdf:RDF xmlns:rdf="http://www.w3.org/1999/02/22-rdf-syntax-ns#" xmlns:dcterms="http://purl.org/dc/terms/" xmlns:vCard="http://www.w3.org/2001/vcard-rdf/3.0#" xmlns:vCard4="http://www.w3.org/2006/vcard/ns#" xmlns:bqbiol="http://biomodels.net/biology-qualifiers/" xmlns:bqmodel="http://biomodels.net/model-qualifiers/"> + <rdf:Description rdf:about="#meta_R_G6PDH2r"> + <bqbiol:is> + <rdf:Bag> + <rdf:li rdf:resource="https://identifiers.org/bigg.reaction/G6PDH2r"/> + </rdf:Bag> + </bqbiol:is> + </rdf:Description> + </rdf:RDF> + </annotation> + <listOfReactants> + <speciesReference species="M_g6p_c" stoichiometry="1" constant="true"/> + <speciesReference species="M_nadp_c" stoichiometry="1" constant="true"/> + </listOfReactants> + <listOfProducts> + <speciesReference species="M_6pgl_c" stoichiometry="1" constant="true"/> + <speciesReference species="M_h_c" stoichiometry="1" constant="true"/> + <speciesReference species="M_nadph_c" stoichiometry="1" constant="true"/> + </listOfProducts> + <fbc:geneProductAssociation> + <fbc:geneProductRef fbc:geneProduct="G_b1852"/> + </fbc:geneProductAssociation> + </reaction> + <reaction metaid="meta_R_GAPD" id="R_GAPD" name="glyceraldehyde-3-phosphate dehydrogenase" reversible="true" fast="false" fbc:lowerFluxBound="cobra_default_lb" fbc:upperFluxBound="cobra_default_ub"> + <annotation> + <rdf:RDF xmlns:rdf="http://www.w3.org/1999/02/22-rdf-syntax-ns#" xmlns:dcterms="http://purl.org/dc/terms/" xmlns:vCard="http://www.w3.org/2001/vcard-rdf/3.0#" xmlns:vCard4="http://www.w3.org/2006/vcard/ns#" xmlns:bqbiol="http://biomodels.net/biology-qualifiers/" xmlns:bqmodel="http://biomodels.net/model-qualifiers/"> + <rdf:Description rdf:about="#meta_R_GAPD"> + <bqbiol:is> + <rdf:Bag> + <rdf:li rdf:resource="https://identifiers.org/bigg.reaction/GAPD"/> + </rdf:Bag> + </bqbiol:is> + </rdf:Description> + </rdf:RDF> + </annotation> + <listOfReactants> + <speciesReference species="M_g3p_c" stoichiometry="1" constant="true"/> + <speciesReference species="M_nad_c" stoichiometry="1" constant="true"/> + <speciesReference species="M_pi_c" stoichiometry="1" constant="true"/> + </listOfReactants> + <listOfProducts> + <speciesReference species="M_13dpg_c" stoichiometry="1" constant="true"/> + <speciesReference species="M_h_c" stoichiometry="1" constant="true"/> + <speciesReference species="M_nadh_c" stoichiometry="1" constant="true"/> + </listOfProducts> + <fbc:geneProductAssociation> + <fbc:geneProductRef fbc:geneProduct="G_b1779"/> + </fbc:geneProductAssociation> + </reaction> + <reaction metaid="meta_R_GLCpts" id="R_GLCpts" name="D-glucose transport via PEP:Pyr PTS" reversible="false" fast="false" fbc:lowerFluxBound="cobra_0_bound" fbc:upperFluxBound="cobra_default_ub"> + <annotation> + <rdf:RDF xmlns:rdf="http://www.w3.org/1999/02/22-rdf-syntax-ns#" xmlns:dcterms="http://purl.org/dc/terms/" xmlns:vCard="http://www.w3.org/2001/vcard-rdf/3.0#" xmlns:vCard4="http://www.w3.org/2006/vcard/ns#" xmlns:bqbiol="http://biomodels.net/biology-qualifiers/" xmlns:bqmodel="http://biomodels.net/model-qualifiers/"> + <rdf:Description rdf:about="#meta_R_GLCpts"> + <bqbiol:is> + <rdf:Bag> + <rdf:li rdf:resource="https://identifiers.org/bigg.reaction/GLCpts"/> + </rdf:Bag> + </bqbiol:is> + </rdf:Description> + </rdf:RDF> + </annotation> + <listOfReactants> + <speciesReference species="M_glc__D_e" stoichiometry="1" constant="true"/> + <speciesReference species="M_pep_c" stoichiometry="1" constant="true"/> + </listOfReactants> + <listOfProducts> + <speciesReference species="M_g6p_c" stoichiometry="1" constant="true"/> + <speciesReference species="M_pyr_c" stoichiometry="1" constant="true"/> + </listOfProducts> + <fbc:geneProductAssociation> + <fbc:or> + <fbc:and> + <fbc:geneProductRef fbc:geneProduct="G_b2415"/> + <fbc:geneProductRef fbc:geneProduct="G_b1818"/> + <fbc:geneProductRef fbc:geneProduct="G_b1817"/> + <fbc:geneProductRef fbc:geneProduct="G_b1819"/> + <fbc:geneProductRef fbc:geneProduct="G_b2416"/> + </fbc:and> + <fbc:and> + <fbc:geneProductRef fbc:geneProduct="G_b2415"/> + <fbc:geneProductRef fbc:geneProduct="G_b2417"/> + <fbc:geneProductRef fbc:geneProduct="G_b1101"/> + <fbc:geneProductRef fbc:geneProduct="G_b2416"/> + </fbc:and> + <fbc:and> + <fbc:geneProductRef fbc:geneProduct="G_b2415"/> + <fbc:geneProductRef fbc:geneProduct="G_b2417"/> + <fbc:geneProductRef fbc:geneProduct="G_b1621"/> + <fbc:geneProductRef fbc:geneProduct="G_b2416"/> + </fbc:and> + </fbc:or> + </fbc:geneProductAssociation> + </reaction> + <reaction metaid="meta_R_GLNS" id="R_GLNS" name="glutamine synthetase" reversible="false" fast="false" fbc:lowerFluxBound="cobra_0_bound" fbc:upperFluxBound="cobra_default_ub"> + <annotation> + <rdf:RDF xmlns:rdf="http://www.w3.org/1999/02/22-rdf-syntax-ns#" xmlns:dcterms="http://purl.org/dc/terms/" xmlns:vCard="http://www.w3.org/2001/vcard-rdf/3.0#" xmlns:vCard4="http://www.w3.org/2006/vcard/ns#" xmlns:bqbiol="http://biomodels.net/biology-qualifiers/" xmlns:bqmodel="http://biomodels.net/model-qualifiers/"> + <rdf:Description rdf:about="#meta_R_GLNS"> + <bqbiol:is> + <rdf:Bag> + <rdf:li rdf:resource="https://identifiers.org/bigg.reaction/GLNS"/> + </rdf:Bag> + </bqbiol:is> + </rdf:Description> + </rdf:RDF> + </annotation> + <listOfReactants> + <speciesReference species="M_atp_c" stoichiometry="1" constant="true"/> + <speciesReference species="M_glu__L_c" stoichiometry="1" constant="true"/> + <speciesReference species="M_nh4_c" stoichiometry="1" constant="true"/> + </listOfReactants> + <listOfProducts> + <speciesReference species="M_adp_c" stoichiometry="1" constant="true"/> + <speciesReference species="M_gln__L_c" stoichiometry="1" constant="true"/> + <speciesReference species="M_h_c" stoichiometry="1" constant="true"/> + <speciesReference species="M_pi_c" stoichiometry="1" constant="true"/> + </listOfProducts> + <fbc:geneProductAssociation> + <fbc:or> + <fbc:geneProductRef fbc:geneProduct="G_b3870"/> + <fbc:geneProductRef fbc:geneProduct="G_b1297"/> + </fbc:or> + </fbc:geneProductAssociation> + </reaction> + <reaction metaid="meta_R_GLNabc" id="R_GLNabc" name="GLNabc" reversible="false" fast="false" fbc:lowerFluxBound="cobra_0_bound" fbc:upperFluxBound="cobra_default_ub"> + <annotation> + <rdf:RDF xmlns:rdf="http://www.w3.org/1999/02/22-rdf-syntax-ns#" xmlns:dcterms="http://purl.org/dc/terms/" xmlns:vCard="http://www.w3.org/2001/vcard-rdf/3.0#" xmlns:vCard4="http://www.w3.org/2006/vcard/ns#" xmlns:bqbiol="http://biomodels.net/biology-qualifiers/" xmlns:bqmodel="http://biomodels.net/model-qualifiers/"> + <rdf:Description rdf:about="#meta_R_GLNabc"> + <bqbiol:is> + <rdf:Bag> + <rdf:li rdf:resource="https://identifiers.org/bigg.reaction/GLNabc"/> + </rdf:Bag> + </bqbiol:is> + </rdf:Description> + </rdf:RDF> + </annotation> + <listOfReactants> + <speciesReference species="M_atp_c" stoichiometry="1" constant="true"/> + <speciesReference species="M_gln__L_e" stoichiometry="1" constant="true"/> + <speciesReference species="M_h2o_c" stoichiometry="1" constant="true"/> + </listOfReactants> + <listOfProducts> + <speciesReference species="M_adp_c" stoichiometry="1" constant="true"/> + <speciesReference species="M_gln__L_c" stoichiometry="1" constant="true"/> + <speciesReference species="M_h_c" stoichiometry="1" constant="true"/> + <speciesReference species="M_pi_c" stoichiometry="1" constant="true"/> + </listOfProducts> + <fbc:geneProductAssociation> + <fbc:and> + <fbc:geneProductRef fbc:geneProduct="G_b0810"/> + <fbc:geneProductRef fbc:geneProduct="G_b0811"/> + <fbc:geneProductRef fbc:geneProduct="G_b0809"/> + </fbc:and> + </fbc:geneProductAssociation> + </reaction> + <reaction metaid="meta_R_GLUDy" id="R_GLUDy" name="glutamate dehydrogenase (NADP)" reversible="true" fast="false" fbc:lowerFluxBound="cobra_default_lb" fbc:upperFluxBound="cobra_default_ub"> + <annotation> + <rdf:RDF xmlns:rdf="http://www.w3.org/1999/02/22-rdf-syntax-ns#" xmlns:dcterms="http://purl.org/dc/terms/" xmlns:vCard="http://www.w3.org/2001/vcard-rdf/3.0#" xmlns:vCard4="http://www.w3.org/2006/vcard/ns#" xmlns:bqbiol="http://biomodels.net/biology-qualifiers/" xmlns:bqmodel="http://biomodels.net/model-qualifiers/"> + <rdf:Description rdf:about="#meta_R_GLUDy"> + <bqbiol:is> + <rdf:Bag> + <rdf:li rdf:resource="https://identifiers.org/bigg.reaction/GLUDy"/> + </rdf:Bag> + </bqbiol:is> + </rdf:Description> + </rdf:RDF> + </annotation> + <listOfReactants> + <speciesReference species="M_glu__L_c" stoichiometry="1" constant="true"/> + <speciesReference species="M_h2o_c" stoichiometry="1" constant="true"/> + <speciesReference species="M_nadp_c" stoichiometry="1" constant="true"/> + </listOfReactants> + <listOfProducts> + <speciesReference species="M_akg_c" stoichiometry="1" constant="true"/> + <speciesReference species="M_h_c" stoichiometry="1" constant="true"/> + <speciesReference species="M_nadph_c" stoichiometry="1" constant="true"/> + <speciesReference species="M_nh4_c" stoichiometry="1" constant="true"/> + </listOfProducts> + <fbc:geneProductAssociation> + <fbc:geneProductRef fbc:geneProduct="G_b1761"/> + </fbc:geneProductAssociation> + </reaction> + <reaction metaid="meta_R_GLUN" id="R_GLUN" name="glutaminase" reversible="false" fast="false" fbc:lowerFluxBound="cobra_0_bound" fbc:upperFluxBound="cobra_default_ub"> + <annotation> + <rdf:RDF xmlns:rdf="http://www.w3.org/1999/02/22-rdf-syntax-ns#" xmlns:dcterms="http://purl.org/dc/terms/" xmlns:vCard="http://www.w3.org/2001/vcard-rdf/3.0#" xmlns:vCard4="http://www.w3.org/2006/vcard/ns#" xmlns:bqbiol="http://biomodels.net/biology-qualifiers/" xmlns:bqmodel="http://biomodels.net/model-qualifiers/"> + <rdf:Description rdf:about="#meta_R_GLUN"> + <bqbiol:is> + <rdf:Bag> + <rdf:li rdf:resource="https://identifiers.org/bigg.reaction/GLUN"/> + </rdf:Bag> + </bqbiol:is> + </rdf:Description> + </rdf:RDF> + </annotation> + <listOfReactants> + <speciesReference species="M_gln__L_c" stoichiometry="1" constant="true"/> + <speciesReference species="M_h2o_c" stoichiometry="1" constant="true"/> + </listOfReactants> + <listOfProducts> + <speciesReference species="M_glu__L_c" stoichiometry="1" constant="true"/> + <speciesReference species="M_nh4_c" stoichiometry="1" constant="true"/> + </listOfProducts> + <fbc:geneProductAssociation> + <fbc:or> + <fbc:geneProductRef fbc:geneProduct="G_b0485"/> + <fbc:geneProductRef fbc:geneProduct="G_b1812"/> + <fbc:geneProductRef fbc:geneProduct="G_b1524"/> + </fbc:or> + </fbc:geneProductAssociation> + </reaction> + <reaction metaid="meta_R_GLUSy" id="R_GLUSy" name="glutamate synthase (NADPH)" reversible="false" fast="false" fbc:lowerFluxBound="cobra_0_bound" fbc:upperFluxBound="cobra_default_ub"> + <annotation> + <rdf:RDF xmlns:rdf="http://www.w3.org/1999/02/22-rdf-syntax-ns#" xmlns:dcterms="http://purl.org/dc/terms/" xmlns:vCard="http://www.w3.org/2001/vcard-rdf/3.0#" xmlns:vCard4="http://www.w3.org/2006/vcard/ns#" xmlns:bqbiol="http://biomodels.net/biology-qualifiers/" xmlns:bqmodel="http://biomodels.net/model-qualifiers/"> + <rdf:Description rdf:about="#meta_R_GLUSy"> + <bqbiol:is> + <rdf:Bag> + <rdf:li