Detail View - Model AccessID 40
General Information
Manuscript title | Modeling and simulation of the redox regulation of the metabolism in Escherichia coli at different oxygen concentrations. |
PubMed ID | 28725263 |
Journal | Biotechnology for Biofuels |
Year | 2017 |
Authors | Yu Matsuoka and Hiroyuki Kurata |
Affiliations | Department of Bioscience and Bioinformatics, Kyushu Institute of Technology, 680 -4 Kawazu, Iizuka, Fukuoka 820 -8502, Japan |
Keywords | Kinetic modeling, Fermentation, Dissolved oxygen limitation, Redox regulation, ArcA, Fnr, Respiratory chain, NADH/NAD+ ratio, Escherichia coli |
Full text article |
Matsuoka_2017.pdf |
Project name | not specified |
Data used for | Model building and Model validation |
Model Information
Model name | E. coli redox regulation model | |||||||||||||||||||||||||||||||||||||||||||||||||||||||||||||||||||||||||||||||||||||||||||||||||||||||||||||||||||||||||||||||||||||||||||||||||||||||||||||||||||||||||||||||||||
Organism | Escherichia coli | |||||||||||||||||||||||||||||||||||||||||||||||||||||||||||||||||||||||||||||||||||||||||||||||||||||||||||||||||||||||||||||||||||||||||||||||||||||||||||||||||||||||||||||||||||
Associated Data EntryID |
Escherichia coli (Data EntryID:101) Escherichia coli (Data EntryID:96) |
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Model type | ordinary differential equations | |||||||||||||||||||||||||||||||||||||||||||||||||||||||||||||||||||||||||||||||||||||||||||||||||||||||||||||||||||||||||||||||||||||||||||||||||||||||||||||||||||||||||||||||||||
Category | Metabolism | |||||||||||||||||||||||||||||||||||||||||||||||||||||||||||||||||||||||||||||||||||||||||||||||||||||||||||||||||||||||||||||||||||||||||||||||||||||||||||||||||||||||||||||||||||
Number of reactions | 90 | |||||||||||||||||||||||||||||||||||||||||||||||||||||||||||||||||||||||||||||||||||||||||||||||||||||||||||||||||||||||||||||||||||||||||||||||||||||||||||||||||||||||||||||||||||
Number of species | 36 | |||||||||||||||||||||||||||||||||||||||||||||||||||||||||||||||||||||||||||||||||||||||||||||||||||||||||||||||||||||||||||||||||||||||||||||||||||||||||||||||||||||||||||||||||||
Number of regulators | not specified | |||||||||||||||||||||||||||||||||||||||||||||||||||||||||||||||||||||||||||||||||||||||||||||||||||||||||||||||||||||||||||||||||||||||||||||||||||||||||||||||||||||||||||||||||||
Number of parameters | 231 | |||||||||||||||||||||||||||||||||||||||||||||||||||||||||||||||||||||||||||||||||||||||||||||||||||||||||||||||||||||||||||||||||||||||||||||||||||||||||||||||||||||||||||||||||||
Number of compartments | 1 | |||||||||||||||||||||||||||||||||||||||||||||||||||||||||||||||||||||||||||||||||||||||||||||||||||||||||||||||||||||||||||||||||||||||||||||||||||||||||||||||||||||||||||||||||||
Dilution rate (h-1) | — | |||||||||||||||||||||||||||||||||||||||||||||||||||||||||||||||||||||||||||||||||||||||||||||||||||||||||||||||||||||||||||||||||||||||||||||||||||||||||||||||||||||||||||||||||||
Model file(s) and history |
LATEST KIMOMODELID40.xml
(2018-07-20 16:25:00 UTC
by Administrator KiMoSysFirst name: Administrator Affiliation: INESC-ID/IST Homepage: http://kdbio.inesc-id.pt/kimosys Interests: mathematical modeling, accessible data, use of data )
version comment: The dissolved oxygen is set as 1%.
Preview
Preview file KIMOMODELID40.xml<?xml version='1.0' encoding='UTF-8'?> <!-- Created by COPASI version 4.16 (Build 104) on 2017-07-21 11:44 with libSBML version 5.11.1. --> <sbml level='2' version='3' xmlns='http://www.sbml.org/sbml/level2/version3'> <model id='E_coli_Redox_Regulation_model' metaid='COPASI0' name='E_coli_Redox_Regulation_model'> <annotation> <rdf:RDF xmlns:bqbiol='http://biomodels.net/biology-qualifiers/' xmlns:bqmodel='http://biomodels.net/model-qualifiers/' xmlns:dc='http://purl.org/dc/elements/1.1/' xmlns:dcterms='http://purl.org/dc/terms/' xmlns:rdf='http://www.w3.org/1999/02/22-rdf-syntax-ns#' xmlns:vCard='http://www.w3.org/2001/vcard-rdf/3.0#'> <rdf:Description rdf:about='#COPASI0'> <dc:creator rdf:parseType='Resource'> <rdf:Bag> <rdf:li rdf:parseType='Resource'> <vCard:N rdf:parseType='Resource'> <vCard:Family>Matsuoka</vCard:Family> <vCard:Given>Yu</vCard:Given> </vCard:N> <vCard:EMAIL>f791004y@bio.kyutech.ac.jp</vCard:EMAIL> <vCard:ORG> <vCard:Orgname>Kyushu Institute of Technology</vCard:Orgname> </vCard:ORG> </rdf:li> <rdf:li rdf:parseType='Resource'> <vCard:N rdf:parseType='Resource'> <vCard:Family>Kurata</vCard:Family> <vCard:Given>Hiroyuki</vCard:Given> </vCard:N> <vCard:EMAIL>kurata@bio.kyutech.ac.jp</vCard:EMAIL> <vCard:ORG> <vCard:Orgname>Kyushu Institute of Technology</vCard:Orgname> </vCard:ORG> </rdf:li> </rdf:Bag> </dc:creator> <dcterms:created rdf:parseType='Resource'> <dcterms:W3CDTF>2017-07-20T16:58:02Z</dcterms:W3CDTF> </dcterms:created> <dcterms:modified rdf:parseType='Resource'> <dcterms:W3CDTF>2017-07-20T16:58:02Z</dcterms:W3CDTF> </dcterms:modified> </rdf:Description> </rdf:RDF> <COPASI xmlns='http://www.copasi.org/static/sbml'> <rdf:RDF xmlns:dcterms='http://purl.org/dc/terms/' xmlns:rdf='http://www.w3.org/1999/02/22-rdf-syntax-ns#' xmlns:vCard='http://www.w3.org/2001/vcard-rdf/3.0#'> <rdf:Description rdf:about='#COPASI0'> <dcterms:created> <rdf:Description> <dcterms:W3CDTF>2017-07-20T16:58:02Z</dcterms:W3CDTF> </rdf:Description> </dcterms:created> <dcterms:creator> <rdf:Bag> <rdf:li> <rdf:Description> <vCard:EMAIL>f791004y@bio.kyutech.ac.jp</vCard:EMAIL> <vCard:N> <rdf:Description> <vCard:Family>Matsuoka</vCard:Family> <vCard:Given>Yu</vCard:Given> </rdf:Description> </vCard:N> <vCard:ORG> <rdf:Description> <vCard:Orgname>Kyushu Institute of Technology</vCard:Orgname> </rdf:Description> </vCard:ORG> </rdf:Description> </rdf:li> <rdf:li> <rdf:Description> <vCard:EMAIL>kurata@bio.kyutech.ac.jp</vCard:EMAIL> <vCard:N> <rdf:Description> <vCard:Family>Kurata</vCard:Family> <vCard:Given>Hiroyuki</vCard:Given> </rdf:Description> </vCard:N> <vCard:ORG> <rdf:Description> <vCard:Orgname>Kyushu Institute of Technology</vCard:Orgname> </rdf:Description> </vCard:ORG> </rdf:Description> </rdf:li> </rdf:Bag> </dcterms:creator> <dcterms:modified> <rdf:Description> <dcterms:W3CDTF>2017-07-20T16:58:02Z</dcterms:W3CDTF> </rdf:Description> </dcterms:modified> </rdf:Description> </rdf:RDF> </COPASI> </annotation> <listOfFunctionDefinitions> <functionDefinition id='Function_for_v_Acs' name='Function for v_Acs'> <math xmlns='http://www.w3.org/1998/Math/MathML'> <lambda> <bvar> <ci> ACT_ex </ci> </bvar> <bvar> <ci> Acs_Kact </ci> </bvar> <bvar> <ci> Acs_Vmax </ci> </bvar> <bvar> <ci> TF_ArcA </ci> </bvar> <bvar> <ci> TF_CrpcAMP </ci> </bvar> <bvar> <ci> TF_Fnr </ci> </bvar> <apply> <divide/> <apply> <times/> <apply> <minus/> <cn> 1 </cn> <ci> TF_ArcA </ci> </apply> <apply> <minus/> <cn> 1 </cn> <ci> TF_Fnr </ci> </apply> <apply> <plus/> <cn> 1 </cn> <ci> TF_CrpcAMP </ci> </apply> <ci> Acs_Vmax </ci> <ci> ACT_ex </ci> </apply> <apply> <plus/> <ci> ACT_ex </ci> <ci> Acs_Kact </ci> </apply> </apply> </lambda> </math> </functionDefinition> <functionDefinition id='Function_for_v_D_ACoA' name='Function for v_D_ACoA'> <math xmlns='http://www.w3.org/1998/Math/MathML'> <lambda> <bvar> <ci> ACoA </ci> </bvar> <bvar> <ci> mu </ci> </bvar> <apply> <times/> <ci> mu </ci> <ci> ACoA </ci> </apply> </lambda> </math> </functionDefinition> <functionDefinition id='Function_for_v_ADH' name='Function for v_ADH'> <math xmlns='http://www.w3.org/1998/Math/MathML'> <lambda> <bvar> <ci> AcAld </ci> </bvar> <bvar> <ci> ETH </ci> </bvar> <bvar> <ci> Kacald_ADH </ci> </bvar> <bvar> <ci> Keq_ADH </ci> </bvar> <bvar> <ci> Keth_ADH </ci> </bvar> <bvar> <ci> Knad_ADH </ci> </bvar> <bvar> <ci> Knadh_ADH </ci> </bvar> <bvar> <ci> NAD </ci> </bvar> <bvar> <ci> NADH </ci> </bvar> <bvar> <ci> Vmax_ADH </ci> </bvar> <apply> <divide/> <apply> <times/> <apply> <divide/> <ci> Vmax_ADH </ci> <apply> <times/> <ci> Kacald_ADH </ci> <ci> Knadh_ADH </ci> </apply> </apply> <apply> <minus/> <apply> <times/> <ci> AcAld </ci> <ci> NADH </ci> </apply> <apply> <divide/> <apply> <times/> <ci> ETH </ci> <ci> NAD </ci> </apply> <ci> Keq_ADH </ci> </apply> </apply> </apply> <apply> <times/> <apply> <plus/> <cn> 1 </cn> <apply> <divide/> <ci> NAD </ci> <ci> Knad_ADH </ci> </apply> <apply> <divide/> <ci> NADH </ci> <ci> Knadh_ADH </ci> </apply> </apply> <apply> <plus/> <cn> 1 </cn> <apply> <divide/> <ci> AcAld </ci> <ci> Kacald_ADH </ci> </apply> <apply> <divide/> <ci> ETH </ci> <ci> Keth_ADH </ci> </apply> </apply> </apply> </apply> </lambda> </math> </functionDefinition> <functionDefinition id='Function_for_v_Bio_AKG' name='Function for v_Bio_AKG'> <math xmlns='http://www.w3.org/1998/Math/MathML'> <lambda> <bvar> <ci> AKG </ci> </bvar> <bvar> <ci> b_Bio_AKG </ci> </bvar> <bvar> <ci> k_Bio_AKG </ci> </bvar> <bvar> <ci> mu </ci> </bvar> <apply> <plus/> <apply> <times/> <ci> k_Bio_AKG </ci> <ci> mu </ci> <ci> AKG </ci> </apply> <apply> <times/> <ci> b_Bio_AKG </ci> <ci> AKG </ci> </apply> </apply> </lambda> </math> </functionDefinition> <functionDefinition id='Function_for_v_D_CraFBP' name='Function for v_D_CraFBP'> <math xmlns='http://www.w3.org/1998/Math/MathML'> <lambda> <bvar> <ci> CraFBP </ci> </bvar> <bvar> <ci> mu </ci> </bvar> <apply> <times/> <ci> mu </ci> <ci> CraFBP </ci> </apply> </lambda> </math> </functionDefinition> <functionDefinition id='Function_for_v_D_PYR' name='Function for v_D_PYR'> <math xmlns='http://www.w3.org/1998/Math/MathML'> <lambda> <bvar> <ci> PYR </ci> </bvar> <bvar> <ci> mu </ci> </bvar> <apply> <times/> <ci> mu </ci> <ci> PYR </ci> </apply> </lambda> </math> </functionDefinition> <functionDefinition id='Function_for_v_Bio_ACoA' name='Function for v_Bio_ACoA'> <math xmlns='http://www.w3.org/1998/Math/MathML'> <lambda> <bvar> <ci> ACoA </ci> </bvar> <bvar> <ci> b_Bio_ACoA </ci> </bvar> <bvar> <ci> k_Bio_ACoA </ci> </bvar> <bvar> <ci> mu </ci> </bvar> <apply> <plus/> <apply> <times/> <ci> k_Bio_ACoA </ci> <ci> mu </ci> <ci> ACoA </ci> </apply> <apply> <times/> <ci> b_Bio_ACoA </ci> <ci> ACoA </ci> </apply> </apply> </lambda> </math> </functionDefinition> <functionDefinition id='Function_for_v_CS' name='Function for v_CS'> <math xmlns='http://www.w3.org/1998/Math/MathML'> <lambda> <bvar> <ci> ACoA </ci> </bvar> <bvar> <ci> AKG </ci> </bvar> <bvar> <ci> CS_Kacoa </ci> </bvar> <bvar> <ci> CS_Kakg </ci> </bvar> <bvar> <ci> CS_Koaa </ci> </bvar> <bvar> <ci> CS_Koaaacoa </ci> </bvar> <bvar> <ci> CS_Vmax </ci> </bvar> <bvar> <ci> OAA </ci> </bvar> <bvar> <ci> TF_ArcA </ci> </bvar> <bvar> <ci> TF_CrpcAMP </ci> </bvar> <apply> <divide/> <apply> <times/> <apply> <plus/> <cn> 1 </cn> <ci> TF_CrpcAMP </ci> </apply> <apply> <minus/> <cn> 1 </cn> <ci> TF_ArcA </ci> </apply> <ci> CS_Vmax </ci> <ci> OAA </ci> <ci> ACoA </ci> </apply> <apply> <plus/> <apply> <times/> <apply> <plus/> <cn> 1 </cn> <apply> <divide/> <ci> AKG </ci> <ci> CS_Kakg </ci> </apply> </apply> <ci> CS_Koaaacoa </ci> <ci> CS_Kacoa </ci> </apply> <apply> <times/> <ci> CS_Kacoa </ci> <ci> OAA </ci> </apply> <apply> <times/> <apply> <plus/> <cn> 1 </cn> <apply> <divide/> <ci> AKG </ci> <ci> CS_Kakg </ci> </apply> </apply> <ci> CS_Koaa </ci> <ci> ACoA </ci> </apply> <apply> <times/> <ci> OAA </ci> <ci> ACoA </ci> </apply> </apply> </apply> </lambda> </math> </functionDefinition> <functionDefinition id='Function_for_v_D_CrpcAMP' name='Function for v_D_CrpcAMP'> <math xmlns='http://www.w3.org/1998/Math/MathML'> <lambda> <bvar> <ci> CrpcAMP </ci> </bvar> <bvar> <ci> mu </ci> </bvar> <apply> <times/> <ci> mu </ci> <ci> CrpcAMP </ci> </apply> </lambda> </math> </functionDefinition> <functionDefinition id='Function_for_v_ACT_excretion' name='Function for v_ACT_excretion'> <math xmlns='http://www.w3.org/1998/Math/MathML'> <lambda> <bvar> <ci> ACoA </ci> </bvar> <bvar> <ci> Mw_ACT </ci> </bvar> <bvar> <ci> OD </ci> </bvar> <bvar> <ci> PTACK_Kacoa </ci> </bvar> <bvar> <ci> PTACK_Kpyr </ci> </bvar> <bvar> <ci> PTACK_L </ci> </bvar> <bvar> <ci> PTACK_Vmax </ci> </bvar> <bvar> <ci> PTACK_n </ci> </bvar> <bvar> <ci> PYR </ci> </bvar> <bvar> <ci> uc </ci> </bvar> <apply> <times/> <ci> Mw_ACT </ci> <ci> uc </ci> <ci> OD </ci> <apply> <divide/> <apply> <times/> <apply> <divide/> <apply> <times/> <ci> PTACK_Vmax </ci> <ci> ACoA </ci> </apply> <ci> PTACK_Kacoa </ci> </apply> <apply> <power/> <apply> <plus/> <cn> 1 </cn> <apply> <divide/> <ci> ACoA </ci> <ci> PTACK_Kacoa </ci> </apply> </apply> <apply> <minus/> <ci> PTACK_n </ci> <cn> 1 </cn> </apply> </apply> </apply> <apply> <plus/> <apply> <power/> <apply> <plus/> <cn> 1 </cn> <apply> <divide/> <ci> ACoA </ci> <ci> PTACK_Kacoa </ci> </apply> </apply> <ci> PTACK_n </ci> </apply> <apply> <divide/> <ci> PTACK_L </ci> <apply> <power/> <apply> <plus/> <cn> 1 </cn> <apply> <divide/> <ci> PYR </ci> <ci> PTACK_Kpyr </ci> </apply> </apply> <ci> PTACK_n </ci> </apply> </apply> </apply> </apply> </apply> </lambda> </math> </functionDefinition> <functionDefinition id='Function_for_v_D_Ribu5' name='Function for v_D_Ribu5'> <math xmlns='http://www.w3.org/1998/Math/MathML'> <lambda> <bvar> <ci> Ribu5 </ci> </bvar> <bvar> <ci> mu </ci> </bvar> <apply> <times/> <ci> mu </ci> <ci> Ribu5 </ci> </apply> </lambda> </math> </functionDefinition> <functionDefinition id='Function_for_v_D_S7P' name='Function for v_D_S7P'> <math xmlns='http://www.w3.org/1998/Math/MathML'> <lambda> <bvar> <ci> S7P </ci> </bvar> <bvar> <ci> mu </ci> </bvar> <apply> <times/> <ci> mu </ci> <ci> S7P </ci> </apply> </lambda> </math> </functionDefinition> <functionDefinition id='Function_for_v_Bio_PG3' name='Function for v_Bio_PG3'> <math xmlns='http://www.w3.org/1998/Math/MathML'> <lambda> <bvar> <ci> PG3 </ci> </bvar> <bvar> <ci> b_Bio_PG3 </ci> </bvar> <bvar> <ci> k_Bio_PG3 </ci> </bvar> <bvar> <ci> mu </ci> </bvar> <apply> <plus/> <apply> <times/> <ci> k_Bio_PG3 </ci> <ci> mu </ci> <ci> PG3 </ci> </apply> <apply> <times/> <ci> b_Bio_PG3 </ci> <ci> PG3 </ci> </apply> </apply> </lambda> </math> </functionDefinition> <functionDefinition id='Function_for_v_D_GLCin' name='Function for v_D_GLCin'> <math xmlns='http://www.w3.org/1998/Math/MathML'> <lambda> <bvar> <ci> GLCin </ci> </bvar> <bvar> <ci> mu </ci> </bvar> <apply> <times/> <ci> mu </ci> <ci> GLCin </ci> </apply> </lambda> </math> </functionDefinition> <functionDefinition id='Function_for_v_D_QH2' name='Function for v_D_QH2'> <math xmlns='http://www.w3.org/1998/Math/MathML'> <lambda> <bvar> <ci> QH2 </ci> </bvar> <bvar> <ci> mu </ci> </bvar> <apply> <times/> <ci> mu </ci> <ci> QH2 </ci> </apply> </lambda> </math> </functionDefinition> <functionDefinition id='Function_for_v_D_PEP' name='Function for v_D_PEP'> <math xmlns='http://www.w3.org/1998/Math/MathML'> <lambda> <bvar> <ci> PEP </ci> </bvar> <bvar> <ci> mu </ci> </bvar> <apply> <times/> <ci> mu </ci> <ci> PEP </ci> </apply> </lambda> </math> </functionDefinition> <functionDefinition id='Function_for_v_D_cAMP' name='Function for v_D_cAMP'> <math xmlns='http://www.w3.org/1998/Math/MathML'> <lambda> <bvar> <ci> cAMP </ci> </bvar> <bvar> <ci> mu </ci> </bvar> <apply> <times/> <ci> mu </ci> <ci> cAMP </ci> </apply> </lambda> </math> </functionDefinition> <functionDefinition id='Function_for_v_D_E4P' name='Function for v_D_E4P'> <math xmlns='http://www.w3.org/1998/Math/MathML'> <lambda> <bvar> <ci> E4P </ci> </bvar> <bvar> <ci> mu </ci> </bvar> <apply> <times/> <ci> mu </ci> <ci> E4P </ci> </apply> </lambda> </math> </functionDefinition> <functionDefinition id='Function_for_v_D_AKG' name='Function for v_D_AKG'> <math xmlns='http://www.w3.org/1998/Math/MathML'> <lambda> <bvar> <ci> AKG </ci> </bvar> <bvar> <ci> mu </ci> </bvar> <apply> <times/> <ci> mu </ci> <ci> AKG </ci> </apply> </lambda> </math> </functionDefinition> <functionDefinition id='Function_for_v_D_NADH' name='Function for v_D_NADH'> <math xmlns='http://www.w3.org/1998/Math/MathML'> <lambda> <bvar> <ci> NADH </ci> </bvar> <bvar> <ci> mu </ci> </bvar> <apply> <times/> <ci> mu </ci> <ci> NADH </ci> </apply> </lambda> </math> </functionDefinition> <functionDefinition id='Function_for_v_Bio_G6P' name='Function for v_Bio_G6P'> <math xmlns='http://www.w3.org/1998/Math/MathML'> <lambda> <bvar> <ci> G6P </ci> </bvar> <bvar> <ci> b_Bio_G6P </ci> </bvar> <bvar> <ci> k_Bio_G6P </ci> </bvar> <bvar> <ci> mu </ci> </bvar> <apply> <plus/> <apply> <times/> <ci> k_Bio_G6P </ci> <ci> mu </ci> <ci> G6P </ci> </apply> <apply> <times/> <ci> b_Bio_G6P </ci> <ci> G6P </ci> </apply> </apply> </lambda> </math> </functionDefinition> <functionDefinition id='Function_for_v_FOR_excretion' name='Function for v_FOR_excretion'> <math xmlns='http://www.w3.org/1998/Math/MathML'> <lambda> <bvar> <ci> ACoA </ci> </bvar> <bvar> <ci> CoA </ci> </bvar> <bvar> <ci> FOR </ci> </bvar> <bvar> <ci> Kacoa_Pfl </ci> </bvar> <bvar> <ci> Kcoa_Pfl </ci> </bvar> <bvar> <ci> Kfor_Pfl </ci> </bvar> <bvar> <ci> Kpyr_Pfl </ci> </bvar> <bvar> <ci> Mw_FOR </ci> </bvar> <bvar> <ci> OD </ci> </bvar> <bvar> <ci> PYR </ci> </bvar> <bvar> <ci> TF_ArcA </ci> </bvar> <bvar> <ci> TF_Fnr </ci> </bvar> <bvar> <ci> Vmaxf_Pfl </ci> </bvar> <bvar> <ci> Vmaxr_Pfl </ci> </bvar> <bvar> <ci> uc </ci> </bvar> <apply> <times/> <ci> Mw_FOR </ci> <ci> uc </ci> <ci> OD </ci> <apply> <minus/> <apply> <divide/> <apply> <times/> <apply> <plus/> <ci> TF_Fnr </ci> <ci> TF_ArcA </ci> </apply> <ci> Vmaxf_Pfl </ci> <ci> PYR </ci> <ci> CoA </ci> </apply> <apply> <plus/> <apply> <times/> <ci> PYR </ci> <ci> CoA </ci> </apply> <apply> <times/> <ci> Kpyr_Pfl </ci> <ci> CoA </ci> </apply> <apply> <times/> <ci> Kcoa_Pfl </ci> <ci> PYR </ci> </apply> </apply> </apply> <apply> <divide/> <apply> <times/> <apply> <plus/> <ci> TF_Fnr </ci> <ci> TF_ArcA </ci> </apply> <ci> Vmaxr_Pfl </ci> <ci> ACoA </ci> <ci> FOR </ci> </apply> <apply> <plus/> <apply> <times/> <ci> ACoA </ci> <ci> FOR </ci> </apply> <apply> <times/> <ci> Kacoa_Pfl </ci> <ci> FOR </ci> </apply> <apply> <times/> <ci> Kfor_Pfl </ci> <ci> ACoA </ci> </apply> </apply> </apply> </apply> </apply> </lambda> </math> </functionDefinition> <functionDefinition id='Function_for_v_KGMAL' name='Function for v_KGMAL'> <math xmlns='http://www.w3.org/1998/Math/MathML'> <lambda> <bvar> <ci> AKG </ci> </bvar> <bvar> <ci> KGMAL_Kakg </ci> </bvar> <bvar> <ci> KGMAL_Vmax </ci> </bvar> <bvar> <ci> TF_ArcA </ci> </bvar> <bvar> <ci> TF_CrpcAMP </ci> </bvar> <bvar> <ci> TF_Fnr </ci> </bvar> <apply> <divide/> <apply> <times/> <apply> <plus/> <cn> 1 </cn> <ci> TF_CrpcAMP </ci> </apply> <apply> <minus/> <cn> 1 </cn> <ci> TF_ArcA </ci> </apply> <apply> <minus/> <cn> 1 </cn> <ci> TF_Fnr </ci> </apply> <ci> KGMAL_Vmax </ci> <ci> AKG </ci> </apply> <apply> <plus/> <ci> AKG </ci> <ci> KGMAL_Kakg </ci> </apply> </apply> </lambda> </math> </functionDefinition> <functionDefinition id='Function_for_v_D_MAL' name='Function for v_D_MAL'> <math xmlns='http://www.w3.org/1998/Math/MathML'> <lambda> <bvar> <ci> MAL </ci> </bvar> <bvar> <ci> mu </ci> </bvar> <apply> <times/> <ci> mu </ci> <ci> MAL </ci> </apply> </lambda> </math> </functionDefinition> <functionDefinition id='Function_for_v_Bio_OAA' name='Function for v_Bio_OAA'> <math xmlns='http://www.w3.org/1998/Math/MathML'> <lambda> <bvar> <ci> OAA </ci> </bvar> <bvar> <ci> b_Bio_OAA </ci> </bvar> <bvar> <ci> k_Bio_OAA </ci> </bvar> <bvar> <ci> mu </ci> </bvar> <apply> <plus/> <apply> <times/> <ci> k_Bio_OAA </ci> <ci> mu </ci> <ci> OAA </ci> </apply> <apply> <times/> <ci> b_Bio_OAA </ci> <ci> OAA </ci> </apply> </apply> </lambda> </math> </functionDefinition> <functionDefinition id='Function_for_v_Bio_E4P' name='Function for v_Bio_E4P'> <math xmlns='http://www.w3.org/1998/Math/MathML'> <lambda> <bvar> <ci> E4P </ci> </bvar> <bvar> <ci> b_Bio_E4P </ci> </bvar> <bvar> <ci> k_Bio_E4P </ci> </bvar> <bvar> <ci> mu </ci> </bvar> <apply> <plus/> <apply> <times/> <ci> k_Bio_E4P </ci> <ci> mu </ci> <ci> E4P </ci> </apply> <apply> <times/> <ci> b_Bio_E4P </ci> <ci> E4P </ci> </apply> </apply> </lambda> </math> </functionDefinition> <functionDefinition id='Function_for_v_D_Xyl5' name='Function for v_D_Xyl5'> <math xmlns='http://www.w3.org/1998/Math/MathML'> <lambda> <bvar> <ci> Xyl5 </ci> </bvar> <bvar> <ci> mu </ci> </bvar> <apply> <times/> <ci> mu </ci> <ci> Xyl5 </ci> </apply> </lambda> </math> </functionDefinition> <functionDefinition id='Function_for_v_ACT_uptake' name='Function for v_ACT_uptake'> <math xmlns='http://www.w3.org/1998/Math/MathML'> <lambda> <bvar> <ci> ACT_ex </ci> </bvar> <bvar> <ci> Acs_Kact </ci> </bvar> <bvar> <ci> Acs_Vmax </ci> </bvar> <bvar> <ci> Mw_ACT </ci> </bvar> <bvar> <ci> OD </ci> </bvar> <bvar> <ci> TF_ArcA </ci> </bvar> <bvar> <ci> TF_CrpcAMP </ci> </bvar> <bvar> <ci> TF_Fnr </ci> </bvar> <bvar> <ci> uc </ci> </bvar> <apply> <times/> <ci> Mw_ACT </ci> <ci> uc </ci> <ci> OD </ci> <apply> <divide/> <apply> <times/> <apply> <minus/> <cn> 1 </cn> <ci> TF_ArcA </ci> </apply> <apply> <minus/> <cn> 1 </cn> <ci> TF_Fnr </ci> </apply> <apply> <plus/> <cn> 1 </cn> <ci> TF_CrpcAMP </ci> </apply> <ci> Acs_Vmax </ci> <ci> ACT_ex </ci> </apply> <apply> <plus/> <ci> ACT_ex </ci> <ci> Acs_Kact </ci> </apply> </apply> </apply> </lambda> </math> </functionDefinition> <functionDefinition id='Function_for_v_Bio_PEP' name='Function for v_Bio_PEP'> <math xmlns='http://www.w3.org/1998/Math/MathML'> <lambda> <bvar> <ci> PEP </ci> </bvar> <bvar> <ci> b_Bio_PEP </ci> </bvar> <bvar> <ci> k_Bio_PEP </ci> </bvar> <bvar> <ci> mu </ci> </bvar> <apply> <plus/> <apply> <times/> <ci> k_Bio_PEP </ci> <ci> mu </ci> <ci> PEP </ci> </apply> <apply> <times/> <ci> b_Bio_PEP </ci> <ci> PEP </ci> </apply> </apply> </lambda> </math> </functionDefinition> <functionDefinition id='Function_for_v_Cyd' name='Function for v_Cyd'> <math xmlns='http://www.w3.org/1998/Math/MathML'> <lambda> <bvar> <ci> Km_Cyd_O2 </ci> </bvar> <bvar> <ci> Km_Cyd_QH2 </ci> </bvar> <bvar> <ci> O2 </ci> </bvar> <bvar> <ci> QH2 </ci> </bvar> <bvar> <ci> TF_ArcA </ci> </bvar> <bvar> <ci> TF_Fnr </ci> </bvar> <bvar> <ci> k_O2 </ci> </bvar> <bvar> <ci> v_Cyd_max </ci> </bvar> <apply> <times/> <apply> <divide/> <apply> <times/> <ci> v_Cyd_max </ci> <apply> <plus/> <cn> 1 </cn> <ci> TF_ArcA </ci> </apply> <apply> <minus/> <cn> 1 </cn> <ci> TF_Fnr </ci> </apply> <ci> k_O2 </ci> <ci> O2 </ci> </apply> <apply> <plus/> <ci> Km_Cyd_O2 </ci> <apply> <times/> <ci> k_O2 </ci> <ci> O2 </ci> </apply> </apply> </apply> <apply> <divide/> <ci> QH2 </ci> <apply> <plus/> <ci> Km_Cyd_QH2 </ci> <ci> QH2 </ci> </apply> </apply> </apply> </lambda> </math> </functionDefinition> <functionDefinition id='Function_for_v_ALDH' name='Function for v_ALDH'> <math xmlns='http://www.w3.org/1998/Math/MathML'> <lambda> <bvar> <ci> ACoA </ci> </bvar> <bvar> <ci> AcAld </ci> </bvar> <bvar> <ci> CoA </ci> </bvar> <bvar> <ci> Kacald_ALDH </ci> </bvar> <bvar> <ci> Kacoa_ALDH </ci> </bvar> <bvar> <ci> Kcoa_ALDH </ci> </bvar> <bvar> <ci> Keq_ALDH </ci> </bvar> <bvar> <ci> Knad_ALDH </ci> </bvar> <bvar> <ci> Knadh_ALDH </ci> </bvar> <bvar> <ci> NAD </ci> </bvar> <bvar> <ci> NADH </ci> </bvar> <bvar> <ci> Vmax_ALDH </ci> </bvar> <apply> <divide/> <apply> <times/> <apply> <divide/> <ci> Vmax_ALDH </ci> <apply> <times/> <ci> Kacoa_ALDH </ci> <ci> Knadh_ALDH </ci> </apply> </apply> <apply> <minus/> <apply> <times/> <ci> ACoA </ci> <ci> NADH </ci> </apply> <apply> <divide/> <apply> <times/> <ci> CoA </ci> <ci> NAD </ci> <ci> AcAld </ci> </apply> <ci> Keq_ALDH </ci> </apply> </apply> </apply> <apply> <times/> <apply> <plus/> <cn> 1 </cn> <apply> <divide/> <ci> NAD </ci> <ci> Knad_ALDH </ci> </apply> <apply> <divide/> <ci> NADH </ci> <ci> Knadh_ALDH </ci> </apply> </apply> <apply> <plus/> <cn> 1 </cn> <apply> <divide/> <ci> ACoA </ci> <ci> Kacoa_ALDH </ci> </apply> <apply> <divide/> <ci> CoA </ci> <ci> Kcoa_ALDH </ci> </apply> <apply> <divide/> <ci> AcAld </ci> <ci> Kacald_ALDH </ci> </apply> <apply> <divide/> <apply> <times/> <ci> AcAld </ci> <ci> CoA </ci> </apply> <apply> <times/> <ci> Kacald_ALDH </ci> <ci> Kcoa_ALDH </ci> </apply> </apply> </apply> </apply> </apply> </lambda> </math> </functionDefinition> <functionDefinition id='Function_for_v_ETH_excretion' name='Function for v_ETH_excretion'> <math xmlns='http://www.w3.org/1998/Math/MathML'> <lambda> <bvar> <ci> AcAld </ci> </bvar> <bvar> <ci> ETH </ci> </bvar> <bvar> <ci> Kacald_ADH </ci> </bvar> <bvar> <ci> Keq_ADH </ci> </bvar> <bvar> <ci> Keth_ADH </ci> </bvar> <bvar> <ci> Knad_ADH </ci> </bvar> <bvar> <ci> Knadh_ADH </ci> </bvar> <bvar> <ci> Mw_ETH </ci> </bvar> <bvar> <ci> NAD </ci> </bvar> <bvar> <ci> NADH </ci> </bvar> <bvar> <ci> OD </ci> </bvar> <bvar> <ci> Vmax_ADH </ci> </bvar> <bvar> <ci> uc </ci> </bvar> <apply> <times/> <ci> Mw_ETH </ci> <ci> uc </ci> <ci> OD </ci> <apply> <divide/> <apply> <times/> <apply> <divide/> <ci> Vmax_ADH </ci> <apply> <times/> <ci> Kacald_ADH </ci> <ci> Knadh_ADH </ci> </apply> </apply> <apply> <minus/> <apply> <times/> <ci> AcAld </ci> <ci> NADH </ci> </apply> <apply> <divide/> <apply> <times/> <ci> ETH </ci> <ci> NAD </ci> </apply> <ci> Keq_ADH </ci> </apply> </apply> </apply> <apply> <times/> <apply> <plus/> <cn> 1 </cn> <apply> <divide/> <ci> NAD </ci> <ci> Knad_ADH </ci> </apply> <apply> <divide/> <ci> NADH </ci> <ci> Knadh_ADH </ci> </apply> </apply> <apply> <plus/> <cn> 1 </cn> <apply> <divide/> <ci> AcAld </ci> <ci> Kacald_ADH </ci> </apply> <apply> <divide/> <ci> ETH </ci> <ci> Keth_ADH </ci> </apply> </apply> </apply> </apply> </apply> </lambda> </math> </functionDefinition> <functionDefinition id='Function_for_v_D_Rib5' name='Function for v_D_Rib5'> <math xmlns='http://www.w3.org/1998/Math/MathML'> <lambda> <bvar> <ci> Rib5 </ci> </bvar> <bvar> <ci> mu </ci> </bvar> <apply> <times/> <ci> mu </ci> <ci> Rib5 </ci> </apply> </lambda> </math> </functionDefinition> <functionDefinition id='Function_for_v_Emp2' name='Function for v_Emp2'> <math xmlns='http://www.w3.org/1998/Math/MathML'> <lambda> <bvar> <ci> Eno_Kpep </ci> </bvar> <bvar> <ci> Eno_Kpg3 </ci> </bvar> <bvar> <ci> Eno_Vmax_f </ci> </bvar> <bvar> <ci> Eno_Vmax_r </ci> </bvar> <bvar> <ci> PEP </ci> </bvar> <bvar> <ci> PG3 </ci> </bvar> <bvar> <ci> TF_Cra </ci> </bvar> <apply> <divide/> <apply> <times/> <apply> <minus/> <cn> 1 </cn> <ci> TF_Cra </ci> </apply> <apply> <minus/> <apply> <divide/> <apply> <times/> <ci> Eno_Vmax_f </ci> <ci> PG3 </ci> </apply> <ci> Eno_Kpg3 </ci> </apply> <apply> <divide/> <apply> <times/> <ci> Eno_Vmax_r </ci> <ci> PEP </ci> </apply> <ci> Eno_Kpep </ci> </apply> </apply> </apply> <apply> <plus/> <cn> 1 </cn> <apply> <divide/> <ci> PG3 </ci> <ci> Eno_Kpg3 </ci> </apply> <apply> <divide/> <ci> PEP </ci> <ci> Eno_Kpep </ci> </apply> </apply> </apply> </lambda> </math> </functionDefinition> <functionDefinition id='Function_for_v_D_G6P' name='Function for v_D_G6P'> <math xmlns='http://www.w3.org/1998/Math/MathML'> <lambda> <bvar> <ci> G6P </ci> </bvar> <bvar> <ci> mu </ci> </bvar> <apply> <times/> <ci> mu </ci> <ci> G6P </ci> </apply> </lambda> </math> </functionDefinition> <functionDefinition id='Function_for_v_D_PG6' name='Function for v_D_PG6'> <math xmlns='http://www.w3.org/1998/Math/MathML'> <lambda> <bvar> <ci> PG6 </ci> </bvar> <bvar> <ci> mu </ci> </bvar> <apply> <times/> <ci> mu </ci> <ci> PG6 </ci> </apply> </lambda> </math> </functionDefinition> <functionDefinition id='Function_for_v_D_SUC' name='Function for v_D_SUC'> <math xmlns='http://www.w3.org/1998/Math/MathML'> <lambda> <bvar> <ci> SUC </ci> </bvar> <bvar> <ci> mu </ci> </bvar> <apply> <times/> <ci> mu </ci> <ci> SUC </ci> </apply> </lambda> </math> </functionDefinition> <functionDefinition id='Function_for_v_D_PG3' name='Function for v_D_PG3'> <math xmlns='http://www.w3.org/1998/Math/MathML'> <lambda> <bvar> <ci> PG3 </ci> </bvar> <bvar> <ci> mu </ci> </bvar> <apply> <times/> <ci> mu </ci> <ci> PG3 </ci> </apply> </lambda> </math> </functionDefinition> <functionDefinition id='Function_for_v_Cyo' name='Function for v_Cyo'> <math xmlns='http://www.w3.org/1998/Math/MathML'> <lambda> <bvar> <ci> Km_Cyo_O2 </ci> </bvar> <bvar> <ci> Km_Cyo_QH2 </ci> </bvar> <bvar> <ci> O2 </ci> </bvar> <bvar> <ci> QH2 </ci> </bvar> <bvar> <ci> TF_ArcA </ci> </bvar> <bvar> <ci> TF_Fnr </ci> </bvar> <bvar> <ci> k_O2 </ci> </bvar> <bvar> <ci> v_Cyo_max </ci> </bvar> <apply> <times/> <apply> <divide/> <apply> <times/> <ci> v_Cyo_max </ci> <apply> <minus/> <cn> 1 </cn> <ci> TF_ArcA </ci> </apply> <apply> <minus/> <cn> 1 </cn> <ci> TF_Fnr </ci> </apply> <ci> k_O2 </ci> <ci> O2 </ci> </apply> <apply> <plus/> <ci> Km_Cyo_O2 </ci> <apply> <times/> <ci> k_O2 </ci> <ci> O2 </ci> </apply> </apply> </apply> <apply> <divide/> <ci> QH2 </ci> <apply> <plus/> <ci> Km_Cyo_QH2 </ci> <ci> QH2 </ci> </apply> </apply> </apply> </lambda> </math> </functionDefinition> <functionDefinition id='Function_for_v_Cya' name='Function for v_Cya'> <math xmlns='http://www.w3.org/1998/Math/MathML'> <lambda> <bvar> <ci> Cya_KEIIA </ci> </bvar> <bvar> <ci> Cya_Vmax </ci> </bvar> <bvar> <ci> EIIA_P </ci> </bvar> <apply> <divide/> <apply> <times/> <ci> Cya_Vmax </ci> <ci> EIIA_P </ci> </apply> <apply> <plus/> <ci> EIIA_P </ci> <ci> Cya_KEIIA </ci> </apply> </apply> </lambda> </math> </functionDefinition> <functionDefinition id='Function_for_v_Bio_PYR' name='Function for v_Bio_PYR'> <math xmlns='http://www.w3.org/1998/Math/MathML'> <lambda> <bvar> <ci> PYR </ci> </bvar> <bvar> <ci> b_Bio_PYR </ci> </bvar> <bvar> <ci> k_Bio_PYR </ci> </bvar> <bvar> <ci> mu </ci> </bvar> <apply> <plus/> <apply> <times/> <ci> k_Bio_PYR </ci> <ci> mu </ci> <ci> PYR </ci> </apply> <apply> <times/> <ci> b_Bio_PYR </ci> <ci> PYR </ci> </apply> </apply> </lambda> </math> </functionDefinition> <functionDefinition id='Function_for_v_D_AcAld' name='Function for v_D_AcAld'> <math xmlns='http://www.w3.org/1998/Math/MathML'> <lambda> <bvar> <ci> AcAld </ci> </bvar> <bvar> <ci> mu </ci> </bvar> <apply> <times/> <ci> mu </ci> <ci> AcAld </ci> </apply> </lambda> </math> </functionDefinition> <functionDefinition id='Function_for_v_D_GLX' name='Function for v_D_GLX'> <math xmlns='http://www.w3.org/1998/Math/MathML'> <lambda> <bvar> <ci> GLX </ci> </bvar> <bvar> <ci> mu </ci> </bvar> <apply> <times/> <ci> mu </ci> <ci> GLX </ci> </apply> </lambda> </math> </functionDefinition> <functionDefinition id='Function_for_v_Bio_R5P' name='Function for v_Bio_R5P'> <math xmlns='http://www.w3.org/1998/Math/MathML'> <lambda> <bvar> <ci> Rib5 </ci> </bvar> <bvar> <ci> b_Bio_R5P </ci> </bvar> <bvar> <ci> k_Bio_R5P </ci> </bvar> <bvar> <ci> mu </ci> </bvar> <apply> <plus/> <apply> <times/> <ci> k_Bio_R5P </ci> <ci> mu </ci> <ci> Rib5 </ci> </apply> <apply> <times/> <ci> b_Bio_R5P </ci> <ci> Rib5 </ci> </apply> </apply> </lambda> </math> </functionDefinition> <functionDefinition id='Function_for_v_D_FBP' name='Function for v_D_FBP'> <math xmlns='http://www.w3.org/1998/Math/MathML'> <lambda> <bvar> <ci> FBP </ci> </bvar> <bvar> <ci> mu </ci> </bvar> <apply> <times/> <ci> mu </ci> <ci> FBP </ci> </apply> </lambda> </math> </functionDefinition> <functionDefinition id='Function_for_v_D_Q' name='Function for v_D_Q'> <math xmlns='http://www.w3.org/1998/Math/MathML'> <lambda> <bvar> <ci> Q </ci> </bvar> <bvar> <ci> mu </ci> </bvar> <apply> <times/> <ci> mu </ci> <ci> Q </ci> </apply> </lambda> </math> </functionDefinition> <functionDefinition id='Function_for_v_D_PdhRPYR' name='Function for v_D_PdhRPYR'> <math xmlns='http://www.w3.org/1998/Math/MathML'> <lambda> <bvar> <ci> PdhRPYR </ci> </bvar> <bvar> <ci> mu </ci> </bvar> <apply> <times/> <ci> mu </ci> <ci> PdhRPYR </ci> </apply> </lambda> </math> </functionDefinition> <functionDefinition id='Function_for_v_D_ICT' name='Function for v_D_ICT'> <math xmlns='http://www.w3.org/1998/Math/MathML'> <lambda> <bvar> <ci> ICT </ci> </bvar> <bvar> <ci> mu </ci> </bvar> <apply> <times/> <ci> mu </ci> <ci> ICT </ci> </apply> </lambda> </math> </functionDefinition> <functionDefinition id='Function_for_v_FRD' name='Function for v_FRD'> <math xmlns='http://www.w3.org/1998/Math/MathML'> <lambda> <bvar> <ci> Kfum_FRD </ci> </bvar> <bvar> <ci> Ksuc_SDH </ci> </bvar> <bvar> <ci> MAL </ci> </bvar> <bvar> <ci> SUC </ci> </bvar> <bvar> <ci> TF_Fnr </ci> </bvar> <bvar> <ci> Vmaxr_SDH </ci> </bvar> <apply> <divide/> <apply> <times/> <ci> TF_Fnr </ci> <apply> <divide/> <apply> <times/> <ci> Vmaxr_SDH </ci> <ci> MAL </ci> </apply> <ci> Kfum_FRD </ci> </apply> </apply> <apply> <plus/> <cn> 1 </cn> <apply> <divide/> <ci> SUC </ci> <ci> Ksuc_SDH </ci> </apply> <apply> <divide/> <ci> MAL </ci> <ci> Kfum_FRD </ci> </apply> </apply> </apply> </lambda> </math> </functionDefinition> <functionDefinition id='Function_for_v_D_OAA' name='Function for v_D_OAA'> <math xmlns='http://www.w3.org/1998/Math/MathML'> <lambda> <bvar> <ci> OAA </ci> </bvar> <bvar> <ci> mu </ci> </bvar> <apply> <times/> <ci> mu </ci> <ci> OAA </ci> </apply> </lambda> </math> </functionDefinition> <functionDefinition id='Function_for_v_Fdp' name='Function for v_Fdp'> <math xmlns='http://www.w3.org/1998/Math/MathML'> <lambda> <bvar> <ci> FBP </ci> </bvar> <bvar> <ci> Fdp_Kfbp </ci> </bvar> <bvar> <ci> Fdp_Kpep </ci> </bvar> <bvar> <ci> Fdp_L </ci> </bvar> <bvar> <ci> Fdp_Vmax </ci> </bvar> <bvar> <ci> Fdp_n </ci> </bvar> <bvar> <ci> PEP </ci> </bvar> <bvar> <ci> TF_Cra </ci> </bvar> <apply> <divide/> <apply> <times/> <apply> <divide/> <apply> <times/> <apply> <plus/> <cn> 1 </cn> <ci> TF_Cra </ci> </apply> <ci> Fdp_Vmax </ci> <ci> FBP </ci> </apply> <ci> Fdp_Kfbp </ci> </apply> <apply> <power/> <apply> <plus/> <cn> 1 </cn> <apply> <divide/> <ci> FBP </ci> <ci> Fdp_Kfbp </ci> </apply> </apply> <apply> <minus/> <ci> Fdp_n </ci> <cn> 1 </cn> </apply> </apply> </apply> <apply> <plus/> <apply> <power/> <apply> <plus/> <cn> 1 </cn> <apply> <divide/> <ci> FBP </ci> <ci> Fdp_Kfbp </ci> </apply> </apply> <ci> Fdp_n </ci> </apply> <apply> <divide/> <ci> Fdp_L </ci> <apply> <power/> <apply> <plus/> <cn> 1 </cn> <apply> <divide/> <ci> PEP </ci> <ci> Fdp_Kpep </ci> </apply> </apply> <ci> Fdp_n </ci> </apply> </apply> </apply> </apply> </lambda> </math> </functionDefinition> <functionDefinition id='Function_for_v_MDH' name='Function for v_MDH'> <math xmlns='http://www.w3.org/1998/Math/MathML'> <lambda> <bvar> <ci> K_mal_MDH </ci> </bvar> <bvar> <ci> K_nad_MDH </ci> </bvar> <bvar> <ci> K_nadh_MDH </ci> </bvar> <bvar> <ci> K_oaa_MDH </ci> </bvar> <bvar> <ci> MAL </ci> </bvar> <bvar> <ci> NAD </ci> </bvar> <bvar> <ci> NADH </ci> </bvar> <bvar> <ci> OAA </ci> </bvar> <bvar> <ci> TF_CrpcAMP </ci> </bvar> <bvar> <ci> Vmaxf_MDH </ci> </bvar> <bvar> <ci> Vmaxr_MDH </ci> </bvar> <apply> <times/> <apply> <plus/> <cn> 1 </cn> <ci> TF_CrpcAMP </ci> </apply> <apply> <divide/> <apply> <minus/> <apply> <divide/> <apply> <times/> <ci> Vmaxf_MDH </ci> <ci> MAL </ci> <ci> NAD </ci> </apply> <apply> <times/> <ci> K_mal_MDH </ci> <ci> K_nad_MDH </ci> </apply> </apply> <apply> <divide/> <apply> <times/> <ci> Vmaxr_MDH </ci> <ci> OAA </ci> <ci> NADH </ci> </apply> <apply> <times/> <ci> K_oaa_MDH </ci> <ci> K_nadh_MDH </ci> </apply> </apply> </apply> <apply> <times/> <apply> <plus/> <cn> 1 </cn> <apply> <divide/> <ci> MAL </ci> <ci> K_mal_MDH </ci> </apply> <apply> <divide/> <ci> OAA </ci> <ci> K_oaa_MDH </ci> </apply> </apply> <apply> <plus/> <cn> 1 </cn> <apply> <divide/> <ci> NAD </ci> <ci> K_nad_MDH </ci> </apply> <apply> <divide/> <ci> NADH </ci> <ci> K_nadh_MDH </ci> </apply> </apply> </apply> </apply> </apply> </lambda> </math> </functionDefinition> <functionDefinition id='Function_for_v_Emp1' name='Function for v_Emp1'> <math xmlns='http://www.w3.org/1998/Math/MathML'> <lambda> <bvar> <ci> Emp_Kfbp </ci> </bvar> <bvar> <ci> Emp_Kpg3 </ci> </bvar> <bvar> <ci> Emp_Vmax_f </ci> </bvar> <bvar> <ci> Emp_Vmax_r </ci> </bvar> <bvar> <ci> FBP </ci> </bvar> <bvar> <ci> PG3 </ci> </bvar> <bvar> <ci> TF_Cra </ci> </bvar> <apply> <divide/> <apply> <times/> <apply> <minus/> <cn> 1 </cn> <ci> TF_Cra </ci> </apply> <apply> <minus/> <apply> <divide/> <apply> <times/> <ci> Emp_Vmax_f </ci> <ci> FBP </ci> </apply> <ci> Emp_Kfbp </ci> </apply> <apply> <divide/> <apply> <times/> <ci> Emp_Vmax_r </ci> <ci> PG3 </ci> </apply> <ci> Emp_Kpg3 </ci> </apply> </apply> </apply> <apply> <plus/> <cn> 1 </cn> <apply> <divide/> <ci> FBP </ci> <ci> Emp_Kfbp </ci> </apply> <apply> <divide/> <ci> PG3 </ci> <ci> Emp_Kpg3 </ci> </apply> </apply> </apply> </lambda> </math> </functionDefinition> <functionDefinition id='Function_for_v_PGDH' name='Function for v_PGDH'> <math xmlns='http://www.w3.org/1998/Math/MathML'> <lambda> <bvar> <ci> ATP </ci> </bvar> <bvar> <ci> NADP </ci> </bvar> <bvar> <ci> NADPH </ci> </bvar> <bvar> <ci> PG6 </ci> </bvar> <bvar> <ci> PGDH_K6pg </ci> </bvar> <bvar> <ci> PGDH_Katpinh </ci> </bvar> <bvar> <ci> PGDH_Knadp </ci> </bvar> <bvar> <ci> PGDH_Knadphinh </ci> </bvar> <bvar> <ci> PGDH_Vmax </ci> </bvar> <bvar> <ci> mu </ci> </bvar> <apply> <divide/> <apply> <times/> <ci> PGDH_Vmax </ci> <ci> mu </ci> <cn> 10044 </cn> <ci> PG6 </ci> <ci> NADP </ci> </apply> <apply> <times/> <apply> <plus/> <ci> PG6 </ci> <ci> PGDH_K6pg </ci> </apply> <apply> <plus/> <ci> NADP </ci> <apply> <times/> <ci> PGDH_Knadp </ci> <apply> <plus/> <cn> 1 </cn> <apply> <divide/> <ci> NADPH </ci> <ci> PGDH_Knadphinh </ci> </apply> </apply> <apply> <plus/> <cn> 1 </cn> <apply> <divide/> <ci> ATP </ci> <ci> PGDH_Katpinh </ci> </apply> </apply> </apply> </apply> </apply> </apply> </lambda> </math> </functionDefinition> <functionDefinition id='Function_for_v_G6PDH' name='Function for v_G6PDH'> <math xmlns='http://www.w3.org/1998/Math/MathML'> <lambda> <bvar> <ci> G6P </ci> </bvar> <bvar> <ci> G6PDH_Kg6p </ci> </bvar> <bvar> <ci> G6PDH_Knadp </ci> </bvar> <bvar> <ci> G6PDH_Knadph_g6pinh </ci> </bvar> <bvar> <ci> G6PDH_Knadph_nadphinh </ci> </bvar> <bvar> <ci> G6PDH_Vmax </ci> </bvar> <bvar> <ci> NADP </ci> </bvar> <bvar> <ci> NADPH </ci> </bvar> <bvar> <ci> TF_Cra </ci> </bvar> <bvar> <ci> mu </ci> </bvar> <apply> <divide/> <apply> <times/> <apply> <minus/> <cn> 1 </cn> <ci> TF_Cra </ci> </apply> <ci> mu </ci> <cn> 12202 </cn> <ci> G6PDH_Vmax </ci> <ci> G6P </ci> <ci> NADP </ci> </apply> <apply> <times/> <apply> <plus/> <ci> G6P </ci> <ci> G6PDH_Kg6p </ci> </apply> <apply> <plus/> <cn> 1 </cn> <apply> <divide/> <ci> NADPH </ci> <ci> G6PDH_Knadph_g6pinh </ci> </apply> </apply> <apply> <plus/> <apply> <times/> <ci> G6PDH_Knadp </ci> <apply> <plus/> <cn> 1 </cn> <apply> <divide/> <ci> NADPH </ci> <ci> G6PDH_Knadph_nadphinh </ci> </apply> </apply> </apply> <ci> NADP </ci> </apply> </apply> </apply> </lambda> </math> </functionDefinition> <functionDefinition id='Function_for_v_Nuo' name='Function for v_Nuo'> <math xmlns='http://www.w3.org/1998/Math/MathML'> <lambda> <bvar> <ci> Km_Nuo_Q </ci> </bvar> <bvar> <ci> Km_Nuo_e2H2 </ci> </bvar> <bvar> <ci> NADH </ci> </bvar> <bvar> <ci> Q </ci> </bvar> <bvar> <ci> TF_ArcA </ci> </bvar> <bvar> <ci> TF_Fnr </ci> </bvar> <bvar> <ci> v_Nuo_max </ci> </bvar> <apply> <times/> <apply> <divide/> <apply> <times/> <ci> v_Nuo_max </ci> <apply> <minus/> <cn> 1 </cn> <ci> TF_ArcA </ci> </apply> <apply> <minus/> <cn> 1 </cn> <ci> TF_Fnr </ci> </apply> <ci> Q </ci> </apply> <apply> <plus/> <ci> Km_Nuo_Q </ci> <ci> Q </ci> </apply> </apply> <apply> <divide/> <ci> NADH </ci> <apply> <plus/> <ci> Km_Nuo_e2H2 </ci> <ci> NADH </ci> </apply> </apply> </apply> </lambda> </math> </functionDefinition> <functionDefinition id='Function_for_v_Ppc' name='Function for v_Ppc'> <math xmlns='http://www.w3.org/1998/Math/MathML'> <lambda> <bvar> <ci> FBP </ci> </bvar> <bvar> <ci> PEP </ci> </bvar> <bvar> <ci> Ppc_Kfbp </ci> </bvar> <bvar> <ci> Ppc_Kpep </ci> </bvar> <bvar> <ci> Ppc_L </ci> </bvar> <bvar> <ci> Ppc_Vmax </ci> </bvar> <bvar> <ci> Ppc_n </ci> </bvar> <apply> <divide/> <apply> <times/> <apply> <divide/> <apply> <times/> <ci> Ppc_Vmax </ci> <ci> PEP </ci> </apply> <ci> Ppc_Kpep </ci> </apply> <apply> <power/> <apply> <plus/> <cn> 1 </cn> <apply> <divide/> <ci> PEP </ci> <ci> Ppc_Kpep </ci> </apply> </apply> <apply> <minus/> <ci> Ppc_n </ci> <cn> 1 </cn> </apply> </apply> </apply> <apply> <plus/> <apply> <power/> <apply> <plus/> <cn> 1 </cn> <apply> <divide/> <ci> PEP </ci> <ci> Ppc_Kpep </ci> </apply> </apply> <ci> Ppc_n </ci> </apply> <apply> <divide/> <ci> Ppc_L </ci> <apply> <power/> <apply> <plus/> <cn> 1 </cn> <apply> <divide/> <ci> FBP </ci> <ci> Ppc_Kfbp </ci> </apply> </apply> <ci> Ppc_n </ci> </apply> </apply> </apply> </apply> </lambda> </math> </functionDefinition> <functionDefinition id='Function_for_v_NPTS' name='Function for v_NPTS'> <math xmlns='http://www.w3.org/1998/Math/MathML'> <lambda> <bvar> <ci> EIIA </ci> </bvar> <bvar> <ci> GLC_ex </ci> </bvar> <bvar> <ci> NPTS_Ki </ci> </bvar> <bvar> <ci> NPTS_Ks </ci> </bvar> <bvar> <ci> NPTS_Vmax </ci> </bvar> <bvar> <ci> TF_CrpcAMP </ci> </bvar> <apply> <divide/> <apply> <times/> <apply> <plus/> <cn> 1 </cn> <ci> TF_CrpcAMP </ci> </apply> <ci> NPTS_Vmax </ci> <ci> GLC_ex </ci> </apply> <apply> <plus/> <ci> NPTS_Ks </ci> <apply> <times/> <apply> <plus/> <cn> 1 </cn> <apply> <divide/> <ci> EIIA </ci> <ci> NPTS_Ki </ci> </apply> </apply> <ci> GLC_ex </ci> </apply> </apply> </apply> </lambda> </math> </functionDefinition> <functionDefinition id='Function_for_v_PTACK' name='Function for v_PTACK'> <math xmlns='http://www.w3.org/1998/Math/MathML'> <lambda> <bvar> <ci> ACoA </ci> </bvar> <bvar> <ci> PTACK_Kacoa </ci> </bvar> <bvar> <ci> PTACK_Kpyr </ci> </bvar> <bvar> <ci> PTACK_L </ci> </bvar> <bvar> <ci> PTACK_Vmax </ci> </bvar> <bvar> <ci> PTACK_n </ci> </bvar> <bvar> <ci> PYR </ci> </bvar> <apply> <divide/> <apply> <times/> <apply> <divide/> <apply> <times/> <ci> PTACK_Vmax </ci> <ci> ACoA </ci> </apply> <ci> PTACK_Kacoa </ci> </apply> <apply> <power/> <apply> <plus/> <cn> 1 </cn> <apply> <divide/> <ci> ACoA </ci> <ci> PTACK_Kacoa </ci> </apply> </apply> <apply> <minus/> <ci> PTACK_n </ci> <cn> 1 </cn> </apply> </apply> </apply> <apply> <plus/> <apply> <power/> <apply> <plus/> <cn> 1 </cn> <apply> <divide/> <ci> ACoA </ci> <ci> PTACK_Kacoa </ci> </apply> </apply> <ci> PTACK_n </ci> </apply> <apply> <divide/> <ci> PTACK_L </ci> <apply> <power/> <apply> <plus/> <cn> 1 </cn> <apply> <divide/> <ci> PYR </ci> <ci> PTACK_Kpyr </ci> </apply> </apply> <ci> PTACK_n </ci> </apply> </apply> </apply> </apply> </lambda> </math> </functionDefinition> <functionDefinition id='Function_for_v_PDH' name='Function for v_PDH'> <math xmlns='http://www.w3.org/1998/Math/MathML'> <lambda> <bvar> <ci> GLX </ci> </bvar> <bvar> <ci> PDH_Kglx </ci> </bvar> <bvar> <ci> PDH_Kpyr </ci> </bvar> <bvar> <ci> PDH_KpyrI </ci> </bvar> <bvar> <ci> PDH_L </ci> </bvar> <bvar> <ci> PDH_Vmax </ci> </bvar> <bvar> <ci> PDH_n </ci> </bvar> <bvar> <ci> PYR </ci> </bvar> <bvar> <ci> TF_ArcA </ci> </bvar> <bvar> <ci> TF_PdhR </ci> </bvar> <apply> <divide/> <apply> <times/> <apply> <divide/> <apply> <times/> <apply> <minus/> <cn> 1 </cn> <ci> TF_PdhR </ci> </apply> <apply> <minus/> <cn> 1 </cn> <ci> TF_ArcA </ci> </apply> <ci> PDH_Vmax </ci> <ci> PYR </ci> </apply> <ci> PDH_Kpyr </ci> </apply> <apply> <power/> <apply> <plus/> <cn> 1 </cn> <apply> <divide/> <ci> PYR </ci> <ci> PDH_Kpyr </ci> </apply> </apply> <apply> <minus/> <ci> PDH_n </ci> <cn> 1 </cn> </apply> </apply> </apply> <apply> <plus/> <apply> <power/> <apply> <plus/> <cn> 1 </cn> <apply> <divide/> <ci> PYR </ci> <ci> PDH_Kpyr </ci> </apply> </apply> <ci> PDH_n </ci> </apply> <apply> <times/> <ci> PDH_L </ci> <apply> <power/> <apply> <plus/> <cn> 1 </cn> <apply> <divide/> <ci> GLX </ci> <ci> PDH_Kglx </ci> </apply> <apply> <divide/> <ci> PYR </ci> <ci> PDH_KpyrI </ci> </apply> </apply> <ci> PDH_n </ci> </apply> </apply> </apply> </apply> </lambda> </math> </functionDefinition> <functionDefinition id='Function_for_v_Growth' name='Function for v_Growth'> <math xmlns='http://www.w3.org/1998/Math/MathML'> <lambda> <bvar> <ci> OD </ci> </bvar> <bvar> <ci> mu </ci> </bvar> <apply> <times/> <ci> OD </ci> <ci> mu </ci> </apply> </lambda> </math> </functionDefinition> <functionDefinition id='Function_for_v_TA' name='Function for v_TA'> <math xmlns='http://www.w3.org/1998/Math/MathML'> <lambda> <bvar> <ci> E4P </ci> </bvar> <bvar> <ci> G6P </ci> </bvar> <bvar> <ci> PG3 </ci> </bvar> <bvar> <ci> S7P </ci> </bvar> <bvar> <ci> TA_Keq </ci> </bvar> <bvar> <ci> TA_Vmax </ci> </bvar> <apply> <times/> <ci> TA_Vmax </ci> <apply> <minus/> <apply> <times/> <ci> PG3 </ci> <ci> S7P </ci> </apply> <apply> <divide/> <apply> <times/> <ci> E4P </ci> <ci> G6P </ci> </apply> <ci> TA_Keq </ci> </apply> </apply> </apply> </lambda> </math> </functionDefinition> <functionDefinition id='Function_for_v_MS' name='Function for v_MS'> <math xmlns='http://www.w3.org/1998/Math/MathML'> <lambda> <bvar> <ci> ACoA </ci> </bvar> <bvar> <ci> GLX </ci> </bvar> <bvar> <ci> MS_Kacoa </ci> </bvar> <bvar> <ci> MS_Kglx </ci> </bvar> <bvar> <ci> MS_Kglxacoa </ci> </bvar> <bvar> <ci> MS_Vmax </ci> </bvar> <bvar> <ci> TF_Cra </ci> </bvar> <bvar> <ci> TF_IclR </ci> </bvar> <apply> <divide/> <apply> <times/> <apply> <plus/> <cn> 1 </cn> <ci> TF_Cra </ci> </apply> <apply> <minus/> <cn> 1 </cn> <ci> TF_IclR </ci> </apply> <ci> MS_Vmax </ci> <ci> GLX </ci> <ci> ACoA </ci> </apply> <apply> <plus/> <apply> <times/> <ci> MS_Kglxacoa </ci> <ci> MS_Kacoa </ci> </apply> <apply> <times/> <ci> MS_Kacoa </ci> <ci> GLX </ci> </apply> <apply> <times/> <ci> MS_Kglx </ci> <ci> ACoA </ci> </apply> <apply> <times/> <ci> GLX </ci> <ci> ACoA </ci> </apply> </apply> </apply> </lambda> </math> </functionDefinition> <functionDefinition id='Function_for_v_SUC_trans' name='Function for v_SUC_trans'> <math xmlns='http://www.w3.org/1998/Math/MathML'> <lambda> <bvar> <ci> SUC </ci> </bvar> <bvar> <ci> SUC_trans_Km_suc </ci> </bvar> <bvar> <ci> SUC_trans_Vmax </ci> </bvar> <apply> <divide/> <apply> <times/> <ci> SUC_trans_Vmax </ci> <ci> SUC </ci> </apply> <apply> <plus/> <ci> SUC_trans_Km_suc </ci> <ci> SUC </ci> </apply> </apply> </lambda> </math> </functionDefinition> <functionDefinition id='Function_for_v_Pfk' name='Function for v_Pfk'> <math xmlns='http://www.w3.org/1998/Math/MathML'> <lambda> <bvar> <ci> G6P </ci> </bvar> <bvar> <ci> PEP </ci> </bvar> <bvar> <ci> Pfk_Kg6p </ci> </bvar> <bvar> <ci> Pfk_Kpep </ci> </bvar> <bvar> <ci> Pfk_L </ci> </bvar> <bvar> <ci> Pfk_Vmax </ci> </bvar> <bvar> <ci> Pfk_n </ci> </bvar> <bvar> <ci> TF_Cra </ci> </bvar> <apply> <divide/> <apply> <times/> <apply> <divide/> <apply> <times/> <apply> <minus/> <cn> 1 </cn> <ci> TF_Cra </ci> </apply> <ci> Pfk_Vmax </ci> <ci> G6P </ci> </apply> <ci> Pfk_Kg6p </ci> </apply> <apply> <power/> <apply> <plus/> <cn> 1 </cn> <apply> <divide/> <ci> G6P </ci> <ci> Pfk_Kg6p </ci> </apply> </apply> <apply> <minus/> <ci> Pfk_n </ci> <cn> 1 </cn> </apply> </apply> </apply> <apply> <plus/> <apply> <power/> <apply> <plus/> <cn> 1 </cn> <apply> <divide/> <ci> G6P </ci> <ci> Pfk_Kg6p </ci> </apply> </apply> <ci> Pfk_n </ci> </apply> <apply> <times/> <ci> Pfk_L </ci> <apply> <power/> <apply> <plus/> <cn> 1 </cn> <apply> <divide/> <ci> PEP </ci> <ci> Pfk_Kpep </ci> </apply> </apply> <ci> Pfk_n </ci> </apply> </apply> </apply> </apply> </lambda> </math> </functionDefinition> <functionDefinition id='Function_for_v_TF_CraFBP' name='Function for v_TF_CraFBP'> <math xmlns='http://www.w3.org/1998/Math/MathML'> <lambda> <bvar> <ci> Cra </ci> </bvar> <bvar> <ci> CraFBP </ci> </bvar> <bvar> <ci> FBP </ci> </bvar> <bvar> <ci> TF_CraFBP_Kfbp </ci> </bvar> <bvar> <ci> TF_CraFBP_n </ci> </bvar> <bvar> <ci> TF_CraFBP_scale </ci> </bvar> <apply> <times/> <ci> TF_CraFBP_scale </ci> <apply> <minus/> <apply> <divide/> <apply> <times/> <apply> <plus/> <ci> Cra </ci> <ci> CraFBP </ci> </apply> <apply> <power/> <ci> FBP </ci> <ci> TF_CraFBP_n </ci> </apply> </apply> <apply> <plus/> <apply> <power/> <ci> FBP </ci> <ci> TF_CraFBP_n </ci> </apply> <apply> <power/> <ci> TF_CraFBP_Kfbp </ci> <ci> TF_CraFBP_n </ci> </apply> </apply> </apply> <ci> CraFBP </ci> </apply> </apply> </lambda> </math> </functionDefinition> <functionDefinition id='Function_for_v_Glk' name='Function for v_Glk'> <math xmlns='http://www.w3.org/1998/Math/MathML'> <lambda> <bvar> <ci> G6P </ci> </bvar> <bvar> <ci> GLCin </ci> </bvar> <bvar> <ci> Glk_KI </ci> </bvar> <bvar> <ci> Glk_Ks </ci> </bvar> <bvar> <ci> Glk_Vmax </ci> </bvar> <apply> <divide/> <apply> <times/> <ci> Glk_Vmax </ci> <ci> GLCin </ci> </apply> <apply> <times/> <apply> <plus/> <cn> 1 </cn> <apply> <divide/> <ci> G6P </ci> <ci> Glk_KI </ci> </apply> </apply> <apply> <plus/> <ci> Glk_Ks </ci> <ci> GLCin </ci> </apply> </apply> </apply> </lambda> </math> </functionDefinition> <functionDefinition id='Function_for_v_Icl' name='Function for v_Icl'> <math xmlns='http://www.w3.org/1998/Math/MathML'> <lambda> <bvar> <ci> AKG </ci> </bvar> <bvar> <ci> ICT </ci> </bvar> <bvar> <ci> Icl_Kakg </ci> </bvar> <bvar> <ci> Icl_Kict </ci> </bvar> <bvar> <ci> Icl_Kpep </ci> </bvar> <bvar> <ci> Icl_Kpg3 </ci> </bvar> <bvar> <ci> Icl_L </ci> </bvar> <bvar> <ci> Icl_Vmax </ci> </bvar> <bvar> <ci> Icl_n </ci> </bvar> <bvar> <ci> PEP </ci> </bvar> <bvar> <ci> PG3 </ci> </bvar> <bvar> <ci> TF_Cra </ci> </bvar> <bvar> <ci> TF_IclR </ci> </bvar> <apply> <divide/> <apply> <times/> <apply> <divide/> <apply> <times/> <apply> <plus/> <cn> 1 </cn> <ci> TF_Cra </ci> </apply> <apply> <minus/> <cn> 1 </cn> <ci> TF_IclR </ci> </apply> <ci> Icl_Vmax </ci> <ci> ICT </ci> </apply> <ci> Icl_Kict </ci> </apply> <apply> <power/> <apply> <plus/> <cn> 1 </cn> <apply> <divide/> <ci> ICT </ci> <ci> Icl_Kict </ci> </apply> </apply> <apply> <minus/> <ci> Icl_n </ci> <cn> 1 </cn> </apply> </apply> </apply> <apply> <plus/> <apply> <power/> <apply> <plus/> <cn> 1 </cn> <apply> <divide/> <ci> ICT </ci> <ci> Icl_Kict </ci> </apply> </apply> <ci> Icl_n </ci> </apply> <apply> <times/> <ci> Icl_L </ci> <apply> <power/> <apply> <plus/> <cn> 1 </cn> <apply> <divide/> <ci> PEP </ci> <ci> Icl_Kpep </ci> </apply> <apply> <divide/> <ci> PG3 </ci> <ci> Icl_Kpg3 </ci> </apply> <apply> <divide/> <ci> AKG </ci> <ci> Icl_Kakg </ci> </apply> </apply> <ci> Icl_n </ci> </apply> </apply> </apply> </apply> </lambda> </math> </functionDefinition> <functionDefinition id='Function_for_v_TKb' name='Function for v_TKb'> <math xmlns='http://www.w3.org/1998/Math/MathML'> <lambda> <bvar> <ci> E4P </ci> </bvar> <bvar> <ci> G6P </ci> </bvar> <bvar> <ci> PG3 </ci> </bvar> <bvar> <ci> TKb_Keq </ci> </bvar> <bvar> <ci> TKb_Vmax </ci> </bvar> <bvar> <ci> Xyl5 </ci> </bvar> <apply> <times/> <ci> TKb_Vmax </ci> <apply> <minus/> <apply> <times/> <ci> Xyl5 </ci> <ci> E4P </ci> </apply> <apply> <divide/> <apply> <times/> <ci> G6P </ci> <ci> PG3 </ci> </apply> <ci> TKb_Keq </ci> </apply> </apply> </apply> </lambda> </math> </functionDefinition> <functionDefinition id='Function_for_v_Pps' name='Function for v_Pps'> <math xmlns='http://www.w3.org/1998/Math/MathML'> <lambda> <bvar> <ci> PEP </ci> </bvar> <bvar> <ci> PYR </ci> </bvar> <bvar> <ci> Pps_Kpep </ci> </bvar> <bvar> <ci> Pps_Kpyr </ci> </bvar> <bvar> <ci> Pps_L </ci> </bvar> <bvar> <ci> Pps_Vmax </ci> </bvar> <bvar> <ci> Pps_n </ci> </bvar> <bvar> <ci> TF_Cra </ci> </bvar> <apply> <divide/> <apply> <times/> <apply> <divide/> <apply> <times/> <apply> <plus/> <cn> 1 </cn> <ci> TF_Cra </ci> </apply> <ci> Pps_Vmax </ci> <ci> PYR </ci> </apply> <ci> Pps_Kpyr </ci> </apply> <apply> <power/> <apply> <plus/> <cn> 1 </cn> <apply> <divide/> <ci> PYR </ci> <ci> Pps_Kpyr </ci> </apply> </apply> <apply> <minus/> <ci> Pps_n </ci> <cn> 1 </cn> </apply> </apply> </apply> <apply> <plus/> <apply> <power/> <apply> <plus/> <cn> 1 </cn> <apply> <divide/> <ci> PYR </ci> <ci> Pps_Kpyr </ci> </apply> </apply> <ci> Pps_n </ci> </apply> <apply> <times/> <ci> Pps_L </ci> <apply> <power/> <apply> <plus/> <cn> 1 </cn> <apply> <divide/> <ci> PEP </ci> <ci> Pps_Kpep </ci> </apply> </apply> <ci> Pps_n </ci> </apply> </apply> </apply> </apply> </lambda> </math> </functionDefinition> <functionDefinition id='Function_for_v_LAC_excretion' name='Function for v_LAC_excretion'> <math xmlns='http://www.w3.org/1998/Math/MathML'> <lambda> <bvar> <ci> Km_NADH_LDH </ci> </bvar> <bvar> <ci> Km_PYR_LDH </ci> </bvar> <bvar> <ci> Mw_LAC </ci> </bvar> <bvar> <ci> NADH </ci> </bvar> <bvar> <ci> OD </ci> </bvar> <bvar> <ci> PYR </ci> </bvar> <bvar> <ci> Vmax_LDH </ci> </bvar> <bvar> <ci> n_NADH_LDH </ci> </bvar> <bvar> <ci> n_PYR_LDH </ci> </bvar> <bvar> <ci> uc </ci> </bvar> <apply> <times/> <apply> <divide/> <apply> <times/> <ci> Mw_LAC </ci> <ci> uc </ci> <ci> OD </ci> <ci> Vmax_LDH </ci> <apply> <power/> <ci> NADH </ci> <ci> n_NADH_LDH </ci> </apply> </apply> <apply> <plus/> <apply> <power/> <ci> Km_NADH_LDH </ci> <ci> n_NADH_LDH </ci> </apply> <apply> <power/> <ci> NADH </ci> <ci> n_NADH_LDH </ci> </apply> </apply> </apply> <apply> <divide/> <apply> <power/> <ci> PYR </ci> <ci> n_PYR_LDH </ci> </apply> <apply> <plus/> <apply> <power/> <ci> Km_PYR_LDH </ci> <ci> n_PYR_LDH </ci> </apply> <apply> <power/> <ci> PYR </ci> <ci> n_PYR_LDH </ci> </apply> </apply> </apply> </apply> </lambda> </math> </functionDefinition> <functionDefinition id='Function_for_v_Ndh' name='Function for v_Ndh'> <math xmlns='http://www.w3.org/1998/Math/MathML'> <lambda> <bvar> <ci> Km_Ndh_Q </ci> </bvar> <bvar> <ci> Km_Ndh_e2H2 </ci> </bvar> <bvar> <ci> NADH </ci> </bvar> <bvar> <ci> Q </ci> </bvar> <bvar> <ci> TF_Fnr </ci> </bvar> <bvar> <ci> v_Ndh_max </ci> </bvar> <apply> <times/> <apply> <divide/> <apply> <times/> <ci> v_Ndh_max </ci> <apply> <minus/> <cn> 1 </cn> <ci> TF_Fnr </ci> </apply> <ci> Q </ci> </apply> <apply> <plus/> <ci> Km_Ndh_Q </ci> <ci> Q </ci> </apply> </apply> <apply> <divide/> <ci> NADH </ci> <apply> <plus/> <ci> Km_Ndh_e2H2 </ci> <ci> NADH </ci> </apply> </apply> </apply> </lambda> </math> </functionDefinition> <functionDefinition id='Function_for_v_Pyk' name='Function for v_Pyk'> <math xmlns='http://www.w3.org/1998/Math/MathML'> <lambda> <bvar> <ci> FBP </ci> </bvar> <bvar> <ci> PEP </ci> </bvar> <bvar> <ci> Pyk_Kfbp </ci> </bvar> <bvar> <ci> Pyk_Kpep </ci> </bvar> <bvar> <ci> Pyk_L </ci> </bvar> <bvar> <ci> Pyk_Vmax </ci> </bvar> <bvar> <ci> Pyk_n </ci> </bvar> <bvar> <ci> TF_Cra </ci> </bvar> <apply> <divide/> <apply> <times/> <apply> <divide/> <apply> <times/> <apply> <minus/> <cn> 1 </cn> <ci> TF_Cra </ci> </apply> <ci> Pyk_Vmax </ci> <ci> PEP </ci> </apply> <ci> Pyk_Kpep </ci> </apply> <apply> <power/> <apply> <plus/> <cn> 1 </cn> <apply> <divide/> <ci> PEP </ci> <ci> Pyk_Kpep </ci> </apply> </apply> <apply> <minus/> <ci> Pyk_n </ci> <cn> 1 </cn> </apply> </apply> </apply> <apply> <plus/> <apply> <power/> <apply> <plus/> <cn> 1 </cn> <apply> <divide/> <ci> PEP </ci> <ci> Pyk_Kpep </ci> </apply> </apply> <ci> Pyk_n </ci> </apply> <apply> <divide/> <ci> Pyk_L </ci> <apply> <power/> <apply> <plus/> <cn> 1 </cn> <apply> <divide/> <ci> FBP </ci> <ci> Pyk_Kfbp </ci> </apply> </apply> <ci> Pyk_n </ci> </apply> </apply> </apply> </apply> </lambda> </math> </functionDefinition> <functionDefinition id='Function_for_v_LDH' name='Function for v_LDH'> <math xmlns='http://www.w3.org/1998/Math/MathML'> <lambda> <bvar> <ci> Km_NADH_LDH </ci> </bvar> <bvar> <ci> Km_PYR_LDH </ci> </bvar> <bvar> <ci> NADH </ci> </bvar> <bvar> <ci> PYR </ci> </bvar> <bvar> <ci> Vmax_LDH </ci> </bvar> <bvar> <ci> n_NADH_LDH </ci> </bvar> <bvar> <ci> n_PYR_LDH </ci> </bvar> <apply> <times/> <apply> <divide/> <apply> <times/> <ci> Vmax_LDH </ci> <apply> <power/> <ci> NADH </ci> <ci> n_NADH_LDH </ci> </apply> </apply> <apply> <plus/> <apply> <power/> <ci> Km_NADH_LDH </ci> <ci> n_NADH_LDH </ci> </apply> <apply> <power/> <ci> NADH </ci> <ci> n_NADH_LDH </ci> </apply> </apply> </apply> <apply> <divide/> <apply> <power/> <ci> PYR </ci> <ci> n_PYR_LDH </ci> </apply> <apply> <plus/> <apply> <power/> <ci> Km_PYR_LDH </ci> <ci> n_PYR_LDH </ci> </apply> <apply> <power/> <ci> PYR </ci> <ci> n_PYR_LDH </ci> </apply> </apply> </apply> </apply> </lambda> </math> </functionDefinition> <functionDefinition id='Function_for_v_syn_QH2' name='Function for v_syn_QH2'> <math xmlns='http://www.w3.org/1998/Math/MathML'> <lambda> <bvar> <ci> mu </ci> </bvar> <bvar> <ci> p_syn_QH2 </ci> </bvar> <apply> <times/> <ci> mu </ci> <ci> p_syn_QH2 </ci> </apply> </lambda> </math> </functionDefinition> <functionDefinition id='Function_for_v_cAMPdegr' name='Function for v_cAMPdegr'> <math xmlns='http://www.w3.org/1998/Math/MathML'> <lambda> <bvar> <ci> cAMP </ci> </bvar> <bvar> <ci> cAMPdegr_KcAMP </ci> </bvar> <bvar> <ci> cAMPdegr_Vmax </ci> </bvar> <apply> <divide/> <apply> <times/> <ci> cAMPdegr_Vmax </ci> <ci> cAMP </ci> </apply> <apply> <plus/> <ci> cAMP </ci> <ci> cAMPdegr_KcAMP </ci> </apply> </apply> </lambda> </math> </functionDefinition> <functionDefinition id='Function_for_v_PTS4' name='Function for v_PTS4'> <math xmlns='http://www.w3.org/1998/Math/MathML'> <lambda> <bvar> <ci> EIIA_P </ci> </bvar> <bvar> <ci> GLC_ex </ci> </bvar> <bvar> <ci> PTS4_KEIIA </ci> </bvar> <bvar> <ci> PTS4_Kglc </ci> </bvar> <bvar> <ci> PTS4_Vmax </ci> </bvar> <bvar> <ci> TF_CrpcAMP </ci> </bvar> <apply> <divide/> <apply> <times/> <apply> <plus/> <cn> 1 </cn> <ci> TF_CrpcAMP </ci> </apply> <ci> PTS4_Vmax </ci> <ci> EIIA_P </ci> <ci> GLC_ex </ci> </apply> <apply> <times/> <apply> <plus/> <ci> PTS4_KEIIA </ci> <ci> EIIA_P </ci> </apply> <apply> <plus/> <ci> PTS4_Kglc </ci> <ci> GLC_ex </ci> </apply> </apply> </apply> </lambda> </math> </functionDefinition> <functionDefinition id='Function_for_v_GLC_uptake' name='Function for v_GLC_uptake'> <math xmlns='http://www.w3.org/1998/Math/MathML'> <lambda> <bvar> <ci> EIIA </ci> </bvar> <bvar> <ci> EIIA_P </ci> </bvar> <bvar> <ci> GLC_ex </ci> </bvar> <bvar> <ci> Mw_GLC </ci> </bvar> <bvar> <ci> NPTS_Ki </ci> </bvar> <bvar> <ci> NPTS_Ks </ci> </bvar> <bvar> <ci> NPTS_Vmax </ci> </bvar> <bvar> <ci> OD </ci> </bvar> <bvar> <ci> PTS4_KEIIA </ci> </bvar> <bvar> <ci> PTS4_Kglc </ci> </bvar> <bvar> <ci> PTS4_Vmax </ci> </bvar> <bvar> <ci> TF_CrpcAMP </ci> </bvar> <bvar> <ci> uc </ci> </bvar> <apply> <times/> <ci> Mw_GLC </ci> <ci> uc </ci> <ci> OD </ci> <apply> <plus/> <apply> <divide/> <apply> <times/> <apply> <plus/> <cn> 1 </cn> <ci> TF_CrpcAMP </ci> </apply> <ci> PTS4_Vmax </ci> <ci> EIIA_P </ci> <ci> GLC_ex </ci> </apply> <apply> <times/> <apply> <plus/> <ci> PTS4_KEIIA </ci> <ci> EIIA_P </ci> </apply> <apply> <plus/> <ci> PTS4_Kglc </ci> <ci> GLC_ex </ci> </apply> </apply> </apply> <apply> <divide/> <apply> <times/> <apply> <plus/> <cn> 1 </cn> <ci> TF_CrpcAMP </ci> </apply> <ci> NPTS_Vmax </ci> <ci> GLC_ex </ci> </apply> <apply> <plus/> <ci> NPTS_Ks </ci> <apply> <times/> <apply> <plus/> <cn> 1 </cn> <apply> <divide/> <ci> EIIA </ci> <ci> NPTS_Ki </ci> </apply> </apply> <ci> GLC_ex </ci> </apply> </apply> </apply> </apply> </apply> </lambda> </math> </functionDefinition> <functionDefinition id='Function_for_v_SUC_excretion' name='Function for v_SUC_excretion'> <math xmlns='http://www.w3.org/1998/Math/MathML'> <lambda> <bvar> <ci> Mw_SUC </ci> </bvar> <bvar> <ci> OD </ci> </bvar> <bvar> <ci> SUC </ci> </bvar> <bvar> <ci> SUC_trans_Km_suc </ci> </bvar> <bvar> <ci> SUC_trans_Vmax </ci> </bvar> <bvar> <ci> uc </ci> </bvar> <apply> <times/> <ci> Mw_SUC </ci> <ci> uc </ci> <ci> OD </ci> <apply> <divide/> <apply> <times/> <ci> SUC_trans_Vmax </ci> <ci> SUC </ci> </apply> <apply> <plus/> <ci> SUC_trans_Km_suc </ci> <ci> SUC </ci> </apply> </apply> </apply> </lambda> </math> </functionDefinition> <functionDefinition id='Function_for_v_Pck' name='Function for v_Pck'> <math xmlns='http://www.w3.org/1998/Math/MathML'> <lambda> <bvar> <ci> OAA </ci> </bvar> <bvar> <ci> PEP </ci> </bvar> <bvar> <ci> Pck_Koaa </ci> </bvar> <bvar> <ci> Pck_Kpep </ci> </bvar> <bvar> <ci> Pck_Vmax </ci> </bvar> <bvar> <ci> TF_Cra </ci> </bvar> <apply> <divide/> <apply> <times/> <apply> <plus/> <cn> 1 </cn> <ci> TF_Cra </ci> </apply> <ci> Pck_Vmax </ci> <ci> OAA </ci> </apply> <apply> <plus/> <ci> OAA </ci> <apply> <times/> <ci> Pck_Koaa </ci> <apply> <plus/> <cn> 1 </cn> <apply> <divide/> <ci> PEP </ci> <ci> Pck_Kpep </ci> </apply> </apply> </apply> </apply> </apply> </lambda> </math> </functionDefinition> <functionDefinition id='Function_for_v_Pfl' name='Function for v_Pfl'> <math xmlns='http://www.w3.org/1998/Math/MathML'> <lambda> <bvar> <ci> ACoA </ci> </bvar> <bvar> <ci> CoA </ci> </bvar> <bvar> <ci> FOR </ci> </bvar> <bvar> <ci> Kacoa_Pfl </ci> </bvar> <bvar> <ci> Kcoa_Pfl </ci> </bvar> <bvar> <ci> Kfor_Pfl </ci> </bvar> <bvar> <ci> Kpyr_Pfl </ci> </bvar> <bvar> <ci> PYR </ci> </bvar> <bvar> <ci> TF_ArcA </ci> </bvar> <bvar> <ci> TF_Fnr </ci> </bvar> <bvar> <ci> Vmaxf_Pfl </ci> </bvar> <bvar> <ci> Vmaxr_Pfl </ci> </bvar> <apply> <minus/> <apply> <divide/> <apply> <times/> <apply> <plus/> <ci> TF_Fnr </ci> <ci> TF_ArcA </ci> </apply> <ci> Vmaxf_Pfl </ci> <ci> PYR </ci> <ci> CoA </ci> </apply> <apply> <plus/> <apply> <times/> <ci> PYR </ci> <ci> CoA </ci> </apply> <apply> <times/> <ci> Kpyr_Pfl </ci> <ci> CoA </ci> </apply> <apply> <times/> <ci> Kcoa_Pfl </ci> <ci> PYR </ci> </apply> </apply> </apply> <apply> <divide/> <apply> <times/> <apply> <plus/> <ci> TF_Fnr </ci> <ci> TF_ArcA </ci> </apply> <ci> Vmaxr_Pfl </ci> <ci> ACoA </ci> <ci> FOR </ci> </apply> <apply> <plus/> <apply> <times/> <ci> ACoA </ci> <ci> FOR </ci> </apply> <apply> <times/> <ci> Kacoa_Pfl </ci> <ci> FOR </ci> </apply> <apply> <times/> <ci> Kfor_Pfl </ci> <ci> ACoA </ci> </apply> </apply> </apply> </apply> </lambda> </math> </functionDefinition> <functionDefinition id='Function_for_v_Mez' name='Function for v_Mez'> <math xmlns='http://www.w3.org/1998/Math/MathML'> <lambda> <bvar> <ci> ACoA </ci> </bvar> <bvar> <ci> MAL </ci> </bvar> <bvar> <ci> Mez_Kacoa </ci> </bvar> <bvar> <ci> Mez_Kcamp </ci> </bvar> <bvar> <ci> Mez_Kmal </ci> </bvar> <bvar> <ci> Mez_L </ci> </bvar> <bvar> <ci> Mez_Vmax </ci> </bvar> <bvar> <ci> Mez_n </ci> </bvar> <bvar> <ci> cAMP </ci> </bvar> <apply> <divide/> <apply> <times/> <apply> <divide/> <apply> <times/> <ci> Mez_Vmax </ci> <ci> MAL </ci> </apply> <ci> Mez_Kmal </ci> </apply> <apply> <power/> <apply> <plus/> <cn> 1 </cn> <apply> <divide/> <ci> MAL </ci> <ci> Mez_Kmal </ci> </apply> </apply> <apply> <minus/> <ci> Mez_n </ci> <cn> 1 </cn> </apply> </apply> </apply> <apply> <plus/> <apply> <power/> <apply> <plus/> <cn> 1 </cn> <apply> <divide/> <ci> MAL </ci> <ci> Mez_Kmal </ci> </apply> </apply> <ci> Mez_n </ci> </apply> <apply> <times/> <ci> Mez_L </ci> <apply> <power/> <apply> <plus/> <cn> 1 </cn> <apply> <divide/> <ci> ACoA </ci> <ci> Mez_Kacoa </ci> </apply> <apply> <divide/> <ci> cAMP </ci> <ci> Mez_Kcamp </ci> </apply> </apply> <ci> Mez_n </ci> </apply> </apply> </apply> </apply> </lambda> </math> </functionDefinition> <functionDefinition id='Function_for_v_TF_cAMPCrp' name='Function for v_TF_cAMPCrp'> <math xmlns='http://www.w3.org/1998/Math/MathML'> <lambda> <bvar> <ci> Crp </ci> </bvar> <bvar> <ci> CrpcAMP </ci> </bvar> <bvar> <ci> TF_cAMPCrp_Kcamp </ci> </bvar> <bvar> <ci> TF_cAMPCrp_n </ci> </bvar> <bvar> <ci> TF_cAMPCrp_scale </ci> </bvar> <bvar> <ci> cAMP </ci> </bvar> <apply> <times/> <ci> TF_cAMPCrp_scale </ci> <apply> <minus/> <apply> <divide/> <apply> <times/> <apply> <plus/> <ci> Crp </ci> <ci> CrpcAMP </ci> </apply> <apply> <power/> <ci> cAMP </ci> <ci> TF_cAMPCrp_n </ci> </apply> </apply> <apply> <plus/> <apply> <power/> <ci> cAMP </ci> <ci> TF_cAMPCrp_n </ci> </apply> <apply> <power/> <ci> TF_cAMPCrp_Kcamp </ci> <ci> TF_cAMPCrp_n </ci> </apply> </apply> </apply> <ci> CrpcAMP </ci> </apply> </apply> </lambda> </math> </functionDefinition> <functionDefinition id='Function_for_v_R5PI' name='Function for v_R5PI'> <math xmlns='http://www.w3.org/1998/Math/MathML'> <lambda> <bvar> <ci> R5PI_Keq </ci> </bvar> <bvar> <ci> R5PI_Vmax </ci> </bvar> <bvar> <ci> Rib5 </ci> </bvar> <bvar> <ci> Ribu5 </ci> </bvar> <apply> <times/> <ci> R5PI_Vmax </ci> <apply> <minus/> <ci> Ribu5 </ci> <apply> <divide/> <ci> Rib5 </ci> <ci> R5PI_Keq </ci> </apply> </apply> </apply> </lambda> </math> </functionDefinition> <functionDefinition id='Function_for_v_ICDH' name='Function for v_ICDH'> <math xmlns='http://www.w3.org/1998/Math/MathML'> <lambda> <bvar> <ci> ICDH_Kict </ci> </bvar> <bvar> <ci> ICDH_Kpep </ci> </bvar> <bvar> <ci> ICDH_L </ci> </bvar> <bvar> <ci> ICDH_Vmax </ci> </bvar> <bvar> <ci> ICDH_n </ci> </bvar> <bvar> <ci> ICT </ci> </bvar> <bvar> <ci> PEP </ci> </bvar> <bvar> <ci> TF_ArcA </ci> </bvar> <bvar> <ci> TF_Cra </ci> </bvar> <apply> <divide/> <apply> <times/> <apply> <divide/> <apply> <times/> <apply> <plus/> <cn> 1 </cn> <ci> TF_Cra </ci> </apply> <apply> <minus/> <cn> 1 </cn> <ci> TF_ArcA </ci> </apply> <ci> ICDH_Vmax </ci> <ci> ICT </ci> </apply> <ci> ICDH_Kict </ci> </apply> <apply> <power/> <apply> <plus/> <cn> 1 </cn> <apply> <divide/> <ci> ICT </ci> <ci> ICDH_Kict </ci> </apply> </apply> <apply> <minus/> <ci> ICDH_n </ci> <cn> 1 </cn> </apply> </apply> </apply> <apply> <plus/> <apply> <power/> <apply> <plus/> <cn> 1 </cn> <apply> <divide/> <ci> ICT </ci> <ci> ICDH_Kict </ci> </apply> </apply> <ci> ICDH_n </ci> </apply> <apply> <times/> <ci> ICDH_L </ci> <apply> <power/> <apply> <plus/> <cn> 1 </cn> <apply> <divide/> <ci> PEP </ci> <ci> ICDH_Kpep </ci> </apply> </apply> <ci> ICDH_n </ci> </apply> </apply> </apply> </apply> </lambda> </math> </functionDefinition> <functionDefinition id='Function_for_v_Ru5P' name='Function for v_Ru5P'> <math xmlns='http://www.w3.org/1998/Math/MathML'> <lambda> <bvar> <ci> Ribu5 </ci> </bvar> <bvar> <ci> Ru5P_Keq </ci> </bvar> <bvar> <ci> Ru5P_Vmax </ci> </bvar> <bvar> <ci> Xyl5 </ci> </bvar> <apply> <times/> <ci> Ru5P_Vmax </ci> <apply> <minus/> <ci> Ribu5 </ci> <apply> <divide/> <ci> Xyl5 </ci> <ci> Ru5P_Keq </ci> </apply> </apply> </apply> </lambda> </math> </functionDefinition> <functionDefinition id='Function_for_v_TF_PdhRPYR' name='Function for v_TF_PdhRPYR'> <math xmlns='http://www.w3.org/1998/Math/MathML'> <lambda> <bvar> <ci> PYR </ci> </bvar> <bvar> <ci> PdhR </ci> </bvar> <bvar> <ci> PdhRPYR </ci> </bvar> <bvar> <ci> TF_PdhRPYR_Kpyr </ci> </bvar> <bvar> <ci> TF_PdhRPYR_n </ci> </bvar> <bvar> <ci> TF_PdhRPYR_scale </ci> </bvar> <apply> <times/> <ci> TF_PdhRPYR_scale </ci> <apply> <minus/> <apply> <divide/> <apply> <times/> <apply> <plus/> <ci> PdhR </ci> <ci> PdhRPYR </ci> </apply> <apply> <power/> <ci> PYR </ci> <ci> TF_PdhRPYR_n </ci> </apply> </apply> <apply> <plus/> <apply> <power/> <ci> PYR </ci> <ci> TF_PdhRPYR_n </ci> </apply> <apply> <power/> <ci> TF_PdhRPYR_Kpyr </ci> <ci> TF_PdhRPYR_n </ci> </apply> </apply> </apply> <ci> PdhRPYR </ci> </apply> </apply> </lambda> </math> </functionDefinition> <functionDefinition id='Function_for_v_SDH' name='Function for v_SDH'> <math xmlns='http://www.w3.org/1998/Math/MathML'> <lambda> <bvar> <ci> Kfum_SDH </ci> </bvar> <bvar> <ci> Ksuc_SDH </ci> </bvar> <bvar> <ci> MAL </ci> </bvar> <bvar> <ci> SUC </ci> </bvar> <bvar> <ci> TF_ArcA </ci> </bvar> <bvar> <ci> TF_CrpcAMP </ci> </bvar> <bvar> <ci> TF_Fnr </ci> </bvar> <bvar> <ci> Vmaxf_SDH </ci> </bvar> <apply> <divide/> <apply> <times/> <apply> <minus/> <cn> 1 </cn> <ci> TF_Fnr </ci> </apply> <apply> <minus/> <cn> 1 </cn> <ci> TF_ArcA </ci> </apply> <apply> <plus/> <cn> 1 </cn> <ci> TF_CrpcAMP </ci> </apply> <apply> <divide/> <apply> <times/> <ci> Vmaxf_SDH </ci> <ci> SUC </ci> </apply> <ci> Ksuc_SDH </ci> </apply> </apply> <apply> <plus/> <cn> 1 </cn> <apply> <divide/> <ci> SUC </ci> <ci> Ksuc_SDH </ci> </apply> <apply> <divide/> <ci> MAL </ci> <ci> Kfum_SDH </ci> </apply> </apply> </apply> </lambda> </math> </functionDefinition> <functionDefinition id='Function_for_v_TKa' name='Function for v_TKa'> <math xmlns='http://www.w3.org/1998/Math/MathML'> <lambda> <bvar> <ci> PG3 </ci> </bvar> <bvar> <ci> Rib5 </ci> </bvar> <bvar> <ci> S7P </ci> </bvar> <bvar> <ci> TKa_Keq </ci> </bvar> <bvar> <ci> TKa_Vmax </ci> </bvar> <bvar> <ci> Xyl5 </ci> </bvar> <apply> <times/> <ci> TKa_Vmax </ci> <apply> <minus/> <apply> <times/> <ci> Rib5 </ci> <ci> Xyl5 </ci> </apply> <apply> <divide/> <apply> <times/> <ci> S7P </ci> <ci> PG3 </ci> </apply> <ci> TKa_Keq </ci> </apply> </apply> </apply> </lambda> </math> </functionDefinition> </listOfFunctionDefinitions> <listOfCompartments> <compartment constant='true' id='default' name='default' size='1' spatialDimensions='0'/> </listOfCompartments> <listOfSpecies> <species boundaryCondition='false' compartment='default' constant='false' hasOnlySubstanceUnits='false' id='ACT_ex' initialConcentration='4.41171563e-020' name='ACT_ex'/> <species boundaryCondition='false' compartment='default' constant='false' hasOnlySubstanceUnits='false' id='ACoA' initialConcentration='4.70001728' name='ACoA'/> <species boundaryCondition='false' compartment='default' constant='false' hasOnlySubstanceUnits='false' id='AKG' initialConcentration='0.00726754307' name='AKG'/> <species boundaryCondition='false' compartment='default' constant='false' hasOnlySubstanceUnits='false' id='AcAld' initialConcentration='60.7619995' name='AcAld'/> <species boundaryCondition='false' compartment='default' constant='false' hasOnlySubstanceUnits='false' id='CraFBP' initialConcentration='0.00710065667' name='CraFBP'/> <species boundaryCondition='false' compartment='default' constant='false' hasOnlySubstanceUnits='false' id='CrpcAMP' initialConcentration='0.00202615063' name='CrpcAMP'/> <species boundaryCondition='false' compartment='default' constant='false' hasOnlySubstanceUnits='false' id='E4P' initialConcentration='2.13073785' name='E4P'/> <species boundaryCondition='false' compartment='default' constant='false' hasOnlySubstanceUnits='false' id='EIIA' initialConcentration='0.0939545839' name='EIIA'/> <species boundaryCondition='false' compartment='default' constant='false' hasOnlySubstanceUnits='false' id='EIIA_P' initialConcentration='0.0060454161' name='EIIA_P'/> <species