BIOMD0000000191
type: SBMLModel
reaction: metaid_0000015
units def: metaid_0000008
creator:
  ORG:
    orgname: University of Malaga
  n:
    given: Francisca
    family: Sánchez-Jiménez
reaction: metaid_0000017
is described by: http://identifiers.org/pubmed/17520329
is part of: GO:0006527
occurs in: http://identifiers.org/taxonomy/40674
name: Montañez2008_Arginine_catabolism
creator:
  ORG:
    orgname: University of Malaga
  n:
    given: Raul
    family: Montañez
units def: metaid_0000009
has version: GO:0006591
creator:
  ORG:
    orgname: University of Malaga
  n:
    given: Miguel A.
    family: Medina
reaction: metaid_0000019
species: metaid_0000013
is part of: map00330
substance units: metaid_0000009
species: metaid_0000012
creator:
  ORG:
    orgname: Universitat Pompeu Fabra
  n:
    given: Carlos
    family: Rodríguez-Caso
area units: metaid_0000005
units def: metaid_0000021
units def: metaid_0000020
length unit: length
reaction: metaid_0000016
modified:
  W3 CDTF: Thu Jul 05 17:50:05 BST 2012
curated: true
compartment: metaid_0000011
creator:
  ORG:
    orgname: EMBL-EBI
  n:
    given: Lukas
    family: Endler
has version: GO:0006809
compartment: metaid_0000010
creator:
  ORG:
    orgname: University of M?laga. CIBERER (Enfermedades Raras)
  n:
    given: Armando
    family: Reyes-Palomares
notes: SBML creators: Armando Reyes-Palomares * , Raul Montañez *, Carlos Rodriguez-Caso +, Francisca Sanchez-Jimenez * , Miguel A. Medina * * ProCel Group, Department of Molecular Biology and Biochemistry, Faculty of Sciences, Campus de Teatinos, University of Malaga and CIBER de Enfermedades Raras (CIBER-ER). + Complex Systems Lab (ICREA-UPF), Barcelona Biomedical Research Park (PRBB-GRIB). http://asp.uma.es In silico analysis of arginine catabolism as a source of nitric oxide or polyamines in endothelial cells. Montañez, R et al.: Amino Acids. 2008 Feb;34(2):223-9. The model reproduces the dynamical behavior of the arginine catabolism and transport in relation to the nitric oxide production. In this model there are some additions and corrections to the publication. All perturbations and analysis have produced results very close to the published experiments. The model was successfully tested on CoPaSi v.4.4 (build 26). Erratum: parameters values modificated respect to the publication to reach the steady-state: Kmodc=90 µM (60 µM in the paper) Kiornhat (is equivalent to the parameter Kmefflhat Eq ) = 360 µM (380 µM in the paper) 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.
species: metaid_0000014
is: MODEL7416883636
reaction: metaid_0000018
created:
  W3 CDTF: Thu Nov 27 11:36:17 GMT 2008
volume units: metaid_0000004
time units: metaid_0000008

metaid_0000015
type: Reaction
name: Arginase
is version of: GO:0004053
is version of: R00551
is version of: http://identifiers.org/ec-code/3.5.3.1
modifier: 396914
is version of: REACT 394.2
product: 396901
kinetic law: 396926
reactant: 396889
fast: false
is: SBO:0000211
reversible: false

metaid_0000013
type: Species
in compartment: metaid_0000011
initial amount: NaN
name: Ornithine
boundary condition: false
is: C00077
initial concentration: 1.0
is: CHEBI:15729
constant: false
has only substance units: false
is: SBO:0000247

metaid_0000011
type: Compartment
is: GO:0005829
is: SBO:0000290
constant: true
size: 1.0
spatial dimensions: 3.0
name: cytosol

396901
type: SpeciesReference
stoichiometry: 1.0
species: metaid_0000013

396962
type: LocalParameter
is: SBO:0000261
units: metaid_0000020
value: 1000.0

metaid_0000020
type: SBMLUnitsDef
unit: 396840
unit: 396828
name: microM

396840
type: SBMLUnit
exponent: -1.0
scale: 0
multipler: 1.0
kind: LITRE

396828
type: SBMLUnit
exponent: 1.0
scale: -6
multipler: 1.0
kind: MOLE

396950
type: LocalParameter
is: SBO:0000322
units: metaid_0000020
value: 1500.0

396938
type: LocalParameter
is: SBO:0000324
units: metaid_0000021
value: 110.0

metaid_0000021
type: SBMLUnitsDef
unit: 396876
unit: 396864
unit: 396852
name: microMpermin