rdf:resource="https://identifiers.org/bigg.reaction/GLUSy"/> + </rdf:Bag> + </bqbiol:is> + </rdf:Description> + </rdf:RDF> + </annotation> + <listOfReactants> + <speciesReference species="M_akg_c" stoichiometry="1" constant="true"/> + <speciesReference species="M_gln__L_c" stoichiometry="1" constant="true"/> + <speciesReference species="M_h_c" stoichiometry="1" constant="true"/> + <speciesReference species="M_nadph_c" stoichiometry="1" constant="true"/> + </listOfReactants> + <listOfProducts> + <speciesReference species="M_glu__L_c" stoichiometry="2" constant="true"/> + <speciesReference species="M_nadp_c" stoichiometry="1" constant="true"/> + </listOfProducts> + <fbc:geneProductAssociation> + <fbc:and> + <fbc:geneProductRef fbc:geneProduct="G_b3212"/> + <fbc:geneProductRef fbc:geneProduct="G_b3213"/> + </fbc:and> + </fbc:geneProductAssociation> + </reaction> + <reaction metaid="meta_R_GLUt2r" id="R_GLUt2r" name="R L glutamate transport via proton - symport-reversible" reversible="true" fast="false" fbc:lowerFluxBound="cobra_default_lb" fbc:upperFluxBound="cobra_default_ub"> + <annotation> + <rdf:RDF xmlns:rdf="http://www.w3.org/1999/02/22-rdf-syntax-ns#" xmlns:dcterms="http://purl.org/dc/terms/" xmlns:vCard="http://www.w3.org/2001/vcard-rdf/3.0#" xmlns:vCard4="http://www.w3.org/2006/vcard/ns#" xmlns:bqbiol="http://biomodels.net/biology-qualifiers/" xmlns:bqmodel="http://biomodels.net/model-qualifiers/"> + <rdf:Description rdf:about="#meta_R_GLUt2r"> + <bqbiol:is> + <rdf:Bag> + <rdf:li rdf:resource="https://identifiers.org/bigg.reaction/GLUt2r"/> + </rdf:Bag> + </bqbiol:is> + </rdf:Description> + </rdf:RDF> + </annotation> + <listOfReactants> + <speciesReference species="M_glu__L_e" stoichiometry="1" constant="true"/> + <speciesReference species="M_h_e" stoichiometry="1" constant="true"/> + </listOfReactants> + <listOfProducts> + <speciesReference species="M_glu__L_c" stoichiometry="1" constant="true"/> + <speciesReference species="M_h_c" stoichiometry="1" constant="true"/> + </listOfProducts> + <fbc:geneProductAssociation> + <fbc:geneProductRef fbc:geneProduct="G_b4077"/> + </fbc:geneProductAssociation> + </reaction> + <reaction metaid="meta_R_GND" id="R_GND" name="phosphogluconate dehydrogenase" reversible="false" fast="false" fbc:lowerFluxBound="cobra_0_bound" fbc:upperFluxBound="cobra_default_ub"> + <annotation> + <rdf:RDF xmlns:rdf="http://www.w3.org/1999/02/22-rdf-syntax-ns#" xmlns:dcterms="http://purl.org/dc/terms/" xmlns:vCard="http://www.w3.org/2001/vcard-rdf/3.0#" xmlns:vCard4="http://www.w3.org/2006/vcard/ns#" xmlns:bqbiol="http://biomodels.net/biology-qualifiers/" xmlns:bqmodel="http://biomodels.net/model-qualifiers/"> + <rdf:Description rdf:about="#meta_R_GND"> + <bqbiol:is> + <rdf:Bag> + <rdf:li rdf:resource="https://identifiers.org/bigg.reaction/GND"/> + </rdf:Bag> + </bqbiol:is> + </rdf:Description> + </rdf:RDF> + </annotation> + <listOfReactants> + <speciesReference species="M_6pgc_c" stoichiometry="1" constant="true"/> + <speciesReference species="M_nadp_c" stoichiometry="1" constant="true"/> + </listOfReactants> + <listOfProducts> + <speciesReference species="M_co2_c" stoichiometry="1" constant="true"/> + <speciesReference species="M_nadph_c" stoichiometry="1" constant="true"/> + <speciesReference species="M_ru5p__D_c" stoichiometry="1" constant="true"/> + </listOfProducts> + <fbc:geneProductAssociation> + <fbc:geneProductRef fbc:geneProduct="G_b2029"/> + </fbc:geneProductAssociation> + </reaction> + <reaction metaid="meta_R_H2Ot" id="R_H2Ot" name="R H2O transport via - diffusion" reversible="true" fast="false" fbc:lowerFluxBound="cobra_default_lb" fbc:upperFluxBound="cobra_default_ub"> + <annotation> + <rdf:RDF xmlns:rdf="http://www.w3.org/1999/02/22-rdf-syntax-ns#" xmlns:dcterms="http://purl.org/dc/terms/" xmlns:vCard="http://www.w3.org/2001/vcard-rdf/3.0#" xmlns:vCard4="http://www.w3.org/2006/vcard/ns#" xmlns:bqbiol="http://biomodels.net/biology-qualifiers/" xmlns:bqmodel="http://biomodels.net/model-qualifiers/"> + <rdf:Description rdf:about="#meta_R_H2Ot"> + <bqbiol:is> + <rdf:Bag> + <rdf:li rdf:resource="https://identifiers.org/bigg.reaction/H2Ot"/> + </rdf:Bag> + </bqbiol:is> + </rdf:Description> + </rdf:RDF> + </annotation> + <listOfReactants> + <speciesReference species="M_h2o_e" stoichiometry="1" constant="true"/> + </listOfReactants> + <listOfProducts> + <speciesReference species="M_h2o_c" stoichiometry="1" constant="true"/> + </listOfProducts> + <fbc:geneProductAssociation> + <fbc:or> + <fbc:geneProductRef fbc:geneProduct="G_b0875"/> + <fbc:geneProductRef fbc:geneProduct="G_s0001"/> + </fbc:or> + </fbc:geneProductAssociation> + </reaction> + <reaction metaid="meta_R_ICDHyr" id="R_ICDHyr" name="isocitrate dehydrogenase (NADP)" reversible="true" fast="false" fbc:lowerFluxBound="cobra_default_lb" fbc:upperFluxBound="cobra_default_ub"> + <annotation> + <rdf:RDF xmlns:rdf="http://www.w3.org/1999/02/22-rdf-syntax-ns#" xmlns:dcterms="http://purl.org/dc/terms/" xmlns:vCard="http://www.w3.org/2001/vcard-rdf/3.0#" xmlns:vCard4="http://www.w3.org/2006/vcard/ns#" xmlns:bqbiol="http://biomodels.net/biology-qualifiers/" xmlns:bqmodel="http://biomodels.net/model-qualifiers/"> + <rdf:Description rdf:about="#meta_R_ICDHyr"> + <bqbiol:is> + <rdf:Bag> + <rdf:li rdf:resource="https://identifiers.org/bigg.reaction/ICDHyr"/> + </rdf:Bag> + </bqbiol:is> + </rdf:Description> + </rdf:RDF> + </annotation> + <listOfReactants> + <speciesReference species="M_icit_c" stoichiometry="1" constant="true"/> + <speciesReference species="M_nadp_c" stoichiometry="1" constant="true"/> + </listOfReactants> + <listOfProducts> + <speciesReference species="M_akg_c" stoichiometry="1" constant="true"/> + <speciesReference species="M_co2_c" stoichiometry="1" constant="true"/> + <speciesReference species="M_nadph_c" stoichiometry="1" constant="true"/> + </listOfProducts> + <fbc:geneProductAssociation> + <fbc:geneProductRef fbc:geneProduct="G_b1136"/> + </fbc:geneProductAssociation> + </reaction> + <reaction metaid="meta_R_ICL" id="R_ICL" name="Isocitrate lyase" reversible="false" fast="false" fbc:lowerFluxBound="cobra_0_bound" fbc:upperFluxBound="cobra_default_ub"> + <annotation> + <rdf:RDF xmlns:rdf="http://www.w3.org/1999/02/22-rdf-syntax-ns#" xmlns:dcterms="http://purl.org/dc/terms/" xmlns:vCard="http://www.w3.org/2001/vcard-rdf/3.0#" xmlns:vCard4="http://www.w3.org/2006/vcard/ns#" xmlns:bqbiol="http://biomodels.net/biology-qualifiers/" xmlns:bqmodel="http://biomodels.net/model-qualifiers/"> + <rdf:Description rdf:about="#meta_R_ICL"> + <bqbiol:is> + <rdf:Bag> + <rdf:li rdf:resource="https://identifiers.org/bigg.reaction/ICL"/> + </rdf:Bag> + </bqbiol:is> + </rdf:Description> + </rdf:RDF> + </annotation> + <listOfReactants> + <speciesReference species="M_icit_c" stoichiometry="1" constant="true"/> + </listOfReactants> + <listOfProducts> + <speciesReference species="M_glx_c" stoichiometry="1" constant="true"/> + <speciesReference species="M_succ_c" stoichiometry="1" constant="true"/> + </listOfProducts> + <fbc:geneProductAssociation> + <fbc:geneProductRef fbc:geneProduct="G_b4015"/> + </fbc:geneProductAssociation> + </reaction> + <reaction metaid="meta_R_LDH_D" id="R_LDH_D" name="D-lactate dehydrogenase" reversible="true" fast="false" fbc:lowerFluxBound="cobra_default_lb" fbc:upperFluxBound="cobra_default_ub"> + <annotation> + <rdf:RDF xmlns:rdf="http://www.w3.org/1999/02/22-rdf-syntax-ns#" xmlns:dcterms="http://purl.org/dc/terms/" xmlns:vCard="http://www.w3.org/2001/vcard-rdf/3.0#" xmlns:vCard4="http://www.w3.org/2006/vcard/ns#" xmlns:bqbiol="http://biomodels.net/biology-qualifiers/" xmlns:bqmodel="http://biomodels.net/model-qualifiers/"> + <rdf:Description rdf:about="#meta_R_LDH_D"> + <bqbiol:is> + <rdf:Bag> + <rdf:li rdf:resource="https://identifiers.org/bigg.reaction/LDH_D"/> + </rdf:Bag> + </bqbiol:is> + </rdf:Description> + </rdf:RDF> + </annotation> + <listOfReactants> + <speciesReference species="M_lac__D_c" stoichiometry="1" constant="true"/> + <speciesReference species="M_nad_c" stoichiometry="1" constant="true"/> + </listOfReactants> + <listOfProducts> + <speciesReference species="M_h_c" stoichiometry="1" constant="true"/> + <speciesReference species="M_nadh_c" stoichiometry="1" constant="true"/> + <speciesReference species="M_pyr_c" stoichiometry="1" constant="true"/> + </listOfProducts> + <fbc:geneProductAssociation> + <fbc:or> + <fbc:geneProductRef fbc:geneProduct="G_b2133"/> + <fbc:geneProductRef fbc:geneProduct="G_b1380"/> + </fbc:or> + </fbc:geneProductAssociation> + </reaction> + <reaction metaid="meta_R_MALS" id="R_MALS" name="malate synthase" reversible="false" fast="false" fbc:lowerFluxBound="cobra_0_bound" fbc:upperFluxBound="cobra_default_ub"> + <annotation> + <rdf:RDF xmlns:rdf="http://www.w3.org/1999/02/22-rdf-syntax-ns#" xmlns:dcterms="http://purl.org/dc/terms/" xmlns:vCard="http://www.w3.org/2001/vcard-rdf/3.0#" xmlns:vCard4="http://www.w3.org/2006/vcard/ns#" xmlns:bqbiol="http://biomodels.net/biology-qualifiers/" xmlns:bqmodel="http://biomodels.net/model-qualifiers/"> + <rdf:Description rdf:about="#meta_R_MALS"> + <bqbiol:is> + <rdf:Bag> + <rdf:li rdf:resource="https://identifiers.org/bigg.reaction/MALS"/> + </rdf:Bag> + </bqbiol:is> + </rdf:Description> + </rdf:RDF> + </annotation> + <listOfReactants> + <speciesReference species="M_accoa_c" stoichiometry="1" constant="true"/> + <speciesReference species="M_glx_c" stoichiometry="1" constant="true"/> + <speciesReference species="M_h2o_c" stoichiometry="1" constant="true"/> + </listOfReactants> + <listOfProducts> + <speciesReference species="M_coa_c" stoichiometry="1" constant="true"/> + <speciesReference species="M_h_c" stoichiometry="1" constant="true"/> + <speciesReference species="M_mal__L_c" stoichiometry="1" constant="true"/> + </listOfProducts> + <fbc:geneProductAssociation> + <fbc:or> + <fbc:geneProductRef fbc:geneProduct="G_b4014"/> + <fbc:geneProductRef fbc:geneProduct="G_b2976"/> + </fbc:or> + </fbc:geneProductAssociation> + </reaction> + <reaction metaid="meta_R_MALt2_2" id="R_MALt2_2" name="R Malate transport via proton symport-2 - H" reversible="false" fast="false" fbc:lowerFluxBound="cobra_0_bound" fbc:upperFluxBound="cobra_default_ub"> + <annotation> + <rdf:RDF xmlns:rdf="http://www.w3.org/1999/02/22-rdf-syntax-ns#" xmlns:dcterms="http://purl.org/dc/terms/" xmlns:vCard="http://www.w3.org/2001/vcard-rdf/3.0#" xmlns:vCard4="http://www.w3.org/2006/vcard/ns#" xmlns:bqbiol="http://biomodels.net/biology-qualifiers/" xmlns:bqmodel="http://biomodels.net/model-qualifiers/"> + <rdf:Description rdf:about="#meta_R_MALt2_2"> + <bqbiol:is> + <rdf:Bag> + <rdf:li rdf:resource="https://identifiers.org/bigg.reaction/MALt2_2"/> + </rdf:Bag> + </bqbiol:is> + </rdf:Description> + </rdf:RDF> + </annotation> + <listOfReactants> + <speciesReference species="M_h_e" stoichiometry="2" constant="true"/> + <speciesReference species="M_mal__L_e" stoichiometry="1" constant="true"/> + </listOfReactants> + <listOfProducts> + <speciesReference species="M_h_c" stoichiometry="2" constant="true"/> + <speciesReference