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View Code? Open in Web Editor NEWweb-based validator for COBRA models in SBML and JSON
Home Page: http://bigg.ucsd.edu/validator
License: MIT License
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Add 'sbml' tag
Just wanted to suggest the addition of the 'sbml' topic tag for this GitHub repository.
Warning for JSON file
For new JSON files, we get this warning:
iAF1260b.json - 0 errors and 1 warning
Warning: reaction 'BIOMASS_Ec_iAF1260_core_59p81M' is not balanced. Should it be annotated as a biomass reaction?
objective value: 0.736700938864881
404 Not Found
The URL http://bigg.ucsd.edu/validator can no longer be reached. Is that intentional?
Is validator running?
Hi
I try to validate the joined model on http://bigg.ucsd.edu/validator/app but I always get an error.
The model is fine according to SBML validator.
Does the problem come from my model?
Regards
UnitIds not handled in separate namespace & missing fbc errors
Hi all,
I get the following error with the model attached below.
2 errors
Error: duplicate id for compartment id 'm' .
Error: required attribute 'fbc:lowerFluxBound' not found in tag
'{http://www.sbml.org/sbml/level3/version1/core}reaction'with id 'bA'.
The problem is that there is a unit with unitId=m and a compartment with id=m.
the id and unitIds are separate namespaces.
Model is valid, but validator does not handle this case correctly.
In addition the lower and upperFluxBounds are missing for all reactions. These should all be separate errors. But somehow only one error for fbc is reported.
The best
Matthias
<?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_5378026ef2674a4babd9ef8e9bd2d1f0" sboTerm="SBO:0000293" level="3" version="1" fbc:required="false">
<annotation>
<rdf:RDF xmlns:rdf="http://www.w3.org/1999/02/22-rdf-syntax-ns#" xmlns:dc="http://purl.org/dc/elements/1.1/" xmlns:dcterms="http://purl.org/dc/terms/" xmlns:vCard="http://www.w3.org/2001/vcard-rdf/3.0#" xmlns:bqbiol="http://biomodels.net/biology-qualifiers/" xmlns:bqmodel="http://biomodels.net/model-qualifiers/">
<rdf:Description rdf:about="#meta_5378026ef2674a4babd9ef8e9bd2d1f0">
<bqmodel:is>
<rdf:Bag>
<rdf:li rdf:resource="http://identifiers.org/biomodels.sbo/SBO:0000293"/>
</rdf:Bag>
</bqmodel:is>
</rdf:Description>
</rdf:RDF>
</annotation>
<model metaid="meta_6007b30e1553454880de1a52bd0372c4" id="Koenig_demo_10" name="Koenig_demo_10" substanceUnits="mole" timeUnits="s" volumeUnits="m3" areaUnits="m2" lengthUnits="m" extentUnits="mole" fbc:strict="false">
<notes>
<body xmlns="http://www.w3.org/1999/xhtml">
<h1>Koenig Demo Metabolism</h1>
<h2>Description</h2>
<p>This is a demonstration model in
<a href="http://sbmlutils.org" target="_blank" title="Access the definition of the SBML file format.">
SBML</a> format.
</p>
<div class="dc:provenance">The content of this model has been carefully created in a manual research effort.</div>
<div class="dc:publisher">This file has been produced by
<a href="https://livermetabolism.com/contact.html" title="Koenig Matthias" target="_blank">Koenig Matthias</a>.</div>
<h2>Terms of use</h2>
<div class="dc:rightsHolder">Copyright © 2016 Koenig Matthias.</div>
<div class="dc:license">
<p>Redistribution and use of any part of this model, with or without modification, are permitted provided that the following conditions are met:
<ol>
<li>Redistributions of this SBML file must retain the above copyright notice, this list of conditions and the following disclaimer.</li>
<li>Redistributions in a different form must reproduce the above copyright notice, this list of conditions and the following disclaimer in the documentation and/or other materials provided
with the distribution.</li>
</ol>
This model is distributed in the hope that it will be useful, but WITHOUT ANY WARRANTY; without even the implied warranty of MERCHANTABILITY or FITNESS FOR A PARTICULAR PURPOSE.
