metaid_0000019
has part: GO:0005834
constant: false
has part: CHEBI:17552
has part: GO:0043235
boundary condition: false
initial concentration: 0.0
in compartment: metaid_0000005
type: Species
initial amount: NaN
name: RGD
has only substance units: false

177644
stoichiometry: 1.0
species: metaid_0000008
type: SpeciesReference

179152
stoichiometry: 1.0
species: metaid_0000019
type: SpeciesReference

179200
value: 13000.0
type: LocalParameter

178016
stoichiometry: 1.0
species: metaid_0000016
type: SpeciesReference

178788
stoichiometry: 1.0
species: metaid_0000008
type: SpeciesReference

177980
value: 62.3
type: LocalParameter

metaid_0000039
kinetic law: 178680
product: 178667
product: 178655
reactant: 178643
is version of: GO:0043241
fast: false
reversible: true
name: GAD dissociation
type: Reaction

179164
stoichiometry: 1.0
species: metaid_0000006
type: SpeciesReference

178474
value: 2.0
type: LocalParameter

metaid_0000018
constant: false
name: GAD
has part: CHEBI:17552
type: Species
boundary condition: false
has only substance units: false
has part: IPR000342
initial concentration: 0.0
in compartment: metaid_0000005
initial amount: NaN
has part: GO:0005834

metaid_0000038
name: G*AT hydrolysis
has version: REACT 348
is version of: GO:0003924
kinetic law: 178607
product: 178583
reversible: true
type: Reaction
fast: false
product: 178595
reactant: 178571

179067
value: 0.478
type: LocalParameter

178885
stoichiometry: 1.0
species: metaid_0000021
type: SpeciesReference

178522
stoichiometry: 1.0
species: metaid_0000017
type: SpeciesReference

179103
stoichiometry: 1.0
species: metaid_0000013
type: SpeciesReference

179308
stoichiometry: 1.0
species: metaid_0000020
type: SpeciesReference

178160
stoichiometry: 1.0
species: metaid_0000017
type: SpeciesReference

178088
stoichiometry: 1.0
species: metaid_0000016
type: SpeciesReference

179018
stoichiometry: 1.0
species: metaid_0000006
type: SpeciesReference

177741
value: 529000.0
type: LocalParameter

178124
value: 1.28
type: LocalParameter

179140
value: 0.00297
type: LocalParameter

177854
stoichiometry: 1.0
species: metaid_0000012
type: SpeciesReference

177632
stoichiometry: 1.0
species: metaid_0000006
type: SpeciesReference

177829
value: 0.0179
type: LocalParameter

178922
value: 0.00875
type: LocalParameter

177968
value: 1.0E-4
type: LocalParameter

177992
stoichiometry: 1.0
species: metaid_0000015
type: SpeciesReference

178450
stoichiometry: 1.0
species: metaid_0000014
type: SpeciesReference

177841
stoichiometry: 1.0
species: metaid_0000011
type: SpeciesReference

178873
stoichiometry: 1.0
species: metaid_0000009
type: SpeciesReference

178849
value: 5.43E-5
type: LocalParameter

178438
stoichiometry: 1.0
species: metaid_0000015
type: SpeciesReference

179176
stoichiometry: 1.0
species: metaid_0000022
type: SpeciesReference

179055
value: 6300000.0
type: LocalParameter

178486
value: 1470000.0
type: LocalParameter

177716
stoichiometry: 1.0
species: metaid_0000011
type: SpeciesReference

177692
stoichiometry: 1.0
species: metaid_0000007
type: SpeciesReference

178076
stoichiometry: 1.0
species: metaid_0000010
type: SpeciesReference

178136
stoichiometry: 1.0
species: metaid_0000011
type: SpeciesReference

177753
value: 8.38E-6
type: LocalParameter

metaid_0000029
kinetic law: 177956
product: 177943
product: 177931
reactant: 177918
is version of: GO:0043241
fast: false
reversible: true
name: GD dissociation
type: Reaction

178209
stoichiometry: 1.0
species: metaid_0000012
type: SpeciesReference

178934
stoichiometry: 1.0
species: metaid_0000017
type: SpeciesReference

178994
value: 0.0433
type: LocalParameter

179128
value: 25.0
type: LocalParameter

177866
stoichiometry: 1.0
species: metaid_0000013
type: SpeciesReference

177668
value: 8780000.0
type: LocalParameter

metaid_0000015
initial amount: NaN
has only substance units: false
name: RG
constant: false
in compartment: metaid_0000005
has part: GO:0005834
type: Species
has part: GO:0043235
boundary condition: false
initial concentration: 0.0

