MODEL0318212660
type: SBMLModel
reaction: 220205
length unit: length
species: 217604
reaction: 218759
species: 217591
parameter: 217822
reaction: 219916
parameter: 217931
reaction: 219481
parameter: 218104
reaction: 218952
species: 217616
parameter: 218130
reaction: 219433
reaction: 219723
parameter: 217993
parameter: 217968
parameter: 217894
reaction: 219771
species: 217493
species: 217640
parameter: 217980
parameter: 217858
parameter: 217919
parameter: 218313
parameter: 218215
reaction: 218904
species: 217505
parameter: 217677
parameter: 218301
reaction: 219529
species: 217628
species: 217517
parameter: 217665
reaction: 220253
reaction: 218373
reaction: 218469
notes: This model is from the article: Time Scale Simulation of Vmax of Urea Cycle Enzymes. Pradip Bhattacharya, Alok Srivastava, Sarbashish Das, Samiyadeep Nandi, Ganeshan Tamil, Ashutosh Viswabandhu, HemantaKwashua, Rabi Yadav Lokesh Nigam, Anmol Khan, Chetna Singh, Arvind Mer, Vikram Sinha, Rehan Mohommad, Candida Vaz, R.N. Rai, D.K. Lobyal, International Journal of Evolution Equations 2011; 5(4); URL Abstract: The objective of this study was to initialize the time-scale simulation of urea cycle enzymes based on the very limited amount of experimental data. As a model example, Vmax of each four enzymes was simulated with varying time for some organisms. These results indicated that the values of Vmax of time-scale simulation of all four enzymatic reactions of urea cycle were very close to 0.09-0.4, and were comparable (deviation ≤0.01-0.1) for steady state kinetic measurements. Enzymes of several organisms were included in this study protocol. Note: The author submitted the model twice accidently. This model is identical to MODEL0318407497 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.
parameter: 217906
parameter: 217738
parameter: 218042
compartment: 217456
parameter: 217750
time units: time
curated: false
parameter: 217714
reaction: 219000
parameter: 218117
parameter: 218018
parameter: 217702
reaction: 219819
parameter: 218191
parameter: 217798
reaction: 219096
parameter: 217689
reaction: 218421
reaction: 218711
parameter: 217786
reaction: 219578
parameter: 218203
reaction: 220061
parameter: 218005
species: 217541
parameter: 218155
parameter: 218228
parameter: 218241
reaction: 218325
reaction: 218855
reaction: 218807
parameter: 218143
parameter: 218054
parameter: 217774
parameter: 217653
reaction: 219626
reaction: 219241
parameter: 217762
reaction: 218518
reaction: 219868
parameter: 217726

220205
type: Reaction
kinetic law: 220241
product: 220229
reactant: 220217
fast: false
reversible: false

220229
type: SpeciesReference
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species: 217481

217481
type: Species
constant: false
boundary condition: false
has only substance units: false
initial concentration: 0.0
initial amount: NaN
in compartment: 217456

217456
type: Compartment
constant: true
size: 1.0
spatial dimensions: 3.0

220217
type: SpeciesReference
stoichiometry: 1.0
species: 217591

217591
type: Species
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boundary condition: false
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initial concentration: 0.0
initial amount: NaN
in compartment: 217456

217604
type: Species
constant: false
boundary condition: false
has only substance units: false
initial concentration: 0.0
initial amount: NaN
in compartment: 217456

218759
type: Reaction
kinetic law: 218795
product: 218783
reactant: 218771
fast: false
reversible: false

218783
type: SpeciesReference
stoichiometry: 1.0
species: 217616

217616
type: Species
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boundary condition: false
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initial concentration: 0.0
initial amount: NaN
in compartment: 217456

218771
type: SpeciesReference
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species: 217616

217822
type: Parameter
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value: 0.1

219916
type: Reaction
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product: 219940
reactant: 219928
fast: false
reversible: false

219940
type: SpeciesReference
stoichiometry: 1.0
species: 217505

217505
type: Species
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219928
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species: 217628

217628
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initial concentration: 0.0
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in compartment: 217456

217931
type: Parameter
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value: 0.1

219481
type: Reaction
kinetic law: 219517
product: 219505
reactant: 219493
fast: false
reversible: false

219505
type: SpeciesReference
stoichiometry: 1.0
species: 217554

217554
type: Species
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has only substance units: false
initial concentration: 0.0
initial amount: NaN
in compartment: 217456

219493
type: SpeciesReference
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species: 217554