boundaryCondition='false' compartment='default' constant='false' hasOnlySubstanceUnits='false' id='ETH' initialConcentration='3.84983883e-020' name='ETH'/> <species boundaryCondition='false' compartment='default' constant='false' hasOnlySubstanceUnits='false' id='FBP' initialConcentration='8.32853641' name='FBP'/> <species boundaryCondition='false' compartment='default' constant='false' hasOnlySubstanceUnits='false' id='FOR' initialConcentration='7.55387574e-020' name='FOR'/> <species boundaryCondition='false' compartment='default' constant='false' hasOnlySubstanceUnits='false' id='G6P' initialConcentration='2.91761046' name='G6P'/> <species boundaryCondition='false' compartment='default' constant='false' hasOnlySubstanceUnits='false' id='GLC_ex' initialConcentration='10' name='GLC_ex'/> <species boundaryCondition='false' compartment='default' constant='false' hasOnlySubstanceUnits='false' id='GLCin' initialConcentration='0.00125019263' name='GLCin'/> <species boundaryCondition='false' compartment='default' constant='false' hasOnlySubstanceUnits='false' id='GLX' initialConcentration='2.07001687e-006' name='GLX'/> <species boundaryCondition='false' compartment='default' constant='false' hasOnlySubstanceUnits='false' id='ICT' initialConcentration='0.00135758827' name='ICT'/> <species boundaryCondition='false' compartment='default' constant='false' hasOnlySubstanceUnits='false' id='LAC' initialConcentration='2.62515096e-021' name='LAC'/> <species boundaryCondition='false' compartment='default' constant='false' hasOnlySubstanceUnits='false' id='MAL' initialConcentration='6.40435745' name='MAL'/> <species boundaryCondition='false' compartment='default' constant='false' hasOnlySubstanceUnits='false' id='NADH' initialConcentration='5.19361024' name='NADH'/> <species boundaryCondition='false' compartment='default' constant='false' hasOnlySubstanceUnits='false' id='OAA' initialConcentration='0.0162480847' name='OAA'/> <species boundaryCondition='false' compartment='default' constant='false' hasOnlySubstanceUnits='false' id='OD' initialConcentration='0.03' name='OD'/> <species boundaryCondition='false' compartment='default' constant='false' hasOnlySubstanceUnits='false' id='PEP' initialConcentration='0.299818019' name='PEP'/> <species boundaryCondition='false' compartment='default' constant='false' hasOnlySubstanceUnits='false' id='PG3' initialConcentration='9.61305771' name='PG3'/> <species boundaryCondition='false' compartment='default' constant='false' hasOnlySubstanceUnits='false' id='PG6' initialConcentration='0.896449518' name='PG6'/> <species boundaryCondition='false' compartment='default' constant='false' hasOnlySubstanceUnits='false' id='PYR' initialConcentration='1.09523254' name='PYR'/> <species boundaryCondition='false' compartment='default' constant='false' hasOnlySubstanceUnits='false' id='PdhRPYR' initialConcentration='0.00634056037' name='PdhRPYR'/> <species boundaryCondition='false' compartment='default' constant='false' hasOnlySubstanceUnits='false' id='Q' initialConcentration='0.155436748' name='Q'/> <species boundaryCondition='false' compartment='default' constant='false' hasOnlySubstanceUnits='false' id='QH2' initialConcentration='1.98975228' name='QH2'/> <species boundaryCondition='false' compartment='default' constant='false' hasOnlySubstanceUnits='false' id='Rib5' initialConcentration='3.75050913' name='Rib5'/> <species boundaryCondition='false' compartment='default' constant='false' hasOnlySubstanceUnits='false' id='Ribu5' initialConcentration='0.944205944' name='Ribu5'/> <species boundaryCondition='false' compartment='default' constant='false' hasOnlySubstanceUnits='false' id='S7P' initialConcentration='0.616060896' name='S7P'/> <species boundaryCondition='false' compartment='default' constant='false' hasOnlySubstanceUnits='false' id='SUC' initialConcentration='19.8809191' name='SUC'/> <species boundaryCondition='false' compartment='default' constant='false' hasOnlySubstanceUnits='false' id='SUC_ex' initialConcentration='1.10353343e-020' name='SUC_ex'/> <species boundaryCondition='false' compartment='default' constant='false' hasOnlySubstanceUnits='false' id='Xyl5' initialConcentration='1.31636167' name='Xyl5'/> <species boundaryCondition='false' compartment='default' constant='false' hasOnlySubstanceUnits='false' id='cAMP' initialConcentration='0.344501653' name='cAMP'/> </listOfSpecies> <listOfParameters> <parameter constant='true' id='ATP' name='ATP' value='7.5709'/> <parameter constant='true' id='Acs_Kact' name='Acs_Kact' value='0.001'/> <parameter constant='true' id='Acs_Vmax' name='Acs_Vmax' value='0.7294'/> <parameter constant='true' id='CS_Kacoa' name='CS_Kacoa' value='0.212'/> <parameter constant='true' id='CS_Kakg' name='CS_Kakg' value='0.63'/> <parameter constant='true' id='CS_Koaa' name='CS_Koaa' value='0.029'/> <parameter constant='true' id='CS_Koaaacoa' name='CS_Koaaacoa' value='0.029'/> <parameter constant='true' id='CS_Vmax' name='CS_Vmax' value='2.1154'/> <parameter constant='true' id='CoA' name='CoA' value='0.8865'/> <parameter constant='false' id='Cra' name='Cra' value='0.00018934333'/> <parameter constant='true' id='Cra_total' name='Cra_total' value='0.00729'/> <parameter constant='false' id='Crp' name='Crp' value='0.00526384937'/> <parameter constant='true' id='Crp_total' name='Crp_total' value='0.00729'/> <parameter constant='true' id='Cya_KEIIA' name='Cya_KEIIA' value='0.0017'/> <parameter constant='true' id='Cya_Vmax' name='Cya_Vmax' value='0.993'/> <parameter constant='true' id='Emp_Kfbp' name='Emp_Kfbp' value='5.92'/> <parameter constant='true' id='Emp_Kpg3' name='Emp_Kpg3' value='16.6'/> <parameter constant='true' id='Emp_Vmax_f' name='Emp_Vmax_f' value='10.194683'/> <parameter constant='true' id='Emp_Vmax_r' name='Emp_Vmax_r' value='10.194683'/> <parameter constant='true' id='Eno_Kpep' name='Eno_Kpep' value='1.11'/> <parameter constant='true' id='Eno_Kpg3' name='Eno_Kpg3' value='4.76'/> <parameter constant='true' id='Eno_Vmax_f' name='Eno_Vmax_f' value='10.194683'/> <parameter constant='true' id='Eno_Vmax_r' name='Eno_Vmax_r' value='10.194683'/> <parameter constant='true' id='Fdp_Kfbp' name='Fdp_Kfbp' value='0.003'/> <parameter constant='true' id='Fdp_Kpep' name='Fdp_Kpep' value='0.3'/> <parameter constant='true' id='Fdp_L' name='Fdp_L' value='4000000'/> <parameter constant='true' id='Fdp_Vmax' name='Fdp_Vmax' value='0.114'/> <parameter constant='true' id='Fdp_n' name='Fdp_n' value='4'/> <parameter constant='true' id='G6PDH_Kg6p' name='G6PDH_Kg6p' value='25.5319'/> <parameter constant='true' id='G6PDH_Knadp' name='G6PDH_Knadp' value='0.0436'/> <parameter constant='true' id='G6PDH_Knadph_g6pinh' name='G6PDH_Knadph_g6pinh' value='11.4007'/> <parameter constant='true' id='G6PDH_Knadph_nadphinh' name='G6PDH_Knadph_nadphinh' value='0.0177'/> <parameter constant='true' id='G6PDH_Vmax' name='G6PDH_Vmax' value='2.4472'/> <parameter constant='true' id='Glk_KI' name='Glk_KI' value='0.1'/> <parameter constant='true' id='Glk_Ks' name='Glk_Ks' value='16'/> <parameter constant='true' id='Glk_Vmax' name='Glk_Vmax' value='5.556'/> <parameter constant='true' id='ICDH_Kict' name='ICDH_Kict' value='0.00016'/> <parameter constant='true' id='ICDH_Kpep' name='ICDH_Kpep' value='0.334'/> <parameter constant='true' id='ICDH_L' name='ICDH_L' value='127'/> <parameter constant='true' id='ICDH_Vmax' name='ICDH_Vmax' value='7.8873'/> <parameter constant='true' id='ICDH_n' name='ICDH_n' value='2'/> <parameter constant='true' id='Icl_Kakg' name='Icl_Kakg' value='0.827'/> <parameter constant='true' id='Icl_Kict' name='Icl_Kict' value='0.0022'/> <parameter constant='true' id='Icl_Kpep' name='Icl_Kpep' value='0.055'/> <parameter constant='true' id='Icl_Kpg3' name='Icl_Kpg3' value='0.72'/> <parameter constant='true' id='Icl_L' name='Icl_L' value='5.01'/> <parameter constant='true' id='Icl_Vmax' name='Icl_Vmax' value='1.2324'/> <parameter constant='true' id='Icl_n' name='Icl_n' value='4'/> <parameter constant='true' id='KGMAL_Kakg' name='KGMAL_Kakg' value='0.548'/> <parameter constant='true' id='KGMAL_Vmax' name='KGMAL_Vmax' value='1.1832'/> <parameter constant='true' id='K_A_ArcA_Q' name='K_A_ArcA_Q' value='0.5'/> <parameter constant='true' id='K_A_FNR_O2' name='K_A_FNR_O2' value='5e-006'/> <parameter constant='true' id='K_Cra' name='K_Cra' value='0.015'/> <parameter constant='true' id='K_CrpcAMP' name='K_CrpcAMP' value='0.0012'/> <parameter constant='true' id='K_IclR' name='K_IclR' value='0.003'/> <parameter constant='true' id='K_PdhR' name='K_PdhR' value='0.001'/> <parameter constant='true' id='K_mal_MDH' name='K_mal_MDH' value='29.8'/> <parameter constant='true' id='K_nad_MDH' name='K_nad_MDH' value='29.8851'/> <parameter constant='true' id='K_nadh_MDH' name='K_nadh_MDH' value='7.0115'/> <parameter constant='true' id='K_oaa_MDH' name='K_oaa_MDH' value='0.56322'/> <parameter constant='true' id='Kacald_ADH' name='Kacald_ADH' value='0.0532'/> <parameter constant='true' id='Kacald_ALDH' name='Kacald_ALDH' value='17.7305'/> <parameter constant='true' id='Kacoa_ALDH' name='Kacoa_ALDH' value='0.0124'/> <parameter constant='true' id='Kacoa_Pfl' name='Kacoa_Pfl' value='5.8621'/> <parameter constant='true' id='Kcoa_ALDH' name='Kcoa_ALDH' value='0.0142'/> <parameter constant='true' id='Kcoa_Pfl' name='Kcoa_Pfl' value='0.7816'/> <parameter constant='true' id='Keq_ADH' name='Keq_ADH' value='21906'/> <parameter constant='true' id='Keq_ALDH' name='Keq_ALDH' value='27.73'/> <parameter constant='true' id='Keth_ADH' name='Keth_ADH' value='0.00071065'/> <parameter constant='true' id='Kfor_Pfl' name='Kfor_Pfl' value='1.1276'/> <parameter constant='true' id='Kfum_FRD' name='Kfum_FRD' value='0.5747'/> <parameter constant='true' id='Kfum_SDH' name='Kfum_SDH' value='0.5747'/> <parameter constant='true' id='Km_Cyd_O2' name='Km_Cyd_O2' value='2.4e-005'/> <parameter constant='true' id='Km_Cyd_QH2' name='Km_Cyd_QH2' value='10'/> <parameter constant='true' id='Km_Cyo_O2' name='Km_Cyo_O2' value='0.0002'/> <parameter constant='true' id='Km_Cyo_QH2' name='Km_Cyo_QH2' value='25'/> <parameter constant='true' id='Km_NADH_LDH' name='Km_NADH_LDH' value='0.9'/> <parameter constant='true' id='Km_Ndh_Q' name='Km_Ndh_Q' value='0.34'/> <parameter constant='true' id='Km_Ndh_e2H2' name='Km_Ndh_e2H2' value='20'/> <parameter constant='true' id='Km_Nuo_Q' name='Km_Nuo_Q' value='0.34'/> <parameter constant='true' id='Km_Nuo_e2H2' name='Km_Nuo_e2H2' value='20'/> <parameter constant='true' id='Km_PYR_LDH' name='Km_PYR_LDH' value='26.7'/> <parameter constant='true' id='Knad_ADH' name='Knad_ADH' value='0.1418'/> <parameter constant='true' id='Knad_ALDH' name='Knad_ALDH' value='0.1418'/> <parameter constant='true' id='Knadh_ADH' name='Knadh_ADH' value='2.1'/> <parameter constant='true' id='Knadh_ALDH' name='Knadh_ALDH' value='0.443'/> <parameter constant='true' id='Kpyr_Pfl' name='Kpyr_Pfl' value='4.5'/> <parameter constant='true' id='Ksuc_SDH' name='Ksuc_SDH' value='0.2299'/> <parameter constant='true' id='MS_Kacoa' name='MS_Kacoa' value='0.755'/> <parameter constant='true' id='MS_Kglx' name='MS_Kglx' value='0.95'/> <parameter constant='true' id='MS_Kglxacoa' name='MS_Kglxacoa' value='0.719'/> <parameter constant='true' id='MS_Vmax' name='MS_Vmax' value='2.1444'/> <parameter constant='true' id='Mez_Kacoa' name='Mez_Kacoa' value='3.64'/> <parameter constant='true' id='Mez_Kcamp' name='Mez_Kcamp' value='6.54'/> <parameter constant='true' id='Mez_Kmal' name='Mez_Kmal' value='0.00624'/> <parameter constant='true' id='Mez_L' name='Mez_L' value='104000'/> <parameter constant='true' id='Mez_Vmax' name='Mez_Vmax' value='0.70745'/> <parameter constant='true' id='Mez_n' name='Mez_n' value='1.33'/> <parameter constant='true' id='Mw_ACT' name='Mw_ACT' value='60.05'/> <parameter constant='true' id='Mw_ETH' name='Mw_ETH' value='46.07'/> <parameter constant='true' id='Mw_FOR' name='Mw_FOR' value='46.025'/> <parameter constant='true' id='Mw_GLC' name='Mw_GLC' value='180.156'/> <parameter constant='true' id='Mw_LAC' name='Mw_LAC' value='90.08'/> <parameter constant='true' id='Mw_SUC' name='Mw_SUC' value='118.09'/> <parameter constant='false' id='NAD' name='NAD' value='7.70638976'/> <parameter constant='true' id='NADH_NAD_total' name='NADH_NAD_total' value='12.9'/> <parameter constant='true' id='NADP' name='NADP' value='0.3457'/> <parameter constant='true' id='NADPH' name='NADPH' value='0.1099'/> <parameter constant='true' id='NPTS_Ki' name='NPTS_Ki' value='5e-006'/> <parameter constant='true' id='NPTS_Ks' name='NPTS_Ks' value='0.01'/> <parameter constant='true' id='NPTS_Vmax' name='NPTS_Vmax' value='0.167'/> <parameter constant='true' id='O2' name='O2' value='0.0021'/> <parameter constant='false' id='OP_NADH' name='OP_NADH' value='0'/> <parameter constant='true' id='PDH_Kglx' name='PDH_Kglx' value='0.218'/> <parameter constant='true' id='PDH_Kpyr' name='PDH_Kpyr' value='0.128'/> <parameter constant='true' id='PDH_KpyrI' name='PDH_KpyrI' value='0.231'/> <parameter constant='true' id='PDH_L' name='PDH_L' value='3.4'/> <parameter constant='true' id='PDH_Vmax' name='PDH_Vmax' value='5.6667'/> <parameter constant='true' id='PDH_n' name='PDH_n' value='2.65'/> <parameter constant='true' id='PGDH_K6pg' name='PGDH_K6pg' value='66.4894'/> <parameter constant='true' id='PGDH_Katpinh' name='PGDH_Katpinh' value='368.7943'/> <parameter constant='true' id='PGDH_Knadp' name='PGDH_Knadp' value='0.0897'/> <parameter constant='true' id='PGDH_Knadphinh' name='PGDH_Knadphinh' value='0.0245'/> <parameter constant='true' id='PGDH_Vmax' name='PGDH_Vmax' value='28.7808'/> <parameter constant='true' id='PTACK_Kacoa' name='PTACK_Kacoa' value='0.022'/> <parameter constant='true' id='PTACK_Kpyr' name='PTACK_Kpyr' value='0.022'/> <parameter constant='true' id='PTACK_L' name='PTACK_L' value='639000'/> <parameter constant='true' id='PTACK_Vmax' name='PTACK_Vmax' value='2.2'/> <parameter constant='true' id='PTACK_n' name='PTACK_n' value='2'/> <parameter constant='true' id='PTS1_k1' name='PTS1_k1' value='116'/> <parameter constant='true' id='PTS1_km1' name='PTS1_km1' value='46.3'/> <parameter constant='true' id='PTS4_KEIIA' name='PTS4_KEIIA' value='0.0085'/> <parameter constant='true' id='PTS4_Kglc' name='PTS4_Kglc' value='0.0012'/> <parameter constant='true' id='PTS4_Vmax' name='PTS4_Vmax' value='4.3766'/> <parameter constant='true' id='Pck_Koaa' name='Pck_Koaa' value='0.184'/> <parameter constant='true' id='Pck_Kpep' name='Pck_Kpep' value='1000'/> <parameter constant='true' id='Pck_Vmax' name='Pck_Vmax' value='0.0872'/> <parameter constant='false' id='PdhR' name='PdhR' value='0.000949439630000001'/> <parameter constant='true' id='PdhR_total' name='PdhR_total' value='0.00729'/> <parameter constant='true' id='Pfk_Kg6p' name='Pfk_Kg6p' value='0.022'/> <parameter constant='true' id='Pfk_Kpep' name='Pfk_Kpep' value='0.138'/> <parameter constant='true' id='Pfk_L' name='Pfk_L' value='95000000'/> <parameter constant='true' id='Pfk_Vmax' name='Pfk_Vmax' value='92.510592'/> <parameter constant='true' id='Pfk_n' name='Pfk_n' value='4'/> <parameter constant='true' id='Ppc_Kfbp' name='Ppc_Kfbp' value='0.408'/> <parameter constant='true' id='Ppc_Kpep' name='Ppc_Kpep' value='0.048'/> <parameter constant='true' id='Ppc_L' name='Ppc_L' value='5200000'/> <parameter constant='true' id='Ppc_Vmax' name='Ppc_Vmax' value='1'/> <parameter constant='true' id='Ppc_n' name='Ppc_n' value='3'/> <parameter constant='true' id='Pps_Kpep' name='Pps_Kpep' value='0.001'/> <parameter constant='true' id='Pps_Kpyr' name='Pps_Kpyr' value='0.00177'/> <parameter constant='true' id='Pps_L' name='Pps_L' value='1e-079'/> <parameter constant='true' id='Pps_Vmax' name='Pps_Vmax' value='0.0041'/> <parameter constant='true' id='Pps_n' name='Pps_n' value='2'/> <parameter constant='true' id='Pyk_Kfbp' name='Pyk_Kfbp' value='0.413'/> <parameter constant='true' id='Pyk_Kpep' name='Pyk_Kpep' value='5'/> <parameter constant='true' id='Pyk_L' name='Pyk_L' value='100000'/> <parameter constant='true' id='Pyk_Vmax' name='Pyk_Vmax' value='49.501994'/> <parameter constant='true' id='Pyk_n' name='Pyk_n' value='4'/> <parameter constant='true' id='R5PI_Keq' name='R5PI_Keq' value='4'/> <parameter constant='true' id='R5PI_Vmax' name='R5PI_Vmax' value='8.5787'/> <parameter constant='true' id='Ru5P_Keq' name='Ru5P_Keq' value='1.4'/> <parameter constant='true' id='Ru5P_Vmax' name='Ru5P_Vmax' value='11.9486'/> <parameter constant='true' id='SUC_trans_Km_suc' name='SUC_trans_Km_suc' value='16'/> <parameter constant='true' id='SUC_trans_Vmax' name='SUC_trans_Vmax' value='0.5'/> <parameter constant='true' id='TA_Keq' name='TA_Keq' value='1.05'/> <parameter constant='true' id='TA_Vmax' name='TA_Vmax' value='19.276'/> <parameter constant='false' id='TF_ArcA' name='TF_ArcA' value='0.997104928136151'/> <parameter constant='false' id='TF_Cra' name='TF_Cra' value='0.0124655375737037'/> <parameter constant='true' id='TF_CraFBP_Kfbp' name='TF_CraFBP_Kfbp' value='1.36'/> <parameter constant='true' id='TF_CraFBP_n' name='TF_CraFBP_n' value='2'/> <parameter constant='true' id='TF_CraFBP_scale' name='TF_CraFBP_scale' value='100'/> <parameter constant='false' id='TF_CrpcAMP' name='TF_CrpcAMP' value='0.628039686417246'/> <parameter constant='false' id='TF_Fnr' name='TF_Fnr' value='0.987099475346047'/> <parameter constant='false' id='TF_IclR' name='TF_IclR' value='0.764484246066118'/> <parameter