178559
value: 8.32E-8
type: LocalParameter

177892
value: 0.013
type: LocalParameter

179224
stoichiometry: 1.0
species: metaid_0000018
type: SpeciesReference

178282
stoichiometry: 1.0
species: metaid_0000012
type: SpeciesReference

177931
stoichiometry: 1.0
species: metaid_0000007
type: SpeciesReference

metaid_0000028
reactant: 177841
product: 177866
type: Reaction
product: 177854
is version of: GO:0003924
kinetic law: 177879
has version: REACT 348
reversible: true
name: G*T hydrolysis
fast: false

177816
value: 6.36E8
type: LocalParameter

178643
stoichiometry: 1.0
species: metaid_0000018
type: SpeciesReference

178148
stoichiometry: 1.0
species: metaid_0000006
type: SpeciesReference

178498
stoichiometry: 1.0
species: metaid_0000008
type: SpeciesReference

177680
value: 8.0
type: LocalParameter

178546
value: 44700.0
type: LocalParameter

metaid_0000014
is: CHEBI:17552
notes: GDP
constant: false
initial concentration: 1.49E-4
is: C00035
in compartment: metaid_0000005
type: Species
has only substance units: false
initial amount: NaN
boundary condition: false
name: D

178185
value: 386000.0
type: LocalParameter

178837
value: 2.28E7
type: LocalParameter

178946
stoichiometry: 1.0
species: metaid_0000010
type: SpeciesReference

177791
stoichiometry: 1.0
species: metaid_0000015
type: SpeciesReference

metaid_0000040
kinetic law: 178752
product: 178740
reactant: 178728
reactant: 178716
is version of: GO:0032403
fast: false
reversible: true
name: RG binding GAP
type: Reaction

metaid_0000017
boundary condition: false
initial concentration: 0.0
constant: false
in compartment: metaid_0000005
has part: IPR000342
name: G*AT
has only substance units: false
has part: CHEBI:15996
type: Species
initial amount: NaN
has part: GO:0005834

178004
stoichiometry: 1.0
species: metaid_0000009
type: SpeciesReference

179212
value: 0.685
type: LocalParameter

178982
value: 6200000.0
type: LocalParameter

metaid_0000027
kinetic law: 177803
product: 177791
reactant: 177778
reactant: 177766
is version of: GO:0001664
fast: false
reversible: true
name: G binding Receptor
type: Reaction

178631
value: 0.244
type: LocalParameter

metaid_0000041
reactant: 178788
reactant: 178800
name: GA binding Receptor
product: 178812
is version of: GO:0005102
reversible: true
kinetic law: 178824
is version of: GO:0001664
fast: false
type: Reaction

178270
value: 0.95
type: LocalParameter

177943
stoichiometry: 1.0
species: metaid_0000014
type: SpeciesReference

178258
value: 64100.0
type: LocalParameter

metaid_0000016
initial concentration: 0.0
has part: GO:0005834
name: RG*T
type: Species
in compartment: metaid_0000005
has part: GO:0043235
initial amount: NaN
constant: false
has part: CHEBI:15996
boundary condition: false
has only substance units: false

178197
value: 0.0408
type: LocalParameter

metaid_0000026
is version of: GO:0005515
product: 177716
fast: false
reversible: true
type: Reaction
reactant: 177692
is version of: GO:0005525
name: G protein binding GTP
kinetic law: 177728
reactant: 177704

178692
value: 1.0E-4
type: LocalParameter

179079
stoichiometry: 1.0
species: metaid_0000021
type: SpeciesReference

178402
value: 0.013
type: LocalParameter

metaid_0000025
kinetic law: 177656
product: 177644
reactant: 177632
reactant: 177620
is version of: GO:0005515
fast: false
reversible: true
name: G protein binding GAP
type: Reaction

179030
stoichiometry: 1.0
species: metaid_0000021
type: SpeciesReference

178342
value: 0.00227
type: LocalParameter

metaid_0000011
has only substance units: false
has part: GO:0005834
has part: CHEBI:15996
name: G*T
boundary condition: false
initial concentration: 0.0
constant: false
notes: active G protein
in compartment: metaid_0000005
initial amount: NaN
type: Species