species="M_mal__L_c" stoichiometry="1" constant="true"/> + </listOfProducts> + <fbc:geneProductAssociation> + <fbc:geneProductRef fbc:geneProduct="G_b3528"/> + </fbc:geneProductAssociation> + </reaction> + <reaction metaid="meta_R_MDH" id="R_MDH" name="malate dehydrogenase" reversible="true" fast="false" fbc:lowerFluxBound="cobra_default_lb" fbc:upperFluxBound="cobra_default_ub"> + <annotation> + <rdf:RDF xmlns:rdf="http://www.w3.org/1999/02/22-rdf-syntax-ns#" xmlns:dcterms="http://purl.org/dc/terms/" xmlns:vCard="http://www.w3.org/2001/vcard-rdf/3.0#" xmlns:vCard4="http://www.w3.org/2006/vcard/ns#" xmlns:bqbiol="http://biomodels.net/biology-qualifiers/" xmlns:bqmodel="http://biomodels.net/model-qualifiers/"> + <rdf:Description rdf:about="#meta_R_MDH"> + <bqbiol:is> + <rdf:Bag> + <rdf:li rdf:resource="https://identifiers.org/bigg.reaction/MDH"/> + </rdf:Bag> + </bqbiol:is> + </rdf:Description> + </rdf:RDF> + </annotation> + <listOfReactants> + <speciesReference species="M_mal__L_c" stoichiometry="1" constant="true"/> + <speciesReference species="M_nad_c" stoichiometry="1" constant="true"/> + </listOfReactants> + <listOfProducts> + <speciesReference species="M_h_c" stoichiometry="1" constant="true"/> + <speciesReference species="M_nadh_c" stoichiometry="1" constant="true"/> + <speciesReference species="M_oaa_c" stoichiometry="1" constant="true"/> + </listOfProducts> + <fbc:geneProductAssociation> + <fbc:geneProductRef fbc:geneProduct="G_b3236"/> + </fbc:geneProductAssociation> + </reaction> + <reaction metaid="meta_R_ME1" id="R_ME1" name="malic enzyme (NAD)" reversible="false" fast="false" fbc:lowerFluxBound="cobra_0_bound" fbc:upperFluxBound="cobra_default_ub"> + <annotation> + <rdf:RDF xmlns:rdf="http://www.w3.org/1999/02/22-rdf-syntax-ns#" xmlns:dcterms="http://purl.org/dc/terms/" xmlns:vCard="http://www.w3.org/2001/vcard-rdf/3.0#" xmlns:vCard4="http://www.w3.org/2006/vcard/ns#" xmlns:bqbiol="http://biomodels.net/biology-qualifiers/" xmlns:bqmodel="http://biomodels.net/model-qualifiers/"> + <rdf:Description rdf:about="#meta_R_ME1"> + <bqbiol:is> + <rdf:Bag> + <rdf:li rdf:resource="https://identifiers.org/bigg.reaction/ME1"/> + </rdf:Bag> + </bqbiol:is> + </rdf:Description> + </rdf:RDF> + </annotation> + <listOfReactants> + <speciesReference species="M_mal__L_c" stoichiometry="1" constant="true"/> + <speciesReference species="M_nad_c" stoichiometry="1" constant="true"/> + </listOfReactants> + <listOfProducts> + <speciesReference species="M_co2_c" stoichiometry="1" constant="true"/> + <speciesReference species="M_nadh_c" stoichiometry="1" constant="true"/> + <speciesReference species="M_pyr_c" stoichiometry="1" constant="true"/> + </listOfProducts> + <fbc:geneProductAssociation> + <fbc:geneProductRef fbc:geneProduct="G_b1479"/> + </fbc:geneProductAssociation> + </reaction> + <reaction metaid="meta_R_ME2" id="R_ME2" name="malic enzyme (NADP)" reversible="false" fast="false" fbc:lowerFluxBound="cobra_0_bound" fbc:upperFluxBound="cobra_default_ub"> + <annotation> + <rdf:RDF xmlns:rdf="http://www.w3.org/1999/02/22-rdf-syntax-ns#" xmlns:dcterms="http://purl.org/dc/terms/" xmlns:vCard="http://www.w3.org/2001/vcard-rdf/3.0#" xmlns:vCard4="http://www.w3.org/2006/vcard/ns#" xmlns:bqbiol="http://biomodels.net/biology-qualifiers/" xmlns:bqmodel="http://biomodels.net/model-qualifiers/"> + <rdf:Description rdf:about="#meta_R_ME2"> + <bqbiol:is> + <rdf:Bag> + <rdf:li rdf:resource="https://identifiers.org/bigg.reaction/ME2"/> + </rdf:Bag> + </bqbiol:is> + </rdf:Description> + </rdf:RDF> + </annotation> + <listOfReactants> + <speciesReference species="M_mal__L_c" stoichiometry="1" constant="true"/> + <speciesReference species="M_nadp_c" stoichiometry="1" constant="true"/> + </listOfReactants> + <listOfProducts> + <speciesReference species="M_co2_c" stoichiometry="1" constant="true"/> + <speciesReference species="M_nadph_c" stoichiometry="1" constant="true"/> + <speciesReference species="M_pyr_c" stoichiometry="1" constant="true"/> + </listOfProducts> + <fbc:geneProductAssociation> + <fbc:geneProductRef fbc:geneProduct="G_b2463"/> + </fbc:geneProductAssociation> + </reaction> + <reaction metaid="meta_R_NADH16" id="R_NADH16" name="NADH dehydrogenase (ubiquinone-8 & 3 protons)" reversible="false" fast="false" fbc:lowerFluxBound="cobra_0_bound" fbc:upperFluxBound="cobra_default_ub"> + <annotation> + <rdf:RDF xmlns:rdf="http://www.w3.org/1999/02/22-rdf-syntax-ns#" xmlns:dcterms="http://purl.org/dc/terms/" xmlns:vCard="http://www.w3.org/2001/vcard-rdf/3.0#" xmlns:vCard4="http://www.w3.org/2006/vcard/ns#" xmlns:bqbiol="http://biomodels.net/biology-qualifiers/" xmlns:bqmodel="http://biomodels.net/model-qualifiers/"> + <rdf:Description rdf:about="#meta_R_NADH16"> + <bqbiol:is> + <rdf:Bag> + <rdf:li rdf:resource="https://identifiers.org/bigg.reaction/NADH16"/> + </rdf:Bag> + </bqbiol:is> + </rdf:Description> + </rdf:RDF> + </annotation> + <listOfReactants> + <speciesReference species="M_h_c" stoichiometry="4" constant="true"/> + <speciesReference species="M_nadh_c" stoichiometry="1" constant="true"/> + <speciesReference species="M_q8_c" stoichiometry="1" constant="true"/> + </listOfReactants> + <listOfProducts> + <speciesReference species="M_h_e" stoichiometry="3" constant="true"/> + <speciesReference species="M_nad_c" stoichiometry="1" constant="true"/> + <speciesReference species="M_q8h2_c" stoichiometry="1" constant="true"/> + </listOfProducts> + <fbc:geneProductAssociation> + <fbc:and> + <fbc:geneProductRef fbc:geneProduct="G_b2287"/> + <fbc:geneProductRef fbc:geneProduct="G_b2285"/> + <fbc:geneProductRef fbc:geneProduct="G_b2283"/> + <fbc:geneProductRef fbc:geneProduct="G_b2281"/> + <fbc:geneProductRef fbc:geneProduct="G_b2279"/> + <fbc:geneProductRef fbc:geneProduct="G_b2277"/> + <fbc:geneProductRef fbc:geneProduct="G_b2276"/> + <fbc:geneProductRef fbc:geneProduct="G_b2278"/> + <fbc:geneProductRef fbc:geneProduct="G_b2280"/> + <fbc:geneProductRef fbc:geneProduct="G_b2282"/> + <fbc:geneProductRef fbc:geneProduct="G_b2284"/> + <fbc:geneProductRef fbc:geneProduct="G_b2286"/> + <fbc:geneProductRef fbc:geneProduct="G_b2288"/> + </fbc:and> + </fbc:geneProductAssociation> + </reaction> + <reaction metaid="meta_R_NADTRHD" id="R_NADTRHD" name="NAD transhydrogenase" reversible="false" fast="false" fbc:lowerFluxBound="cobra_0_bound" fbc:upperFluxBound="cobra_default_ub"> + <annotation> + <rdf:RDF xmlns:rdf="http://www.w3.org/1999/02/22-rdf-syntax-ns#" xmlns:dcterms="http://purl.org/dc/terms/" xmlns:vCard="http://www.w3.org/2001/vcard-rdf/3.0#" xmlns:vCard4="http://www.w3.org/2006/vcard/ns#" xmlns:bqbiol="http://biomodels.net/biology-qualifiers/" xmlns:bqmodel="http://biomodels.net/model-qualifiers/"> + <rdf:Description rdf:about="#meta_R_NADTRHD"> + <bqbiol:is> + <rdf:Bag> + <rdf:li rdf:resource="https://identifiers.org/bigg.reaction/NADTRHD"/> + </rdf:Bag> + </bqbiol:is> + </rdf:Description> + </rdf:RDF> + </annotation> + <listOfReactants> + <speciesReference species="M_nad_c" stoichiometry="1" constant="true"/> + <speciesReference species="M_nadph_c" stoichiometry="1" constant="true"/> + </listOfReactants> + <listOfProducts> + <speciesReference species="M_nadh_c" stoichiometry="1" constant="true"/> + <speciesReference species="M_nadp_c" stoichiometry="1" constant="true"/> + </listOfProducts> + <fbc:geneProductAssociation> + <fbc:or> + <fbc:geneProductRef fbc:geneProduct="G_b3962"/> + <fbc:and> + <fbc:geneProductRef fbc:geneProduct="G_b1602"/> + <fbc:geneProductRef fbc:geneProduct="G_b1603"/> + </fbc:and> + </fbc:or> + </fbc:geneProductAssociation> + </reaction> + <reaction metaid="meta_R_NH4t" id="R_NH4t" name="R ammonia reversible - transport" reversible="true" fast="false" fbc:lowerFluxBound="cobra_default_lb" fbc:upperFluxBound="cobra_default_ub"> + <annotation> + <rdf:RDF xmlns:rdf="http://www.w3.org/1999/02/22-rdf-syntax-ns#" xmlns:dcterms="http://purl.org/dc/terms/" xmlns:vCard="http://www.w3.org/2001/vcard-rdf/3.0#" xmlns:vCard4="http://www.w3.org/2006/vcard/ns#" xmlns:bqbiol="http://biomodels.net/biology-qualifiers/" xmlns:bqmodel="http://biomodels.net/model-qualifiers/"> + <rdf:Description rdf:about="#meta_R_NH4t"> + <bqbiol:is> + <rdf:Bag> + <rdf:li rdf:resource="https://identifiers.org/bigg.reaction/NH4t"/> + </rdf:Bag> + </bqbiol:is> + </rdf:Description> + </rdf:RDF> + </annotation> + <listOfReactants> + <speciesReference species="M_nh4_e" stoichiometry="1" constant="true"/> + </listOfReactants> + <listOfProducts> + <speciesReference species="M_nh4_c" stoichiometry="1" constant="true"/> + </listOfProducts> + <fbc:geneProductAssociation> + <fbc:or> + <fbc:geneProductRef fbc:geneProduct="G_s0001"/> + <fbc:geneProductRef fbc:geneProduct="G_b0451"/> + </fbc:or> + </fbc:geneProductAssociation> + </reaction> + <reaction metaid="meta_R_O2t" id="R_O2t" name="R o2 - transport-diffusion" reversible="true" fast="false" fbc:lowerFluxBound="cobra_default_lb" fbc:upperFluxBound="cobra_default_ub"> + <annotation> + <rdf:RDF xmlns:rdf="http://www.w3.org/1999/02/22-rdf-syntax-ns#" xmlns:dcterms="http://purl.org/dc/terms/" xmlns:vCard="http://www.w3.org/2001/vcard-rdf/3.0#" xmlns:vCard4="http://www.w3.org/2006/vcard/ns#" xmlns:bqbiol="http://biomodels.net/biology-qualifiers/" xmlns:bqmodel="http://biomodels.net/model-qualifiers/"> + <rdf:Description rdf:about="#meta_R_O2t"> + <bqbiol:is> + <rdf:Bag> + <rdf:li rdf:resource="https://identifiers.org/bigg.reaction/O2t"/> + </rdf:Bag> + </bqbiol:is> + </rdf:Description> + </rdf:RDF> + </annotation> + <listOfReactants> + <speciesReference species="M_o2_e" stoichiometry="1" constant="true"/> + </listOfReactants> + <listOfProducts> + <speciesReference species="M_o2_c" stoichiometry="1" constant="true"/> + </listOfProducts> + <fbc:geneProductAssociation> + <fbc:geneProductRef fbc:geneProduct="G_s0001"/> + </fbc:geneProductAssociation> + </reaction> + <reaction metaid="meta_R_PDH" id="R_PDH" name="pyruvate dehydrogenase" reversible="false" fast="false" fbc:lowerFluxBound="cobra_0_bound" fbc:upperFluxBound="cobra_default_ub"> + <annotation> + <rdf:RDF xmlns:rdf="http://www.w3.org/1999/02/22-rdf-syntax-ns#" xmlns:dcterms="http://purl.org/dc/terms/" xmlns:vCard="http://www.w3.org/2001/vcard-rdf/3.0#" xmlns:vCard4="http://www.w3.org/2006/vcard/ns#" xmlns:bqbiol="http://biomodels.net/biology-qualifiers/" xmlns:bqmodel="http://biomodels.net/model-qualifiers/"> + <rdf:Description rdf:about="#meta_R_PDH"> + <bqbiol:is> + <rdf:Bag> + <rdf:li rdf:resource="https://identifiers.org/bigg.reaction/PDH"/> + </rdf:Bag> + </bqbiol:is> + </rdf:Description> + </rdf:RDF> + </annotation> + <listOfReactants> + <speciesReference species="M_coa_c" stoichiometry="1" constant="true"/> + <speciesReference species="M_nad_c" stoichiometry="1" constant="true"/> + <speciesReference species="M_pyr_c" stoichiometry="1" constant="true"/> + </listOfReactants> + <listOfProducts> + <speciesReference species="M_accoa_c" stoichiometry="1" constant="true"/> + <speciesReference species="M_co2_c" stoichiometry="1" constant="true"/> + <speciesReference