BIOMD0000000026
type: SBMLModel
species: metaid_0000029
species: metaid_0000025
reaction: metaid_0000039
reaction: metaid_0000031
parameter: metaid_0000009
reaction: metaid_0000036
area units: area
reaction: metaid_0000034
parameter: metaid_0000014
units def: metaid_0000041
compartment: metaid_0000019
parameter: metaid_0000007
parameter: metaid_0000017
parameter: metaid_0000011
species: metaid_0000023
species: metaid_0000028
parameter: metaid_0000004
modified:
  W3 CDTF: Tue May 15 22:41:59 BST 2012
species: metaid_0000024
creator:
  ORG:
    orgname: EMBL-EBI
  n:
    given: Nicolas
    family: Le Novère
species: metaid_0000027
substance units: metaid_0000041
reaction: metaid_0000037
reaction: metaid_0000035
created:
  W3 CDTF: Mon May 23 13:47:22 BST 2005
parameter: metaid_0000015
volume units: metaid_0000323
reaction: metaid_0000032
parameter: metaid_0000012
is version of: GO:0000165
parameter: metaid_0000018
creator:
  ORG:
    orgname: University of Vienna
  n:
    given: Rainer
    family: Machne
time units: metaid_0000017
species: metaid_0000022
is: MODEL6618379269
occurs in: http://identifiers.org/taxonomy/8355
curated: true
parameter: metaid_0000005
species: metaid_0000021
reaction: metaid_0000038
species: metaid_0000026
reaction: metaid_0000040
parameter: metaid_0000008
name: Markevich2004_MAPK_orderedElementary
is described by: http://identifiers.org/pubmed/14744999
reaction: metaid_0000033
parameter: metaid_0000003
parameter: metaid_0000013
species: metaid_0000030
parameter: metaid_0000006
parameter: metaid_0000016
parameter: metaid_0000010
notes: The model corresponds to the schemas 1 and 2 of Markevich et al 2004, as described in the figure 1 and the supplementary table S1. Phosphorylations and dephosphorylations follow distributive ordered kinetics. The phosphorylations are modeled with three elementary reactions: E+S<=>ES->E+P The dephosphorylations are modeled with five elementary reactions: E+S<=>ES->EP<=>E+P
length unit: length
species: metaid_0000020

metaid_0000029
type: Species
has only substance units: false
in compartment: metaid_0000019
initial concentration: NaN
name: Mp_MKP*
initial amount: 0.0
boundary condition: false
has part: P26696
constant: false
has part: Q90W58

metaid_0000019
type: Compartment
constant: true
size: 1.0
spatial dimensions: 3.0

metaid_0000025
type: Species
has part: Q05116
has part: P26696
constant: false
boundary condition: false
has only substance units: false
initial concentration: NaN
initial amount: 0.0
in compartment: metaid_0000019

metaid_0000039
type: Reaction
kinetic law: 012233
product: 012221
reactant: 012209
is version of: http://identifiers.org/ec-code/3.1.3.16
fast: false
reversible: false
name: dephosphorylation of P-MAPK

012221
type: SpeciesReference
stoichiometry: 1.0
species: metaid_0000030

metaid_0000030
type: Species
initial amount: 0.0
in compartment: metaid_0000019
constant: false
has part: Q90W58
boundary condition: false
has only substance units: false
name: M_MKP
has part: P26696
initial concentration: NaN

012209
type: SpeciesReference
stoichiometry: 1.0
species: metaid_0000029

metaid_0000031
type: Reaction
kinetic law: 011871
is homolog to: REACT 495
is version of: GO:0051019
product: 011859
name: binding MAPK and PP-MAPKK
fast: false
is version of: GO:0031434
reactant: 011847
reversible: true
is homolog to: REACT 1780
reactant: 011835

011859
type: SpeciesReference
stoichiometry: 1.0
species: metaid_0000025

011847
type: SpeciesReference
stoichiometry: 1.0
species: metaid_0000023

metaid_0000023
type: Species
is: Q05116
constant: false
boundary condition: false
has only substance units: false
initial concentration: NaN
initial amount: 50.0
in compartment: metaid_0000019

011835
type: SpeciesReference
stoichiometry: 1.0
species: metaid_0000020

metaid_0000020
type: Species
is version of: P26696
constant: false
boundary condition: false
has only substance units: false
initial concentration: NaN
initial amount: 500.0
in compartment: metaid_0000019

metaid_0000009
type: Parameter
constant: true
value: 0.045

metaid_0000036
type: Reaction
fast: false
is version of: http://identifiers.org/ec-code/3.1.3.16
reversible: false
kinetic law: 012101
name: dephosphorylation of PP-MAPK
is version of: GO:0006470
product: 012089
reactant: 012077
is version of: GO:0000188

012089
type: SpeciesReference
stoichiometry: 1.0
species: metaid_0000028

metaid_0000028
type: Species
boundary condition: false
has only substance units: false
has part: Q90W58
initial amount: 0.0
in compartment: metaid_0000019
constant: false
name: Mp_MKP
has part: P26696
initial concentration: NaN

012077
type: SpeciesReference
stoichiometry: 1.0
species: metaid_0000027

metaid_0000027
type: Species
boundary condition: false
in compartment: metaid_0000019
name: Mpp_MKP
has part: P26696
initial amount: 0.0
has part: Q90W58
constant: false
has only substance units: false
initial concentration: NaN

metaid_0000034
type: Reaction
product: 012004
reactant: 011980
fast: false
is version of: GO:0006468
is homolog to: REACT 136
kinetic law: 012016
is version of: GO:0004708
is homolog to: REACT 2247
is version of: http://identifiers.org/ec-code/2.7.12.2
product: 011992
reversible: false
is version of: GO:0000187
name: phosphorylation of P-MAPK

