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species: metaid H
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W3 CDTF: Thu Sep 10 01:00:00 BST 2009

095166
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304833
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type: Reaction

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304794
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095238
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095433
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metaid H
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095888
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species: metaid ADP
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304788
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type: Parameter

304742
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type: LocalParameter

304824
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type: Parameter

metaid H2O
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initial amount: NaN
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is version of: CHEBI:15377
initial concentration: 1.0
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304806
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metaid O2
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metaid ATP
name: ATP
in compartment: metaid mitochondrion
has only substance units: false
is: SBO:0000247
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initial amount: NaN
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boundary condition: false
type: Species
initial concentration: 3.536
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095118
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name: millimolar per millivolt
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095311
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095262
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304706
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metaid mitochondrion
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is: SBO:0000290
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type: Compartment

095925
stoichiometry: 1.0
species: metaid NAD
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095214
unit: 095262
unit: 095250
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name: millimolar per second per millivolt
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096095
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095178
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095577
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species: metaid OAA
type: SpeciesReference

metaid NADH
type: Species
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name: NADH
constant: false
initial concentration: NaN
in compartment: metaid mitochondrion
is version of: C00004
initial amount: NaN
has only substance units: false
is: SBO:0000247
is version of: CHEBI:16908

metaid NAD
type: Species
in compartment: metaid mitochondrion
is: SBO:0000247
initial amount: NaN
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initial concentration: 0.856
is version of: C00003
has only substance units: false
name: NAD(+)
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is version of: CHEBI:15846

095625
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species: metaid Cit
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095708
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species: metaid NAD
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095445
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304734
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value: 57.142
type: LocalParameter

304724
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name: vATP
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product: 096009
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product: 096033
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kinetic law: 096045
fast: false
reversible: true
is: SBO:0000216
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094996
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unit: 095020
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name: milliJoule per mole per Kelvin
type: SBMLUnitsDef

304812
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type: Parameter

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units: 095082
value: 4.16
type: Parameter

095070
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metaid ADP
in compartment: metaid mitochondrion
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type: Species
initial concentration: NaN
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name: ADP
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is: SBO:0000247
constant: false
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304733
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type: LocalParameter

304800
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value: NaN
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095732
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species: metaid ATP
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304727
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304785
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units: 095274
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095324
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metaid iP
constant: true
boundary condition: true
in compartment: metaid mitochondrion
is version of: CHEBI:18367
initial amount: NaN
type: Species
name: phosphate
initial concentration: 2.44
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095529
stoichiometry: 1.0
species: metaid NAD
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304827
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type: Parameter

095058
exponent: 1.0
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095372
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095457
unit: 095469
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304704
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095202
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species: metaid Pyr
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metaid AcCoA
name: acetyl-CoA
type: Species
constant: false
in compartment: metaid mitochondrion
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initial amount: NaN
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is version of: C00024
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unit: 094972
name: coulomb per mole
type: SBMLUnitsDef

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type: Parameter

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units: kelvin
value: 298.0
name: absolute temperature
type: Parameter

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species: metaid He
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304809
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units: 095299
value: 4.4E-9
type: Parameter

304731
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value: 0.038
type: LocalParameter

095840
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kind: SECOND
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304821
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units: 095433
value: 0.1
type: Parameter

metaid Cit
in compartment: metaid mitochondrion
is: SBO:0000247
has only substance units: false
constant: false
is version of: C00158
type: Species
initial amount: NaN
is version of: CHEBI:16947
name: citrate
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species: metaid ADP
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304721
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is version of: R07171
reactant: 095888
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species: metaid ADP
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BIOMD0000000232
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parameter: 304815
parameter: 304809
parameter: 304779
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reaction: 304715
species: metaid ADP
units def: 094996
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reaction: 304703
parameter: 304788
substance units: 094936
reaction: 304709
reaction: 304730
is: MODEL2594602728
parameter: 304776
occurs in: http://identifiers.org/taxonomy/9606
parameter: 304821
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type: SBMLModel
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parameter: 304800
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units def: 095274
units def: 094960
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units def: 095384
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species: metaid OAA
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is part of: REACT 2124
parameter: 304836
species: metaid NADH
species: metaid He
compartment: metaid mitochondrion
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species: metaid iP
area units: metaid_0000005
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is described by: http://identifiers.org/pubmed/19007794
initial assignment: BIOMD0000000232#
rule: 304759
has version: GO:0070469
reaction: 304706
species: metaid Cit
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is part of: REACT 1785
parameter: 304830
species: metaid AcCoA
units def: 095166
compartment: metaid cytoplasm
name: Nazaret2009_TCA_RC_ATP
parameter: 304803
volume units: metaid_0000004
units def: 095433
species: metaid H
curated: true
species: metaid KG
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reaction: 304727
notes: This a model from the article: Mitochondrial energetic metabolism: a simplified model of TCA cycle with ATP production. Nazaret C, Heiske M, Thurley K, Mazat JP J. Theor. Biol. 2009 Jun;258(3):455-64 19007794 , Abstract: Mitochondria play a central role in cellular energetic metabolism. The essential parts of this metabolism are the tricarboxylic acid (TCA) cycle, the respiratory chain and the adenosine triphosphate (ATP) synthesis machinery. Here a simplified model of these three metabolic components with a limited set of differential equations is presented. The existence of a steady state is demonstrated and results of numerical simulations are presented. The relevance of a simple model to represent actual in vivo behavior is discussed.
has version: GO:0006754
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time units: metaid_0000003
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reaction: 304718
species: metaid Pyr
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units def: 095457
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304739
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units: dimensionless
value: 0.3975
type: LocalParameter

metaid OAA
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initial concentration: 0.005
is version of: CHEBI:16452
is version of: C00036
is: SBO:0000247
type: Species
constant: false
name: oxaloacetate
initial amount: NaN
in compartment: metaid mitochondrion
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304773
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units: 095082
value: NaN
type: Parameter

095493
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095336
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name: per millimolar per second
type: SBMLUnitsDef

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units: 094996
value: 8314.0
name: gas constant
type: Parameter

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metaid cytoplasm
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is: SBO:0000185
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reversible: false
name: v1
type: Reaction

orgname: University of Manchester

given: Kieran
family: Smallbone

given: Vijayalakshmi
family: Chelliah

W3 CDTF: Fri Jan 22 15:30:56 GMT 2010

orgname: EMBL-EBI