metaid_0000072
kinetic law: 711267
modifier: 711255
product: 711243
fast: false
reversible: false
name: p16 synthesis inhibited by pRB
type: Reaction

metaid_0000020
constant: true
value: 2.0
name: k8
type: Parameter

metaid_0000067
kinetic law: 711135
product: 711123
product: 711111
reactant: 711099
fast: false
reversible: false
name: cycD/CDK4/p27 complex deassociation
type: Reaction

metaid_0000030
constant: true
value: 0.1
name: k24
type: Parameter

metaid_0000034
constant: true
value: 0.1
name: k26p
type: Parameter

metaid_0000048
is homolog to: P42771
constant: false
boundary condition: false
has only substance units: true
initial concentration: NaN
initial amount: 5.0
in compartment: metaid_0000038
name: p16
type: Species

710835
stoichiometry: 1.0
species: metaid_0000046
type: SpeciesReference

710606
stoichiometry: 1.0
species: metaid_0000042
type: SpeciesReference

710678
stoichiometry: 1.0
species: metaid_0000042
type: SpeciesReference

metaid_0000053
kinetic law: 710666
product: 710654
reactant: 710642
fast: false
reversible: false
name: cycE/CDK2 deactivation
type: Reaction

metaid_0000027
constant: true
value: 0.1
name: k21
type: Parameter

metaid_0000017
constant: true
value: 0.018
name: k6
type: Parameter

metaid_0000073
kinetic law: 711303
modifier: 711291
product: 711279
fast: false
reversible: false
name: pRB synthesis inhibited by p16
type: Reaction

metaid_0000007
constant: true
value: 0.5
name: k1pp
type: Parameter

710967
stoichiometry: 1.0
species: metaid_0000046
type: SpeciesReference

metaid_0000071
kinetic law: 711231
reactant: 711219
fast: false
reversible: false
name: p16 degradation
type: Reaction

metaid_0000066
kinetic law: 711087
product: 711075
reactant: 711063
reactant: 711051
fast: false
reversible: false
name: cycD/CDK4/p27 complex formation
type: Reaction

metaid_0000021
constant: true
value: 2.0
name: k9
type: Parameter

metaid_0000049
has version: IPR015451
has only substance units: true
has version: P11802
has version: P46527
in compartment: metaid_0000038
initial amount: 0.0
name: cycD_CDK4_p27
type: Species
constant: false
boundary condition: false
initial concentration: NaN

metaid_0000035
constant: true
value: 0.01
name: k27
type: Parameter

metaid_0000031
constant: true
value: 0.01
name: k25
type: Parameter

711075
stoichiometry: 1.0
species: metaid_0000049
type: SpeciesReference

710474
stoichiometry: 1.0
species: metaid_0000040
type: SpeciesReference

metaid_0000052
kinetic law: 710630
product: 710618
reactant: 710606
fast: false
reversible: false
name: cycE/CDK2 activation
type: Reaction

metaid_0000026
constant: true
value: 0.01
name: k20
type: Parameter

metaid_0000016
constant: true
value: 0.02
name: k5
type: Parameter

711123
stoichiometry: 1.0
species: metaid_0000045
type: SpeciesReference

metaid_0000006
constant: true
value: 0.5
name: k1p
type: Parameter

710907
stoichiometry: 1.0
species: metaid_0000046
type: SpeciesReference

metaid_0000069
kinetic law: 711183
reactant: 711171
fast: false
reversible: false
name: p27 degradation
type: Reaction

metaid_0000046
is homolog to: P46527
constant: false
boundary condition: false
has only substance units: true
initial concentration: NaN
initial amount: 15.0
in compartment: metaid_0000038
name: p27
type: Species