179296
stoichiometry: 1.0
species: metaid_0000022
type: SpeciesReference

metaid_0000031
is version of: GO:0005102
fast: false
is version of: GO:0001664
kinetic law: 178100
product: 178088
name: G*T binding Receptor
reactant: 178076
reactant: 178064
type: Reaction
reversible: true

178294
stoichiometry: 1.0
species: metaid_0000010
type: SpeciesReference

metaid_0000045
fast: false
name: RG*AT hydrolysis
has version: REACT 348
product: 179091
product: 179103
is version of: GO:0003924
kinetic law: 179116
reactant: 179079
type: Reaction
reversible: true

178595
stoichiometry: 1.0
species: metaid_0000013
type: SpeciesReference

178655
stoichiometry: 1.0
species: metaid_0000008
type: SpeciesReference

metaid_0000024
notes: The [Gtot]=the initial value of [G]=10e-9 M

178040
value: 853000.0
type: LocalParameter

179236
stoichiometry: 1.0
species: metaid_0000010
type: SpeciesReference

metaid_0000010
has version: IPR000337
notes: Receptor
is version of: GO:0043235
initial concentration: 1.0E-6
boundary condition: false
constant: false
initial amount: NaN
in compartment: metaid_0000005
type: Species
has only substance units: false
name: R

metaid_0000003
notes: fractional activity of G proteins
constant: false
value: 0.0
name: Z
type: Parameter

178330
value: 9.47E7
type: LocalParameter

177778
stoichiometry: 1.0
species: metaid_0000010
type: SpeciesReference

178728
stoichiometry: 1.0
species: metaid_0000006
type: SpeciesReference

metaid_0000044
kinetic law: 179042
product: 179030
reactant: 179018
reactant: 179006
is version of: GO:0032403
fast: false
reversible: true
name: RG*T binding GAP
type: Reaction

metaid_0000030
product: 178016
reversible: true
reactant: 177992
is version of: GO:0005525
kinetic law: 178028
is version of: GO:0032403
reactant: 178004
name: RG binding GTP
type: Reaction
fast: false

179320
stoichiometry: 1.0
species: metaid_0000014
type: SpeciesReference

metaid_0000023
notes: The [Gtot]=the initial value of [G]=10e-9 M

178354
stoichiometry: 1.0
species: metaid_0000016
type: SpeciesReference

metaid_0000013
is: CHEBI:18367
constant: false
boundary condition: false
has only substance units: false
initial concentration: 0.0044
initial amount: NaN
in compartment: metaid_0000005
name: Pi
type: Species

metaid_0000004
notes: GTP hydrolytic rate
constant: false
value: 0.0
name: v
type: Parameter

178306
stoichiometry: 1.0
species: metaid_0000019
type: SpeciesReference

178583
stoichiometry: 1.0
species: metaid_0000018
type: SpeciesReference

metaid_0000033
kinetic law: 178246
product: 178234
reactant: 178222
reactant: 178209
is version of: GO:0032403
fast: false
reversible: true
name: GD binding GAP
type: Reaction

178667
stoichiometry: 1.0
species: metaid_0000014
type: SpeciesReference

metaid_0000043
reactant: 178946
type: Reaction
fast: false
is version of: GO:0001664
product: 178958
reactant: 178934
name: G*AT binding Receptor
kinetic law: 178970
reversible: true
is version of: GO:0005102

178234
stoichiometry: 1.0
species: metaid_0000018
type: SpeciesReference

metaid_0000022
initial concentration: 0.0
name: RGAD
has part: CHEBI:17552
boundary condition: false
type: Species
initial amount: NaN
in compartment: metaid_0000005
has part: IPR000342
has only substance units: false
has part: GO:0005834
has part: GO:0043235
constant: false

177766
stoichiometry: 1.0
species: metaid_0000007
type: SpeciesReference

metaid_0000005
is version of: GO:0005623
constant: true
size: 1.0
spatial dimensions: 3.0
name: cell
type: Compartment

179248
stoichiometry: 1.0
species: metaid_0000022
type: SpeciesReference

metaid_0000012
has only substance units: false
name: GD
constant: false
boundary condition: false
initial amount: NaN
initial concentration: 0.0
has part: CHEBI:17552
type: Species
in compartment: metaid_0000005
has part: GO:0005834

metaid_0000032
kinetic law: 178172
product: 178160
reactant: 178148
reactant: 178136
is version of: GO:0032403
fast: false
reversible: true
name: G*T binding GAP
type: Reaction