</p>
</div>
</body>
</notes><annotation>
<rdf:RDF xmlns:rdf="http://www.w3.org/1999/02/22-rdf-syntax-ns#" xmlns:dc="http://purl.org/dc/elements/1.1/" xmlns:dcterms="http://purl.org/dc/terms/" xmlns:vCard="http://www.w3.org/2001/vcard-rdf/3.0#" xmlns:bqbiol="http://biomodels.net/biology-qualifiers/" xmlns:bqmodel="http://biomodels.net/model-qualifiers/">
<rdf:Description rdf:about="#meta_6007b30e1553454880de1a52bd0372c4">
<dc:creator>
<rdf:Bag>
<rdf:li rdf:parseType="Resource">
<vCard:N rdf:parseType="Resource">
<vCard:Family>Koenig</vCard:Family>
<vCard:Given>Matthias</vCard:Given>
</vCard:N>
<vCard:EMAIL>[email protected]</vCard:EMAIL>
<vCard:ORG rdf:parseType="Resource">
<vCard:Orgname>Humboldt-University Berlin, Institute for Theoretical Biology</vCard:Orgname>
</vCard:ORG>
</rdf:li>
</rdf:Bag>
</dc:creator>
<dcterms:created rdf:parseType="Resource">
<dcterms:W3CDTF>2016-05-12T12:46:49Z</dcterms:W3CDTF>
</dcterms:created>
<dcterms:modified rdf:parseType="Resource">
<dcterms:W3CDTF>2016-05-12T12:46:49Z</dcterms:W3CDTF>
</dcterms:modified>
</rdf:Description>
</rdf:RDF>
</annotation><listOfUnitDefinitions>
<unitDefinition id="kg">
<listOfUnits>
<unit kind="kilogram" exponent="1" scale="0" multiplier="1"/>
</listOfUnits>
</unitDefinition>
<unitDefinition id="mM">
<listOfUnits>
<unit kind="mole" exponent="1" scale="0" multiplier="1"/>
<unit kind="metre" exponent="-3" scale="0" multiplier="1"/>
</listOfUnits>
</unitDefinition>
<unitDefinition id="m">
<listOfUnits>
<unit kind="metre" exponent="1" scale="0" multiplier="1"/>
</listOfUnits>
</unitDefinition>
<unitDefinition id="s">
<listOfUnits>
<unit kind="second" exponent="1" scale="0" multiplier="1"/>
</listOfUnits>
</unitDefinition>
<unitDefinition id="m3">
<listOfUnits>
<unit kind="metre" exponent="3" scale="0" multiplier="1"/>
</listOfUnits>
</unitDefinition>
<unitDefinition id="m2">
<listOfUnits>
<unit kind="metre" exponent="2" scale="0" multiplier="1"/>
</listOfUnits>
</unitDefinition>
<unitDefinition id="mole_per_s">
<listOfUnits>
<unit kind="mole" exponent="1" scale="0" multiplier="1"/>
<unit kind="second" exponent="-1" scale="0" multiplier="1"/>
</listOfUnits>
</unitDefinition>
</listOfUnitDefinitions><listOfCompartments>
<compartment metaid="meta_a2084d8017a64bbb9deee0f54667757b" sboTerm="SBO:0000290" id="e" name="external compartment" spatialDimensions="3" size="1e-06" units="m3" constant="false">
<annotation>
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<rdf:Description rdf:about="#meta_a2084d8017a64bbb9deee0f54667757b">
<bqbiol:is>
<rdf:Bag>
<rdf:li rdf:resource="http://identifiers.org/biomodels.sbo/SBO:0000290"/>
<rdf:li rdf:resource="http://identifiers.org/go/GO:0005615"/>
<rdf:li rdf:resource="http://identifiers.org/fma/FMA:70022"/>
</rdf:Bag>
</bqbiol:is>
</rdf:Description>
</rdf:RDF>
</annotation>
</compartment>
<compartment metaid="meta_9106fb9411f54c2aabd571b9dec72301" sboTerm="SBO:0000290" id="c" name="cell compartment" spatialDimensions="3" size="1e-06" units="m3" constant="false">
<annotation>
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<rdf:Description rdf:about="#meta_9106fb9411f54c2aabd571b9dec72301">
<bqbiol:is>
<rdf:Bag>
<rdf:li rdf:resource="http://identifiers.org/biomodels.sbo/SBO:0000290"/>
<rdf:li rdf:resource="http://identifiers.org/go/GO:0005623"/>
<rdf:li rdf:resource="http://identifiers.org/fma/FMA:68646"/>
</rdf:Bag>
</bqbiol:is>
</rdf:Description>
</rdf:RDF>
</annotation>
</compartment>
<compartment metaid="meta_c6c0acf66c1f498dab83e4e3eb0a97ae" sboTerm="SBO:0000290" id="m" name="plasma membrane" spatialDimensions="2" size="1" units="m2" constant="false">
<annotation>
<rdf:RDF xmlns:rdf="http://www.w3.org/1999/02/22-rdf-syntax-ns#" xmlns:dc="http://purl.org/dc/elements/1.1/" xmlns:dcterms="http://purl.org/dc/terms/" xmlns:vCard="http://www.w3.org/2001/vcard-rdf/3.0#" xmlns:bqbiol="http://biomodels.net/biology-qualifiers/" xmlns:bqmodel="http://biomodels.net/model-qualifiers/">