species="M_nadh_c" stoichiometry="1" constant="true"/> + </listOfProducts> + <fbc:geneProductAssociation> + <fbc:and> + <fbc:geneProductRef fbc:geneProduct="G_b0115"/> + <fbc:geneProductRef fbc:geneProduct="G_b0114"/> + <fbc:geneProductRef fbc:geneProduct="G_b0116"/> + </fbc:and> + </fbc:geneProductAssociation> + </reaction> + <reaction metaid="meta_R_PFK" id="R_PFK" name="phosphofructokinase" reversible="false" fast="false" fbc:lowerFluxBound="cobra_0_bound" fbc:upperFluxBound="cobra_default_ub"> + <annotation> + <rdf:RDF xmlns:rdf="http://www.w3.org/1999/02/22-rdf-syntax-ns#" xmlns:dcterms="http://purl.org/dc/terms/" xmlns:vCard="http://www.w3.org/2001/vcard-rdf/3.0#" xmlns:vCard4="http://www.w3.org/2006/vcard/ns#" xmlns:bqbiol="http://biomodels.net/biology-qualifiers/" xmlns:bqmodel="http://biomodels.net/model-qualifiers/"> + <rdf:Description rdf:about="#meta_R_PFK"> + <bqbiol:is> + <rdf:Bag> + <rdf:li rdf:resource="https://identifiers.org/bigg.reaction/PFK"/> + </rdf:Bag> + </bqbiol:is> + </rdf:Description> + </rdf:RDF> + </annotation> + <listOfReactants> + <speciesReference species="M_atp_c" stoichiometry="1" constant="true"/> + <speciesReference species="M_f6p_c" stoichiometry="1" constant="true"/> + </listOfReactants> + <listOfProducts> + <speciesReference species="M_adp_c" stoichiometry="1" constant="true"/> + <speciesReference species="M_fdp_c" stoichiometry="1" constant="true"/> + <speciesReference species="M_h_c" stoichiometry="1" constant="true"/> + </listOfProducts> + <fbc:geneProductAssociation> + <fbc:or> + <fbc:geneProductRef fbc:geneProduct="G_b3916"/> + <fbc:geneProductRef fbc:geneProduct="G_b1723"/> + </fbc:or> + </fbc:geneProductAssociation> + </reaction> + <reaction metaid="meta_R_PFL" id="R_PFL" name="pyruvate formate lyase" reversible="false" fast="false" fbc:lowerFluxBound="cobra_0_bound" fbc:upperFluxBound="cobra_default_ub"> + <annotation> + <rdf:RDF xmlns:rdf="http://www.w3.org/1999/02/22-rdf-syntax-ns#" xmlns:dcterms="http://purl.org/dc/terms/" xmlns:vCard="http://www.w3.org/2001/vcard-rdf/3.0#" xmlns:vCard4="http://www.w3.org/2006/vcard/ns#" xmlns:bqbiol="http://biomodels.net/biology-qualifiers/" xmlns:bqmodel="http://biomodels.net/model-qualifiers/"> + <rdf:Description rdf:about="#meta_R_PFL"> + <bqbiol:is> + <rdf:Bag> + <rdf:li rdf:resource="https://identifiers.org/bigg.reaction/PFL"/> + </rdf:Bag> + </bqbiol:is> + </rdf:Description> + </rdf:RDF> + </annotation> + <listOfReactants> + <speciesReference species="M_coa_c" stoichiometry="1" constant="true"/> + <speciesReference species="M_pyr_c" stoichiometry="1" constant="true"/> + </listOfReactants> + <listOfProducts> + <speciesReference species="M_accoa_c" stoichiometry="1" constant="true"/> + <speciesReference species="M_for_c" stoichiometry="1" constant="true"/> + </listOfProducts> + <fbc:geneProductAssociation> + <fbc:or> + <fbc:and> + <fbc:geneProductRef fbc:geneProduct="G_b0902"/> + <fbc:geneProductRef fbc:geneProduct="G_b3114"/> + </fbc:and> + <fbc:and> + <fbc:geneProductRef fbc:geneProduct="G_b0903"/> + <fbc:geneProductRef fbc:geneProduct="G_b0902"/> + <fbc:geneProductRef fbc:geneProduct="G_b2579"/> + </fbc:and> + <fbc:and> + <fbc:geneProductRef fbc:geneProduct="G_b0902"/> + <fbc:geneProductRef fbc:geneProduct="G_b0903"/> + </fbc:and> + <fbc:and> + <fbc:geneProductRef fbc:geneProduct="G_b3951"/> + <fbc:geneProductRef fbc:geneProduct="G_b3952"/> + </fbc:and> + </fbc:or> + </fbc:geneProductAssociation> + </reaction> + <reaction metaid="meta_R_PGI" id="R_PGI" name="glucose-6-phosphate isomerase" reversible="true" fast="false" fbc:lowerFluxBound="cobra_default_lb" fbc:upperFluxBound="cobra_default_ub"> + <annotation> + <rdf:RDF xmlns:rdf="http://www.w3.org/1999/02/22-rdf-syntax-ns#" xmlns:dcterms="http://purl.org/dc/terms/" xmlns:vCard="http://www.w3.org/2001/vcard-rdf/3.0#" xmlns:vCard4="http://www.w3.org/2006/vcard/ns#" xmlns:bqbiol="http://biomodels.net/biology-qualifiers/" xmlns:bqmodel="http://biomodels.net/model-qualifiers/"> + <rdf:Description rdf:about="#meta_R_PGI"> + <bqbiol:is> + <rdf:Bag> + <rdf:li rdf:resource="https://identifiers.org/bigg.reaction/PGI"/> + </rdf:Bag> + </bqbiol:is> + </rdf:Description> + </rdf:RDF> + </annotation> + <listOfReactants> + <speciesReference species="M_g6p_c" stoichiometry="1" constant="true"/> + </listOfReactants> + <listOfProducts> + <speciesReference species="M_f6p_c" stoichiometry="1" constant="true"/> + </listOfProducts> + <fbc:geneProductAssociation> + <fbc:geneProductRef fbc:geneProduct="G_b4025"/> + </fbc:geneProductAssociation> + </reaction> + <reaction metaid="meta_R_PGK" id="R_PGK" name="phosphoglycerate kinase" reversible="true" fast="false" fbc:lowerFluxBound="cobra_default_lb" fbc:upperFluxBound="cobra_default_ub"> + <annotation> + <rdf:RDF xmlns:rdf="http://www.w3.org/1999/02/22-rdf-syntax-ns#" xmlns:dcterms="http://purl.org/dc/terms/" xmlns:vCard="http://www.w3.org/2001/vcard-rdf/3.0#" xmlns:vCard4="http://www.w3.org/2006/vcard/ns#" xmlns:bqbiol="http://biomodels.net/biology-qualifiers/" xmlns:bqmodel="http://biomodels.net/model-qualifiers/"> + <rdf:Description rdf:about="#meta_R_PGK"> + <bqbiol:is> + <rdf:Bag> + <rdf:li rdf:resource="https://identifiers.org/bigg.reaction/PGK"/> + </rdf:Bag> + </bqbiol:is> + </rdf:Description> + </rdf:RDF> + </annotation> + <listOfReactants> + <speciesReference species="M_3pg_c" stoichiometry="1" constant="true"/> + <speciesReference species="M_atp_c" stoichiometry="1" constant="true"/> + </listOfReactants> + <listOfProducts> + <speciesReference species="M_13dpg_c" stoichiometry="1" constant="true"/> + <speciesReference species="M_adp_c" stoichiometry="1" constant="true"/> + </listOfProducts> + <fbc:geneProductAssociation> + <fbc:geneProductRef fbc:geneProduct="G_b2926"/> + </fbc:geneProductAssociation> + </reaction> + <reaction metaid="meta_R_PGL" id="R_PGL" name="6-phosphogluconolactonase" reversible="false" fast="false" fbc:lowerFluxBound="cobra_0_bound" fbc:upperFluxBound="cobra_default_ub"> + <annotation> + <rdf:RDF xmlns:rdf="http://www.w3.org/1999/02/22-rdf-syntax-ns#" xmlns:dcterms="http://purl.org/dc/terms/" xmlns:vCard="http://www.w3.org/2001/vcard-rdf/3.0#" xmlns:vCard4="http://www.w3.org/2006/vcard/ns#" xmlns:bqbiol="http://biomodels.net/biology-qualifiers/" xmlns:bqmodel="http://biomodels.net/model-qualifiers/"> + <rdf:Description rdf:about="#meta_R_PGL"> + <bqbiol:is> + <rdf:Bag> + <rdf:li rdf:resource="https://identifiers.org/bigg.reaction/PGL"/> + </rdf:Bag> + </bqbiol:is> + </rdf:Description> + </rdf:RDF> + </annotation> + <listOfReactants> + <speciesReference species="M_6pgl_c" stoichiometry="1" constant="true"/> + <speciesReference species="M_h2o_c" stoichiometry="1" constant="true"/> + </listOfReactants> + <listOfProducts> + <speciesReference species="M_6pgc_c" stoichiometry="1" constant="true"/> + <speciesReference species="M_h_c" stoichiometry="1" constant="true"/> + </listOfProducts> + <fbc:geneProductAssociation> + <fbc:geneProductRef fbc:geneProduct="G_b0767"/> + </fbc:geneProductAssociation> + </reaction> + <reaction metaid="meta_R_PGM" id="R_PGM" name="phosphoglycerate mutase" reversible="true" fast="false" fbc:lowerFluxBound="cobra_default_lb" fbc:upperFluxBound="cobra_default_ub"> + <annotation> + <rdf:RDF xmlns:rdf="http://www.w3.org/1999/02/22-rdf-syntax-ns#" xmlns:dcterms="http://purl.org/dc/terms/" xmlns:vCard="http://www.w3.org/2001/vcard-rdf/3.0#" xmlns:vCard4="http://www.w3.org/2006/vcard/ns#" xmlns:bqbiol="http://biomodels.net/biology-qualifiers/" xmlns:bqmodel="http://biomodels.net/model-qualifiers/"> + <rdf:Description rdf:about="#meta_R_PGM"> + <bqbiol:is> + <rdf:Bag> + <rdf:li rdf:resource="https://identifiers.org/bigg.reaction/PGM"/> + </rdf:Bag> + </bqbiol:is> + </rdf:Description> + </rdf:RDF> + </annotation> + <listOfReactants> + <speciesReference species="M_2pg_c" stoichiometry="1" constant="true"/> + </listOfReactants> + <listOfProducts> + <speciesReference species="M_3pg_c" stoichiometry="1" constant="true"/> + </listOfProducts> + <fbc:geneProductAssociation> + <fbc:or> + <fbc:geneProductRef fbc:geneProduct="G_b4395"/> + <fbc:geneProductRef fbc:geneProduct="G_b3612"/> + <fbc:geneProductRef fbc:geneProduct="G_b0755"/> + </fbc:or> + </fbc:geneProductAssociation> + </reaction> + <reaction metaid="meta_R_PIt2r" id="R_PIt2r" name="R phosphate reversible transport via - symport" reversible="true" fast="false" fbc:lowerFluxBound="cobra_default_lb" fbc:upperFluxBound="cobra_default_ub"> + <annotation> + <rdf:RDF xmlns:rdf="http://www.w3.org/1999/02/22-rdf-syntax-ns#" xmlns:dcterms="http://purl.org/dc/terms/" xmlns:vCard="http://www.w3.org/2001/vcard-rdf/3.0#" xmlns:vCard4="http://www.w3.org/2006/vcard/ns#" xmlns:bqbiol="http://biomodels.net/biology-qualifiers/" xmlns:bqmodel="http://biomodels.net/model-qualifiers/"> + <rdf:Description rdf:about="#meta_R_PIt2r"> + <bqbiol:is> + <rdf:Bag> + <rdf:li rdf:resource="https://identifiers.org/bigg.reaction/PIt2r"/> + </rdf:Bag> + </bqbiol:is> + </rdf:Description> + </rdf:RDF> + </annotation> + <listOfReactants> + <speciesReference species="M_h_e" stoichiometry="1" constant="true"/> + <speciesReference species="M_pi_e" stoichiometry="1" constant="true"/> + </listOfReactants> + <listOfProducts> + <speciesReference species="M_h_c" stoichiometry="1" constant="true"/> + <speciesReference species="M_pi_c" stoichiometry="1" constant="true"/> + </listOfProducts> + <fbc:geneProductAssociation> + <fbc:or> + <fbc:geneProductRef fbc:geneProduct="G_b2987"/> + <fbc:geneProductRef fbc:geneProduct="G_b3493"/> + </fbc:or> + </fbc:geneProductAssociation> + </reaction> + <reaction metaid="meta_R_PPC" id="R_PPC" name="phosphoenolpyruvate carboxylase" reversible="false" fast="false" fbc:lowerFluxBound="cobra_0_bound" fbc:upperFluxBound="cobra_default_ub"> + <annotation> + <rdf:RDF xmlns:rdf="http://www.w3.org/1999/02/22-rdf-syntax-ns#" xmlns:dcterms="http://purl.org/dc/terms/" xmlns:vCard="http://www.w3.org/2001/vcard-rdf/3.0#" xmlns:vCard4="http://www.w3.org/2006/vcard/ns#" xmlns:bqbiol="http://biomodels.net/biology-qualifiers/" xmlns:bqmodel="http://biomodels.net/model-qualifiers/"> + <rdf:Description rdf:about="#meta_R_PPC"> + <bqbiol:is> + <rdf:Bag> + <rdf:li rdf:resource="https://identifiers.org/bigg.reaction/PPC"/> + </rdf:Bag> + </bqbiol:is> + </rdf:Description> + </rdf:RDF> + </annotation> + <listOfReactants> + <speciesReference species="M_co2_c" stoichiometry="1" constant="true"/> + <speciesReference species="M_h2o_c" stoichiometry="1" constant="true"/> + <speciesReference species="M_pep_c" stoichiometry="1" constant="true"/> + </listOfReactants> + <listOfProducts> + <speciesReference species="M_h_c" stoichiometry="1" constant="true"/> + <speciesReference species="M_oaa_c" stoichiometry="1" constant="true"/> + <speciesReference species="M_pi_c" stoichiometry="1" constant="true"/> + </listOfProducts> + <fbc:geneProductAssociation> + <fbc:geneProductRef fbc:geneProduct="G_b3956"/> + </fbc:geneProductAssociation> + </reaction> + <reaction metaid="meta_R_PPCK" id="R_PPCK" name="phosphoenolpyruvate