711051
stoichiometry: 1.0
species: metaid_0000046
type: SpeciesReference

710570
stoichiometry: 1.0
species: metaid_0000040
type: SpeciesReference

metaid_0000070
kinetic law: 711207
product: 711195
fast: false
reversible: false
name: p16 synthesis
type: Reaction

metaid_0000060
kinetic law: 710847
product: 710835
fast: false
reversible: false
name: p27 synthesis
type: Reaction

metaid_0000032
constant: true
value: 0.02
name: k25p
type: Parameter

metaid_0000036
constant: true
value: 0.01
name: k28
type: Parameter

metaid_0000050
name: pRB/E2F complex deassociation
product: 710474
reversible: false
type: Reaction
fast: false
product: 710486
modifier: 710498
kinetic law: 710546
modifier: 710510
reactant: 710462
modifier: 710522
modifier: 710534

metaid_0000029
constant: true
value: 0.2
name: k23
type: Parameter

metaid_0000051
kinetic law: 710594
product: 710582
reactant: 710570
reactant: 710558
fast: false
reversible: false
name: pRB/E2F complex formation
type: Reaction

710714
stoichiometry: 1.0
species: metaid_0000040
type: SpeciesReference

metaid_0000009
constant: true
value: 0.1
name: k2
type: Parameter

metaid_0000041
type: Species
initial amount: 0.01
initial concentration: NaN
in compartment: metaid_0000038
boundary condition: false
is version of: C00562
is version of: IPR015652
has only substance units: true
constant: false
name: pRB_P

metaid_0000015
constant: true
value: 0.001
name: kminus1
type: Parameter

711195
stoichiometry: 1.0
species: metaid_0000048
type: SpeciesReference

metaid_0000037
constant: true
value: 0.001
name: k29
type: Parameter

metaid_0000068
kinetic law: 711159
reactant: 711147
fast: false
reversible: false
name: acycE/CDK2 degradation
type: Reaction

metaid_0000047
has version: O96020
name: cycE_CDK2_p27
boundary condition: false
constant: false
has version: P24864
type: Species
has version: P24941
in compartment: metaid_0000038
has only substance units: true
initial concentration: NaN
initial amount: 1.0
has version: P46527

710786
stoichiometry: 1.0
species: metaid_0000045
type: SpeciesReference

metaid_0000033
constant: true
value: 0.01
name: k26
type: Parameter

711003
stoichiometry: 1.0
species: metaid_0000048
type: SpeciesReference

710558
stoichiometry: 1.0
species: metaid_0000044
type: SpeciesReference

metaid_0000014
constant: true
value: 0.016
name: kminus4
type: Parameter

metaid_0000028
constant: true
value: 0.001
name: k22
type: Parameter

711315
stoichiometry: 1.0
species: metaid_0000044
type: SpeciesReference

710486
stoichiometry: 1.0
species: metaid_0000041
type: SpeciesReference

711063
stoichiometry: 1.0
species: metaid_0000045
type: SpeciesReference

metaid_0000040
is version of: IPR015633
constant: false
boundary condition: false
has only substance units: true
initial concentration: NaN
initial amount: 0.0
in compartment: metaid_0000038
name: E2F
type: Species

710642
stoichiometry: 1.0
species: metaid_0000043
type: SpeciesReference

metaid_0000008
constant: true
value: 0.1
name: k1
type: Parameter

710991
stoichiometry: 1.0
species: metaid_0000045
type: SpeciesReference

711099
stoichiometry: 1.0
species: metaid_0000049
type: SpeciesReference

metaid_0000063
kinetic law: 710979
product: 710967
product: 710955
reactant: 710943
fast: false
reversible: false
name: cycE/CDK2/p27 deassociation
type: Reaction

metaid_0000038
constant: true
size: 1.0
spatial dimensions: 3.0
name: cell
type: Compartment

metaid_0000043
has version: O96020
has version: P24864
has version: P24941
initial concentration: NaN
in compartment: metaid_0000038
initial amount: 0.0
constant: false
boundary condition: false
type: Species
name: a_cyclinE_CDK2
has only substance units: true

metaid_0000023
constant: true
value: 3.5
name: k17
type: Parameter

711375
stoichiometry: 1.0
species: metaid_0000044
type: SpeciesReference

metaid_0000058
kinetic law: 710798
product: 710786
fast: false
reversible: false
name: cycD/CDK4 synthesis
type: Reaction

metaid_0000057
kinetic law: 710774
reactant: 710762
fast: false
reversible: false
name: icycE/CDK2 degradation
type: Reaction

metaid_0000013
constant: true
value: 1.0E-6
name: k4
type: Parameter

710859
stoichiometry: 1.0
species: metaid_0000046
type: SpeciesReference

metaid_0000076
kinetic law: 711387
product: 711375
reactant: 711363
fast: false
reversible: false
name: pRB-p dephosphorylation
type: Reaction