<rdf:Description rdf:about="#meta_c6c0acf66c1f498dab83e4e3eb0a97ae">
<bqbiol:is>
<rdf:Bag>
<rdf:li rdf:resource="http://identifiers.org/biomodels.sbo/SBO:0000290"/>
<rdf:li rdf:resource="http://identifiers.org/go/GO:0005886"/>
<rdf:li rdf:resource="http://identifiers.org/fma/FMA:63841"/>
</rdf:Bag>
</bqbiol:is>
</rdf:Description>
</rdf:RDF>
</annotation>
</compartment>
</listOfCompartments><listOfSpecies>
<species metaid="meta_ce1ee1f0a5714a118fafeaffd5191896" sboTerm="SBO:0000247" id="e__A" name="A" compartment="e" initialConcentration="10" substanceUnits="mole" hasOnlySubstanceUnits="false" boundaryCondition="false" constant="false" fbc:charge="0" fbc:chemicalFormula="C6H12O6">
<annotation>
<rdf:RDF xmlns:rdf="http://www.w3.org/1999/02/22-rdf-syntax-ns#" xmlns:dc="http://purl.org/dc/elements/1.1/" xmlns:dcterms="http://purl.org/dc/terms/" xmlns:vCard="http://www.w3.org/2001/vcard-rdf/3.0#" xmlns:bqbiol="http://biomodels.net/biology-qualifiers/" xmlns:bqmodel="http://biomodels.net/model-qualifiers/">
<rdf:Description rdf:about="#meta_ce1ee1f0a5714a118fafeaffd5191896">
<bqbiol:is>
<rdf:Bag>
<rdf:li rdf:resource="http://identifiers.org/biomodels.sbo/SBO:0000247"/>
</rdf:Bag>
</bqbiol:is>
</rdf:Description>
</rdf:RDF>
</annotation>
</species>
<species metaid="meta_497049b89dbd4df688d0110ec145a73c" sboTerm="SBO:0000247" id="e__C" name="C" compartment="e" initialConcentration="0" substanceUnits="mole" hasOnlySubstanceUnits="false" boundaryCondition="false" constant="false" fbc:charge="0" fbc:chemicalFormula="C6H12O6">
<annotation>
<rdf:RDF xmlns:rdf="http://www.w3.org/1999/02/22-rdf-syntax-ns#" xmlns:dc="http://purl.org/dc/elements/1.1/" xmlns:dcterms="http://purl.org/dc/terms/" xmlns:vCard="http://www.w3.org/2001/vcard-rdf/3.0#" xmlns:bqbiol="http://biomodels.net/biology-qualifiers/" xmlns:bqmodel="http://biomodels.net/model-qualifiers/">
<rdf:Description rdf:about="#meta_497049b89dbd4df688d0110ec145a73c">
<bqbiol:is>
<rdf:Bag>
<rdf:li rdf:resource="http://identifiers.org/biomodels.sbo/SBO:0000247"/>
</rdf:Bag>
</bqbiol:is>
</rdf:Description>
</rdf:RDF>
</annotation>
</species>
<species metaid="meta_d05ad62ec980493881208b7dbfce82f6" sboTerm="SBO:0000247" id="e__B" name="B" compartment="e" initialConcentration="0" substanceUnits="mole" hasOnlySubstanceUnits="false" boundaryCondition="false" constant="false" fbc:charge="0" fbc:chemicalFormula="C6H12O6">
<annotation>
<rdf:RDF xmlns:rdf="http://www.w3.org/1999/02/22-rdf-syntax-ns#" xmlns:dc="http://purl.org/dc/elements/1.1/" xmlns:dcterms="http://purl.org/dc/terms/" xmlns:vCard="http://www.w3.org/2001/vcard-rdf/3.0#" xmlns:bqbiol="http://biomodels.net/biology-qualifiers/" xmlns:bqmodel="http://biomodels.net/model-qualifiers/">
<rdf:Description rdf:about="#meta_d05ad62ec980493881208b7dbfce82f6">
<bqbiol:is>
<rdf:Bag>
<rdf:li rdf:resource="http://identifiers.org/biomodels.sbo/SBO:0000247"/>
</rdf:Bag>
</bqbiol:is>
</rdf:Description>
</rdf:RDF>
</annotation>
</species>
<species metaid="meta_66d8261288764d6d8092e2ddf311b400" sboTerm="SBO:0000247" id="c__C" name="C" compartment="c" initialConcentration="0" substanceUnits="mole" hasOnlySubstanceUnits="false" boundaryCondition="false" constant="false" fbc:charge="0" fbc:chemicalFormula="C6H12O6">
<annotation>
<rdf:RDF xmlns:rdf="http://www.w3.org/1999/02/22-rdf-syntax-ns#" xmlns:dc="http://purl.org/dc/elements/1.1/" xmlns:dcterms="http://purl.org/dc/terms/" xmlns:vCard="http://www.w3.org/2001/vcard-rdf/3.0#" xmlns:bqbiol="http://biomodels.net/biology-qualifiers/" xmlns:bqmodel="http://biomodels.net/model-qualifiers/">
<rdf:Description rdf:about="#meta_66d8261288764d6d8092e2ddf311b400">
<bqbiol:is>
<rdf:Bag>
<rdf:li rdf:resource="http://identifiers.org/biomodels.sbo/SBO:0000247"/>
</rdf:Bag>
</bqbiol:is>
</rdf:Description>
</rdf:RDF>
</annotation>
</species>