218104
type: Parameter
constant: true
value: 0.1

218952
type: Reaction
kinetic law: 218988
product: 218976
reactant: 218964
fast: false
reversible: false

218976
type: SpeciesReference
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species: 217616

218964
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species: 217616

218130
type: Parameter
constant: true
value: 0.1

219433
type: Reaction
kinetic law: 219469
product: 219457
reactant: 219445
fast: false
reversible: false

219457
type: SpeciesReference
stoichiometry: 1.0
species: 217554

219445
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species: 217554

219723
type: Reaction
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product: 219747
reactant: 219735
fast: false
reversible: false

219747
type: SpeciesReference
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species: 217604

219735
type: SpeciesReference
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species: 217517

217517
type: Species
constant: false
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initial concentration: 0.0
initial amount: NaN
in compartment: 217456

217993
type: Parameter
constant: true
value: 0.1

217968
type: Parameter
constant: true
value: 0.1

217894
type: Parameter
constant: true
value: 0.1

219771
type: Reaction
kinetic law: 219807
product: 219795
reactant: 219783
fast: false
reversible: false

219795
type: SpeciesReference
stoichiometry: 1.0
species: 217604

219783
type: SpeciesReference
stoichiometry: 1.0
species: 217541

217541
type: Species
constant: false
boundary condition: false
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initial concentration: 0.0
initial amount: NaN
in compartment: 217456

217493
type: Species
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boundary condition: false
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initial concentration: 0.0
initial amount: NaN
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217640
type: Species
constant: false
boundary condition: true
has only substance units: false
initial concentration: 0.0
initial amount: NaN
in compartment: 217456

217980
type: Parameter
constant: true
value: 0.1

217858
type: Parameter
constant: true
value: 0.1

217919
type: Parameter
constant: true
value: 0.1

218313
type: Parameter
constant: true
value: 0.1

218215
type: Parameter
constant: true
value: 0.1

218904
type: Reaction
kinetic law: 218940
product: 218928
reactant: 218916
fast: false
reversible: false

218928
type: SpeciesReference
stoichiometry: 1.0
species: 217616

218916
type: SpeciesReference
stoichiometry: 1.0
species: 217616

217677
type: Parameter
constant: true
value: 0.1

218301
type: Parameter
constant: true
value: 0.1

219529
type: Reaction
kinetic law: 219566
product: 219554
reactant: 219542
fast: false
reversible: false

219554
type: SpeciesReference
stoichiometry: 1.0
species: 217554

219542
type: SpeciesReference
stoichiometry: 1.0
species: 217554

217665
type: Parameter
constant: true
value: 0.1

220253
type: Reaction
kinetic law: 220290
product: 220278
reactant: 220265
fast: false
reversible: false

220278
type: SpeciesReference
stoichiometry: 1.0
species: 217591

220265
type: SpeciesReference
stoichiometry: 1.0
species: 217640

218373
type: Reaction
kinetic law: 218409
product: 218397
reactant: 218385
fast: false
reversible: true

218397
type: SpeciesReference
stoichiometry: 1.0
species: 217493

218385
type: SpeciesReference
stoichiometry: 1.0
species: 217481

218469
type: Reaction
kinetic law: 218506
product: 218493
reactant: 218481
fast: false
reversible: true

218493
type: SpeciesReference
stoichiometry: 1.0
species: 217505

218481
type: SpeciesReference
stoichiometry: 1.0
species: 217469

217469
type: Species
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initial concentration: 0.0
initial amount: NaN
in compartment: 217456

217906
type: Parameter
constant: true
value: 0.1

217738
type: Parameter
constant: true
value: 8.1E-5

218042
type: Parameter
constant: true
value: 0.1

217750
type: Parameter
constant: true
value: 1.0E-5

217714
type: Parameter
constant: true
value: 0.1

219000
type: Reaction
kinetic law: 219036
product: 219024
reactant: 219012
fast: false
reversible: false

219024
type: SpeciesReference
stoichiometry: 1.0
species: 217616

219012
type: SpeciesReference
stoichiometry: 1.0
species: 217616

218117
type: Parameter
constant: true
value: 0.1

218018
type: Parameter
constant: true
value: 0.1

217702
type: Parameter
constant: true
value: 0.1

219819
type: Reaction
kinetic law: 219856
product: 219844
reactant: 219831
fast: false
reversible: false