178909
value: 1620000.0
type: LocalParameter

metaid_0000042
name: RGA binding GTP
reversible: true
reactant: 178861
type: Reaction
reactant: 178873
kinetic law: 178897
product: 178885
is version of: GO:0032403
fast: false
is version of: GO:0005525

178740
stoichiometry: 1.0
species: metaid_0000020
type: SpeciesReference

178716
stoichiometry: 1.0
species: metaid_0000015
type: SpeciesReference

177905
value: 9.03E-7
type: LocalParameter

177620
stoichiometry: 1.0
species: metaid_0000007
type: SpeciesReference

177918
stoichiometry: 1.0
species: metaid_0000012
type: SpeciesReference

178222
stoichiometry: 1.0
species: metaid_0000006
type: SpeciesReference

BIOMD0000000086
reaction: metaid_0000025
reaction: metaid_0000045
species: metaid_0000014
species: metaid_0000008
rule: metaid_0000023
creator:
  ORG:
    orgname: University of Oxford
  n:
    given: Enuo
    family: He
reaction: metaid_0000035
is version of: GO:0008277
reaction: metaid_0000034
reaction: metaid_0000041
species: metaid_0000018
area units: metaid_0000005
volume units: metaid_0000004
curated: true
species: metaid_0000022
occurs in: http://identifiers.org/taxonomy/131567
reaction: metaid_0000026
reaction: metaid_0000043
rule: metaid_0000024
species: metaid_0000012
species: metaid_0000015
species: metaid_0000006
reaction: metaid_0000044
species: metaid_0000009
compartment: metaid_0000005
reaction: metaid_0000047
species: metaid_0000019
reaction: metaid_0000040
time units: metaid_0000007
species: metaid_0000020
reaction: metaid_0000048
notes: This model is according to the paper Computational modeling reveals how interplay between components of a GTPase-cycle module regulates signal transduction by Bornheimer et al 2004.The figure 3 is reproduced by Copasi 4.0.19 (development) .It is three-dimensional logarithmic plots show the output of simulations of Z and v at various concentrations of R and GAP. To the extent possible under law, all copyright and related or neighbouring rights to this encoded model have been dedicated to the public domain worldwide. Please refer to CC0 Public Domain Dedication for more information. In summary, you are entitled to use this encoded model in absolutely any manner you deem suitable, verbatim, or with modification, alone or embedded it in a larger context, redistribute it, commercially or not, in a restricted way or not. To cite BioModels Database, please use: Li C, Donizelli M, Rodriguez N, Dharuri H, Endler L, Chelliah V, Li L, He E, Henry A, Stefan MI, Snoep JL, Hucka M, Le Novère N, Laibe C (2010) BioModels Database: An enhanced, curated and annotated resource for published quantitative kinetic models. BMC Syst Biol., 4:92.
reaction: metaid_0000029
reaction: metaid_0000033
species: metaid_0000010
species: metaid_0000013
reaction: metaid_0000042
reaction: metaid_0000032
species: metaid_0000007
reaction: metaid_0000039
parameter: metaid_0000003
species: metaid_0000016
reaction: metaid_0000038
parameter: metaid_0000004
is: MODEL4822989369
modified:
  W3 CDTF: Thu Jul 05 15:49:52 BST 2012
species: metaid_0000017
reaction: metaid_0000037
is described by: http://identifiers.org/pubmed/15520372
species: metaid_0000021
length unit: length
reaction: metaid_0000046
reaction: metaid_0000036
created:
  W3 CDTF: Wed Nov 29 17:40:19 GMT 2006
type: SBMLModel
reaction: metaid_0000027
reaction: metaid_0000031
name: Bornheimer2004_GTPaseCycle
species: metaid_0000011
substance units: metaid_0000020
reaction: metaid_0000030
reaction: metaid_0000028

178064
stoichiometry: 1.0
species: metaid_0000011
type: SpeciesReference

metaid_0000021
has part: CHEBI:15996
initial concentration: 0.0
initial amount: NaN
has only substance units: false
boundary condition: false
type: Species
has part: GO:0043235
has part: GO:0005834
in compartment: metaid_0000005
has part: IPR000342
name: RG*AT
constant: false