<species metaid="meta_212a47c7524d4ec78bab1e4729cb75fe" sboTerm="SBO:0000247" id="c__B" name="B" compartment="c" initialConcentration="0" substanceUnits="mole" hasOnlySubstanceUnits="false" boundaryCondition="false" constant="false" fbc:charge="0" fbc:chemicalFormula="C6H12O6">
<annotation>
<rdf:RDF xmlns:rdf="http://www.w3.org/1999/02/22-rdf-syntax-ns#" xmlns:dc="http://purl.org/dc/elements/1.1/" xmlns:dcterms="http://purl.org/dc/terms/" xmlns:vCard="http://www.w3.org/2001/vcard-rdf/3.0#" xmlns:bqbiol="http://biomodels.net/biology-qualifiers/" xmlns:bqmodel="http://biomodels.net/model-qualifiers/">
<rdf:Description rdf:about="#meta_212a47c7524d4ec78bab1e4729cb75fe">
<bqbiol:is>
<rdf:Bag>
<rdf:li rdf:resource="http://identifiers.org/biomodels.sbo/SBO:0000247"/>
</rdf:Bag>
</bqbiol:is>
</rdf:Description>
</rdf:RDF>
</annotation>
</species>
<species metaid="meta_7d31f565e9554631a4976d0340f6f207" sboTerm="SBO:0000247" id="c__A" name="A" compartment="c" initialConcentration="0" substanceUnits="mole" hasOnlySubstanceUnits="false" boundaryCondition="false" constant="false" fbc:charge="0" fbc:chemicalFormula="C6H12O6">
<annotation>
<rdf:RDF xmlns:rdf="http://www.w3.org/1999/02/22-rdf-syntax-ns#" xmlns:dc="http://purl.org/dc/elements/1.1/" xmlns:dcterms="http://purl.org/dc/terms/" xmlns:vCard="http://www.w3.org/2001/vcard-rdf/3.0#" xmlns:bqbiol="http://biomodels.net/biology-qualifiers/" xmlns:bqmodel="http://biomodels.net/model-qualifiers/">
<rdf:Description rdf:about="#meta_7d31f565e9554631a4976d0340f6f207">
<bqbiol:is>
<rdf:Bag>
<rdf:li rdf:resource="http://identifiers.org/biomodels.sbo/SBO:0000247"/>
</rdf:Bag>
</bqbiol:is>
</rdf:Description>
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</annotation>
</species>
</listOfSpecies><listOfParameters>
<parameter metaid="meta_bf62859cec8e460293f70e39f2ca8444" sboTerm="SBO:0000027" id="Km_C" value="3" units="mM" constant="true">
<annotation>
<rdf:RDF xmlns:rdf="http://www.w3.org/1999/02/22-rdf-syntax-ns#" xmlns:dc="http://purl.org/dc/elements/1.1/" xmlns:dcterms="http://purl.org/dc/terms/" xmlns:vCard="http://www.w3.org/2001/vcard-rdf/3.0#" xmlns:bqbiol="http://biomodels.net/biology-qualifiers/" xmlns:bqmodel="http://biomodels.net/model-qualifiers/">
<rdf:Description rdf:about="#meta_bf62859cec8e460293f70e39f2ca8444">
<bqbiol:is>
<rdf:Bag>
<rdf:li rdf:resource="http://identifiers.org/biomodels.sbo/SBO:0000027"/>
</rdf:Bag>
</bqbiol:is>
</rdf:Description>
</rdf:RDF>
</annotation>
</parameter>
<parameter id="scale_f" name="metabolic scaling factor" value="1e-06" units="dimensionless" constant="true"/>
<parameter metaid="meta_3f2478be1b3e4a5d8f9fb8c0db2ec1ad" sboTerm="SBO:0000186" id="Vmax_bB" value="2" units="mole_per_s" constant="true">
<annotation>
<rdf:RDF xmlns:rdf="http://www.w3.org/1999/02/22-rdf-syntax-ns#" xmlns:dc="http://purl.org/dc/elements/1.1/" xmlns:dcterms="http://purl.org/dc/terms/" xmlns:vCard="http://www.w3.org/2001/vcard-rdf/3.0#" xmlns:bqbiol="http://biomodels.net/biology-qualifiers/" xmlns:bqmodel="http://biomodels.net/model-qualifiers/">
<rdf:Description rdf:about="#meta_3f2478be1b3e4a5d8f9fb8c0db2ec1ad">
<bqbiol:is>
<rdf:Bag>
<rdf:li rdf:resource="http://identifiers.org/biomodels.sbo/SBO:0000186"/>
</rdf:Bag>
</bqbiol:is>
</rdf:Description>
</rdf:RDF>
</annotation>
</parameter>
<parameter metaid="meta_f2c1bcdf13004ef08dfc13eb06d5ba38" sboTerm="SBO:0000186" id="Vmax_bC" value="2" units="mole_per_s" constant="true">
<annotation>
<rdf:RDF xmlns:rdf="http://www.w3.org/1999/02/22-rdf-syntax-ns#" xmlns:dc="http://purl.org/dc/elements/1.1/" xmlns:dcterms="http://purl.org/dc/terms/" xmlns:vCard="http://www.w3.org/2001/vcard-rdf/3.0#" xmlns:bqbiol="http://biomodels.net/biology-qualifiers/" xmlns:bqmodel="http://biomodels.net/model-qualifiers/">
<rdf:Description rdf:about="#meta_f2c1bcdf13004ef08dfc13eb06d5ba38">
<bqbiol:is>
<rdf:Bag>
<rdf:li rdf:resource="http://identifiers.org/biomodels.sbo/SBO:0000186"/>
</rdf:Bag>
</bqbiol:is>
</rdf:Description>
</rdf:RDF>
</annotation>
</parameter>