219844
type: SpeciesReference
stoichiometry: 1.0
species: 217628

219831
type: SpeciesReference
stoichiometry: 1.0
species: 217529

217529
type: Species
constant: false
boundary condition: false
has only substance units: false
initial concentration: 0.0
initial amount: NaN
in compartment: 217456

218191
type: Parameter
constant: true
value: 0.1

217798
type: Parameter
constant: true
value: 0.0032

219096
type: Reaction
kinetic law: 219132
product: 219120
reactant: 219108
fast: false
reversible: false

219120
type: SpeciesReference
stoichiometry: 1.0
species: 217604

219108
type: SpeciesReference
stoichiometry: 1.0
species: 217604

217689
type: Parameter
constant: true
value: 0.1

218421
type: Reaction
kinetic law: 218457
product: 218445
reactant: 218433
fast: false
reversible: true

218445
type: SpeciesReference
stoichiometry: 1.0
species: 217493

218433
type: SpeciesReference
stoichiometry: 1.0
species: 217505

218711
type: Reaction
kinetic law: 218747
product: 218735
reactant: 218723
fast: false
reversible: false

218735
type: SpeciesReference
stoichiometry: 1.0
species: 217616

218723
type: SpeciesReference
stoichiometry: 1.0
species: 217616

217786
type: Parameter
constant: true
value: 5.0E-5

219578
type: Reaction
kinetic law: 219614
product: 219602
reactant: 219590
fast: false
reversible: false

219602
type: SpeciesReference
stoichiometry: 1.0
species: 217554

219590
type: SpeciesReference
stoichiometry: 1.0
species: 217554

218203
type: Parameter
constant: true
value: 0.1

220061
type: Reaction
kinetic law: 220097
product: 220085
reactant: 220073
fast: false
reversible: false

220085
type: SpeciesReference
stoichiometry: 1.0
species: 217493

220073
type: SpeciesReference
stoichiometry: 1.0
species: 217604

218005
type: Parameter
constant: true
value: 0.1

218155
type: Parameter
constant: true
value: 0.1

218228
type: Parameter
constant: true
value: 0.1

218241
type: Parameter
constant: true
value: 0.1

218325
type: Reaction
kinetic law: 218361
product: 218349
reactant: 218337
fast: false
reversible: true

218349
type: SpeciesReference
stoichiometry: 1.0
species: 217481

218337
type: SpeciesReference
stoichiometry: 1.0
species: 217469

218855
type: Reaction
kinetic law: 218892
product: 218880
reactant: 218868
fast: false
reversible: false

218880
type: SpeciesReference
stoichiometry: 1.0
species: 217616

218868
type: SpeciesReference
stoichiometry: 1.0
species: 217616

218807
type: Reaction
kinetic law: 218843
product: 218831
reactant: 218819
fast: false
reversible: false

218831
type: SpeciesReference
stoichiometry: 1.0
species: 217616

218819
type: SpeciesReference
stoichiometry: 1.0
species: 217616

218143
type: Parameter
constant: true
value: 0.1

218054
type: Parameter
constant: true
value: 0.1

217774
type: Parameter
constant: true
value: 3.621

217653
type: Parameter
constant: true
value: 0.1

219626
type: Reaction
kinetic law: 219663
product: 219651
reactant: 219638
fast: false
reversible: false

219651
type: SpeciesReference
stoichiometry: 1.0
species: 217554

219638
type: SpeciesReference
stoichiometry: 1.0
species: 217554

219241
type: Reaction
kinetic law: 219277
product: 219265
reactant: 219253
fast: false
reversible: false

219265
type: SpeciesReference
stoichiometry: 1.0
species: 217554

219253
type: SpeciesReference
stoichiometry: 1.0
species: 217554

217762
type: Parameter
constant: true
value: 9.0E-4

218518
type: Reaction
kinetic law: 218554
product: 218542
reactant: 218530
fast: false
reversible: false

218542
type: SpeciesReference
stoichiometry: 1.0
species: 217469

218530
type: SpeciesReference
stoichiometry: 1.0
species: 217481

219868
type: Reaction
kinetic law: 219904
product: 219892
reactant: 219880
fast: false
reversible: false

219892
type: SpeciesReference
stoichiometry: 1.0
species: 217616

219880
type: SpeciesReference
stoichiometry: 1.0
species: 217493

217726
type: Parameter
constant: true
value: 1392.857

218662
type: Reaction
kinetic law: 218699
product: 218687
reactant: 218674
fast: false
reversible: false