constant='false' id='TF_PdhR' name='TF_PdhR' value='0.487032075981753'/> <parameter constant='true' id='TF_PdhRPYR_Kpyr' name='TF_PdhRPYR_Kpyr' value='0.164'/> <parameter constant='true' id='TF_PdhRPYR_n' name='TF_PdhRPYR_n' value='1'/> <parameter constant='true' id='TF_PdhRPYR_scale' name='TF_PdhRPYR_scale' value='100'/> <parameter constant='true' id='TF_cAMPCrp_Kcamp' name='TF_cAMPCrp_Kcamp' value='0.895'/> <parameter constant='true' id='TF_cAMPCrp_n' name='TF_cAMPCrp_n' value='1'/> <parameter constant='true' id='TF_cAMPCrp_scale' name='TF_cAMPCrp_scale' value='100000000'/> <parameter constant='true' id='TKa_Keq' name='TKa_Keq' value='1.2'/> <parameter constant='true' id='TKa_Vmax' name='TKa_Vmax' value='16.7968'/> <parameter constant='true' id='TKb_Keq' name='TKb_Keq' value='10'/> <parameter constant='true' id='TKb_Vmax' name='TKb_Vmax' value='153.4726'/> <parameter constant='true' id='Vmax_ADH' name='Vmax_ADH' value='57.97'/> <parameter constant='true' id='Vmax_ALDH' name='Vmax_ALDH' value='63.9'/> <parameter constant='true' id='Vmax_LDH' name='Vmax_LDH' value='51.7'/> <parameter constant='true' id='Vmaxf_MDH' name='Vmaxf_MDH' value='12.677'/> <parameter constant='true' id='Vmaxf_Pfl' name='Vmaxf_Pfl' value='14.7'/> <parameter constant='true' id='Vmaxf_SDH' name='Vmaxf_SDH' value='1.8101'/> <parameter constant='true' id='Vmaxr_MDH' name='Vmaxr_MDH' value='54.3318'/> <parameter constant='true' id='Vmaxr_Pfl' name='Vmaxr_Pfl' value='3.4'/> <parameter constant='true' id='Vmaxr_SDH' name='Vmaxr_SDH' value='2.5'/> <parameter constant='true' id='b_Bio_ACoA' name='b_Bio_ACoA' value='0.035'/> <parameter constant='true' id='b_Bio_AKG' name='b_Bio_AKG' value='0.002'/> <parameter constant='true' id='b_Bio_E4P' name='b_Bio_E4P' value='0.002'/> <parameter constant='true' id='b_Bio_G6P' name='b_Bio_G6P' value='0.002'/> <parameter constant='true' id='b_Bio_OAA' name='b_Bio_OAA' value='0.002'/> <parameter constant='true' id='b_Bio_PEP' name='b_Bio_PEP' value='0.002'/> <parameter constant='true' id='b_Bio_PG3' name='b_Bio_PG3' value='0.002'/> <parameter constant='true' id='b_Bio_PYR' name='b_Bio_PYR' value='0.002'/> <parameter constant='true' id='b_Bio_R5P' name='b_Bio_R5P' value='0.002'/> <parameter constant='true' id='cAMPdegr_KcAMP' name='cAMPdegr_KcAMP' value='0.1'/> <parameter constant='true' id='cAMPdegr_Vmax' name='cAMPdegr_Vmax' value='1'/> <parameter constant='true' id='k_ATP' name='k_ATP' value='1e-005'/> <parameter constant='true' id='k_Bio_ACoA' name='k_Bio_ACoA' value='135.36'/> <parameter constant='true' id='k_Bio_AKG' name='k_Bio_AKG' value='7041.6'/> <parameter constant='true' id='k_Bio_E4P' name='k_Bio_E4P' value='72'/> <parameter constant='true' id='k_Bio_G6P' name='k_Bio_G6P' value='554.4'/> <parameter constant='true' id='k_Bio_OAA' name='k_Bio_OAA' value='46080'/> <parameter constant='true' id='k_Bio_PEP' name='k_Bio_PEP' value='3045.6'/> <parameter constant='true' id='k_Bio_PG3' name='k_Bio_PG3' value='352.8'/> <parameter constant='true' id='k_Bio_PYR' name='k_Bio_PYR' value='39.816'/> <parameter constant='true' id='k_Bio_R5P' name='k_Bio_R5P' value='72'/> <parameter constant='true' id='k_O2' name='k_O2' value='0.001'/> <parameter constant='false' id='mu' name='mu' value='0'/> <parameter constant='true' id='n_ArcA' name='n_ArcA' value='-5'/> <parameter constant='true' id='n_FNR' name='n_FNR' value='-5'/> <parameter constant='true' id='n_IclR' name='n_IclR' value='-3'/> <parameter constant='true' id='n_NADH_LDH' name='n_NADH_LDH' value='3'/> <parameter constant='true' id='n_PYR_LDH' name='n_PYR_LDH' value='2'/> <parameter constant='true' id='p_syn_QH2' name='p_syn_QH2' value='2.16'/> <parameter constant='true' id='uc' name='uc' value='9.5e-007'/> <parameter constant='false' id='v_ATP' name='v_ATP' value='0'/> <parameter constant='true' id='v_Cyd_max' name='v_Cyd_max' value='31.5582'/> <parameter constant='true' id='v_Cyo_max' name='v_Cyo_max' value='800'/> <parameter constant='true' id='v_Ndh_max' name='v_Ndh_max' value='11.1111'/> <parameter constant='true' id='v_Nuo_max' name='v_Nuo_max' value='708.3333'/> </listOfParameters> <listOfRules> <assignmentRule variable='Cra'> <math xmlns='http://www.w3.org/1998/Math/MathML'> <apply> <minus/> <ci> Cra_total </ci> <ci> CraFBP </ci> </apply> </math> </assignmentRule> <assignmentRule variable='Crp'> <math xmlns='http://www.w3.org/1998/Math/MathML'> <apply> <minus/> <ci> Crp_total </ci> <ci> CrpcAMP </ci> </apply> </math> </assignmentRule> <assignmentRule variable='TF_CrpcAMP'> <math xmlns='http://www.w3.org/1998/Math/MathML'> <apply> <divide/> <ci> CrpcAMP </ci> <apply> <plus/> <ci> CrpcAMP </ci> <ci> K_CrpcAMP </ci> </apply> </apply> </math> </assignmentRule> <assignmentRule variable='TF_Fnr'> <math xmlns='http://www.w3.org/1998/Math/MathML'> <apply> <divide/> <apply> <power/> <apply> <times/> <ci> k_O2 </ci> <ci> O2 </ci> </apply> <ci> n_FNR </ci> </apply> <apply> <plus/> <apply> <power/> <ci> K_A_FNR_O2 </ci> <ci> n_FNR </ci> </apply> <apply> <power/> <apply> <times/> <ci> k_O2 </ci> <ci> O2 </ci> </apply> <ci> n_FNR </ci> </apply> </apply> </apply> </math> </assignmentRule> <assignmentRule variable='TF_Cra'> <math xmlns='http://www.w3.org/1998/Math/MathML'> <apply> <divide/> <ci> Cra </ci> <apply> <plus/> <ci> Cra </ci> <ci> K_Cra </ci> </apply> </apply> </math> </assignmentRule> <assignmentRule variable='TF_IclR'> <math xmlns='http://www.w3.org/1998/Math/MathML'> <apply> <divide/> <apply> <power/> <ci> CrpcAMP </ci> <ci> n_IclR </ci> </apply> <apply> <plus/> <apply> <power/> <ci> K_IclR </ci> <ci> n_IclR </ci> </apply> <apply> <power/> <ci> CrpcAMP </ci> <ci> n_IclR </ci> </apply> </apply> </apply> </math> </assignmentRule> <assignmentRule variable='TF_ArcA'> <math xmlns='http://www.w3.org/1998/Math/MathML'> <apply> <divide/> <apply> <power/> <ci> Q </ci> <ci> n_ArcA </ci> </apply> <apply> <plus/> <apply> <power/> <ci> K_A_ArcA_Q </ci> <ci> n_ArcA </ci> </apply> <apply> <power/> <ci> Q </ci> <ci> n_ArcA </ci> </apply> </apply> </apply> </math> </assignmentRule> <assignmentRule variable='PdhR'> <math xmlns='http://www.w3.org/1998/Math/MathML'> <apply> <minus/> <ci> PdhR_total </ci> <ci> PdhRPYR </ci> </apply> </math> </assignmentRule> <assignmentRule variable='TF_PdhR'> <math xmlns='http://www.w3.org/1998/Math/MathML'> <apply> <divide/> <ci> PdhR </ci> <apply> <plus/> <ci> PdhR </ci> <ci> K_PdhR </ci> </apply> </apply> </math> </assignmentRule> <assignmentRule variable='NAD'> <math xmlns='http://www.w3.org/1998/Math/MathML'> <apply> <minus/> <ci> NADH_NAD_total </ci> <ci> NADH </ci> </apply> </math> </assignmentRule> <assignmentRule variable='OP_NADH'> <math xmlns='http://www.w3.org/1998/Math/MathML'> <apply> <divide/> <apply> <plus/> <apply> <times/> <cn> 4 </cn> <ci> v_Nuo </ci> </apply> <apply> <times/> <cn> 4 </cn> <ci> v_Cyo </ci> </apply> <apply> <times/> <cn> 2 </cn> <ci> v_Cyd </ci> </apply> </apply> <cn> 3 </cn> </apply> </math> </assignmentRule> <assignmentRule variable='v_ATP'> <math xmlns='http://www.w3.org/1998/Math/MathML'> <apply> <minus/> <apply> <minus/> <apply> <minus/> <apply> <minus/> <apply> <plus/> <ci> OP_NADH </ci> <ci> v_Emp2 </ci> <ci> v_Pyk </ci> <ci> v_PTACK </ci> <ci> v_KGMAL </ci> </apply> <ci> v_Pfk </ci> </apply> <ci> v_Pck </ci> </apply> <ci> v_Acs </ci> </apply> <ci> v_Glk </ci> </apply> </math> </assignmentRule> <assignmentRule variable='mu'> <math xmlns='http://www.w3.org/1998/Math/MathML'> <apply> <times/> <ci> k_ATP </ci> <ci> v_ATP </ci> </apply> </math> </assignmentRule> </listOfRules> <listOfReactions> <reaction id='v_ACT_excretion' name='v_ACT_excretion' reversible='true'> <listOfProducts> <speciesReference species='ACT_ex' stoichiometry='1'/> </listOfProducts> <listOfModifiers> <modifierSpeciesReference species='ACoA'/> <modifierSpeciesReference species='PYR'/> <modifierSpeciesReference species='OD'/> </listOfModifiers> <kineticLaw> <math xmlns='http://www.w3.org/1998/Math/MathML'> <apply> <ci> Function_for_v_ACT_excretion </ci> <ci> ACoA </ci> <ci> Mw_ACT </ci> <ci> OD </ci> <ci> PTACK_Kacoa </ci> <ci> PTACK_Kpyr </ci> <ci> PTACK_L </ci> <ci> PTACK_Vmax </ci> <ci> PTACK_n </ci> <ci> PYR </ci> <ci> uc </ci> </apply> </math> </kineticLaw> </reaction> <reaction id='v_ACT_uptake' name='v_ACT_uptake' reversible='true'> <listOfReactants> <speciesReference species='ACT_ex' stoichiometry='1'/> </listOfReactants> <listOfModifiers> <modifierSpeciesReference species='OD'/> </listOfModifiers> <kineticLaw> <math xmlns='http://www.w3.org/1998/Math/MathML'> <apply> <ci> Function_for_v_ACT_uptake </ci> <ci> ACT_ex </ci> <ci> Acs_Kact </ci> <ci> Acs_Vmax </ci> <ci> Mw_ACT </ci> <ci> OD </ci> <ci> TF_ArcA </ci> <ci> TF_CrpcAMP </ci> <ci> TF_Fnr </ci> <ci> uc </ci> </apply> </math> </kineticLaw> </reaction> <reaction id='v_ADH' name='v_ADH' reversible='true'> <listOfReactants> <speciesReference species='NADH' stoichiometry='1'/> <speciesReference species='AcAld' stoichiometry='1'/> </listOfReactants> <listOfModifiers> <modifierSpeciesReference species='ETH'/> </listOfModifiers> <kineticLaw> <math xmlns='http://www.w3.org/1998/Math/MathML'> <apply> <ci> Function_for_v_ADH </ci> <ci> AcAld </ci> <ci> ETH </ci> <ci> Kacald_ADH </ci> <ci> Keq_ADH </ci> <ci> Keth_ADH </ci> <ci> Knad_ADH </ci> <ci> Knadh_ADH </ci> <ci> NAD </ci> <ci> NADH </ci> <ci> Vmax_ADH </ci> </apply> </math> </kineticLaw> </reaction> <reaction id='v_ALDH' name='v_ALDH' reversible='true'> <listOfReactants> <speciesReference species='NADH' stoichiometry='1'/> <speciesReference species='ACoA' stoichiometry='1'/> </listOfReactants> <listOfProducts> <speciesReference species='AcAld' stoichiometry='1'/> </listOfProducts> <kineticLaw> <math xmlns='http://www.w3.org/1998/Math/MathML'> <apply> <ci> Function_for_v_ALDH </ci> <ci> ACoA </ci> <ci> AcAld </ci> <ci> CoA </ci> <ci> Kacald_ALDH </ci> <ci> Kacoa_ALDH </ci> <ci> Kcoa_ALDH </ci> <ci> Keq_ALDH </ci> <ci> Knad_ALDH </ci> <ci> Knadh_ALDH </ci> <ci> NAD </ci> <ci> NADH </ci> <ci> Vmax_ALDH </ci> </apply> </math> </kineticLaw> </reaction> <reaction id='v_Acs' name='v_Acs' reversible='true'> <listOfProducts> <speciesReference species='ACoA' stoichiometry='1'/> </listOfProducts> <listOfModifiers> <modifierSpeciesReference species='ACT_ex'/> </listOfModifiers> <kineticLaw> <math xmlns='http://www.w3.org/1998/Math/MathML'> <apply> <ci> Function_for_v_Acs </ci> <ci> ACT_ex </ci> <ci> Acs_Kact </ci> <ci> Acs_Vmax </ci> <ci> TF_ArcA </ci> <ci> TF_CrpcAMP </ci> <ci> TF_Fnr </ci> </apply> </math> </kineticLaw> </reaction> <reaction id='v_Bio_ACoA' name='v_Bio_ACoA' reversible='true'> <listOfReactants> <speciesReference species='ACoA' stoichiometry='1'/> </listOfReactants> <kineticLaw> <math xmlns='http://www.w3.org/1998/Math/MathML'> <apply> <ci> Function_for_v_Bio_ACoA </ci> <ci> ACoA </ci> <ci> b_Bio_ACoA </ci> <ci> k_Bio_ACoA </ci> <ci> mu </ci> </apply> </math> </kineticLaw> </reaction> <reaction id='v_Bio_AKG' name='v_Bio_AKG' reversible='true'> <listOfReactants> <speciesReference species='AKG' stoichiometry='1'/> </listOfReactants> <kineticLaw> <math xmlns='http://www.w3.org/1998/Math/MathML'> <apply> <ci> Function_for_v_Bio_AKG </ci> <ci> AKG </ci> <ci> b_Bio_AKG </ci> <ci> k_Bio_AKG </ci> <ci> mu </ci> </apply> </math> </kineticLaw> </reaction> <reaction id='v_Bio_E4P' name='v_Bio_E4P' reversible='true'> <listOfReactants> <speciesReference species='E4P' stoichiometry='1'/> </listOfReactants> <kineticLaw> <math xmlns='http://www.w3.org/1998/Math/MathML'> <apply> <ci> Function_for_v_Bio_E4P </ci> <ci> E4P </ci> <ci> b_Bio_E4P </ci> <ci> k_Bio_E4P </ci> <ci> mu </ci> </apply> </math> </kineticLaw> </reaction> <reaction id='v_Bio_G6P' name='v_Bio_G6P' reversible='true'> <listOfReactants> <speciesReference species='G6P' stoichiometry='1'/> </listOfReactants> <kineticLaw> <math xmlns='http://www.w3.org/1998/Math/MathML'> <apply> <ci> Function_for_v_Bio_G6P </ci> <ci> G6P </ci> <ci> b_Bio_G6P </ci> <ci> k_Bio_G6P </ci> <ci> mu </ci> </apply> </math> </kineticLaw> </reaction> <reaction id='v_Bio_OAA' name='v_Bio_OAA' reversible='true'> <listOfReactants> <speciesReference species='OAA' stoichiometry='1'/> </listOfReactants> <kineticLaw> <math xmlns='http://www.w3.org/1998/Math/MathML'> <apply> <ci> Function_for_v_Bio_OAA </ci> <ci> OAA </ci> <ci> b_Bio_OAA </ci> <ci> k_Bio_OAA </ci> <ci> mu </ci> </apply> </math> </kineticLaw> </reaction> <reaction id='v_Bio_PEP' name='v_Bio_PEP' reversible='true'> <listOfReactants> <speciesReference species='PEP' stoichiometry='1'/> </listOfReactants> <kineticLaw> <math xmlns='http://www.w3.org/1998/Math/MathML'> <apply> <ci> Function_for_v_Bio_PEP </ci> <ci> PEP </ci> <ci> b_Bio_PEP </ci> <ci> k_Bio_PEP </ci> <ci> mu </ci> </apply> </math> </kineticLaw> </reaction> <reaction id='v_Bio_PG3' name='v_Bio_PG3' reversible='true'> <listOfReactants> <speciesReference species='PG3' stoichiometry='1'/> </listOfReactants> <kineticLaw> <math xmlns='http://www.w3.org/1998/Math/MathML'> <apply> <ci> Function_for_v_Bio_PG3 </ci> <ci> PG3 </ci> <ci> b_Bio_PG3 </ci> <ci> k_Bio_PG3 </ci> <ci> mu </ci> </apply> </math> </kineticLaw> </reaction> <reaction id='v_Bio_PYR' name='v_Bio_PYR' reversible='true'> <listOfReactants> <speciesReference species='PYR' stoichiometry='1'/> </listOfReactants> <kineticLaw> <math xmlns='http://www.w3.org/1998/Math/MathML'> <apply> <ci> Function_for_v_Bio_PYR </ci> <ci> PYR </ci> <ci> b_Bio_PYR </ci> <ci> k_Bio_PYR </ci> <ci> mu </ci> </apply> </math> </kineticLaw> </reaction> <reaction id='v_Bio_R5P' name='v_Bio_R5P' reversible='true'> <listOfReactants> <speciesReference species='Rib5' stoichiometry='1'/> </listOfReactants> <kineticLaw> <math xmlns='http://www.w3.org/1998/Math/MathML'> <apply> <ci> Function_for_v_Bio_R5P </ci> <ci> Rib5 </ci> <ci> b_Bio_R5P </ci> <ci> k_Bio_R5P </ci> <ci> mu </ci> </apply> </math> </kineticLaw> </reaction> <reaction id='v_CS' name='v_CS' reversible='true'> <listOfReactants> <speciesReference species='OAA' stoichiometry='1'/> <speciesReference species='ACoA' stoichiometry='1'/> </listOfReactants> <listOfProducts> <speciesReference species='ICT' stoichiometry='1'/> </listOfProducts> <listOfModifiers> <modifierSpeciesReference species='AKG'/> </listOfModifiers> <kineticLaw> <math xmlns='http://www.w3.org/1998/Math/MathML'> <apply> <ci> Function_for_v_CS </ci> <ci> ACoA </ci> <ci> AKG </ci> <ci> CS_Kacoa </ci> <ci> CS_Kakg </ci> <ci> CS_Koaa </ci> <ci> CS_Koaaacoa </ci> <ci> CS_Vmax </ci> <ci> OAA </ci> <ci> TF_ArcA </ci> <ci> TF_CrpcAMP </ci> </apply> </math> </kineticLaw> </reaction> <reaction id='v_Cya' name='v_Cya' reversible='true'> <listOfProducts> <speciesReference species='cAMP' stoichiometry='1'/> </listOfProducts> <listOfModifiers> <modifierSpeciesReference species='EIIA_P'/> </listOfModifiers> <kineticLaw> <math xmlns='http://www.w3.org/1998/Math/MathML'> <apply> <ci> Function_for_v_Cya </ci> <ci> Cya_KEIIA </ci> <ci> Cya_Vmax </ci> <ci> EIIA_P </ci> </apply> </math> </kineticLaw> </reaction> <reaction id='v_Cyd' name='v_Cyd' reversible='true'> <listOfReactants> <speciesReference species='QH2' stoichiometry='1'/> </listOfReactants> <listOfProducts> <speciesReference species='Q' stoichiometry='1'/> </listOfProducts> <kineticLaw> <math xmlns='http://www.w3.org/1998/Math/MathML'> <apply> <ci> Function_for_v_Cyd </ci> <ci> Km_Cyd_O2 </ci> <ci> Km_Cyd_QH2 </ci> <ci> O2 </ci> <ci> QH2 </ci> <ci> TF_ArcA </ci> <ci> TF_Fnr </ci> <ci> k_O2 </ci> <ci> v_Cyd_max </ci> </apply> </math> </kineticLaw> </reaction> <reaction id='v_Cyo' name='v_Cyo' reversible='true'> <listOfReactants> <speciesReference species='QH2' stoichiometry='1'/> </listOfReactants> <listOfProducts> <speciesReference species='Q' stoichiometry='1'/> </listOfProducts> <kineticLaw> <math xmlns='http://www.w3.org/1998/Math/MathML'> <apply> <ci> Function_for_v_Cyo </ci> <ci> Km_Cyo_O2 </ci> <ci> Km_Cyo_QH2 </ci> <ci> O2 </ci> <ci> QH2 </ci> <ci> TF_ArcA </ci> <ci> TF_Fnr </ci> <ci> k_O2 </ci> <ci> v_Cyo_max </ci> </apply> </math> </kineticLaw> </reaction> <reaction id='v_D_ACoA' name='v_D_ACoA' reversible='true'> <listOfReactants> <speciesReference species='ACoA' stoichiometry='1'/> </listOfReactants> <kineticLaw> <math xmlns='http://www.w3.org/1998/Math/MathML'> <apply> <ci> Function_for_v_D_ACoA </ci> <ci> ACoA </ci> <ci> mu </ci> </apply> </math> </kineticLaw> </reaction> <reaction id='v_D_AKG' name='v_D_AKG' reversible='true'> <listOfReactants> <speciesReference species='AKG' stoichiometry='1'/> </listOfReactants> <kineticLaw> <math xmlns='http://www.w3.org/1998/Math/MathML'> <apply> <ci> Function_for_v_D_AKG </ci> <ci> AKG </ci> <ci> mu </ci> </apply> </math> </kineticLaw> </reaction> <reaction id='v_D_AcAld' name='v_D_AcAld' reversible='true'> <listOfReactants> <speciesReference species='AcAld' stoichiometry='1'/> </listOfReactants> <kineticLaw> <math xmlns='http://www.w3.org/1998/Math/MathML'> <apply> <ci> Function_for_v_D_AcAld </ci> <ci> AcAld </ci> <ci> mu </ci> </apply> </math> </kineticLaw> </reaction> <reaction id='v_D_CraFBP' name='v_D_CraFBP' reversible='true'> <listOfReactants> <speciesReference species='CraFBP' stoichiometry='1'/> </listOfReactants> <kineticLaw> <math xmlns='http://www.w3.org/1998/Math/MathML'> <apply> <ci> Function_for_v_D_CraFBP </ci> <ci> CraFBP </ci> <ci> mu </ci> </apply> </math> </kineticLaw> </reaction> <reaction id='v_D_CrpcAMP' name='v_D_CrpcAMP' reversible='true'> <listOfReactants> <speciesReference