carboxykinase" reversible="false" fast="false" fbc:lowerFluxBound="cobra_0_bound" fbc:upperFluxBound="cobra_default_ub"> + <annotation> + <rdf:RDF xmlns:rdf="http://www.w3.org/1999/02/22-rdf-syntax-ns#" xmlns:dcterms="http://purl.org/dc/terms/" xmlns:vCard="http://www.w3.org/2001/vcard-rdf/3.0#" xmlns:vCard4="http://www.w3.org/2006/vcard/ns#" xmlns:bqbiol="http://biomodels.net/biology-qualifiers/" xmlns:bqmodel="http://biomodels.net/model-qualifiers/"> + <rdf:Description rdf:about="#meta_R_PPCK"> + <bqbiol:is> + <rdf:Bag> + <rdf:li rdf:resource="https://identifiers.org/bigg.reaction/PPCK"/> + </rdf:Bag> + </bqbiol:is> + </rdf:Description> + </rdf:RDF> + </annotation> + <listOfReactants> + <speciesReference species="M_atp_c" stoichiometry="1" constant="true"/> + <speciesReference species="M_oaa_c" stoichiometry="1" constant="true"/> + </listOfReactants> + <listOfProducts> + <speciesReference species="M_adp_c" stoichiometry="1" constant="true"/> + <speciesReference species="M_co2_c" stoichiometry="1" constant="true"/> + <speciesReference species="M_pep_c" stoichiometry="1" constant="true"/> + </listOfProducts> + <fbc:geneProductAssociation> + <fbc:geneProductRef fbc:geneProduct="G_b3403"/> + </fbc:geneProductAssociation> + </reaction> + <reaction metaid="meta_R_PPS" id="R_PPS" name="phosphoenolpyruvate synthase" reversible="false" fast="false" fbc:lowerFluxBound="cobra_0_bound" fbc:upperFluxBound="cobra_default_ub"> + <annotation> + <rdf:RDF xmlns:rdf="http://www.w3.org/1999/02/22-rdf-syntax-ns#" xmlns:dcterms="http://purl.org/dc/terms/" xmlns:vCard="http://www.w3.org/2001/vcard-rdf/3.0#" xmlns:vCard4="http://www.w3.org/2006/vcard/ns#" xmlns:bqbiol="http://biomodels.net/biology-qualifiers/" xmlns:bqmodel="http://biomodels.net/model-qualifiers/"> + <rdf:Description rdf:about="#meta_R_PPS"> + <bqbiol:is> + <rdf:Bag> + <rdf:li rdf:resource="https://identifiers.org/bigg.reaction/PPS"/> + </rdf:Bag> + </bqbiol:is> + </rdf:Description> + </rdf:RDF> + </annotation> + <listOfReactants> + <speciesReference species="M_atp_c" stoichiometry="1" constant="true"/> + <speciesReference species="M_h2o_c" stoichiometry="1" constant="true"/> + <speciesReference species="M_pyr_c" stoichiometry="1" constant="true"/> + </listOfReactants> + <listOfProducts> + <speciesReference species="M_amp_c" stoichiometry="1" constant="true"/> + <speciesReference species="M_h_c" stoichiometry="2" constant="true"/> + <speciesReference species="M_pep_c" stoichiometry="1" constant="true"/> + <speciesReference species="M_pi_c" stoichiometry="1" constant="true"/> + </listOfProducts> + <fbc:geneProductAssociation> + <fbc:geneProductRef fbc:geneProduct="G_b1702"/> + </fbc:geneProductAssociation> + </reaction> + <reaction metaid="meta_R_PTAr" id="R_PTAr" name="phosphotransacetylase" reversible="true" fast="false" fbc:lowerFluxBound="cobra_default_lb" fbc:upperFluxBound="cobra_default_ub"> + <annotation> + <rdf:RDF xmlns:rdf="http://www.w3.org/1999/02/22-rdf-syntax-ns#" xmlns:dcterms="http://purl.org/dc/terms/" xmlns:vCard="http://www.w3.org/2001/vcard-rdf/3.0#" xmlns:vCard4="http://www.w3.org/2006/vcard/ns#" xmlns:bqbiol="http://biomodels.net/biology-qualifiers/" xmlns:bqmodel="http://biomodels.net/model-qualifiers/"> + <rdf:Description rdf:about="#meta_R_PTAr"> + <bqbiol:is> + <rdf:Bag> + <rdf:li rdf:resource="https://identifiers.org/bigg.reaction/PTAr"/> + </rdf:Bag> + </bqbiol:is> + </rdf:Description> + </rdf:RDF> + </annotation> + <listOfReactants> + <speciesReference species="M_accoa_c" stoichiometry="1" constant="true"/> + <speciesReference species="M_pi_c" stoichiometry="1" constant="true"/> + </listOfReactants> + <listOfProducts> + <speciesReference species="M_actp_c" stoichiometry="1" constant="true"/> + <speciesReference species="M_coa_c" stoichiometry="1" constant="true"/> + </listOfProducts> + <fbc:geneProductAssociation> + <fbc:or> + <fbc:geneProductRef fbc:geneProduct="G_b2297"/> + <fbc:geneProductRef fbc:geneProduct="G_b2458"/> + </fbc:or> + </fbc:geneProductAssociation> + </reaction> + <reaction metaid="meta_R_PYK" id="R_PYK" name="pyruvate kinase" reversible="false" fast="false" fbc:lowerFluxBound="cobra_0_bound" fbc:upperFluxBound="cobra_default_ub"> + <annotation> + <rdf:RDF xmlns:rdf="http://www.w3.org/1999/02/22-rdf-syntax-ns#" xmlns:dcterms="http://purl.org/dc/terms/" xmlns:vCard="http://www.w3.org/2001/vcard-rdf/3.0#" xmlns:vCard4="http://www.w3.org/2006/vcard/ns#" xmlns:bqbiol="http://biomodels.net/biology-qualifiers/" xmlns:bqmodel="http://biomodels.net/model-qualifiers/"> + <rdf:Description rdf:about="#meta_R_PYK"> + <bqbiol:is> + <rdf:Bag> + <rdf:li rdf:resource="https://identifiers.org/bigg.reaction/PYK"/> + </rdf:Bag> + </bqbiol:is> + </rdf:Description> + </rdf:RDF> + </annotation> + <listOfReactants> + <speciesReference species="M_adp_c" stoichiometry="1" constant="true"/> + <speciesReference species="M_h_c" stoichiometry="1" constant="true"/> + <speciesReference species="M_pep_c" stoichiometry="1" constant="true"/> + </listOfReactants> + <listOfProducts> + <speciesReference species="M_atp_c" stoichiometry="1" constant="true"/> + <speciesReference species="M_pyr_c" stoichiometry="1" constant="true"/> + </listOfProducts> + <fbc:geneProductAssociation> + <fbc:or> + <fbc:geneProductRef fbc:geneProduct="G_b1854"/> + <fbc:geneProductRef fbc:geneProduct="G_b1676"/> + </fbc:or> + </fbc:geneProductAssociation> + </reaction> + <reaction metaid="meta_R_PYRt2" id="R_PYRt2" name="R pyruvate transport in via proton - symport" reversible="true" fast="false" fbc:lowerFluxBound="cobra_default_lb" fbc:upperFluxBound="cobra_default_ub"> + <annotation> + <rdf:RDF xmlns:rdf="http://www.w3.org/1999/02/22-rdf-syntax-ns#" xmlns:dcterms="http://purl.org/dc/terms/" xmlns:vCard="http://www.w3.org/2001/vcard-rdf/3.0#" xmlns:vCard4="http://www.w3.org/2006/vcard/ns#" xmlns:bqbiol="http://biomodels.net/biology-qualifiers/" xmlns:bqmodel="http://biomodels.net/model-qualifiers/"> + <rdf:Description rdf:about="#meta_R_PYRt2"> + <bqbiol:is> + <rdf:Bag> + <rdf:li rdf:resource="https://identifiers.org/bigg.reaction/PYRt2"/> + </rdf:Bag> + </bqbiol:is> + </rdf:Description> + </rdf:RDF> + </annotation> + <listOfReactants> + <speciesReference species="M_h_e" stoichiometry="1" constant="true"/> + <speciesReference species="M_pyr_e" stoichiometry="1" constant="true"/> + </listOfReactants> + <listOfProducts> + <speciesReference species="M_h_c" stoichiometry="1" constant="true"/> + <speciesReference species="M_pyr_c" stoichiometry="1" constant="true"/> + </listOfProducts> + </reaction> + <reaction metaid="meta_R_RPE" id="R_RPE" name="ribulose 5-phosphate 3-epimerase" reversible="true" fast="false" fbc:lowerFluxBound="cobra_default_lb" fbc:upperFluxBound="cobra_default_ub"> + <annotation> + <rdf:RDF xmlns:rdf="http://www.w3.org/1999/02/22-rdf-syntax-ns#" xmlns:dcterms="http://purl.org/dc/terms/" xmlns:vCard="http://www.w3.org/2001/vcard-rdf/3.0#" xmlns:vCard4="http://www.w3.org/2006/vcard/ns#" xmlns:bqbiol="http://biomodels.net/biology-qualifiers/" xmlns:bqmodel="http://biomodels.net/model-qualifiers/"> + <rdf:Description rdf:about="#meta_R_RPE"> + <bqbiol:is> + <rdf:Bag> + <rdf:li rdf:resource="https://identifiers.org/bigg.reaction/RPE"/> + </rdf:Bag> + </bqbiol:is> + </rdf:Description> + </rdf:RDF> + </annotation> + <listOfReactants> + <speciesReference species="M_ru5p__D_c" stoichiometry="1" constant="true"/> + </listOfReactants> + <listOfProducts> + <speciesReference species="M_xu5p__D_c" stoichiometry="1" constant="true"/> + </listOfProducts> + <fbc:geneProductAssociation> + <fbc:or> + <fbc:geneProductRef fbc:geneProduct="G_b3386"/> + <fbc:geneProductRef fbc:geneProduct="G_b4301"/> + </fbc:or> + </fbc:geneProductAssociation> + </reaction> + <reaction metaid="meta_R_RPI" id="R_RPI" name="ribose-5-phosphate isomerase" reversible="true" fast="false" fbc:lowerFluxBound="cobra_default_lb" fbc:upperFluxBound="cobra_default_ub"> + <annotation> + <rdf:RDF xmlns:rdf="http://www.w3.org/1999/02/22-rdf-syntax-ns#" xmlns:dcterms="http://purl.org/dc/terms/" xmlns:vCard="http://www.w3.org/2001/vcard-rdf/3.0#" xmlns:vCard4="http://www.w3.org/2006/vcard/ns#" xmlns:bqbiol="http://biomodels.net/biology-qualifiers/" xmlns:bqmodel="http://biomodels.net/model-qualifiers/"> + <rdf:Description rdf:about="#meta_R_RPI"> + <bqbiol:is> + <rdf:Bag> + <rdf:li rdf:resource="https://identifiers.org/bigg.reaction/RPI"/> + </rdf:Bag> + </bqbiol:is> + </rdf:Description> + </rdf:RDF> + </annotation> + <listOfReactants> + <speciesReference species="M_r5p_c" stoichiometry="1" constant="true"/> + </listOfReactants> + <listOfProducts> + <speciesReference species="M_ru5p__D_c" stoichiometry="1" constant="true"/> + </listOfProducts> + <fbc:geneProductAssociation> + <fbc:or> + <fbc:geneProductRef fbc:geneProduct="G_b2914"/> + <fbc:geneProductRef fbc:geneProduct="G_b4090"/> + </fbc:or> + </fbc:geneProductAssociation> + </reaction> + <reaction metaid="meta_R_SUCCt2_2" id="R_SUCCt2_2" name="R succinate transport via proton symport-2 - H" reversible="false" fast="false" fbc:lowerFluxBound="cobra_0_bound" fbc:upperFluxBound="cobra_default_ub"> + <annotation> + <rdf:RDF xmlns:rdf="http://www.w3.org/1999/02/22-rdf-syntax-ns#" xmlns:dcterms="http://purl.org/dc/terms/" xmlns:vCard="http://www.w3.org/2001/vcard-rdf/3.0#" xmlns:vCard4="http://www.w3.org/2006/vcard/ns#" xmlns:bqbiol="http://biomodels.net/biology-qualifiers/" xmlns:bqmodel="http://biomodels.net/model-qualifiers/"> + <rdf:Description rdf:about="#meta_R_SUCCt2_2"> + <bqbiol:is> + <rdf:Bag> + <rdf:li rdf:resource="https://identifiers.org/bigg.reaction/SUCCt2_2"/> + </rdf:Bag> + </bqbiol:is> + </rdf:Description> + </rdf:RDF> + </annotation> + <listOfReactants> + <speciesReference species="M_h_e" stoichiometry="2" constant="true"/> + <speciesReference species="M_succ_e" stoichiometry="1" constant="true"/> + </listOfReactants> + <listOfProducts> + <speciesReference species="M_h_c" stoichiometry="2" constant="true"/> + <speciesReference species="M_succ_c" stoichiometry="1" constant="true"/> + </listOfProducts> + <fbc:geneProductAssociation> + <fbc:geneProductRef fbc:geneProduct="G_b3528"/> + </fbc:geneProductAssociation> + </reaction> + <reaction metaid="meta_R_SUCCt3" id="R_SUCCt3" name="succinate transport out via proton antiport" reversible="false" fast="false" fbc:lowerFluxBound="cobra_0_bound" fbc:upperFluxBound="cobra_default_ub"> + <annotation> + <rdf:RDF xmlns:rdf="http://www.w3.org/1999/02/22-rdf-syntax-ns#" xmlns:dcterms="http://purl.org/dc/terms/" xmlns:vCard="http://www.w3.org/2001/vcard-rdf/3.0#" xmlns:vCard4="http://www.w3.org/2006/vcard/ns#" xmlns:bqbiol="http://biomodels.net/biology-qualifiers/" xmlns:bqmodel="http://biomodels.net/model-qualifiers/"> + <rdf:Description rdf:about="#meta_R_SUCCt3"> + <bqbiol:is> + <rdf:Bag> + <rdf:li rdf:resource="https://identifiers.org/bigg.reaction/SUCCt3"/> + </rdf:Bag> + </bqbiol:is> + </rdf:Description> + </rdf:RDF> + </annotation> + <listOfReactants> + <speciesReference species="M_h_e" stoichiometry="1" constant="true"/> + <speciesReference