178571
stoichiometry: 1.0
species: metaid_0000017
type: SpeciesReference

178426
stoichiometry: 1.0
species: metaid_0000019
type: SpeciesReference

178510
stoichiometry: 1.0
species: metaid_0000009
type: SpeciesReference

178619
value: 25.0
type: LocalParameter

177704
stoichiometry: 1.0
species: metaid_0000009
type: SpeciesReference

metaid_0000006
initial amount: NaN
has only substance units: false
is version of: IPR000342
initial concentration: 0.0
notes: GAP
in compartment: metaid_0000005
name: A
constant: false
boundary condition: false
type: Species

178861
stoichiometry: 1.0
species: metaid_0000020
type: SpeciesReference

178366
stoichiometry: 1.0
species: metaid_0000019
type: SpeciesReference

metaid_0000035
has version: REACT 348
is version of: GO:0003924
product: 178378
fast: false
name: RG*T hydrolysis
kinetic law: 178390
reversible: true
reactant: 178354
type: Reaction
product: 178366

178800
stoichiometry: 1.0
species: metaid_0000010
type: SpeciesReference

179272
value: 4.94E7
type: LocalParameter

178704
value: 3.83
type: LocalParameter

179344
value: 2.75
type: LocalParameter

178776
value: 0.00572
type: LocalParameter

metaid_0000020
constant: false
in compartment: metaid_0000005
initial amount: NaN
has only substance units: false
type: Species
has part: IPR000342
has part: GO:0043235
has part: GO:0005834
name: RGA
initial concentration: 0.0
boundary condition: false

metaid_0000048
kinetic law: 179332
product: 179320
product: 179308
reactant: 179296
is version of: GO:0043241
fast: false
reversible: true
name: RGAD dissociation
type: Reaction

metaid_0000007
boundary condition: false
initial concentration: 1.0E-8
is: GO:0005834
name: G
constant: false
type: Species
in compartment: metaid_0000005
initial amount: NaN
has only substance units: false
notes: inactive G protein

metaid_0000034
is version of: GO:0005102
reactant: 178294
reactant: 178282
fast: false
is version of: GO:0001664
name: GD binding Receptor
kinetic law: 178318
product: 178306
type: Reaction
reversible: true

178112
value: 1.32E8
type: LocalParameter

179006
stoichiometry: 1.0
species: metaid_0000016
type: SpeciesReference

178378
stoichiometry: 1.0
species: metaid_0000013
type: SpeciesReference

metaid_0000047
reactant: 179224
kinetic law: 179260
fast: false
is version of: GO:0001664
product: 179248
reversible: true
reactant: 179236
is version of: GO:0005102
name: GAD binding Receptor
type: Reaction

metaid_0000037
kinetic law: 178534
fast: false
is version of: GO:0005515
is version of: GO:0005525
type: Reaction
reversible: true
product: 178522
reactant: 178510
name: GA binding GTP
reactant: 178498

178414
value: 2.22E-9
type: LocalParameter

metaid_0000008
name: GA
has only substance units: false
initial concentration: 0.0
has part: GO:0005834
constant: false
in compartment: metaid_0000005
has part: IPR000342
boundary condition: false
initial amount: NaN
type: Species

179356
value: 2940.0
type: LocalParameter

178764
value: 74300.0
type: LocalParameter

178812
stoichiometry: 1.0
species: metaid_0000020
type: SpeciesReference

179284
value: 0.00421
type: LocalParameter

metaid_0000046
kinetic law: 179188
product: 179176
reactant: 179164
reactant: 179152
is version of: GO:0032403
fast: false
reversible: true
name: RGD binding GAP
type: Reaction

metaid_0000036
kinetic law: 178462
product: 178450
product: 178438
reactant: 178426
is version of: GO:0043241
fast: false
reversible: true
name: RGD dissociation
type: Reaction

metaid_0000009
has only substance units: false
boundary condition: false
is: C00044
constant: false
initial concentration: 4.68E-4
initial amount: NaN
is: CHEBI:15996
type: Species
notes: GTP
in compartment: metaid_0000005
name: T

178958
stoichiometry: 1.0
species: metaid_0000021
type: SpeciesReference

179091
stoichiometry: 1.0
species: metaid_0000022
type: SpeciesReference

178052
value: 0.00468
type: LocalParameter