396876
type: SBMLUnit
exponent: -1.0
scale: 0
multipler: 60.0
kind: SECOND

396864
type: SBMLUnit
exponent: -1.0
scale: 0
multipler: 1.0
kind: LITRE

396852
type: SBMLUnit
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multipler: 1.0
kind: MOLE

396889
type: SpeciesReference
stoichiometry: 1.0
species: metaid_0000014

metaid_0000014
type: Species
constant: false
in compartment: metaid_0000011
is: SBO:0000247
has only substance units: false
initial amount: NaN
name: Arginine in
is: CHEBI:16467
boundary condition: false
initial concentration: 1.0
is: C00062

396804
type: SBMLUnit
exponent: 1.0
scale: 0
multipler: 60.0
kind: SECOND

metaid_0000017
type: Reaction
modifier: 397101
fast: false
modifier: 397114
is: GO:0015326
reversible: false
is: SBO:0000185
reactant: 397088
name: Ornithine efflux
kinetic law: 397126

metaid_0000012
type: Species
is: C00062
has only substance units: false
initial concentration: 330.0
constant: true
is: SBO:0000247
in compartment: metaid_0000010
boundary condition: true
initial amount: NaN
is: CHEBI:16467
name: Arginine ex

metaid_0000010
type: Compartment
is: GO:0005615
is: SBO:0000290
constant: true
size: 1.0
spatial dimensions: 3.0
name: extracellular

397088
type: SpeciesReference
is: SBO:0000015
stoichiometry: 1.0
species: metaid_0000013

397203
type: LocalParameter
is: SBO:0000261
units: metaid_0000020
value: 360.0

397190
type: LocalParameter
is: SBO:0000322
units: metaid_0000020
value: 847.0

397177
type: LocalParameter
is: SBO:0000324
units: metaid_0000021
value: 420.0

397164
type: LocalParameter
is: SBO:0000324
units: metaid_0000021
value: 160.5

397151
type: LocalParameter
is: SBO:0000261
units: metaid_0000020
value: 847.0

397139
type: LocalParameter
is: SBO:0000261
units: metaid_0000020
value: 70.0

396816
type: SBMLUnit
exponent: 1.0
scale: -6
multipler: 1.0
kind: MOLE

metaid_0000019
type: Reaction
is version of: R00670
fast: false
reactant: 397268
is version of: REACT 1211.3
is version of: GO:0004586
kinetic law: 397280
name: Ornithine decarboxylase
reversible: false
is: SBO:0000211
is version of: http://identifiers.org/ec-code/4.1.1.17

397268
type: SpeciesReference
is: SBO:0000015
stoichiometry: 1.0
species: metaid_0000013

397305
type: LocalParameter
is: SBO:0000322
units: metaid_0000020
value: 90.0

397293
type: LocalParameter
is: SBO:0000324
units: metaid_0000021
value: 0.013

metaid_0000016
type: Reaction
reactant: 396974
product: 396987
is: GO:0015326
reversible: false
modifier: 397000
is: SBO:0000185
name: Arginine transport
kinetic law: 397012
fast: false

396974
type: SpeciesReference
is: SBO:0000015
stoichiometry: 1.0
species: metaid_0000012

396987
type: SpeciesReference
is: SBO:0000011
stoichiometry: 1.0
species: metaid_0000014

397075
type: LocalParameter
is: SBO:0000261
units: metaid_0000020
value: 360.0

397062
type: LocalParameter
is: SBO:0000324
units: metaid_0000021
value: 420.0

397050
type: LocalParameter
is: SBO:0000322
units: metaid_0000020
value: 847.0

397037
type: LocalParameter
is: SBO:0000324
units: metaid_0000020
value: 160.5

397025
type: LocalParameter
is: SBO:0000322
units: metaid_0000020
value: 70.0

metaid_0000018
type: Reaction
is version of: http://identifiers.org/ec-code/1.14.13.39
reactant: 397216
name: Nitric oxide synthase
is version of: REACT 12443.1
reversible: false
is version of: R00557
kinetic law: 397229
is: SBO:0000211
fast: false
is version of: GO:0004517

397216
type: SpeciesReference
is: SBO:0000015
stoichiometry: 1.0
species: metaid_0000014

397255
type: LocalParameter
units: metaid_0000020
value: 16.0

397242
type: LocalParameter
is: SBO:0000324
units: metaid_0000021
value: 1.33