species="M_succ_c" stoichiometry="1" constant="true"/> + </listOfReactants> + <listOfProducts> + <speciesReference species="M_h_c" stoichiometry="1" constant="true"/> + <speciesReference species="M_succ_e" stoichiometry="1" constant="true"/> + </listOfProducts> + </reaction> + <reaction metaid="meta_R_SUCDi" id="R_SUCDi" name="succinate dehydrogenase (irreversible)" reversible="false" fast="false" fbc:lowerFluxBound="cobra_0_bound" fbc:upperFluxBound="cobra_default_ub"> + <annotation> + <rdf:RDF xmlns:rdf="http://www.w3.org/1999/02/22-rdf-syntax-ns#" xmlns:dcterms="http://purl.org/dc/terms/" xmlns:vCard="http://www.w3.org/2001/vcard-rdf/3.0#" xmlns:vCard4="http://www.w3.org/2006/vcard/ns#" xmlns:bqbiol="http://biomodels.net/biology-qualifiers/" xmlns:bqmodel="http://biomodels.net/model-qualifiers/"> + <rdf:Description rdf:about="#meta_R_SUCDi"> + <bqbiol:is> + <rdf:Bag> + <rdf:li rdf:resource="https://identifiers.org/bigg.reaction/SUCDi"/> + </rdf:Bag> + </bqbiol:is> + </rdf:Description> + </rdf:RDF> + </annotation> + <listOfReactants> + <speciesReference species="M_q8_c" stoichiometry="1" constant="true"/> + <speciesReference species="M_succ_c" stoichiometry="1" constant="true"/> + </listOfReactants> + <listOfProducts> + <speciesReference species="M_fum_c" stoichiometry="1" constant="true"/> + <speciesReference species="M_q8h2_c" stoichiometry="1" constant="true"/> + </listOfProducts> + <fbc:geneProductAssociation> + <fbc:and> + <fbc:geneProductRef fbc:geneProduct="G_b0723"/> + <fbc:geneProductRef fbc:geneProduct="G_b0721"/> + <fbc:geneProductRef fbc:geneProduct="G_b0722"/> + <fbc:geneProductRef fbc:geneProduct="G_b0724"/> + </fbc:and> + </fbc:geneProductAssociation> + </reaction> + <reaction metaid="meta_R_SUCOAS" id="R_SUCOAS" name="succinyl-CoA synthetase (ADP-forming)" reversible="true" fast="false" fbc:lowerFluxBound="cobra_default_lb" fbc:upperFluxBound="cobra_default_ub"> + <annotation> + <rdf:RDF xmlns:rdf="http://www.w3.org/1999/02/22-rdf-syntax-ns#" xmlns:dcterms="http://purl.org/dc/terms/" xmlns:vCard="http://www.w3.org/2001/vcard-rdf/3.0#" xmlns:vCard4="http://www.w3.org/2006/vcard/ns#" xmlns:bqbiol="http://biomodels.net/biology-qualifiers/" xmlns:bqmodel="http://biomodels.net/model-qualifiers/"> + <rdf:Description rdf:about="#meta_R_SUCOAS"> + <bqbiol:is> + <rdf:Bag> + <rdf:li rdf:resource="https://identifiers.org/bigg.reaction/SUCOAS"/> + </rdf:Bag> + </bqbiol:is> + </rdf:Description> + </rdf:RDF> + </annotation> + <listOfReactants> + <speciesReference species="M_atp_c" stoichiometry="1" constant="true"/> + <speciesReference species="M_coa_c" stoichiometry="1" constant="true"/> + <speciesReference species="M_succ_c" stoichiometry="1" constant="true"/> + </listOfReactants> + <listOfProducts> + <speciesReference species="M_adp_c" stoichiometry="1" constant="true"/> + <speciesReference species="M_pi_c" stoichiometry="1" constant="true"/> + <speciesReference species="M_succoa_c" stoichiometry="1" constant="true"/> + </listOfProducts> + <fbc:geneProductAssociation> + <fbc:and> + <fbc:geneProductRef fbc:geneProduct="G_b0728"/> + <fbc:geneProductRef fbc:geneProduct="G_b0729"/> + </fbc:and> + </fbc:geneProductAssociation> + </reaction> + <reaction metaid="meta_R_TALA" id="R_TALA" name="transaldolase" reversible="true" fast="false" fbc:lowerFluxBound="cobra_default_lb" fbc:upperFluxBound="cobra_default_ub"> + <annotation> + <rdf:RDF xmlns:rdf="http://www.w3.org/1999/02/22-rdf-syntax-ns#" xmlns:dcterms="http://purl.org/dc/terms/" xmlns:vCard="http://www.w3.org/2001/vcard-rdf/3.0#" xmlns:vCard4="http://www.w3.org/2006/vcard/ns#" xmlns:bqbiol="http://biomodels.net/biology-qualifiers/" xmlns:bqmodel="http://biomodels.net/model-qualifiers/"> + <rdf:Description rdf:about="#meta_R_TALA"> + <bqbiol:is> + <rdf:Bag> + <rdf:li rdf:resource="https://identifiers.org/bigg.reaction/TALA"/> + </rdf:Bag> + </bqbiol:is> + </rdf:Description> + </rdf:RDF> + </annotation> + <listOfReactants> + <speciesReference species="M_g3p_c" stoichiometry="1" constant="true"/> + <speciesReference species="M_s7p_c" stoichiometry="1" constant="true"/> + </listOfReactants> + <listOfProducts> + <speciesReference species="M_e4p_c" stoichiometry="1" constant="true"/> + <speciesReference species="M_f6p_c" stoichiometry="1" constant="true"/> + </listOfProducts> + <fbc:geneProductAssociation> + <fbc:or> + <fbc:geneProductRef fbc:geneProduct="G_b2464"/> + <fbc:geneProductRef fbc:geneProduct="G_b0008"/> + </fbc:or> + </fbc:geneProductAssociation> + </reaction> + <reaction metaid="meta_R_THD2" id="R_THD2" name="R NAD - P-transhydrogenase" reversible="false" fast="false" fbc:lowerFluxBound="cobra_0_bound" fbc:upperFluxBound="cobra_default_ub"> + <annotation> + <rdf:RDF xmlns:rdf="http://www.w3.org/1999/02/22-rdf-syntax-ns#" xmlns:dcterms="http://purl.org/dc/terms/" xmlns:vCard="http://www.w3.org/2001/vcard-rdf/3.0#" xmlns:vCard4="http://www.w3.org/2006/vcard/ns#" xmlns:bqbiol="http://biomodels.net/biology-qualifiers/" xmlns:bqmodel="http://biomodels.net/model-qualifiers/"> + <rdf:Description rdf:about="#meta_R_THD2"> + <bqbiol:is> + <rdf:Bag> + <rdf:li rdf:resource="https://identifiers.org/bigg.reaction/THD2"/> + </rdf:Bag> + </bqbiol:is> + </rdf:Description> + </rdf:RDF> + </annotation> + <listOfReactants> + <speciesReference species="M_h_e" stoichiometry="2" constant="true"/> + <speciesReference species="M_nadh_c" stoichiometry="1" constant="true"/> + <speciesReference species="M_nadp_c" stoichiometry="1" constant="true"/> + </listOfReactants> + <listOfProducts> + <speciesReference species="M_h_c" stoichiometry="2" constant="true"/> + <speciesReference species="M_nad_c" stoichiometry="1" constant="true"/> + <speciesReference species="M_nadph_c" stoichiometry="1" constant="true"/> + </listOfProducts> + <fbc:geneProductAssociation> + <fbc:and> + <fbc:geneProductRef fbc:geneProduct="G_b1602"/> + <fbc:geneProductRef fbc:geneProduct="G_b1603"/> + </fbc:and> + </fbc:geneProductAssociation> + </reaction> + <reaction metaid="meta_R_TKT1" id="R_TKT1" name="transketolase" reversible="true" fast="false" fbc:lowerFluxBound="cobra_default_lb" fbc:upperFluxBound="cobra_default_ub"> + <annotation> + <rdf:RDF xmlns:rdf="http://www.w3.org/1999/02/22-rdf-syntax-ns#" xmlns:dcterms="http://purl.org/dc/terms/" xmlns:vCard="http://www.w3.org/2001/vcard-rdf/3.0#" xmlns:vCard4="http://www.w3.org/2006/vcard/ns#" xmlns:bqbiol="http://biomodels.net/biology-qualifiers/" xmlns:bqmodel="http://biomodels.net/model-qualifiers/"> + <rdf:Description rdf:about="#meta_R_TKT1"> + <bqbiol:is> + <rdf:Bag> + <rdf:li rdf:resource="https://identifiers.org/bigg.reaction/TKT1"/> + </rdf:Bag> + </bqbiol:is> + </rdf:Description> + </rdf:RDF> + </annotation> + <listOfReactants> + <speciesReference species="M_r5p_c" stoichiometry="1" constant="true"/> + <speciesReference species="M_xu5p__D_c" stoichiometry="1" constant="true"/> + </listOfReactants> + <listOfProducts> + <speciesReference species="M_g3p_c" stoichiometry="1" constant="true"/> + <speciesReference species="M_s7p_c" stoichiometry="1" constant="true"/> + </listOfProducts> + <fbc:geneProductAssociation> + <fbc:or> + <fbc:geneProductRef fbc:geneProduct="G_b2935"/> + <fbc:geneProductRef fbc:geneProduct="G_b2465"/> + </fbc:or> + </fbc:geneProductAssociation> + </reaction> + <reaction metaid="meta_R_TKT2" id="R_TKT2" name="transketolase" reversible="true" fast="false" fbc:lowerFluxBound="cobra_default_lb" fbc:upperFluxBound="cobra_default_ub"> + <annotation> + <rdf:RDF xmlns:rdf="http://www.w3.org/1999/02/22-rdf-syntax-ns#" xmlns:dcterms="http://purl.org/dc/terms/" xmlns:vCard="http://www.w3.org/2001/vcard-rdf/3.0#" xmlns:vCard4="http://www.w3.org/2006/vcard/ns#" xmlns:bqbiol="http://biomodels.net/biology-qualifiers/" xmlns:bqmodel="http://biomodels.net/model-qualifiers/"> + <rdf:Description rdf:about="#meta_R_TKT2"> + <bqbiol:is> + <rdf:Bag> + <rdf:li rdf:resource="https://identifiers.org/bigg.reaction/TKT2"/> + </rdf:Bag> + </bqbiol:is> + </rdf:Description> + </rdf:RDF> + </annotation> + <listOfReactants> + <speciesReference species="M_e4p_c" stoichiometry="1" constant="true"/> + <speciesReference species="M_xu5p__D_c" stoichiometry="1" constant="true"/> + </listOfReactants> + <listOfProducts> + <speciesReference species="M_f6p_c" stoichiometry="1" constant="true"/> + <speciesReference species="M_g3p_c" stoichiometry="1" constant="true"/> + </listOfProducts> + <fbc:geneProductAssociation> + <fbc:or> + <fbc:geneProductRef fbc:geneProduct="G_b2935"/> + <fbc:geneProductRef fbc:geneProduct="G_b2465"/> + </fbc:or> + </fbc:geneProductAssociation> + </reaction> + <reaction metaid="meta_R_TPI" id="R_TPI" name="triose-phosphate isomerase" reversible="true" fast="false" fbc:lowerFluxBound="cobra_default_lb" fbc:upperFluxBound="cobra_default_ub"> + <annotation> + <rdf:RDF xmlns:rdf="http://www.w3.org/1999/02/22-rdf-syntax-ns#" xmlns:dcterms="http://purl.org/dc/terms/" xmlns:vCard="http://www.w3.org/2001/vcard-rdf/3.0#" xmlns:vCard4="http://www.w3.org/2006/vcard/ns#" xmlns:bqbiol="http://biomodels.net/biology-qualifiers/" xmlns:bqmodel="http://biomodels.net/model-qualifiers/"> + <rdf:Description rdf:about="#meta_R_TPI"> + <bqbiol:is> + <rdf:Bag> + <rdf:li rdf:resource="https://identifiers.org/bigg.reaction/TPI"/> + </rdf:Bag> + </bqbiol:is> + </rdf:Description> + </rdf:RDF> + </annotation> + <listOfReactants> + <speciesReference species="M_dhap_c" stoichiometry="1" constant="true"/> + </listOfReactants> + <listOfProducts> + <speciesReference species="M_g3p_c" stoichiometry="1" constant="true"/> + </listOfProducts> + <fbc:geneProductAssociation> + <fbc:geneProductRef fbc:geneProduct="G_b3919"/> + </fbc:geneProductAssociation> + </reaction> + </listOfReactions> + <fbc:listOfObjectives fbc:activeObjective="obj"> + <fbc:objective fbc:id="obj" fbc:type="maximize"> + <fbc:listOfFluxObjectives> + <fbc:fluxObjective fbc:reaction="R_Biomass_Ecoli_core" fbc:coefficient="1"/> + </fbc:listOfFluxObjectives> + </fbc:objective> + </fbc:listOfObjectives> + <fbc:listOfGeneProducts> + <fbc:geneProduct fbc:id="G_b1241" fbc:name="adhE" fbc:label="G_b1241"/> + <fbc:geneProduct fbc:id="G_b0351" fbc:name="mhpF" fbc:label="G_b0351"/> + <fbc:geneProduct fbc:id="G_s0001" fbc:name="G_s0001" fbc:label="G_s0001"/> + <fbc:geneProduct fbc:id="G_b3115" fbc:name="tdcD" fbc:label="G_b3115"/> + <fbc:geneProduct metaid="meta_G_b1849" fbc:id="G_b1849" fbc:name="purT" fbc:label="G_b1849"> + <annotation> + <rdf:RDF xmlns:rdf="http://www.w3.org/1999/02/22-rdf-syntax-ns#" xmlns:dcterms="http://purl.org/dc/terms/" xmlns:vCard="http://www.w3.org/2001/vcard-rdf/3.0#" xmlns:vCard4="http://www.w3.org/2006/vcard/ns#" xmlns:bqbiol="http://biomodels.net/biology-qualifiers/" xmlns:bqmodel="http://biomodels.net/model-qualifiers/"> + <rdf:Description rdf:about="#meta_G_b1849"> + <bqbiol:is> + <rdf:Bag> + <rdf:li rdf:resource="https://identifiers.org/ncbiprotein/1652885"/> + </rdf:Bag> + </bqbiol:is> + </rdf:Description> + </rdf:RDF> + </annotation> + </fbc:geneProduct> + <fbc:geneProduct metaid="meta_G_b2296" fbc:id="G_b2296" fbc:name="ackA" fbc:label="G_b2296"> + <annotation> + <rdf:RDF