710654
stoichiometry: 1.0
species: metaid_0000042
type: SpeciesReference

711147
stoichiometry: 1.0
species: metaid_0000043
type: SpeciesReference

metaid_0000062
kinetic law: 710931
product: 710919
reactant: 710907
reactant: 710895
fast: false
reversible: false
name: cycE/CDK2/p27 complex formation
type: Reaction

711243
stoichiometry: 1.0
species: metaid_0000048
type: SpeciesReference

metaid_0000039
has part: IPR015652
initial concentration: NaN
has only substance units: true
name: pRB_E2F
constant: false
has part: IPR015633
type: Species
initial amount: 1.95
in compartment: metaid_0000038
boundary condition: false

metaid_0000022
constant: true
value: 0.035
name: K10
type: Parameter

metaid_0000042
type: Species
has version: P24941
initial concentration: NaN
in compartment: metaid_0000038
is version of: P24864
boundary condition: false
initial amount: 0.01
is version of: P24941
has only substance units: true
constant: false
has version: O96020
name: i_cyclinE_CDK2

710943
stoichiometry: 1.0
species: metaid_0000047
type: SpeciesReference

metaid_0000059
kinetic law: 710822
reactant: 710810
fast: false
reversible: false
name: cycD/CDK4 degradation
type: Reaction

metaid_0000061
kinetic law: 710883
modifier: 710871
reactant: 710859
fast: false
reversible: false
name: p27 degradation via cycE/CDK2
type: Reaction

metaid_0000056
kinetic law: 710750
reactant: 710738
fast: false
reversible: false
name: E2F degradation
type: Reaction

710810
stoichiometry: 1.0
species: metaid_0000045
type: SpeciesReference

metaid_0000012
constant: true
value: 0.0
name: k3p
type: Parameter

metaid_0000019
constant: true
value: 1.0E-5
name: k7
type: Parameter

metaid_0000075
kinetic law: 711351
reactant: 711339
fast: false
reversible: false
name: pRB degradation
type: Reaction

711111
stoichiometry: 1.0
species: metaid_0000046
type: SpeciesReference

711279
stoichiometry: 1.0
species: metaid_0000044
type: SpeciesReference

710618
stoichiometry: 1.0
species: metaid_0000043
type: SpeciesReference

metaid_0000065
kinetic law: 711039
product: 711027
fast: false
reversible: false
name: E2F auto stimulation
type: Reaction

711171
stoichiometry: 1.0
species: metaid_0000046
type: SpeciesReference

metaid_0000045
has version: P11802
type: Species
boundary condition: false
initial amount: 0.0
has only substance units: true
initial concentration: NaN
in compartment: metaid_0000038
name: CycD_CDK4
has version: IPR015451
constant: false