species='CrpcAMP' stoichiometry='1'/> </listOfReactants> <kineticLaw> <math xmlns='http://www.w3.org/1998/Math/MathML'> <apply> <ci> Function_for_v_D_CrpcAMP </ci> <ci> CrpcAMP </ci> <ci> mu </ci> </apply> </math> </kineticLaw> </reaction> <reaction id='v_D_E4P' name='v_D_E4P' reversible='true'> <listOfReactants> <speciesReference species='E4P' stoichiometry='1'/> </listOfReactants> <kineticLaw> <math xmlns='http://www.w3.org/1998/Math/MathML'> <apply> <ci> Function_for_v_D_E4P </ci> <ci> E4P </ci> <ci> mu </ci> </apply> </math> </kineticLaw> </reaction> <reaction id='v_D_FBP' name='v_D_FBP' reversible='true'> <listOfReactants> <speciesReference species='FBP' stoichiometry='1'/> </listOfReactants> <kineticLaw> <math xmlns='http://www.w3.org/1998/Math/MathML'> <apply> <ci> Function_for_v_D_FBP </ci> <ci> FBP </ci> <ci> mu </ci> </apply> </math> </kineticLaw> </reaction> <reaction id='v_D_G6P' name='v_D_G6P' reversible='true'> <listOfReactants> <speciesReference species='G6P' stoichiometry='1'/> </listOfReactants> <kineticLaw> <math xmlns='http://www.w3.org/1998/Math/MathML'> <apply> <ci> Function_for_v_D_G6P </ci> <ci> G6P </ci> <ci> mu </ci> </apply> </math> </kineticLaw> </reaction> <reaction id='v_D_GLCin' name='v_D_GLCin' reversible='true'> <listOfReactants> <speciesReference species='GLCin' stoichiometry='1'/> </listOfReactants> <kineticLaw> <math xmlns='http://www.w3.org/1998/Math/MathML'> <apply> <ci> Function_for_v_D_GLCin </ci> <ci> GLCin </ci> <ci> mu </ci> </apply> </math> </kineticLaw> </reaction> <reaction id='v_D_GLX' name='v_D_GLX' reversible='true'> <listOfReactants> <speciesReference species='GLX' stoichiometry='1'/> </listOfReactants> <kineticLaw> <math xmlns='http://www.w3.org/1998/Math/MathML'> <apply> <ci> Function_for_v_D_GLX </ci> <ci> GLX </ci> <ci> mu </ci> </apply> </math> </kineticLaw> </reaction> <reaction id='v_D_ICT' name='v_D_ICT' reversible='true'> <listOfReactants> <speciesReference species='ICT' stoichiometry='1'/> </listOfReactants> <kineticLaw> <math xmlns='http://www.w3.org/1998/Math/MathML'> <apply> <ci> Function_for_v_D_ICT </ci> <ci> ICT </ci> <ci> mu </ci> </apply> </math> </kineticLaw> </reaction> <reaction id='v_D_MAL' name='v_D_MAL' reversible='true'> <listOfReactants> <speciesReference species='MAL' stoichiometry='1'/> </listOfReactants> <kineticLaw> <math xmlns='http://www.w3.org/1998/Math/MathML'> <apply> <ci> Function_for_v_D_MAL </ci> <ci> MAL </ci> <ci> mu </ci> </apply> </math> </kineticLaw> </reaction> <reaction id='v_D_NADH' name='v_D_NADH' reversible='true'> <listOfReactants> <speciesReference species='NADH' stoichiometry='1'/> </listOfReactants> <kineticLaw> <math xmlns='http://www.w3.org/1998/Math/MathML'> <apply> <ci> Function_for_v_D_NADH </ci> <ci> NADH </ci> <ci> mu </ci> </apply> </math> </kineticLaw> </reaction> <reaction id='v_D_OAA' name='v_D_OAA' reversible='true'> <listOfReactants> <speciesReference species='OAA' stoichiometry='1'/> </listOfReactants> <kineticLaw> <math xmlns='http://www.w3.org/1998/Math/MathML'> <apply> <ci> Function_for_v_D_OAA </ci> <ci> OAA </ci> <ci> mu </ci> </apply> </math> </kineticLaw> </reaction> <reaction id='v_D_PEP' name='v_D_PEP' reversible='true'> <listOfReactants> <speciesReference species='PEP' stoichiometry='1'/> </listOfReactants> <kineticLaw> <math xmlns='http://www.w3.org/1998/Math/MathML'> <apply> <ci> Function_for_v_D_PEP </ci> <ci> PEP </ci> <ci> mu </ci> </apply> </math> </kineticLaw> </reaction> <reaction id='v_D_PG3' name='v_D_PG3' reversible='true'> <listOfReactants> <speciesReference species='PG3' stoichiometry='1'/> </listOfReactants> <kineticLaw> <math xmlns='http://www.w3.org/1998/Math/MathML'> <apply> <ci> Function_for_v_D_PG3 </ci> <ci> PG3 </ci> <ci> mu </ci> </apply> </math> </kineticLaw> </reaction> <reaction id='v_D_PG6' name='v_D_PG6' reversible='true'> <listOfReactants> <speciesReference species='PG6' stoichiometry='1'/> </listOfReactants> <kineticLaw> <math xmlns='http://www.w3.org/1998/Math/MathML'> <apply> <ci> Function_for_v_D_PG6 </ci> <ci> PG6 </ci> <ci> mu </ci> </apply> </math> </kineticLaw> </reaction> <reaction id='v_D_PYR' name='v_D_PYR' reversible='true'> <listOfReactants> <speciesReference species='PYR' stoichiometry='1'/> </listOfReactants> <kineticLaw> <math xmlns='http://www.w3.org/1998/Math/MathML'> <apply> <ci> Function_for_v_D_PYR </ci> <ci> PYR </ci> <ci> mu </ci> </apply> </math> </kineticLaw> </reaction> <reaction id='v_D_PdhRPYR' name='v_D_PdhRPYR' reversible='true'> <listOfReactants> <speciesReference species='PdhRPYR' stoichiometry='1'/> </listOfReactants> <kineticLaw> <math xmlns='http://www.w3.org/1998/Math/MathML'> <apply> <ci> Function_for_v_D_PdhRPYR </ci> <ci> PdhRPYR </ci> <ci> mu </ci> </apply> </math> </kineticLaw> </reaction> <reaction id='v_D_Q' name='v_D_Q' reversible='true'> <listOfReactants> <speciesReference species='Q' stoichiometry='1'/> </listOfReactants> <kineticLaw> <math xmlns='http://www.w3.org/1998/Math/MathML'> <apply> <ci> Function_for_v_D_Q </ci> <ci> Q </ci> <ci> mu </ci> </apply> </math> </kineticLaw> </reaction> <reaction id='v_D_QH2' name='v_D_QH2' reversible='true'> <listOfReactants> <speciesReference species='QH2' stoichiometry='1'/> </listOfReactants> <kineticLaw> <math xmlns='http://www.w3.org/1998/Math/MathML'> <apply> <ci> Function_for_v_D_QH2 </ci> <ci> QH2 </ci> <ci> mu </ci> </apply> </math> </kineticLaw> </reaction> <reaction id='v_D_Rib5' name='v_D_Rib5' reversible='true'> <listOfReactants> <speciesReference species='Rib5' stoichiometry='1'/> </listOfReactants> <kineticLaw> <math xmlns='http://www.w3.org/1998/Math/MathML'> <apply> <ci> Function_for_v_D_Rib5 </ci> <ci> Rib5 </ci> <ci> mu </ci> </apply> </math> </kineticLaw> </reaction> <reaction id='v_D_Ribu5' name='v_D_Ribu5' reversible='true'> <listOfReactants> <speciesReference species='Ribu5' stoichiometry='1'/> </listOfReactants> <kineticLaw> <math xmlns='http://www.w3.org/1998/Math/MathML'> <apply> <ci> Function_for_v_D_Ribu5 </ci> <ci> Ribu5 </ci> <ci> mu </ci> </apply> </math> </kineticLaw> </reaction> <reaction id='v_D_S7P' name='v_D_S7P' reversible='true'> <listOfReactants> <speciesReference species='S7P' stoichiometry='1'/> </listOfReactants> <kineticLaw> <math xmlns='http://www.w3.org/1998/Math/MathML'> <apply> <ci> Function_for_v_D_S7P </ci> <ci> S7P </ci> <ci> mu </ci> </apply> </math> </kineticLaw> </reaction> <reaction id='v_D_SUC' name='v_D_SUC' reversible='true'> <listOfReactants> <speciesReference species='SUC' stoichiometry='1'/> </listOfReactants> <kineticLaw> <math xmlns='http://www.w3.org/1998/Math/MathML'> <apply> <ci> Function_for_v_D_SUC </ci> <ci> SUC </ci> <ci> mu </ci> </apply> </math> </kineticLaw> </reaction> <reaction id='v_D_Xyl5' name='v_D_Xyl5' reversible='true'> <listOfReactants> <speciesReference species='Xyl5' stoichiometry='1'/> </listOfReactants> <kineticLaw> <math xmlns='http://www.w3.org/1998/Math/MathML'> <apply> <ci> Function_for_v_D_Xyl5 </ci> <ci> Xyl5 </ci> <ci> mu </ci> </apply> </math> </kineticLaw> </reaction> <reaction id='v_D_cAMP' name='v_D_cAMP' reversible='true'> <listOfReactants> <speciesReference species='cAMP' stoichiometry='1'/> </listOfReactants> <kineticLaw> <math xmlns='http://www.w3.org/1998/Math/MathML'> <apply> <ci> Function_for_v_D_cAMP </ci> <ci> cAMP </ci> <ci> mu </ci> </apply> </math> </kineticLaw> </reaction> <reaction id='v_ETH_excretion' name='v_ETH_excretion' reversible='true'> <listOfProducts> <speciesReference species='ETH' stoichiometry='1'/> </listOfProducts> <listOfModifiers> <modifierSpeciesReference species='AcAld'/> <modifierSpeciesReference species='OD'/> <modifierSpeciesReference species='NADH'/> </listOfModifiers> <kineticLaw> <math xmlns='http://www.w3.org/1998/Math/MathML'> <apply> <ci> Function_for_v_ETH_excretion </ci> <ci> AcAld </ci> <ci> ETH </ci> <ci> Kacald_ADH </ci> <ci> Keq_ADH </ci> <ci> Keth_ADH </ci> <ci> Knad_ADH </ci> <ci> Knadh_ADH </ci> <ci> Mw_ETH </ci> <ci> NAD </ci> <ci> NADH </ci> <ci> OD </ci> <ci> Vmax_ADH </ci> <ci> uc </ci> </apply> </math> </kineticLaw> </reaction> <reaction id='v_Emp1' name='v_Emp1' reversible='true'> <listOfReactants> <speciesReference species='FBP' stoichiometry='1'/> </listOfReactants> <listOfProducts> <speciesReference species='PG3' stoichiometry='2'/> </listOfProducts> <kineticLaw> <math xmlns='http://www.w3.org/1998/Math/MathML'> <apply> <ci> Function_for_v_Emp1 </ci> <ci> Emp_Kfbp </ci> <ci> Emp_Kpg3 </ci> <ci> Emp_Vmax_f </ci> <ci> Emp_Vmax_r </ci> <ci> FBP </ci> <ci> PG3 </ci> <ci> TF_Cra </ci> </apply> </math> </kineticLaw> </reaction> <reaction id='v_Emp2' name='v_Emp2' reversible='true'> <listOfReactants> <speciesReference species='PG3' stoichiometry='1'/> </listOfReactants> <listOfProducts> <speciesReference species='NADH' stoichiometry='1'/> <speciesReference species='PEP' stoichiometry='1'/> </listOfProducts> <kineticLaw> <math xmlns='http://www.w3.org/1998/Math/MathML'> <apply> <ci> Function_for_v_Emp2 </ci> <ci> Eno_Kpep </ci> <ci> Eno_Kpg3 </ci> <ci> Eno_Vmax_f </ci> <ci> Eno_Vmax_r </ci> <ci> PEP </ci> <ci> PG3 </ci> <ci> TF_Cra </ci> </apply> </math> </kineticLaw> </reaction> <reaction id='v_FOR_excretion' name='v_FOR_excretion' reversible='true'> <listOfProducts> <speciesReference species='FOR' stoichiometry='1'/> </listOfProducts> <listOfModifiers> <modifierSpeciesReference species='ACoA'/> <modifierSpeciesReference species='PYR'/> <modifierSpeciesReference species='OD'/> </listOfModifiers> <kineticLaw> <math xmlns='http://www.w3.org/1998/Math/MathML'> <apply> <ci> Function_for_v_FOR_excretion </ci> <ci> ACoA </ci> <ci> CoA </ci> <ci> FOR </ci> <ci> Kacoa_Pfl </ci> <ci> Kcoa_Pfl </ci> <ci> Kfor_Pfl </ci> <ci> Kpyr_Pfl </ci> <ci> Mw_FOR </ci> <ci> OD </ci> <ci> PYR </ci> <ci> TF_ArcA </ci> <ci> TF_Fnr </ci> <ci> Vmaxf_Pfl </ci> <ci> Vmaxr_Pfl </ci> <ci> uc </ci> </apply> </math> </kineticLaw> </reaction> <reaction id='v_FRD' name='v_FRD' reversible='true'> <listOfReactants> <speciesReference species='MAL' stoichiometry='1'/> </listOfReactants> <listOfProducts> <speciesReference species='SUC' stoichiometry='1'/> </listOfProducts> <kineticLaw> <math xmlns='http://www.w3.org/1998/Math/MathML'> <apply> <ci> Function_for_v_FRD </ci> <ci> Kfum_FRD </ci> <ci> Ksuc_SDH </ci> <ci> MAL </ci> <ci> SUC </ci> <ci> TF_Fnr </ci> <ci> Vmaxr_SDH </ci> </apply> </math> </kineticLaw> </reaction> <reaction id='v_Fdp' name='v_Fdp' reversible='true'> <listOfReactants> <speciesReference species='FBP' stoichiometry='1'/> </listOfReactants> <listOfProducts> <speciesReference species='G6P' stoichiometry='1'/> </listOfProducts> <listOfModifiers> <modifierSpeciesReference species='PEP'/> </listOfModifiers> <kineticLaw> <math xmlns='http://www.w3.org/1998/Math/MathML'> <apply> <ci> Function_for_v_Fdp </ci> <ci> FBP </ci> <ci> Fdp_Kfbp </ci> <ci> Fdp_Kpep </ci> <ci> Fdp_L </ci> <ci> Fdp_Vmax </ci> <ci> Fdp_n </ci> <ci> PEP </ci> <ci> TF_Cra </ci> </apply> </math> </kineticLaw> </reaction> <reaction id='v_G6PDH' name='v_G6PDH' reversible='true'> <listOfReactants> <speciesReference species='G6P' stoichiometry='1'/> </listOfReactants> <listOfProducts> <speciesReference species='PG6' stoichiometry='1'/> </listOfProducts> <kineticLaw> <math xmlns='http://www.w3.org/1998/Math/MathML'> <apply> <ci> Function_for_v_G6PDH </ci> <ci> G6P </ci> <ci> G6PDH_Kg6p </ci> <ci> G6PDH_Knadp </ci> <ci> G6PDH_Knadph_g6pinh </ci> <ci> G6PDH_Knadph_nadphinh </ci> <ci> G6PDH_Vmax </ci> <ci> NADP </ci> <ci> NADPH </ci> <ci> TF_Cra </ci> <ci> mu </ci> </apply> </math> </kineticLaw> </reaction> <reaction id='v_GLC_uptake' name='v_GLC_uptake' reversible='true'> <listOfReactants> <speciesReference species='GLC_ex' stoichiometry='1'/> </listOfReactants> <listOfModifiers> <modifierSpeciesReference species='EIIA'/> <modifierSpeciesReference species='EIIA_P'/> <modifierSpeciesReference species='OD'/> </listOfModifiers> <kineticLaw> <math xmlns='http://www.w3.org/1998/Math/MathML'> <apply> <ci> Function_for_v_GLC_uptake </ci> <ci> EIIA </ci> <ci> EIIA_P </ci> <ci> GLC_ex </ci> <ci> Mw_GLC </ci> <ci> NPTS_Ki </ci> <ci> NPTS_Ks </ci> <ci> NPTS_Vmax </ci> <ci> OD </ci> <ci> PTS4_KEIIA </ci> <ci> PTS4_Kglc </ci> <ci> PTS4_Vmax </ci> <ci> TF_CrpcAMP </ci> <ci> uc </ci> </apply> </math> </kineticLaw> </reaction> <reaction id='v_Glk' name='v_Glk' reversible='true'> <listOfReactants> <speciesReference species='GLCin' stoichiometry='1'/> </listOfReactants> <listOfProducts> <speciesReference species='G6P' stoichiometry='1'/> </listOfProducts> <kineticLaw> <math xmlns='http://www.w3.org/1998/Math/MathML'> <apply> <ci> Function_for_v_Glk </ci> <ci> G6P </ci> <ci> GLCin </ci> <ci> Glk_KI </ci> <ci> Glk_Ks </ci> <ci> Glk_Vmax </ci> </apply> </math> </kineticLaw> </reaction> <reaction id='v_Growth' name='v_Growth' reversible='true'> <listOfProducts> <speciesReference species='OD' stoichiometry='1'/> </listOfProducts> <kineticLaw> <math xmlns='http://www.w3.org/1998/Math/MathML'> <apply> <ci> Function_for_v_Growth </ci> <ci> OD </ci> <ci> mu </ci> </apply> </math> </kineticLaw> </reaction> <reaction id='v_ICDH' name='v_ICDH' reversible='true'> <listOfReactants> <speciesReference species='ICT' stoichiometry='1'/> </listOfReactants> <listOfProducts> <speciesReference species='AKG' stoichiometry='1'/> </listOfProducts> <listOfModifiers> <modifierSpeciesReference species='PEP'/> </listOfModifiers> <kineticLaw> <math xmlns='http://www.w3.org/1998/Math/MathML'> <apply> <ci> Function_for_v_ICDH </ci> <ci> ICDH_Kict </ci> <ci> ICDH_Kpep </ci> <ci> ICDH_L </ci> <ci> ICDH_Vmax </ci> <ci> ICDH_n </ci> <ci> ICT </ci> <ci> PEP </ci> <ci> TF_ArcA </ci> <ci> TF_Cra </ci> </apply> </math> </kineticLaw> </reaction> <reaction id='v_Icl' name='v_Icl' reversible='true'> <listOfReactants> <speciesReference species='ICT' stoichiometry='1'/> </listOfReactants> <listOfProducts> <speciesReference species='GLX' stoichiometry='1'/> <speciesReference species='SUC' stoichiometry='1'/> </listOfProducts> <listOfModifiers> <modifierSpeciesReference species='AKG'/> <modifierSpeciesReference species='PG3'/> <modifierSpeciesReference species='PEP'/> </listOfModifiers> <kineticLaw> <math xmlns='http://www.w3.org/1998/Math/MathML'> <apply> <ci> Function_for_v_Icl </ci> <ci> AKG </ci> <ci> ICT </ci> <ci> Icl_Kakg </ci> <ci> Icl_Kict </ci> <ci> Icl_Kpep </ci> <ci> Icl_Kpg3 </ci> <ci> Icl_L </ci> <ci> Icl_Vmax </ci> <ci> Icl_n </ci> <ci> PEP </ci> <ci> PG3 </ci> <ci> TF_Cra </ci> <ci> TF_IclR </ci> </apply> </math> </kineticLaw> </reaction> <reaction id='v_KGMAL' name='v_KGMAL' reversible='true'> <listOfReactants> <speciesReference species='AKG' stoichiometry='1'/> </listOfReactants> <listOfProducts> <speciesReference species='NADH' stoichiometry='1'/> <speciesReference species='SUC' stoichiometry='1'/> </listOfProducts> <kineticLaw> <math xmlns='http://www.w3.org/1998/Math/MathML'> <apply> <ci> Function_for_v_KGMAL </ci> <ci> AKG </ci> <ci> KGMAL_Kakg </ci> <ci> KGMAL_Vmax </ci> <ci> TF_ArcA </ci> <ci> TF_CrpcAMP </ci> <ci> TF_Fnr </ci> </apply> </math> </kineticLaw> </reaction> <reaction id='v_LAC_excretion' name='v_LAC_excretion' reversible='true'> <listOfProducts> <speciesReference species='LAC' stoichiometry='1'/> </listOfProducts> <listOfModifiers> <modifierSpeciesReference species='PYR'/> <modifierSpeciesReference species='NADH'/> <modifierSpeciesReference species='OD'/> </listOfModifiers> <kineticLaw> <math xmlns='http://www.w3.org/1998/Math/MathML'> <apply> <ci> Function_for_v_LAC_excretion </ci> <ci> Km_NADH_LDH </ci> <ci> Km_PYR_LDH </ci> <ci> Mw_LAC </ci> <ci> NADH </ci> <ci> OD </ci> <ci> PYR </ci> <ci> Vmax_LDH </ci> <ci> n_NADH_LDH </ci> <ci> n_PYR_LDH </ci> <ci> uc </ci> </apply> </math> </kineticLaw> </reaction> <reaction id='v_LDH' name='v_LDH' reversible='true'> <listOfReactants> <speciesReference species='NADH' stoichiometry='1'/> <speciesReference species='PYR' stoichiometry='1'/> </listOfReactants> <kineticLaw> <math xmlns='http://www.w3.org/1998/Math/MathML'> <apply> <ci> Function_for_v_LDH </ci> <ci> Km_NADH_LDH </ci> <ci> Km_PYR_LDH </ci> <ci> NADH </ci> <ci> PYR </ci> <ci> Vmax_LDH </ci> <ci> n_NADH_LDH </ci> <ci> n_PYR_LDH </ci> </apply> </math> </kineticLaw> </reaction> <reaction id='v_MDH' name='v_MDH' reversible='true'> <listOfReactants> <speciesReference species='MAL' stoichiometry='1'/> </listOfReactants> <listOfProducts> <speciesReference species='NADH' stoichiometry='1'/> <speciesReference species='OAA' stoichiometry='1'/> </listOfProducts> <kineticLaw> <math xmlns='http://www.w3.org/1998/Math/MathML'> <apply> <ci> Function_for_v_MDH </ci> <ci> K_mal_MDH </ci> <ci> K_nad_MDH </ci> <ci> K_nadh_MDH </ci> <ci> K_oaa_MDH </ci> <ci> MAL </ci> <ci> NAD </ci> <ci> NADH </ci> <ci> OAA </ci> <ci> TF_CrpcAMP </ci> <ci> Vmaxf_MDH </ci> <ci> Vmaxr_MDH </ci> </apply> </math> </kineticLaw> </reaction> <reaction id='v_MS' name='v_MS' reversible='true'> <listOfReactants> <speciesReference species='ACoA' stoichiometry='1'/> <speciesReference species='GLX' stoichiometry='1'/> </listOfReactants> <listOfProducts> <speciesReference species='MAL' stoichiometry='1'/> </listOfProducts> <kineticLaw> <math xmlns='http://www.w3.org/1998/Math/MathML'> <apply> <ci> Function_for_v_MS </ci> <ci> ACoA </ci> <ci> GLX </ci> <ci> MS_Kacoa </ci> <ci> MS_Kglx </ci> <ci> MS_Kglxacoa </ci> <ci> MS_Vmax </ci> <ci> TF_Cra </ci> <ci> TF_IclR </ci> </apply> </math> </kineticLaw> </reaction> <reaction