<parameter metaid="meta_f2bb20fffbe846748c54667cae02a278" sboTerm="SBO:0000186" id="Vmax_bA" value="5" units="mole_per_s" constant="true">
<annotation>
<rdf:RDF xmlns:rdf="http://www.w3.org/1999/02/22-rdf-syntax-ns#" xmlns:dc="http://purl.org/dc/elements/1.1/" xmlns:dcterms="http://purl.org/dc/terms/" xmlns:vCard="http://www.w3.org/2001/vcard-rdf/3.0#" xmlns:bqbiol="http://biomodels.net/biology-qualifiers/" xmlns:bqmodel="http://biomodels.net/model-qualifiers/">
<rdf:Description rdf:about="#meta_f2bb20fffbe846748c54667cae02a278">
<bqbiol:is>
<rdf:Bag>
<rdf:li rdf:resource="http://identifiers.org/biomodels.sbo/SBO:0000186"/>
</rdf:Bag>
</bqbiol:is>
</rdf:Description>
</rdf:RDF>
</annotation>
</parameter>
<parameter metaid="meta_9f053d41b92941c2a2c592987b87f90b" sboTerm="SBO:0000186" id="Vmax_v2" value="0.5" units="mole_per_s" constant="true">
<annotation>
<rdf:RDF xmlns:rdf="http://www.w3.org/1999/02/22-rdf-syntax-ns#" xmlns:dc="http://purl.org/dc/elements/1.1/" xmlns:dcterms="http://purl.org/dc/terms/" xmlns:vCard="http://www.w3.org/2001/vcard-rdf/3.0#" xmlns:bqbiol="http://biomodels.net/biology-qualifiers/" xmlns:bqmodel="http://biomodels.net/model-qualifiers/">
<rdf:Description rdf:about="#meta_9f053d41b92941c2a2c592987b87f90b">
<bqbiol:is>
<rdf:Bag>
<rdf:li rdf:resource="http://identifiers.org/biomodels.sbo/SBO:0000186"/>
</rdf:Bag>
</bqbiol:is>
</rdf:Description>
</rdf:RDF>
</annotation>
</parameter>
<parameter metaid="meta_5b7ea4c164bc44f7bdc12360883fd938" sboTerm="SBO:0000186" id="Vmax_v3" value="0.5" units="mole_per_s" constant="true">
<annotation>
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<rdf:Description rdf:about="#meta_5b7ea4c164bc44f7bdc12360883fd938">
<bqbiol:is>
<rdf:Bag>
<rdf:li rdf:resource="http://identifiers.org/biomodels.sbo/SBO:0000186"/>
</rdf:Bag>
</bqbiol:is>
</rdf:Description>
</rdf:RDF>
</annotation>
</parameter>
<parameter metaid="meta_adaefcb59a464307a5d8fd036ccb3d50" sboTerm="SBO:0000186" id="Vmax_v1" value="1" units="mole_per_s" constant="true">
<annotation>
<rdf:RDF xmlns:rdf="http://www.w3.org/1999/02/22-rdf-syntax-ns#" xmlns:dc="http://purl.org/dc/elements/1.1/" xmlns:dcterms="http://purl.org/dc/terms/" xmlns:vCard="http://www.w3.org/2001/vcard-rdf/3.0#" xmlns:bqbiol="http://biomodels.net/biology-qualifiers/" xmlns:bqmodel="http://biomodels.net/model-qualifiers/">
<rdf:Description rdf:about="#meta_adaefcb59a464307a5d8fd036ccb3d50">
<bqbiol:is>
<rdf:Bag>
<rdf:li rdf:resource="http://identifiers.org/biomodels.sbo/SBO:0000186"/>
</rdf:Bag>
</bqbiol:is>
</rdf:Description>
</rdf:RDF>
</annotation>
</parameter>
<parameter metaid="meta_22f4ba2abd514f068499ca0a13c49c07" sboTerm="SBO:0000027" id="Km_A" value="1" units="mM" constant="true">
<annotation>
<rdf:RDF xmlns:rdf="http://www.w3.org/1999/02/22-rdf-syntax-ns#" xmlns:dc="http://purl.org/dc/elements/1.1/" xmlns:dcterms="http://purl.org/dc/terms/" xmlns:vCard="http://www.w3.org/2001/vcard-rdf/3.0#" xmlns:bqbiol="http://biomodels.net/biology-qualifiers/" xmlns:bqmodel="http://biomodels.net/model-qualifiers/">
<rdf:Description rdf:about="#meta_22f4ba2abd514f068499ca0a13c49c07">
<bqbiol:is>
<rdf:Bag>
<rdf:li rdf:resource="http://identifiers.org/biomodels.sbo/SBO:0000027"/>
</rdf:Bag>
</bqbiol:is>
</rdf:Description>
</rdf:RDF>
</annotation>
</parameter>
<parameter metaid="meta_92832fc0e9ea4799b4321ebae82577e7" sboTerm="SBO:0000186" id="Vmax_v4" value="0.5" units="mole_per_s" constant="true">
<annotation>
<rdf:RDF xmlns:rdf="http://www.w3.org/1999/02/22-rdf-syntax-ns#" xmlns:dc="http://purl.org/dc/elements/1.1/" xmlns:dcterms="http://purl.org/dc/terms/" xmlns:vCard="http://www.w3.org/2001/vcard-rdf/3.0#" xmlns:bqbiol="http://biomodels.net/biology-qualifiers/" xmlns:bqmodel="http://biomodels.net/model-qualifiers/">
<rdf:Description rdf:about="#meta_92832fc0e9ea4799b4321ebae82577e7">
<bqbiol:is>
<rdf:Bag>
<rdf:li rdf:resource="http://identifiers.org/biomodels.sbo/SBO:0000186"/>
</rdf:Bag>
</bqbiol:is>
</rdf:Description>
</rdf:RDF>
</annotation>