xmlns:rdf="http://www.w3.org/1999/02/22-rdf-syntax-ns#" xmlns:dcterms="http://purl.org/dc/terms/" xmlns:vCard="http://www.w3.org/2001/vcard-rdf/3.0#" xmlns:vCard4="http://www.w3.org/2006/vcard/ns#" xmlns:bqbiol="http://biomodels.net/biology-qualifiers/" xmlns:bqmodel="http://biomodels.net/model-qualifiers/"> + <rdf:Description rdf:about="#meta_G_b2296"> + <bqbiol:is> + <rdf:Bag> + <rdf:li rdf:resource="https://identifiers.org/ncbiprotein/1652265"/> + </rdf:Bag> + </bqbiol:is> + </rdf:Description> + </rdf:RDF> + </annotation> + </fbc:geneProduct> + <fbc:geneProduct fbc:id="G_b1276" fbc:name="acnA" fbc:label="G_b1276"/> + <fbc:geneProduct fbc:id="G_b0118" fbc:name="acnB" fbc:label="G_b0118"/> + <fbc:geneProduct metaid="meta_G_b0474" fbc:id="G_b0474" fbc:name="adk" fbc:label="G_b0474"> + <annotation> + <rdf:RDF xmlns:rdf="http://www.w3.org/1999/02/22-rdf-syntax-ns#" xmlns:dcterms="http://purl.org/dc/terms/" xmlns:vCard="http://www.w3.org/2001/vcard-rdf/3.0#" xmlns:vCard4="http://www.w3.org/2006/vcard/ns#" xmlns:bqbiol="http://biomodels.net/biology-qualifiers/" xmlns:bqmodel="http://biomodels.net/model-qualifiers/"> + <rdf:Description rdf:about="#meta_G_b0474"> + <bqbiol:is> + <rdf:Bag> + <rdf:li rdf:resource="https://identifiers.org/ncbiprotein/1651715"/> + <rdf:li rdf:resource="https://identifiers.org/ncbiprotein/1652408"/> + </rdf:Bag> + </bqbiol:is> + </rdf:Description> + </rdf:RDF> + </annotation> + </fbc:geneProduct> + <fbc:geneProduct fbc:id="G_b0116" fbc:name="lpd" fbc:label="G_b0116"/> + <fbc:geneProduct fbc:id="G_b0726" fbc:name="sucA" fbc:label="G_b0726"/> + <fbc:geneProduct fbc:id="G_b0727" fbc:name="sucB" fbc:label="G_b0727"/> + <fbc:geneProduct fbc:id="G_b2587" fbc:name="kgtP" fbc:label="G_b2587"/> + <fbc:geneProduct fbc:id="G_b0356" fbc:name="frmA" fbc:label="G_b0356"/> + <fbc:geneProduct fbc:id="G_b1478" fbc:name="adhP" fbc:label="G_b1478"/> + <fbc:geneProduct metaid="meta_G_b3735" fbc:id="G_b3735" fbc:name="atpH" fbc:label="G_b3735"> + <annotation> + <rdf:RDF xmlns:rdf="http://www.w3.org/1999/02/22-rdf-syntax-ns#" xmlns:dcterms="http://purl.org/dc/terms/" xmlns:vCard="http://www.w3.org/2001/vcard-rdf/3.0#" xmlns:vCard4="http://www.w3.org/2006/vcard/ns#" xmlns:bqbiol="http://biomodels.net/biology-qualifiers/" xmlns:bqmodel="http://biomodels.net/model-qualifiers/"> + <rdf:Description rdf:about="#meta_G_b3735"> + <bqbiol:is> + <rdf:Bag> + <rdf:li rdf:resource="https://identifiers.org/ncbiprotein/1651812"/> + </rdf:Bag> + </bqbiol:is> + </rdf:Description> + </rdf:RDF> + </annotation> + </fbc:geneProduct> + <fbc:geneProduct metaid="meta_G_b3733" fbc:id="G_b3733" fbc:name="atpG" fbc:label="G_b3733"> + <annotation> + <rdf:RDF xmlns:rdf="http://www.w3.org/1999/02/22-rdf-syntax-ns#" xmlns:dcterms="http://purl.org/dc/terms/" xmlns:vCard="http://www.w3.org/2001/vcard-rdf/3.0#" xmlns:vCard4="http://www.w3.org/2006/vcard/ns#" xmlns:bqbiol="http://biomodels.net/biology-qualifiers/" xmlns:bqmodel="http://biomodels.net/model-qualifiers/"> + <rdf:Description rdf:about="#meta_G_b3733"> + <bqbiol:is> + <rdf:Bag> + <rdf:li rdf:resource="https://identifiers.org/ncbiprotein/1651811"/> + </rdf:Bag> + </bqbiol:is> + </rdf:Description> + </rdf:RDF> + </annotation> + </fbc:geneProduct> + <fbc:geneProduct metaid="meta_G_b3734" fbc:id="G_b3734" fbc:name="atpA" fbc:label="G_b3734"> + <annotation> + <rdf:RDF xmlns:rdf="http://www.w3.org/1999/02/22-rdf-syntax-ns#" xmlns:dcterms="http://purl.org/dc/terms/" xmlns:vCard="http://www.w3.org/2001/vcard-rdf/3.0#" xmlns:vCard4="http://www.w3.org/2006/vcard/ns#" xmlns:bqbiol="http://biomodels.net/biology-qualifiers/" xmlns:bqmodel="http://biomodels.net/model-qualifiers/"> + <rdf:Description rdf:about="#meta_G_b3734"> + <bqbiol:is> + <rdf:Bag> + <rdf:li rdf:resource="https://identifiers.org/ncbiprotein/1651808"/> + </rdf:Bag> + </bqbiol:is> + </rdf:Description> + </rdf:RDF> + </annotation> + </fbc:geneProduct> + <fbc:geneProduct metaid="meta_G_b3732" fbc:id="G_b3732" fbc:name="atpD" fbc:label="G_b3732"> + <annotation> + <rdf:RDF xmlns:rdf="http://www.w3.org/1999/02/22-rdf-syntax-ns#" xmlns:dcterms="http://purl.org/dc/terms/" xmlns:vCard="http://www.w3.org/2001/vcard-rdf/3.0#" xmlns:vCard4="http://www.w3.org/2006/vcard/ns#" xmlns:bqbiol="http://biomodels.net/biology-qualifiers/" xmlns:bqmodel="http://biomodels.net/model-qualifiers/"> + <rdf:Description rdf:about="#meta_G_b3732"> + <bqbiol:is> + <rdf:Bag> + <rdf:li rdf:resource="https://identifiers.org/ncbiprotein/1651809"/> + </rdf:Bag> + </bqbiol:is> + </rdf:Description> + </rdf:RDF> + </annotation> + </fbc:geneProduct> + <fbc:geneProduct metaid="meta_G_b3736" fbc:id="G_b3736" fbc:name="atpF" fbc:label="G_b3736"> + <annotation> + <rdf:RDF xmlns:rdf="http://www.w3.org/1999/02/22-rdf-syntax-ns#" xmlns:dcterms="http://purl.org/dc/terms/" xmlns:vCard="http://www.w3.org/2001/vcard-rdf/3.0#" xmlns:vCard4="http://www.w3.org/2006/vcard/ns#" xmlns:bqbiol="http://biomodels.net/biology-qualifiers/" xmlns:bqmodel="http://biomodels.net/model-qualifiers/"> + <rdf:Description rdf:about="#meta_G_b3736"> + <bqbiol:is> + <rdf:Bag> + <rdf:li rdf:resource="https://identifiers.org/ncbiprotein/1651810"/> + </rdf:Bag> + </bqbiol:is> + </rdf:Description> + </rdf:RDF> + </annotation> + </fbc:geneProduct> + <fbc:geneProduct metaid="meta_G_b3738" fbc:id="G_b3738" fbc:name="atpB" fbc:label="G_b3738"> + <annotation> + <rdf:RDF xmlns:rdf="http://www.w3.org/1999/02/22-rdf-syntax-ns#" xmlns:dcterms="http://purl.org/dc/terms/" xmlns:vCard="http://www.w3.org/2001/vcard-rdf/3.0#" xmlns:vCard4="http://www.w3.org/2006/vcard/ns#" xmlns:bqbiol="http://biomodels.net/biology-qualifiers/" xmlns:bqmodel="http://biomodels.net/model-qualifiers/"> + <rdf:Description rdf:about="#meta_G_b3738"> + <bqbiol:is> + <rdf:Bag> + <rdf:li rdf:resource="https://identifiers.org/ncbiprotein/1653171"/> + </rdf:Bag> + </bqbiol:is> + </rdf:Description> + </rdf:RDF> + </annotation> + </fbc:geneProduct> + <fbc:geneProduct metaid="meta_G_b3731" fbc:id="G_b3731" fbc:name="atpC" fbc:label="G_b3731"> + <annotation> + <rdf:RDF xmlns:rdf="http://www.w3.org/1999/02/22-rdf-syntax-ns#" xmlns:dcterms="http://purl.org/dc/terms/" xmlns:vCard="http://www.w3.org/2001/vcard-rdf/3.0#" xmlns:vCard4="http://www.w3.org/2006/vcard/ns#" xmlns:bqbiol="http://biomodels.net/biology-qualifiers/" xmlns:bqmodel="http://biomodels.net/model-qualifiers/"> + <rdf:Description rdf:about="#meta_G_b3731"> + <bqbiol:is> + <rdf:Bag> + <rdf:li rdf:resource="https://identifiers.org/ncbiprotein/1651807"/> + </rdf:Bag> + </bqbiol:is> + </rdf:Description> + </rdf:RDF> + </annotation> + </fbc:geneProduct> + <fbc:geneProduct metaid="meta_G_b3737" fbc:id="G_b3737" fbc:name="atpE" fbc:label="G_b3737"> + <annotation> + <rdf:RDF xmlns:rdf="http://www.w3.org/1999/02/22-rdf-syntax-ns#" xmlns:dcterms="http://purl.org/dc/terms/" xmlns:vCard="http://www.w3.org/2001/vcard-rdf/3.0#" xmlns:vCard4="http://www.w3.org/2006/vcard/ns#" xmlns:bqbiol="http://biomodels.net/biology-qualifiers/" xmlns:bqmodel="http://biomodels.net/model-qualifiers/"> + 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xmlns:bqbiol="http://biomodels.net/biology-qualifiers/" xmlns:bqmodel="http://biomodels.net/model-qualifiers/"> + <rdf:Description rdf:about="#meta_G_b1136"> + <bqbiol:is> + <rdf:Bag> + <rdf:li rdf:resource="https://identifiers.org/ncbiprotein/1651909"/> + </rdf:Bag> + </bqbiol:is> + </rdf:Description> + </rdf:RDF> + </annotation> + </fbc:geneProduct> + <fbc:geneProduct fbc:id="G_b4015" fbc:name="aceA" fbc:label="G_b4015"/> + <fbc:geneProduct fbc:id="G_b2133" fbc:name="dld" fbc:label="G_b2133"/> + <fbc:geneProduct fbc:id="G_b1380" fbc:name="ldhA" fbc:label="G_b1380"/> + <fbc:geneProduct fbc:id="G_b4014" fbc:name="aceB" fbc:label="G_b4014"/> + <fbc:geneProduct fbc:id="G_b2976" fbc:name="glcB" fbc:label="G_b2976"/> + <fbc:geneProduct fbc:id="G_b3236" fbc:name="mdh" fbc:label="G_b3236"/> + <fbc:geneProduct fbc:id="G_b1479" fbc:name="maeA" fbc:label="G_b1479"/> + <fbc:geneProduct fbc:id="G_b2463" fbc:name="maeB" fbc:label="G_b2463"/> + <fbc:geneProduct fbc:id="G_b2286" fbc:name="nuoC" fbc:label="G_b2286"/> + <fbc:geneProduct fbc:id="G_b2279" fbc:name="nuoK" fbc:label="G_b2279"/> + <fbc:geneProduct fbc:id="G_b2276" fbc:name="nuoN" fbc:label="G_b2276"/> + <fbc:geneProduct fbc:id="G_b2280" fbc:name="nuoJ" fbc:label="G_b2280"/> + <fbc:geneProduct fbc:id="G_b2288" fbc:name="nuoA" fbc:label="G_b2288"/> + <fbc:geneProduct fbc:id="G_b2284" fbc:name="nuoF" fbc:label="G_b2284"/> + <fbc:geneProduct fbc:id="G_b2287" fbc:name="nuoB" fbc:label="G_b2287"/> + <fbc:geneProduct fbc:id="G_b2281" fbc:name="nuoI" fbc:label="G_b2281"/> + <fbc:geneProduct fbc:id="G_b2277" fbc:name="nuoM" fbc:label="G_b2277"/> + <fbc:geneProduct fbc:id="G_b2285" fbc:name="nuoE" fbc:label="G_b2285"/> + <fbc:geneProduct fbc:id="G_b2282" fbc:name="nuoH" fbc:label="G_b2282"/> + <fbc:geneProduct fbc:id="G_b2278" fbc:name="nuoL" fbc:label="G_b2278"/> + <fbc:geneProduct fbc:id="G_b2283" fbc:name="nuoG" fbc:label="G_b2283"/> + <fbc:geneProduct fbc:id="G_b3962" fbc:name="sthA" fbc:label="G_b3962"/> + <fbc:geneProduct metaid="meta_G_b1602" fbc:id="G_b1602" fbc:name="pntB" fbc:label="G_b1602"> + <annotation> + <rdf:RDF xmlns:rdf="http://www.w3.org/1999/02/22-rdf-syntax-ns#" xmlns:dcterms="http://purl.org/dc/terms/" xmlns:vCard="http://www.w3.org/2001/vcard-rdf/3.0#" xmlns:vCard4="http://www.w3.org/2006/vcard/ns#" xmlns:bqbiol="http://biomodels.net/biology-qualifiers/" xmlns:bqmodel="http://biomodels.net/model-qualifiers/"> + <rdf:Description rdf:about="#meta_G_b1602"> + <bqbiol:is> + <rdf:Bag> + <rdf:li rdf:resource="https://identifiers.org/ncbiprotein/1652620"/> + </rdf:Bag> + </bqbiol:is> + </rdf:Description> + </rdf:RDF> + </annotation> + </fbc:geneProduct> + <fbc:geneProduct metaid="meta_G_b1603" fbc:id="G_b1603" fbc:name="pntA" fbc:label="G_b1603"> + <annotation> + <rdf:RDF xmlns:rdf="http://www.w3.org/1999/02/22-rdf-syntax-ns#" xmlns:dcterms="http://purl.org/dc/terms/" xmlns:vCard="http://www.w3.org/2001/vcard-rdf/3.0#" xmlns:vCard4="http://www.w3.org/2006/vcard/ns#" xmlns:bqbiol="http://biomodels.net/biology-qualifiers/" xmlns:bqmodel="http://biomodels.net/model-qualifiers/"> + <rdf:Description rdf:about="#meta_G_b1603"> + <bqbiol:is> + <rdf:Bag> + <rdf:li rdf:resource="https://identifiers.org/ncbiprotein/1652615"/> + </rdf:Bag> + </bqbiol:is> + </rdf:Description> + </rdf:RDF> + </annotation> + </fbc:geneProduct> + <fbc:geneProduct fbc:id="G_b0451" fbc:name="amtB" fbc:label="G_b0451"/> + <fbc:geneProduct fbc:id="G_b0114" fbc:name="aceE" fbc:label="G_b0114"/> + <fbc:geneProduct fbc:id="G_b0115" fbc:name="aceF" fbc:label="G_b0115"/> + <fbc:geneProduct metaid="meta_G_b3916" fbc:id="G_b3916" fbc:name="pfkA" fbc:label="G_b3916"> + <annotation> + <rdf:RDF xmlns:rdf="http://www.w3.org/1999/02/22-rdf-syntax-ns#" xmlns:dcterms="http://purl.org/dc/terms/" xmlns:vCard="http://www.w3.org/2001/vcard-rdf/3.0#" xmlns:vCard4="http://www.w3.org/2006/vcard/ns#" xmlns:bqbiol="http://biomodels.net/biology-qualifiers/" xmlns:bqmodel="http://biomodels.net/model-qualifiers/"> + <rdf:Description