012004
type: SpeciesReference
stoichiometry: 1.0
species: metaid_0000023

011980
type: SpeciesReference
stoichiometry: 1.0
species: metaid_0000026

metaid_0000026
type: Species
has part: P26696
has part: Q05116
constant: false
boundary condition: false
has only substance units: false
initial concentration: NaN
initial amount: 0.0
in compartment: metaid_0000019

011992
type: SpeciesReference
stoichiometry: 1.0
species: metaid_0000022

metaid_0000022
type: Species
is version of: P26696
constant: false
boundary condition: false
has only substance units: false
initial concentration: NaN
initial amount: 0.0
in compartment: metaid_0000019

metaid_0000014
type: Parameter
constant: true
value: 0.01

metaid_0000041
type: SBMLUnitsDef
unit: 011823
name: nanomole (default)

011823
type: SBMLUnit
exponent: 1.0
scale: -9
multipler: 1.0
kind: MOLE

metaid_0000007
type: Parameter
constant: true
value: 1.0

metaid_0000017
type: Parameter
constant: true
value: 0.086

metaid_0000011
type: Parameter
constant: true
value: 0.092

metaid_0000004
type: Parameter
constant: true
value: 1.0

metaid_0000024
type: Species
is: Q90W58
constant: false
boundary condition: false
has only substance units: false
initial concentration: NaN
initial amount: 100.0
in compartment: metaid_0000019
name: MKP

metaid_0000037
type: Reaction
kinetic law: 012149
product: 012137
product: 012125
reactant: 012113
is version of: GO:0043241
fast: false
reversible: true
name: dissociation of MKP from P-MAPK

012137
type: SpeciesReference
stoichiometry: 1.0
species: metaid_0000024

012125
type: SpeciesReference
stoichiometry: 1.0
species: metaid_0000021

metaid_0000021
type: Species
is version of: P26696
constant: false
boundary condition: false
has only substance units: false
initial concentration: NaN
initial amount: 0.0
in compartment: metaid_0000019

012113
type: SpeciesReference
stoichiometry: 1.0
species: metaid_0000028

metaid_0000035
type: Reaction
reactant: 012041
reversible: true
name: binding MKP and PP-MAPK
kinetic law: 012065
product: 012053
fast: false
is version of: GO:0031434
reactant: 012029
is version of: GO:0051019

012041
type: SpeciesReference
stoichiometry: 1.0
species: metaid_0000024

012053
type: SpeciesReference
stoichiometry: 1.0
species: metaid_0000027

012029
type: SpeciesReference
stoichiometry: 1.0
species: metaid_0000022

metaid_0000015
type: Parameter
constant: true
value: 1.0

metaid_0000032
type: Reaction
is homolog to: REACT 136
reactant: 011883
kinetic law: 011919
is version of: GO:0004708
is version of: GO:0006468
name: phosphorylation of MAPK
is homolog to: REACT 2247
product: 011907
fast: false
is version of: http://identifiers.org/ec-code/2.7.12.2
product: 011895
reversible: false

011883
type: SpeciesReference
stoichiometry: 1.0
species: metaid_0000025

011907
type: SpeciesReference
stoichiometry: 1.0
species: metaid_0000023

011895
type: SpeciesReference
stoichiometry: 1.0
species: metaid_0000021

metaid_0000012
type: Parameter
constant: true
value: 1.0

metaid_0000018
type: Parameter
constant: true
value: 0.0011

metaid_0000005
type: Parameter
constant: true
value: 0.01

metaid_0000038
type: Reaction
kinetic law: 012197
product: 012185
reactant: 012173
reactant: 012161
is version of: GO:0051019
fast: false
reversible: true
name: binding MKP and P-MAPK

012185
type: SpeciesReference
stoichiometry: 1.0
species: metaid_0000029

012173
type: SpeciesReference
stoichiometry: 1.0
species: metaid_0000024

012161
type: SpeciesReference
stoichiometry: 1.0
species: metaid_0000021

metaid_0000040
type: Reaction
kinetic law: 012281
product: 012269
product: 012257
reactant: 012245
is version of: GO:0043241
fast: false
reversible: true
name: dissociation of MKP from MAPK

012269
type: SpeciesReference
stoichiometry: 1.0
species: metaid_0000024

012257
type: SpeciesReference
stoichiometry: 1.0
species: metaid_0000020

012245
type: SpeciesReference
stoichiometry: 1.0
species: metaid_0000030

metaid_0000008
type: Parameter
constant: true
value: 15.0

metaid_0000033
type: Reaction
is homolog to: REACT 1780
reversible: true
is homolog to: REACT 495
reactant: 011943
product: 011955
kinetic law: 011967
is version of: GO:0031434
name: binding PP-MAPKK and P-MAPK
reactant: 011931
is version of: GO:0051019
fast: false

011943
type: SpeciesReference
stoichiometry: 1.0
species: metaid_0000023

011955
type: SpeciesReference
stoichiometry: 1.0
species: metaid_0000026

011931
type: SpeciesReference
stoichiometry: 1.0
species: metaid_0000021

metaid_0000003
type: Parameter
constant: true
value: 0.02

metaid_0000013
type: Parameter
constant: true
value: 0.01

metaid_0000006
type: Parameter
constant: true
value: 0.032

metaid_0000016
type: Parameter
constant: true
value: 0.5

metaid_0000010
type: Parameter
constant: true
value: 1.0