</parameter>
<parameter metaid="meta_e78f44bd09c64a6fae19a92e0ea02d5f" sboTerm="SBO:0000027" id="Km_B" value="0.5" units="mM" constant="true">
<annotation>
<rdf:RDF xmlns:rdf="http://www.w3.org/1999/02/22-rdf-syntax-ns#" xmlns:dc="http://purl.org/dc/elements/1.1/" xmlns:dcterms="http://purl.org/dc/terms/" xmlns:vCard="http://www.w3.org/2001/vcard-rdf/3.0#" xmlns:bqbiol="http://biomodels.net/biology-qualifiers/" xmlns:bqmodel="http://biomodels.net/model-qualifiers/">
<rdf:Description rdf:about="#meta_e78f44bd09c64a6fae19a92e0ea02d5f">
<bqbiol:is>
<rdf:Bag>
<rdf:li rdf:resource="http://identifiers.org/biomodels.sbo/SBO:0000027"/>
</rdf:Bag>
</bqbiol:is>
</rdf:Description>
</rdf:RDF>
</annotation>
</parameter>
<parameter metaid="meta_fe0e6f9db8a7409c967f83902473cd26" sboTerm="SBO:0000281" id="Keq_v4" value="2" units="dimensionless" constant="true">
<annotation>
<rdf:RDF xmlns:rdf="http://www.w3.org/1999/02/22-rdf-syntax-ns#" xmlns:dc="http://purl.org/dc/elements/1.1/" xmlns:dcterms="http://purl.org/dc/terms/" xmlns:vCard="http://www.w3.org/2001/vcard-rdf/3.0#" xmlns:bqbiol="http://biomodels.net/biology-qualifiers/" xmlns:bqmodel="http://biomodels.net/model-qualifiers/">
<rdf:Description rdf:about="#meta_fe0e6f9db8a7409c967f83902473cd26">
<bqbiol:is>
<rdf:Bag>
<rdf:li rdf:resource="http://identifiers.org/biomodels.sbo/SBO:0000281"/>
</rdf:Bag>
</bqbiol:is>
</rdf:Description>
</rdf:RDF>
</annotation>
</parameter>
<parameter metaid="meta_bddab3c4cb3a4a8bb781558fabd1f35e" sboTerm="SBO:0000281" id="Keq_v1" value="10" units="dimensionless" constant="true">
<annotation>
<rdf:RDF xmlns:rdf="http://www.w3.org/1999/02/22-rdf-syntax-ns#" xmlns:dc="http://purl.org/dc/elements/1.1/" xmlns:dcterms="http://purl.org/dc/terms/" xmlns:vCard="http://www.w3.org/2001/vcard-rdf/3.0#" xmlns:bqbiol="http://biomodels.net/biology-qualifiers/" xmlns:bqmodel="http://biomodels.net/model-qualifiers/">
<rdf:Description rdf:about="#meta_bddab3c4cb3a4a8bb781558fabd1f35e">
<bqbiol:is>
<rdf:Bag>
<rdf:li rdf:resource="http://identifiers.org/biomodels.sbo/SBO:0000281"/>
</rdf:Bag>
</bqbiol:is>
</rdf:Description>
</rdf:RDF>
</annotation>
</parameter>
</listOfParameters><listOfReactions>
<reaction metaid="meta_6737a0f922b94fc2a611f560acfe69be" sboTerm="SBO:0000185" id="bA" name="bA (A import)" reversible="false" fast="false" compartment="m">
<annotation>
<rdf:RDF xmlns:rdf="http://www.w3.org/1999/02/22-rdf-syntax-ns#" xmlns:dc="http://purl.org/dc/elements/1.1/" xmlns:dcterms="http://purl.org/dc/terms/" xmlns:vCard="http://www.w3.org/2001/vcard-rdf/3.0#" xmlns:bqbiol="http://biomodels.net/biology-qualifiers/" xmlns:bqmodel="http://biomodels.net/model-qualifiers/">
<rdf:Description rdf:about="#meta_6737a0f922b94fc2a611f560acfe69be">
<bqbiol:is>
<rdf:Bag>
<rdf:li rdf:resource="http://identifiers.org/biomodels.sbo/SBO:0000185"/>
</rdf:Bag>
</bqbiol:is>
</rdf:Description>
</rdf:RDF>
</annotation>
<listOfReactants>
<speciesReference species="e__A" stoichiometry="1" constant="true"/>
</listOfReactants>
<listOfProducts>
<speciesReference species="c__A" stoichiometry="1" constant="true"/>
</listOfProducts>
<kineticLaw>
<math xmlns="http://www.w3.org/1998/Math/MathML" xmlns:sbml="http://www.sbml.org/sbml/level3/version1/core">
<apply>
<divide/>
<apply>
<times/>
<ci> scale_f </ci>
<apply>
<divide/>
<ci> Vmax_bA </ci>
<ci> Km_A </ci>
</apply>
<apply>
<minus/>
<ci> e__A </ci>
<ci> c__A </ci>
</apply>
</apply>
<apply>
<plus/>
<cn sbml:units="dimensionless" type="integer"> 1 </cn>
<apply>
<divide/>
<ci> e__A </ci>
<ci> Km_A </ci>
</apply>
<apply>
<divide/>
<ci> c__A </ci>
<ci> Km_A </ci>
</apply>
</apply>
</apply>
</math>
</kineticLaw>
</reaction>
<reaction metaid="meta_22073863bac6495b9f4592b69a01c465" sboTerm="SBO:0000185" id="bB" name="bB (B export)" reversible="false" fast="false" compartment="m">
<annotation>