218687
type: SpeciesReference
stoichiometry: 1.0
species: 217469

218674
type: SpeciesReference
stoichiometry: 1.0
species: 217505

219289
type: Reaction
kinetic law: 219325
product: 219313
reactant: 219301
fast: false
reversible: false

219313
type: SpeciesReference
stoichiometry: 1.0
species: 217554

219301
type: SpeciesReference
stoichiometry: 1.0
species: 217554

218030
type: Parameter
constant: true
value: 0.1

218265
type: Parameter
constant: true
value: 0.1

218078
type: Parameter
constant: true
value: 0.1

219337
type: Reaction
kinetic law: 219373
product: 219361
reactant: 219349
fast: false
reversible: false

219361
type: SpeciesReference
stoichiometry: 1.0
species: 217554

219349
type: SpeciesReference
stoichiometry: 1.0
species: 217554

217810
type: Parameter
constant: true
value: 1.0E-5

218253
type: Parameter
constant: true
value: 0.1

219145
type: Reaction
kinetic law: 219181
product: 219169
reactant: 219157
fast: false
reversible: false

219169
type: SpeciesReference
stoichiometry: 1.0
species: 217591

219157
type: SpeciesReference
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species: 217591

218091
type: Parameter
constant: true
value: 0.1

220109
type: Reaction
kinetic law: 220145
product: 220133
reactant: 220121
fast: false
reversible: false

220133
type: SpeciesReference
stoichiometry: 1.0
species: 217481

220121
type: SpeciesReference
stoichiometry: 1.0
species: 217604

217567
type: Species
constant: false
boundary condition: false
has only substance units: false
initial concentration: 0.0
initial amount: NaN
in compartment: 217456

218066
type: Parameter
constant: true
value: 0.1

217956
type: Parameter
constant: true
value: 0.1

217882
type: Parameter
constant: true
value: 0.1

217846
type: Parameter
constant: true
value: 0.1

218289
type: Parameter
constant: true
value: 0.1

217579
type: Species
constant: false
boundary condition: false
has only substance units: false
initial concentration: 0.0
initial amount: NaN
in compartment: 217456

220157
type: Reaction
kinetic law: 220193
product: 220181
reactant: 220169
fast: false
reversible: false

220181
type: SpeciesReference
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species: 217469

220169
type: SpeciesReference
stoichiometry: 1.0
species: 217591

218566
type: Reaction
kinetic law: 218602
product: 218590
reactant: 218578
fast: false
reversible: false

218590
type: SpeciesReference
stoichiometry: 1.0
species: 217481

218578
type: SpeciesReference
stoichiometry: 1.0
species: 217493

218179
type: Parameter
constant: true
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217870
type: Parameter
constant: true
value: 0.1

219964
type: Reaction
kinetic law: 220001
product: 219989
reactant: 219976
fast: false
reversible: false

219989
type: SpeciesReference
stoichiometry: 1.0
species: 217469

219976
type: SpeciesReference
stoichiometry: 1.0
species: 217628

217834
type: Parameter
constant: true
value: 0.1

218277
type: Parameter
constant: true
value: 0.1

219193
type: Reaction
kinetic law: 219229
product: 219217
reactant: 219205
fast: false
reversible: false

219217
type: SpeciesReference
stoichiometry: 1.0
species: 217591

219205
type: SpeciesReference
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species: 217591

218167
type: Parameter
constant: true
value: 0.1

220013
type: Reaction
kinetic law: 220049
product: 220037
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fast: false
reversible: false

220037
type: SpeciesReference
stoichiometry: 1.0
species: 217505

220025
type: SpeciesReference
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species: 217616

219048
type: Reaction
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product: 219072
reactant: 219060
fast: false
reversible: false

219072
type: SpeciesReference
stoichiometry: 1.0
species: 217604

219060
type: SpeciesReference
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species: 217604

219675
type: Reaction
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product: 219699
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fast: false
reversible: false

219699
type: SpeciesReference
stoichiometry: 1.0
species: 217554

219687
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species: 217628

218614
type: Reaction
kinetic law: 218650
product: 218638
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fast: false
reversible: false

218638
type: SpeciesReference
stoichiometry: 1.0
species: 217505

218626
type: SpeciesReference
stoichiometry: 1.0
species: 217493

219385
type: Reaction
kinetic law: 219421
product: 219409
reactant: 219397
fast: false
reversible: false

219409
type: SpeciesReference
stoichiometry: 1.0
species: 217554

219397
type: SpeciesReference
stoichiometry: 1.0
species: 217554

217943
type: Parameter
constant: true
value: 0.1