rdf:about="#meta_G_b3916"> + <bqbiol:is> + <rdf:Bag> + <rdf:li rdf:resource="https://identifiers.org/ncbiprotein/1006614"/> + <rdf:li rdf:resource="https://identifiers.org/ncbiprotein/1651919"/> + </rdf:Bag> + </bqbiol:is> + </rdf:Description> + </rdf:RDF> + </annotation> + </fbc:geneProduct> + <fbc:geneProduct fbc:id="G_b1723" fbc:name="pfkB" fbc:label="G_b1723"/> + <fbc:geneProduct fbc:id="G_b0902" fbc:name="pflA" fbc:label="G_b0902"/> + <fbc:geneProduct fbc:id="G_b0903" fbc:name="pflB" fbc:label="G_b0903"/> + <fbc:geneProduct fbc:id="G_b2579" fbc:name="grcA" fbc:label="G_b2579"/> + <fbc:geneProduct fbc:id="G_b3114" fbc:name="tdcE" fbc:label="G_b3114"/> + <fbc:geneProduct fbc:id="G_b3952" fbc:name="pflC" fbc:label="G_b3952"/> + <fbc:geneProduct fbc:id="G_b3951" fbc:name="pflD" fbc:label="G_b3951"/> + <fbc:geneProduct metaid="meta_G_b4025" fbc:id="G_b4025" fbc:name="pgi" fbc:label="G_b4025"> + <annotation> + <rdf:RDF xmlns:rdf="http://www.w3.org/1999/02/22-rdf-syntax-ns#" xmlns:dcterms="http://purl.org/dc/terms/" xmlns:vCard="http://www.w3.org/2001/vcard-rdf/3.0#" xmlns:vCard4="http://www.w3.org/2006/vcard/ns#" xmlns:bqbiol="http://biomodels.net/biology-qualifiers/" xmlns:bqmodel="http://biomodels.net/model-qualifiers/"> + <rdf:Description rdf:about="#meta_G_b4025"> + <bqbiol:is> + <rdf:Bag> + <rdf:li rdf:resource="https://identifiers.org/ncbiprotein/1653253"/> + </rdf:Bag> + </bqbiol:is> + </rdf:Description> + </rdf:RDF> + </annotation> + </fbc:geneProduct> + <fbc:geneProduct metaid="meta_G_b2926" fbc:id="G_b2926" fbc:name="pgk" fbc:label="G_b2926"> + <annotation> + <rdf:RDF xmlns:rdf="http://www.w3.org/1999/02/22-rdf-syntax-ns#" xmlns:dcterms="http://purl.org/dc/terms/" xmlns:vCard="http://www.w3.org/2001/vcard-rdf/3.0#" xmlns:vCard4="http://www.w3.org/2006/vcard/ns#" xmlns:bqbiol="http://biomodels.net/biology-qualifiers/" xmlns:bqmodel="http://biomodels.net/model-qualifiers/"> + <rdf:Description rdf:about="#meta_G_b2926"> + <bqbiol:is> + <rdf:Bag> + <rdf:li rdf:resource="https://identifiers.org/ncbiprotein/1653609"/> + </rdf:Bag> + </bqbiol:is> + </rdf:Description> + </rdf:RDF> + </annotation> + </fbc:geneProduct> + <fbc:geneProduct fbc:id="G_b0767" fbc:name="pgl" fbc:label="G_b0767"/> + <fbc:geneProduct fbc:id="G_b0755" fbc:name="gpmA" fbc:label="G_b0755"/> + <fbc:geneProduct fbc:id="G_b3612" fbc:name="gpmM" fbc:label="G_b3612"/> + <fbc:geneProduct fbc:id="G_b4395" fbc:name="ytjC" fbc:label="G_b4395"/> + <fbc:geneProduct fbc:id="G_b3493" fbc:name="pitA" fbc:label="G_b3493"/> + <fbc:geneProduct fbc:id="G_b2987" fbc:name="pitB" fbc:label="G_b2987"/> + <fbc:geneProduct metaid="meta_G_b3956" fbc:id="G_b3956" fbc:name="ppc" fbc:label="G_b3956"> + <annotation> + <rdf:RDF xmlns:rdf="http://www.w3.org/1999/02/22-rdf-syntax-ns#" xmlns:dcterms="http://purl.org/dc/terms/" xmlns:vCard="http://www.w3.org/2001/vcard-rdf/3.0#" xmlns:vCard4="http://www.w3.org/2006/vcard/ns#" xmlns:bqbiol="http://biomodels.net/biology-qualifiers/" xmlns:bqmodel="http://biomodels.net/model-qualifiers/"> + <rdf:Description rdf:about="#meta_G_b3956"> + <bqbiol:is> + <rdf:Bag> + <rdf:li rdf:resource="https://identifiers.org/ncbiprotein/1653480"/> + </rdf:Bag> + </bqbiol:is> + </rdf:Description> + </rdf:RDF> + </annotation> + </fbc:geneProduct> + <fbc:geneProduct fbc:id="G_b3403" fbc:name="pck" fbc:label="G_b3403"/> + <fbc:geneProduct metaid="meta_G_b1702" fbc:id="G_b1702" fbc:name="ppsA" fbc:label="G_b1702"> + <annotation> + <rdf:RDF xmlns:rdf="http://www.w3.org/1999/02/22-rdf-syntax-ns#" xmlns:dcterms="http://purl.org/dc/terms/" xmlns:vCard="http://www.w3.org/2001/vcard-rdf/3.0#" xmlns:vCard4="http://www.w3.org/2006/vcard/ns#" xmlns:bqbiol="http://biomodels.net/biology-qualifiers/" xmlns:bqmodel="http://biomodels.net/model-qualifiers/"> + <rdf:Description rdf:about="#meta_G_b1702"> + <bqbiol:is> + <rdf:Bag> + <rdf:li rdf:resource="https://identifiers.org/ncbiprotein/1001788"/> + </rdf:Bag> + </bqbiol:is> + </rdf:Description> + </rdf:RDF> + </annotation> + </fbc:geneProduct> + <fbc:geneProduct metaid="meta_G_b2297" fbc:id="G_b2297" fbc:name="pta" fbc:label="G_b2297"> + <annotation> + <rdf:RDF xmlns:rdf="http://www.w3.org/1999/02/22-rdf-syntax-ns#" xmlns:dcterms="http://purl.org/dc/terms/" xmlns:vCard="http://www.w3.org/2001/vcard-rdf/3.0#" xmlns:vCard4="http://www.w3.org/2006/vcard/ns#" xmlns:bqbiol="http://biomodels.net/biology-qualifiers/" xmlns:bqmodel="http://biomodels.net/model-qualifiers/"> + <rdf:Description rdf:about="#meta_G_b2297"> + <bqbiol:is> + <rdf:Bag> + <rdf:li rdf:resource="https://identifiers.org/ncbiprotein/1652788"/> + </rdf:Bag> + </bqbiol:is> + </rdf:Description> + </rdf:RDF> + </annotation> + </fbc:geneProduct> + <fbc:geneProduct fbc:id="G_b2458" fbc:name="eutD" fbc:label="G_b2458"/> + <fbc:geneProduct metaid="meta_G_b1676" fbc:id="G_b1676" fbc:name="pykF" fbc:label="G_b1676"> + <annotation> + <rdf:RDF xmlns:rdf="http://www.w3.org/1999/02/22-rdf-syntax-ns#" xmlns:dcterms="http://purl.org/dc/terms/" xmlns:vCard="http://www.w3.org/2001/vcard-rdf/3.0#" xmlns:vCard4="http://www.w3.org/2006/vcard/ns#" xmlns:bqbiol="http://biomodels.net/biology-qualifiers/" xmlns:bqmodel="http://biomodels.net/model-qualifiers/"> + <rdf:Description rdf:about="#meta_G_b1676"> + <bqbiol:is> + <rdf:Bag> + <rdf:li rdf:resource="https://identifiers.org/ncbiprotein/1208453"/> + <rdf:li rdf:resource="https://identifiers.org/ncbiprotein/1652654"/> + </rdf:Bag> + </bqbiol:is> + </rdf:Description> + </rdf:RDF> + </annotation> + </fbc:geneProduct> + <fbc:geneProduct fbc:id="G_b1854" fbc:name="pykA" fbc:label="G_b1854"/> + <fbc:geneProduct fbc:id="G_b4301" fbc:name="sgcE" fbc:label="G_b4301"/> + <fbc:geneProduct fbc:id="G_b3386" fbc:name="rpe" fbc:label="G_b3386"/> + <fbc:geneProduct metaid="meta_G_b2914" fbc:id="G_b2914" fbc:name="rpiA" fbc:label="G_b2914"> + <annotation> + <rdf:RDF xmlns:rdf="http://www.w3.org/1999/02/22-rdf-syntax-ns#" xmlns:dcterms="http://purl.org/dc/terms/" xmlns:vCard="http://www.w3.org/2001/vcard-rdf/3.0#" xmlns:vCard4="http://www.w3.org/2006/vcard/ns#" xmlns:bqbiol="http://biomodels.net/biology-qualifiers/" xmlns:bqmodel="http://biomodels.net/model-qualifiers/"> + <rdf:Description rdf:about="#meta_G_b2914"> + <bqbiol:is> + <rdf:Bag> + <rdf:li rdf:resource="https://identifiers.org/ncbiprotein/1001678"/> + </rdf:Bag> + </bqbiol:is> + </rdf:Description> + </rdf:RDF> + </annotation> + </fbc:geneProduct> + <fbc:geneProduct metaid="meta_G_b4090" fbc:id="G_b4090" fbc:name="rpiB" fbc:label="G_b4090"> + <annotation> + <rdf:RDF xmlns:rdf="http://www.w3.org/1999/02/22-rdf-syntax-ns#" xmlns:dcterms="http://purl.org/dc/terms/" xmlns:vCard="http://www.w3.org/2001/vcard-rdf/3.0#" xmlns:vCard4="http://www.w3.org/2006/vcard/ns#" xmlns:bqbiol="http://biomodels.net/biology-qualifiers/" xmlns:bqmodel="http://biomodels.net/model-qualifiers/"> + <rdf:Description rdf:about="#meta_G_b4090"> + <bqbiol:is> + <rdf:Bag> + <rdf:li rdf:resource="https://identifiers.org/ncbiprotein/1653414"/> + </rdf:Bag> + </bqbiol:is> + </rdf:Description> + </rdf:RDF> + </annotation> + </fbc:geneProduct> + <fbc:geneProduct fbc:id="G_b0722" fbc:name="sdhD" fbc:label="G_b0722"/> + <fbc:geneProduct metaid="meta_G_b0724" fbc:id="G_b0724" fbc:name="sdhB" fbc:label="G_b0724"> + <annotation> + <rdf:RDF xmlns:rdf="http://www.w3.org/1999/02/22-rdf-syntax-ns#" xmlns:dcterms="http://purl.org/dc/terms/" xmlns:vCard="http://www.w3.org/2001/vcard-rdf/3.0#" xmlns:vCard4="http://www.w3.org/2006/vcard/ns#" xmlns:bqbiol="http://biomodels.net/biology-qualifiers/" xmlns:bqmodel="http://biomodels.net/model-qualifiers/"> + <rdf:Description rdf:about="#meta_G_b0724"> + <bqbiol:is> + <rdf:Bag> + <rdf:li rdf:resource="https://identifiers.org/ncbiprotein/1652853"/> + <rdf:li rdf:resource="https://identifiers.org/ncbiprotein/1673321"/> + </rdf:Bag> + </bqbiol:is> + </rdf:Description> + </rdf:RDF> + </annotation> + </fbc:geneProduct> + <fbc:geneProduct fbc:id="G_b0721" fbc:name="sdhC" fbc:label="G_b0721"/> + <fbc:geneProduct fbc:id="G_b0723" fbc:name="sdhA" fbc:label="G_b0723"/> + <fbc:geneProduct metaid="meta_G_b0728" fbc:id="G_b0728" fbc:name="sucC" fbc:label="G_b0728"> + <annotation> + <rdf:RDF xmlns:rdf="http://www.w3.org/1999/02/22-rdf-syntax-ns#" xmlns:dcterms="http://purl.org/dc/terms/" xmlns:vCard="http://www.w3.org/2001/vcard-rdf/3.0#" xmlns:vCard4="http://www.w3.org/2006/vcard/ns#" xmlns:bqbiol="http://biomodels.net/biology-qualifiers/" xmlns:bqmodel="http://biomodels.net/model-qualifiers/"> + <rdf:Description rdf:about="#meta_G_b0728"> + <bqbiol:is> + <rdf:Bag> + <rdf:li rdf:resource="https://identifiers.org/ncbiprotein/1652018"/> + </rdf:Bag> + </bqbiol:is> + </rdf:Description> + </rdf:RDF> + </annotation> + </fbc:geneProduct> + <fbc:geneProduct metaid="meta_G_b0729" fbc:id="G_b0729" fbc:name="sucD" fbc:label="G_b0729"> + <annotation> + <rdf:RDF xmlns:rdf="http://www.w3.org/1999/02/22-rdf-syntax-ns#" xmlns:dcterms="http://purl.org/dc/terms/" xmlns:vCard="http://www.w3.org/2001/vcard-rdf/3.0#" xmlns:vCard4="http://www.w3.org/2006/vcard/ns#" xmlns:bqbiol="http://biomodels.net/biology-qualifiers/" xmlns:bqmodel="http://biomodels.net/model-qualifiers/"> + <rdf:Description rdf:about="#meta_G_b0729"> + <bqbiol:is> + <rdf:Bag> + <rdf:li rdf:resource="https://identifiers.org/ncbiprotein/1653466"/> + </rdf:Bag> + </bqbiol:is> + </rdf:Description> + </rdf:RDF> + </annotation> + </fbc:geneProduct> + <fbc:geneProduct fbc:id="G_b2464" fbc:name="talA" fbc:label="G_b2464"/> + <fbc:geneProduct metaid="meta_G_b0008" fbc:id="G_b0008" fbc:name="talB" fbc:label="G_b0008"> + <annotation> + <rdf:RDF xmlns:rdf="http://www.w3.org/1999/02/22-rdf-syntax-ns#" xmlns:dcterms="http://purl.org/dc/terms/" xmlns:vCard="http://www.w3.org/2001/vcard-rdf/3.0#" xmlns:vCard4="http://www.w3.org/2006/vcard/ns#" xmlns:bqbiol="http://biomodels.net/biology-qualifiers/" xmlns:bqmodel="http://biomodels.net/model-qualifiers/"> + <rdf:Description rdf:about="#meta_G_b0008"> + <bqbiol:is> + <rdf:Bag> + <rdf:li rdf:resource="https://identifiers.org/ncbiprotein/1651885"/> + </rdf:Bag> + </bqbiol:is> + </rdf:Description> + </rdf:RDF> + </annotation> + </fbc:geneProduct> + <fbc:geneProduct metaid="meta_G_b2935" fbc:id="G_b2935" fbc:name="tktA" fbc:label="G_b2935"> + <annotation> + <rdf:RDF xmlns:rdf="http://www.w3.org/1999/02/22-rdf-syntax-ns#" xmlns:dcterms="http://purl.org/dc/terms/" xmlns:vCard="http://www.w3.org/2001/vcard-rdf/3.0#" xmlns:vCard4="http://www.w3.org/2006/vcard/ns#" xmlns:bqbiol="http://biomodels.net/biology-qualifiers/" xmlns:bqmodel="http://biomodels.net/model-qualifiers/"> + <rdf:Description rdf:about="#meta_G_b2935"> + <bqbiol:is> + <rdf:Bag> + <rdf:li rdf:resource="https://identifiers.org/ncbiprotein/1652388"/> + </rdf:Bag> + </bqbiol:is> + </rdf:Description> + </rdf:RDF> + </annotation> + </fbc:geneProduct> + <fbc:geneProduct fbc:id="G_b2465" fbc:name="tktB" fbc:label="G_b2465"/> + <fbc:geneProduct fbc:id="G_b3919" fbc:name="tpiA" fbc:label="G_b3919"/> + </fbc:listOfGeneProducts> + </model> +</sbml>