<rdf:RDF xmlns:rdf="http://www.w3.org/1999/02/22-rdf-syntax-ns#" xmlns:dc="http://purl.org/dc/elements/1.1/" xmlns:dcterms="http://purl.org/dc/terms/" xmlns:vCard="http://www.w3.org/2001/vcard-rdf/3.0#" xmlns:bqbiol="http://biomodels.net/biology-qualifiers/" xmlns:bqmodel="http://biomodels.net/model-qualifiers/">
<rdf:Description rdf:about="#meta_22073863bac6495b9f4592b69a01c465">
<bqbiol:is>
<rdf:Bag>
<rdf:li rdf:resource="http://identifiers.org/biomodels.sbo/SBO:0000185"/>
</rdf:Bag>
</bqbiol:is>
</rdf:Description>
</rdf:RDF>
</annotation>
<listOfReactants>
<speciesReference species="c__B" stoichiometry="1" constant="true"/>
</listOfReactants>
<listOfProducts>
<speciesReference species="e__B" stoichiometry="1" constant="true"/>
</listOfProducts>
<kineticLaw>
<math xmlns="http://www.w3.org/1998/Math/MathML" xmlns:sbml="http://www.sbml.org/sbml/level3/version1/core">
<apply>
<divide/>
<apply>
<times/>
<ci> scale_f </ci>
<apply>
<divide/>
<ci> Vmax_bB </ci>
<ci> Km_B </ci>
</apply>
<apply>
<minus/>
<ci> c__B </ci>
<ci> e__B </ci>
</apply>
</apply>
<apply>
<plus/>
<cn sbml:units="dimensionless" type="integer"> 1 </cn>
<apply>
<divide/>
<ci> e__B </ci>
<ci> Km_B </ci>
</apply>
<apply>
<divide/>
<ci> c__B </ci>
<ci> Km_B </ci>
</apply>
</apply>
</apply>
</math>
</kineticLaw>
</reaction>
<reaction metaid="meta_d5371707f7b24b078c55625ca627d2af" sboTerm="SBO:0000185" id="bC" name="bC (C export)" reversible="false" fast="false" compartment="m">
<annotation>
<rdf:RDF xmlns:rdf="http://www.w3.org/1999/02/22-rdf-syntax-ns#" xmlns:dc="http://purl.org/dc/elements/1.1/" xmlns:dcterms="http://purl.org/dc/terms/" xmlns:vCard="http://www.w3.org/2001/vcard-rdf/3.0#" xmlns:bqbiol="http://biomodels.net/biology-qualifiers/" xmlns:bqmodel="http://biomodels.net/model-qualifiers/">
<rdf:Description rdf:about="#meta_d5371707f7b24b078c55625ca627d2af">
<bqbiol:is>
<rdf:Bag>
<rdf:li rdf:resource="http://identifiers.org/biomodels.sbo/SBO:0000185"/>
</rdf:Bag>
</bqbiol:is>
</rdf:Description>
</rdf:RDF>
</annotation>
<listOfReactants>
<speciesReference species="c__C" stoichiometry="1" constant="true"/>
</listOfReactants>
<listOfProducts>
<speciesReference species="e__C" stoichiometry="1" constant="true"/>
</listOfProducts>
<kineticLaw>
<math xmlns="http://www.w3.org/1998/Math/MathML" xmlns:sbml="http://www.sbml.org/sbml/level3/version1/core">
<apply>
<divide/>
<apply>
<times/>
<ci> scale_f </ci>
<apply>
<divide/>
<ci> Vmax_bC </ci>
<ci> Km_C </ci>
</apply>
<apply>
<minus/>
<ci> c__C </ci>
<ci> e__C </ci>
</apply>
</apply>
<apply>
<plus/>
<cn sbml:units="dimensionless" type="integer"> 1 </cn>
<apply>
<divide/>
<ci> e__C </ci>
<ci> Km_C </ci>
</apply>
<apply>
<divide/>
<ci> c__C </ci>
<ci> Km_C </ci>
</apply>
</apply>
</apply>
</math>
</kineticLaw>
</reaction>
<reaction metaid="meta_94a01432531b4f55865b9e1b821f10d9" sboTerm="SBO:0000176" id="v1" name="v1 (A -> B)" reversible="false" fast="false" compartment="c">
<annotation>
<rdf:RDF xmlns:rdf="http://www.w3.org/1999/02/22-rdf-syntax-ns#" xmlns:dc="http://purl.org/dc/elements/1.1/" xmlns:dcterms="http://purl.org/dc/terms/" xmlns:vCard="http://www.w3.org/2001/vcard-rdf/3.0#" xmlns:bqbiol="http://biomodels.net/biology-qualifiers/" xmlns:bqmodel="http://biomodels.net/model-qualifiers/">
<rdf:Description rdf:about="#meta_94a01432531b4f55865b9e1b821f10d9">
<bqbiol:is>
<rdf:Bag>
<rdf:li rdf:resource="http://identifiers.org/biomodels.sbo/SBO:0000176"/>
</rdf:Bag>
</bqbiol:is>
</rdf:Description>
</rdf:RDF>
</annotation>
<listOfReactants>
<speciesReference species="c__A" stoichiometry="1" constant="true"/>
</listOfReactants>
<listOfProducts>
<speciesReference species="c__B" stoichiometry="1" constant="true"/>
</listOfProducts>
<kineticLaw>
<math xmlns="http://www.w3.org/1998/Math/MathML" xmlns:sbml="http://www.sbml.org/sbml/level3/version1/core">
<apply>
<times/>
<apply>
<divide/>
<apply>
<times/>
<ci> scale_f </ci>
<ci> Vmax_v1 </ci>
</apply>
<ci> Km_A </ci>
</apply>
<apply>
<minus/>
<ci> c__A </ci>
<apply>
<times/>
<apply>
<divide/>
<cn sbml:units="dimensionless" type="integer"> 1 </cn>