id='v_Mez' name='v_Mez' reversible='true'> <listOfReactants> <speciesReference species='MAL' stoichiometry='1'/> </listOfReactants> <listOfProducts> <speciesReference species='PYR' stoichiometry='1'/> </listOfProducts> <listOfModifiers> <modifierSpeciesReference species='cAMP'/> <modifierSpeciesReference species='ACoA'/> </listOfModifiers> <kineticLaw> <math xmlns='http://www.w3.org/1998/Math/MathML'> <apply> <ci> Function_for_v_Mez </ci> <ci> ACoA </ci> <ci> MAL </ci> <ci> Mez_Kacoa </ci> <ci> Mez_Kcamp </ci> <ci> Mez_Kmal </ci> <ci> Mez_L </ci> <ci> Mez_Vmax </ci> <ci> Mez_n </ci> <ci> cAMP </ci> </apply> </math> </kineticLaw> </reaction> <reaction id='v_NPTS' name='v_NPTS' reversible='true'> <listOfProducts> <speciesReference species='GLCin' stoichiometry='1'/> </listOfProducts> <listOfModifiers> <modifierSpeciesReference species='GLC_ex'/> <modifierSpeciesReference species='EIIA'/> </listOfModifiers> <kineticLaw> <math xmlns='http://www.w3.org/1998/Math/MathML'> <apply> <ci> Function_for_v_NPTS </ci> <ci> EIIA </ci> <ci> GLC_ex </ci> <ci> NPTS_Ki </ci> <ci> NPTS_Ks </ci> <ci> NPTS_Vmax </ci> <ci> TF_CrpcAMP </ci> </apply> </math> </kineticLaw> </reaction> <reaction id='v_Ndh' name='v_Ndh' reversible='true'> <listOfReactants> <speciesReference species='NADH' stoichiometry='1'/> <speciesReference species='Q' stoichiometry='1'/> </listOfReactants> <listOfProducts> <speciesReference species='QH2' stoichiometry='1'/> </listOfProducts> <kineticLaw> <math xmlns='http://www.w3.org/1998/Math/MathML'> <apply> <ci> Function_for_v_Ndh </ci> <ci> Km_Ndh_Q </ci> <ci> Km_Ndh_e2H2 </ci> <ci> NADH </ci> <ci> Q </ci> <ci> TF_Fnr </ci> <ci> v_Ndh_max </ci> </apply> </math> </kineticLaw> </reaction> <reaction id='v_Nuo' name='v_Nuo' reversible='true'> <listOfReactants> <speciesReference species='NADH' stoichiometry='1'/> <speciesReference species='Q' stoichiometry='1'/> </listOfReactants> <listOfProducts> <speciesReference species='QH2' stoichiometry='1'/> </listOfProducts> <kineticLaw> <math xmlns='http://www.w3.org/1998/Math/MathML'> <apply> <ci> Function_for_v_Nuo </ci> <ci> Km_Nuo_Q </ci> <ci> Km_Nuo_e2H2 </ci> <ci> NADH </ci> <ci> Q </ci> <ci> TF_ArcA </ci> <ci> TF_Fnr </ci> <ci> v_Nuo_max </ci> </apply> </math> </kineticLaw> </reaction> <reaction id='v_PDH' name='v_PDH' reversible='true'> <listOfReactants> <speciesReference species='PYR' stoichiometry='1'/> </listOfReactants> <listOfProducts> <speciesReference species='NADH' stoichiometry='1'/> <speciesReference species='ACoA' stoichiometry='1'/> </listOfProducts> <listOfModifiers> <modifierSpeciesReference species='GLX'/> </listOfModifiers> <kineticLaw> <math xmlns='http://www.w3.org/1998/Math/MathML'> <apply> <ci> Function_for_v_PDH </ci> <ci> GLX </ci> <ci> PDH_Kglx </ci> <ci> PDH_Kpyr </ci> <ci> PDH_KpyrI </ci> <ci> PDH_L </ci> <ci> PDH_Vmax </ci> <ci> PDH_n </ci> <ci> PYR </ci> <ci> TF_ArcA </ci> <ci> TF_PdhR </ci> </apply> </math> </kineticLaw> </reaction> <reaction id='v_PGDH' name='v_PGDH' reversible='true'> <listOfReactants> <speciesReference species='PG6' stoichiometry='1'/> </listOfReactants> <listOfProducts> <speciesReference species='Ribu5' stoichiometry='1'/> </listOfProducts> <kineticLaw> <math xmlns='http://www.w3.org/1998/Math/MathML'> <apply> <ci> Function_for_v_PGDH </ci> <ci> ATP </ci> <ci> NADP </ci> <ci> NADPH </ci> <ci> PG6 </ci> <ci> PGDH_K6pg </ci> <ci> PGDH_Katpinh </ci> <ci> PGDH_Knadp </ci> <ci> PGDH_Knadphinh </ci> <ci> PGDH_Vmax </ci> <ci> mu </ci> </apply> </math> </kineticLaw> </reaction> <reaction id='v_PTACK' name='v_PTACK' reversible='true'> <listOfReactants> <speciesReference species='ACoA' stoichiometry='1'/> </listOfReactants> <listOfModifiers> <modifierSpeciesReference species='PYR'/> </listOfModifiers> <kineticLaw> <math xmlns='http://www.w3.org/1998/Math/MathML'> <apply> <ci> Function_for_v_PTACK </ci> <ci> ACoA </ci> <ci> PTACK_Kacoa </ci> <ci> PTACK_Kpyr </ci> <ci> PTACK_L </ci> <ci> PTACK_Vmax </ci> <ci> PTACK_n </ci> <ci> PYR </ci> </apply> </math> </kineticLaw> </reaction> <reaction id='v_PTS1' name='v_PTS1' reversible='true'> <listOfReactants> <speciesReference species='PEP' stoichiometry='1'/> <speciesReference species='EIIA' stoichiometry='1'/> </listOfReactants> <listOfProducts> <speciesReference species='EIIA_P' stoichiometry='1'/> <speciesReference species='PYR' stoichiometry='1'/> </listOfProducts> <kineticLaw> <math xmlns='http://www.w3.org/1998/Math/MathML'> <apply> <minus/> <apply> <times/> <ci> PTS1_k1 </ci> <ci> PEP </ci> <ci> EIIA </ci> </apply> <apply> <times/> <ci> PTS1_km1 </ci> <ci> EIIA_P </ci> <ci> PYR </ci> </apply> </apply> </math> </kineticLaw> </reaction> <reaction id='v_PTS4' name='v_PTS4' reversible='true'> <listOfReactants> <speciesReference species='EIIA_P' stoichiometry='1'/> </listOfReactants> <listOfProducts> <speciesReference species='G6P' stoichiometry='1'/> <speciesReference species='EIIA' stoichiometry='1'/> </listOfProducts> <listOfModifiers> <modifierSpeciesReference species='GLC_ex'/> </listOfModifiers> <kineticLaw> <math xmlns='http://www.w3.org/1998/Math/MathML'> <apply> <ci> Function_for_v_PTS4 </ci> <ci> EIIA_P </ci> <ci> GLC_ex </ci> <ci> PTS4_KEIIA </ci> <ci> PTS4_Kglc </ci> <ci> PTS4_Vmax </ci> <ci> TF_CrpcAMP </ci> </apply> </math> </kineticLaw> </reaction> <reaction id='v_Pck' name='v_Pck' reversible='true'> <listOfReactants> <speciesReference species='OAA' stoichiometry='1'/> </listOfReactants> <listOfProducts> <speciesReference species='PEP' stoichiometry='1'/> </listOfProducts> <kineticLaw> <math xmlns='http://www.w3.org/1998/Math/MathML'> <apply> <ci> Function_for_v_Pck </ci> <ci> OAA </ci> <ci> PEP </ci> <ci> Pck_Koaa </ci> <ci> Pck_Kpep </ci> <ci> Pck_Vmax </ci> <ci> TF_Cra </ci> </apply> </math> </kineticLaw> </reaction> <reaction id='v_Pfk' name='v_Pfk' reversible='true'> <listOfReactants> <speciesReference species='G6P' stoichiometry='1'/> </listOfReactants> <listOfProducts> <speciesReference species='FBP' stoichiometry='1'/> </listOfProducts> <listOfModifiers> <modifierSpeciesReference species='PEP'/> </listOfModifiers> <kineticLaw> <math xmlns='http://www.w3.org/1998/Math/MathML'> <apply> <ci> Function_for_v_Pfk </ci> <ci> G6P </ci> <ci> PEP </ci> <ci> Pfk_Kg6p </ci> <ci> Pfk_Kpep </ci> <ci> Pfk_L </ci> <ci> Pfk_Vmax </ci> <ci> Pfk_n </ci> <ci> TF_Cra </ci> </apply> </math> </kineticLaw> </reaction> <reaction id='v_Pfl' name='v_Pfl' reversible='true'> <listOfReactants> <speciesReference species='PYR' stoichiometry='1'/> </listOfReactants> <listOfProducts> <speciesReference species='ACoA' stoichiometry='1'/> </listOfProducts> <listOfModifiers> <modifierSpeciesReference species='FOR'/> </listOfModifiers> <kineticLaw> <math xmlns='http://www.w3.org/1998/Math/MathML'> <apply> <ci> Function_for_v_Pfl </ci> <ci> ACoA </ci> <ci> CoA </ci> <ci> FOR </ci> <ci> Kacoa_Pfl </ci> <ci> Kcoa_Pfl </ci> <ci> Kfor_Pfl </ci> <ci> Kpyr_Pfl </ci> <ci> PYR </ci> <ci> TF_ArcA </ci> <ci> TF_Fnr </ci> <ci> Vmaxf_Pfl </ci> <ci> Vmaxr_Pfl </ci> </apply> </math> </kineticLaw> </reaction> <reaction id='v_Ppc' name='v_Ppc' reversible='true'> <listOfReactants> <speciesReference species='PEP' stoichiometry='1'/> </listOfReactants> <listOfProducts> <speciesReference species='OAA' stoichiometry='1'/> </listOfProducts> <listOfModifiers> <modifierSpeciesReference species='FBP'/> </listOfModifiers> <kineticLaw> <math xmlns='http://www.w3.org/1998/Math/MathML'> <apply> <ci> Function_for_v_Ppc </ci> <ci> FBP </ci> <ci> PEP </ci> <ci> Ppc_Kfbp </ci> <ci> Ppc_Kpep </ci> <ci> Ppc_L </ci> <ci> Ppc_Vmax </ci> <ci> Ppc_n </ci> </apply> </math> </kineticLaw> </reaction> <reaction id='v_Pps' name='v_Pps' reversible='true'> <listOfReactants> <speciesReference species='PYR' stoichiometry='1'/> </listOfReactants> <listOfProducts> <speciesReference species='PEP' stoichiometry='1'/> </listOfProducts> <kineticLaw> <math xmlns='http://www.w3.org/1998/Math/MathML'> <apply> <ci> Function_for_v_Pps </ci> <ci> PEP </ci> <ci> PYR </ci> <ci> Pps_Kpep </ci> <ci> Pps_Kpyr </ci> <ci> Pps_L </ci> <ci> Pps_Vmax </ci> <ci> Pps_n </ci> <ci> TF_Cra </ci> </apply> </math> </kineticLaw> </reaction> <reaction id='v_Pyk' name='v_Pyk' reversible='true'> <listOfReactants> <speciesReference species='PEP' stoichiometry='1'/> </listOfReactants> <listOfProducts> <speciesReference species='PYR' stoichiometry='1'/> </listOfProducts> <listOfModifiers> <modifierSpeciesReference species='FBP'/> </listOfModifiers> <kineticLaw> <math xmlns='http://www.w3.org/1998/Math/MathML'> <apply> <ci> Function_for_v_Pyk </ci> <ci> FBP </ci> <ci> PEP </ci> <ci> Pyk_Kfbp </ci> <ci> Pyk_Kpep </ci> <ci> Pyk_L </ci> <ci> Pyk_Vmax </ci> <ci> Pyk_n </ci> <ci> TF_Cra </ci> </apply> </math> </kineticLaw> </reaction> <reaction id='v_R5PI' name='v_R5PI' reversible='true'> <listOfReactants> <speciesReference species='Ribu5' stoichiometry='1'/> </listOfReactants> <listOfProducts> <speciesReference species='Rib5' stoichiometry='1'/> </listOfProducts> <kineticLaw> <math xmlns='http://www.w3.org/1998/Math/MathML'> <apply> <ci> Function_for_v_R5PI </ci> <ci> R5PI_Keq </ci> <ci> R5PI_Vmax </ci> <ci> Rib5 </ci> <ci> Ribu5 </ci> </apply> </math> </kineticLaw> </reaction> <reaction id='v_Ru5P' name='v_Ru5P' reversible='true'> <listOfReactants> <speciesReference species='Ribu5' stoichiometry='1'/> </listOfReactants> <listOfProducts> <speciesReference species='Xyl5' stoichiometry='1'/> </listOfProducts> <kineticLaw> <math xmlns='http://www.w3.org/1998/Math/MathML'> <apply> <ci> Function_for_v_Ru5P </ci> <ci> Ribu5 </ci> <ci> Ru5P_Keq </ci> <ci> Ru5P_Vmax </ci> <ci> Xyl5 </ci> </apply> </math> </kineticLaw> </reaction> <reaction id='v_SDH' name='v_SDH' reversible='true'> <listOfReactants> <speciesReference species='SUC' stoichiometry='1'/> </listOfReactants> <listOfProducts> <speciesReference species='MAL' stoichiometry='1'/> </listOfProducts> <kineticLaw> <math xmlns='http://www.w3.org/1998/Math/MathML'> <apply> <ci> Function_for_v_SDH </ci> <ci> Kfum_SDH </ci> <ci> Ksuc_SDH </ci> <ci> MAL </ci> <ci> SUC </ci> <ci> TF_ArcA </ci> <ci> TF_CrpcAMP </ci> <ci> TF_Fnr </ci> <ci> Vmaxf_SDH </ci> </apply> </math> </kineticLaw> </reaction> <reaction id='v_SUC_excretion' name='v_SUC_excretion' reversible='true'> <listOfProducts> <speciesReference species='SUC_ex' stoichiometry='1'/> </listOfProducts> <listOfModifiers> <modifierSpeciesReference species='SUC'/> <modifierSpeciesReference species='OD'/> </listOfModifiers> <kineticLaw> <math xmlns='http://www.w3.org/1998/Math/MathML'> <apply> <ci> Function_for_v_SUC_excretion </ci> <ci> Mw_SUC </ci> <ci> OD </ci> <ci> SUC </ci> <ci> SUC_trans_Km_suc </ci> <ci> SUC_trans_Vmax </ci> <ci> uc </ci> </apply> </math> </kineticLaw> </reaction> <reaction id='v_SUC_trans' name='v_SUC_trans' reversible='true'> <listOfReactants> <speciesReference species='SUC' stoichiometry='1'/> </listOfReactants> <kineticLaw> <math xmlns='http://www.w3.org/1998/Math/MathML'> <apply> <ci> Function_for_v_SUC_trans </ci> <ci> SUC </ci> <ci> SUC_trans_Km_suc </ci> <ci> SUC_trans_Vmax </ci> </apply> </math> </kineticLaw> </reaction> <reaction id='v_TA' name='v_TA' reversible='true'> <listOfReactants> <speciesReference species='PG3' stoichiometry='1'/> <speciesReference species='S7P' stoichiometry='1'/> </listOfReactants> <listOfProducts> <speciesReference species='E4P' stoichiometry='1'/> <speciesReference species='G6P' stoichiometry='1'/> </listOfProducts> <kineticLaw> <math xmlns='http://www.w3.org/1998/Math/MathML'> <apply> <ci> Function_for_v_TA </ci> <ci> E4P </ci> <ci> G6P </ci> <ci> PG3 </ci> <ci> S7P </ci> <ci> TA_Keq </ci> <ci> TA_Vmax </ci> </apply> </math> </kineticLaw> </reaction> <reaction id='v_TF_CraFBP' name='v_TF_CraFBP' reversible='true'> <listOfProducts> <speciesReference species='CraFBP' stoichiometry='1'/> </listOfProducts> <listOfModifiers> <modifierSpeciesReference species='FBP'/> </listOfModifiers> <kineticLaw> <math xmlns='http://www.w3.org/1998/Math/MathML'> <apply> <ci> Function_for_v_TF_CraFBP </ci> <ci> Cra </ci> <ci> CraFBP </ci> <ci> FBP </ci> <ci> TF_CraFBP_Kfbp </ci> <ci> TF_CraFBP_n </ci> <ci> TF_CraFBP_scale </ci> </apply> </math> </kineticLaw> </reaction> <reaction id='v_TF_PdhRPYR' name='v_TF_PdhRPYR' reversible='true'> <listOfProducts> <speciesReference species='PdhRPYR' stoichiometry='1'/> </listOfProducts> <listOfModifiers> <modifierSpeciesReference species='PYR'/> </listOfModifiers> <kineticLaw> <math xmlns='http://www.w3.org/1998/Math/MathML'> <apply> <ci> Function_for_v_TF_PdhRPYR </ci> <ci> PYR </ci> <ci> PdhR </ci> <ci> PdhRPYR </ci> <ci> TF_PdhRPYR_Kpyr </ci> <ci> TF_PdhRPYR_n </ci> <ci> TF_PdhRPYR_scale </ci> </apply> </math> </kineticLaw> </reaction> <reaction id='v_TF_cAMPCrp' name='v_TF_cAMPCrp' reversible='true'> <listOfProducts> <speciesReference species='CrpcAMP' stoichiometry='1'/> </listOfProducts> <listOfModifiers> <modifierSpeciesReference species='cAMP'/> </listOfModifiers> <kineticLaw> <math xmlns='http://www.w3.org/1998/Math/MathML'> <apply> <ci> Function_for_v_TF_cAMPCrp </ci> <ci> Crp </ci> <ci> CrpcAMP </ci> <ci> TF_cAMPCrp_Kcamp </ci> <ci> TF_cAMPCrp_n </ci> <ci> TF_cAMPCrp_scale </ci> <ci> cAMP </ci> </apply> </math> </kineticLaw> </reaction> <reaction id='v_TKa' name='v_TKa' reversible='true'> <listOfReactants> <speciesReference species='Rib5' stoichiometry='1'/> <speciesReference species='Xyl5' stoichiometry='1'/> </listOfReactants> <listOfProducts> <speciesReference species='S7P' stoichiometry='1'/> <speciesReference species='PG3' stoichiometry='1'/> </listOfProducts> <kineticLaw> <math xmlns='http://www.w3.org/1998/Math/MathML'> <apply> <ci> Function_for_v_TKa </ci> <ci> PG3 </ci> <ci> Rib5 </ci> <ci> S7P </ci> <ci> TKa_Keq </ci> <ci> TKa_Vmax </ci> <ci> Xyl5 </ci> </apply> </math> </kineticLaw> </reaction> <reaction id='v_TKb' name='v_TKb' reversible='true'> <listOfReactants> <speciesReference species='Xyl5' stoichiometry='1'/> <speciesReference species='E4P' stoichiometry='1'/> </listOfReactants> <listOfProducts> <speciesReference species='G6P' stoichiometry='1'/> <speciesReference species='PG3' stoichiometry='1'/> </listOfProducts> <kineticLaw> <math xmlns='http://www.w3.org/1998/Math/MathML'> <apply> <ci> Function_for_v_TKb </ci> <ci> E4P </ci> <ci> G6P </ci> <ci> PG3 </ci> <ci> TKb_Keq </ci> <ci> TKb_Vmax </ci> <ci> Xyl5 </ci> </apply> </math> </kineticLaw> </reaction> <reaction id='v_cAMPdegr' name='v_cAMPdegr' reversible='true'> <listOfReactants> <speciesReference species='cAMP' stoichiometry='1'/> </listOfReactants> <kineticLaw> <math xmlns='http://www.w3.org/1998/Math/MathML'> <apply> <ci> Function_for_v_cAMPdegr </ci> <ci> cAMP </ci> <ci> cAMPdegr_KcAMP </ci> <ci> cAMPdegr_Vmax </ci> </apply> </math> </kineticLaw> </reaction> <reaction id='v_syn_QH2' name='v_syn_QH2' reversible='true'> <listOfProducts> <speciesReference species='QH2' stoichiometry='1'/> </listOfProducts> <kineticLaw> <math xmlns='http://www.w3.org/1998/Math/MathML'> <apply> <ci> Function_for_v_syn_QH2 </ci> <ci> mu </ci> <ci> p_syn_QH2 </ci> </apply> </math> </kineticLaw> </reaction> </listOfReactions> </model> </sbml>
Simulation of KIMOMODELID40.xml |
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Notes |
Kinetic model source: http://www.cadlive.jp/cadlive_main/Softwares/KineticModel/Ecolimetabolism.html.
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Software | MATLAB (MathWorks) was used for all simulations. | |||||||||||||||||||||||||||||||||||||||||||||||||||||||||||||||||||||||||||||||||||||||||||||||||||||||||||||||||||||||||||||||||||||||||||||||||||||||||||||||||||||||||||||||||||
BioModels or JWS Online ID | — | |||||||||||||||||||||||||||||||||||||||||||||||||||||||||||||||||||||||||||||||||||||||||||||||||||||||||||||||||||||||||||||||||||||||||||||||||||||||||||||||||||||||||||||||||||
Export metadata |
RDF:
metadataModelEntryID40.rdf
XML: metadataModelEntryID40.xml Plain text: metadataModelEntryID40.txt |
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Cite Model EntryID 40
APA |
KiMoSys (https://kimosys.org). (2018, October 12). Model EntryID 40 (Escherichia coli). https://kimosys.org/repository/96/associated_models/40
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MLA |
KiMoSys (https://kimosys.org). "Model EntryID 40 (Escherichia coli)." 2024, kimosys.org/repository/96/associated_models/40.
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ISO-690 |
KiMoSys (https://kimosys.org). Model EntryID 40 (Escherichia coli). [online], [Accessed 12 October 2024]. Available from: https://kimosys.org/repository/96/associated_models/40
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BibTeX |
@misc{ KiMoSysModelEntryID40,
author = "{KiMoSys (https://kimosys.org)}",
title = "Model EntryID 40 (Escherichia coli)",
url = "https://kimosys.org/repository/96/associated_models/40",
note = "[Online; accessed 12-October-2024]"
}
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Related Model(s): AccessID 13 | AccessID 16 | AccessID 25 | AccessID 36 | AccessID 38 | AccessID 42 | AccessID 43 | AccessID 44 | AccessID 45
Entered by:
Administrator KiMoSysFirst name: Administrator
Affiliation: INESC-ID/IST
Homepage: http://kdbio.inesc-id.pt/kimosys
Interests: mathematical modeling, accessible data, use of data
Associated by: kimosys (at) kdbio.inesc-id.pt
Created: 2018-07-19 15:05:36 UTC
Updated: 2018-07-20 16:25:00 UTC
Version: 1
Status: (reviewed) 2018-07-19 15:07:10 UTC
Views: 300
Downloads: 152