metaid_0000025
constant: true
value: 0.05
name: k19
type: Parameter

BIOMD0000000169
name: Mass_Action_2
parameter: metaid_0000014
is version of: GO:0031575
parameter: metaid_0000008
parameter: metaid_0000018
reaction: metaid_0000055
species: metaid_0000042
reaction: metaid_0000073
is: MODEL3897395081
species: metaid_0000041
function def: metaid_0000005
species: metaid_0000039
reaction: metaid_0000061
parameter: metaid_0000025
parameter: metaid_0000035
substance units: metaid_0000003
notes: The model reproduces the time profiles of p27, E2F and aE/cdk2 as depicted in Figure 5 c of the paper. Model was simulated on MathSBML. 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: metaid_0000033
reaction: metaid_0000076
occurs in: http://identifiers.org/taxonomy/40674
function def: metaid_0000003
name: Mass_Action_0
parameter: metaid_0000012
parameter: metaid_0000022
reaction: metaid_0000072
reaction: metaid_0000063
reaction: metaid_0000059
parameter: metaid_0000028
reaction: metaid_0000053
species: metaid_0000048
compartment: metaid_0000038
parameter: metaid_0000020
parameter: metaid_0000030
reaction: metaid_0000069
type: SBMLModel
curated: true
name: Aguda1999_CellCycle
species: metaid_0000045
parameter: metaid_0000015
parameter: metaid_0000009
parameter: metaid_0000019
reaction: metaid_0000056
reaction: metaid_0000066
name: Mass_Action_1
time units: metaid_0000027
parameter: metaid_0000006
parameter: metaid_0000036
species: metaid_0000040
is described by: http://identifiers.org/pubmed/10619492
species: metaid_0000047
parameter: metaid_0000013
parameter: metaid_0000023
parameter: metaid_0000029
area units: metaid_0000005
reaction: metaid_0000064
parameter: metaid_0000021
parameter: metaid_0000031
reaction: metaid_0000074
length unit: length
parameter: metaid_0000010
reaction: metaid_0000070
reaction: metaid_0000060
parameter: metaid_0000016
parameter: metaid_0000026
reaction: metaid_0000051
volume units: metaid_0000004
reaction: metaid_0000057
reaction: metaid_0000067
species: metaid_0000044
species: metaid_0000043
parameter: metaid_0000007
parameter: metaid_0000037
reaction: metaid_0000054
function def: metaid_0000004
reaction: metaid_0000050
parameter: metaid_0000024
parameter: metaid_0000034
reaction: metaid_0000065
parameter: metaid_0000032
reaction: metaid_0000075

711363
stoichiometry: 1.0
species: metaid_0000041
type: SpeciesReference

metaid_0000011
constant: true
value: 1.42
name: k3
type: Parameter

metaid_0000055
kinetic law: 710726
product: 710714
fast: false
reversible: false
name: E2F synthesis
type: Reaction

metaid_0000074
kinetic law: 711327
product: 711315
fast: false
reversible: false
name: pRB synthesis
type: Reaction

711339
stoichiometry: 1.0
species: metaid_0000044
type: SpeciesReference

metaid_0000018
constant: true
value: 5.0
name: kminus6
type: Parameter

711219
stoichiometry: 1.0
species: metaid_0000048
type: SpeciesReference

710919
stoichiometry: 1.0
species: metaid_0000047
type: SpeciesReference

710462
stoichiometry: 1.0
species: metaid_0000039
type: SpeciesReference

metaid_0000064
kinetic law: 711015
reactant: 711003
reactant: 710991
fast: false
reversible: false
name: cycD/CDK4/p16 complex formation
type: Reaction

metaid_0000044
is version of: IPR015652
constant: false
boundary condition: false
has only substance units: true
initial concentration: NaN
initial amount: 0.05
in compartment: metaid_0000038
name: pRB
type: Species

710738
stoichiometry: 1.0
species: metaid_0000040
type: SpeciesReference

metaid_0000024
constant: true
value: 1.0E-5
name: k18
type: Parameter

711027
stoichiometry: 1.0
species: metaid_0000040
type: SpeciesReference

710582
stoichiometry: 1.0
species: metaid_0000039
type: SpeciesReference

710762
stoichiometry: 1.0
species: metaid_0000042
type: SpeciesReference

710955
stoichiometry: 1.0
species: metaid_0000043
type: SpeciesReference

metaid_0000054
kinetic law: 710702
modifier: 710690
product: 710678
fast: false
reversible: false
name: icycE/CDK2 synthesis
type: Reaction

710895
stoichiometry: 1.0
species: metaid_0000043
type: SpeciesReference

metaid_0000010
constant: true
value: 1.0
name: kminus2
type: Parameter

W3 CDTF: Thu Apr 03 14:23:34 BST 2008

orgname: California Institute of Technology

W3 CDTF: Thu Jul 05 15:42:01 BST 2012

n:
  given: Harish
  family: Dharuri