<ci> Keq_v1 </ci>
</apply>
<ci> c__B </ci>
</apply>
</apply>
</apply>
</math>
</kineticLaw>
</reaction>
<reaction metaid="meta_8dfea6284c604245aea12e4d9bdc627a" sboTerm="SBO:0000176" id="v2" name="v2 (A -> C)" reversible="false" fast="false" compartment="c">
<annotation>
<rdf:RDF xmlns:rdf="http://www.w3.org/1999/02/22-rdf-syntax-ns#" xmlns:dc="http://purl.org/dc/elements/1.1/" xmlns:dcterms="http://purl.org/dc/terms/" xmlns:vCard="http://www.w3.org/2001/vcard-rdf/3.0#" xmlns:bqbiol="http://biomodels.net/biology-qualifiers/" xmlns:bqmodel="http://biomodels.net/model-qualifiers/">
<rdf:Description rdf:about="#meta_8dfea6284c604245aea12e4d9bdc627a">
<bqbiol:is>
<rdf:Bag>
<rdf:li rdf:resource="http://identifiers.org/biomodels.sbo/SBO:0000176"/>
</rdf:Bag>
</bqbiol:is>
</rdf:Description>
</rdf:RDF>
</annotation>
<listOfReactants>
<speciesReference species="c__A" stoichiometry="1" constant="true"/>
</listOfReactants>
<listOfProducts>
<speciesReference species="c__C" stoichiometry="1" constant="true"/>
</listOfProducts>
<kineticLaw>
<math xmlns="http://www.w3.org/1998/Math/MathML">
<apply>
<times/>
<apply>
<divide/>
<apply>
<times/>
<ci> scale_f </ci>
<ci> Vmax_v2 </ci>
</apply>
<ci> Km_A </ci>
</apply>
<ci> c__A </ci>
</apply>
</math>
</kineticLaw>
</reaction>
<reaction metaid="meta_b0d4e1605bde4da5bcb2368332ecded8" sboTerm="SBO:0000176" id="v3" name="v3 (C -> A)" reversible="false" fast="false" compartment="c">
<annotation>
<rdf:RDF xmlns:rdf="http://www.w3.org/1999/02/22-rdf-syntax-ns#" xmlns:dc="http://purl.org/dc/elements/1.1/" xmlns:dcterms="http://purl.org/dc/terms/" xmlns:vCard="http://www.w3.org/2001/vcard-rdf/3.0#" xmlns:bqbiol="http://biomodels.net/biology-qualifiers/" xmlns:bqmodel="http://biomodels.net/model-qualifiers/">
<rdf:Description rdf:about="#meta_b0d4e1605bde4da5bcb2368332ecded8">
<bqbiol:is>
<rdf:Bag>
<rdf:li rdf:resource="http://identifiers.org/biomodels.sbo/SBO:0000176"/>
</rdf:Bag>
</bqbiol:is>
</rdf:Description>
</rdf:RDF>
</annotation>
<listOfReactants>
<speciesReference species="c__C" stoichiometry="1" constant="true"/>
</listOfReactants>
<listOfProducts>
<speciesReference species="c__A" stoichiometry="1" constant="true"/>
</listOfProducts>
<kineticLaw>
<math xmlns="http://www.w3.org/1998/Math/MathML">
<apply>
<times/>
<apply>
<divide/>
<apply>
<times/>
<ci> scale_f </ci>
<ci> Vmax_v3 </ci>
</apply>
<ci> Km_A </ci>
</apply>
<ci> c__C </ci>
</apply>
</math>
</kineticLaw>
</reaction>
<reaction metaid="meta_bd6ce92ef20c4310b145f8204b6c92c4" sboTerm="SBO:0000176" id="v4" name="v4 (C -> B)" reversible="false" fast="false" compartment="c">
<annotation>
<rdf:RDF xmlns:rdf="http://www.w3.org/1999/02/22-rdf-syntax-ns#" xmlns:dc="http://purl.org/dc/elements/1.1/" xmlns:dcterms="http://purl.org/dc/terms/" xmlns:vCard="http://www.w3.org/2001/vcard-rdf/3.0#" xmlns:bqbiol="http://biomodels.net/biology-qualifiers/" xmlns:bqmodel="http://biomodels.net/model-qualifiers/">
<rdf:Description rdf:about="#meta_bd6ce92ef20c4310b145f8204b6c92c4">
<bqbiol:is>
<rdf:Bag>
<rdf:li rdf:resource="http://identifiers.org/biomodels.sbo/SBO:0000176"/>
</rdf:Bag>
</bqbiol:is>
</rdf:Description>
</rdf:RDF>
</annotation>
<listOfReactants>
<speciesReference species="c__C" stoichiometry="1" constant="true"/>
</listOfReactants>
<listOfProducts>
<speciesReference species="c__B" stoichiometry="1" constant="true"/>
</listOfProducts>
<kineticLaw>
<math xmlns="http://www.w3.org/1998/Math/MathML" xmlns:sbml="http://www.sbml.org/sbml/level3/version1/core">
<apply>
<times/>
<apply>
<divide/>
<apply>
<times/>
<ci> scale_f </ci>
<ci> Vmax_v4 </ci>
</apply>
<ci> Km_A </ci>
</apply>
<apply>
<minus/>
<ci> c__C </ci>
<apply>
<times/>
<apply>
<divide/>
<cn sbml:units="dimensionless" type="integer"> 1 </cn>
<ci> Keq_v4 </ci>
</apply>
<ci> c__B </ci>
</apply>
</apply>
</apply>
</math>
</kineticLaw>
</reaction>
</listOfReactions>
</model>
</sbml>
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