metaid_0000019
constant: true
units: metaid_0000065
value: 0.02
type: Parameter

metaid_0000026
constant: true
units: metaid_0000065
value: 0.12
type: Parameter

748784
stoichiometry: 1.0
species: metaid_0000035
type: SpeciesReference

metaid_0000005
constant: true
units: metaid_0000063
value: 0.01
type: Parameter

metaid_0000011
constant: true
units: dimensionless
value: 3.0
type: Parameter

748613
exponent: -1.0
scale: 0
multipler: 3600.0
kind: SECOND
type: SBMLUnit

metaid_0000063
unit: 748564
unit: 748552
name: nM
type: SBMLUnitsDef

749049
stoichiometry: 1.0
species: metaid_0000038
type: SpeciesReference

metaid_0000046
kinetic law: 748734
modifier: 748722
product: 748710
is version of: GO:0046982
fast: false
reversible: false
name: per2_cry_complex_formation
type: Reaction

748662
stoichiometry: 1.0
species: metaid_0000033
type: SpeciesReference

748528
exponent: 1.0
scale: -9
multipler: 1.0
kind: MOLE
type: SBMLUnit

metaid_0000025
constant: true
units: metaid_0000065
value: 0.06
type: Parameter

748747
stoichiometry: 1.0
species: metaid_0000034
type: SpeciesReference

749146
stoichiometry: 1.0
species: metaid_0000039
type: SpeciesReference

metaid_0000045
kinetic law: 748698
reactant: 748686
is version of: GO:0006402
fast: false
reversible: false
name: per2_cry_mRNA_degradation
type: Reaction

metaid_0000044
kinetic law: 748674
product: 748662
is version of: GO:0006351
fast: false
reversible: false
name: per2_cry_transcription
type: Reaction

metaid_0000012
constant: true
units: metaid_0000063
value: 2.16
type: Parameter

metaid_0000039
is version of: Q8IUT4
constant: false
boundary condition: false
has only substance units: false
initial concentration: 1.05
initial amount: NaN
in compartment: metaid_0000030
name: Active BMAL1
type: Species

metaid_0000006
constant: true
units: metaid_0000063
value: 1.0
type: Parameter

metaid_0000030
constant: true
size: 1.0
spatial dimensions: 3.0
name: Nucleus
type: Compartment

metaid_0000050
kinetic law: 748856
reactant: 748844
is version of: GO:0044257
fast: false
reversible: false
name: nuclear_per2_cry_complex_degradation
type: Reaction

metaid_0000059
kinetic law: 749134
product: 749122
reactant: 749110
is version of: GO:0043433
fast: false
reversible: false
name: BMAL1_deactivation
type: Reaction

748577
exponent: 1.0
scale: -9
multipler: 1.0
kind: MOLE
type: SBMLUnit

749013
stoichiometry: 1.0
species: metaid_0000038
type: SpeciesReference

metaid_0000064
unit: 748601
unit: 748589
unit: 748577
name: nM_per_hour
type: SBMLUnitsDef

748625
exponent: -1.0
scale: -9
multipler: 1.0
kind: MOLE
type: SBMLUnit

metaid_0000028
constant: true
units: metaid_0000065
value: 0.003
type: Parameter

metaid_0000017
constant: true
units: metaid_0000065
value: 0.05
type: Parameter

metaid_0000038
is version of: Q8IUT4
constant: false
boundary condition: false
has only substance units: false
initial concentration: 1.0
initial amount: NaN
in compartment: metaid_0000030
name: BMAL1_nucleus
type: Species

metaid_0000007
constant: true
units: metaid_0000063
value: 0.56
type: Parameter

metaid_0000031
constant: true
size: 1.0
spatial dimensions: 3.0
name: Cytoplasm
type: Compartment

metaid_0000051
kinetic law: 748880
product: 748868
is version of: GO:0006351
fast: false
reversible: false
name: Bmal1_transcription
type: Reaction

BIOMD0000000170
species: metaid_0000034
reaction: metaid_0000051
reaction: metaid_0000050
reaction: metaid_0000047
reaction: metaid_0000057
reaction: metaid_0000048
units def: metaid_0000062
area units: metaid_0000005
parameter: metaid_0000020
parameter: metaid_0000029
substance units: metaid_0000061
occurs in: http://identifiers.org/taxonomy/40674
units def: metaid_0000064
rule: metaid_0000041
parameter: metaid_0000027
time units: metaid_0000062
rule: metaid_0000043
species: metaid_0000035
reaction: metaid_0000055
parameter: metaid_0000023
parameter: metaid_0000006
reaction: metaid_0000054
compartment: metaid_0000030
species: metaid_0000033
is described by: http://identifiers.org/pubmed/15347590
type: SBMLModel
curated: true
parameter: metaid_0000003
parameter: metaid_0000013
compartment: metaid_0000031
parameter: metaid_0000004
reaction: metaid_0000052
reaction: metaid_0000049
reaction: metaid_0000059
is part of: hsa04710
reaction: metaid_0000045
species: metaid_0000038
reaction: metaid_0000058
notes: The model reproduces the time profile of the species as depicted in Fig 3A of the paper. Model successfully tested on MathSBML and Jarnac.
modified:
  W3 CDTF: Wed May 16 11:04:56 BST 2012
rule: metaid_0000042
units def: metaid_0000063
parameter: metaid_0000007
parameter: metaid_0000017
creator:
  ORG:
    orgname: California Institute of Technology
  n:
    given: Harish
    family: Dharuri
parameter: metaid_0000008
reaction: metaid_0000056
units def: metaid_0000065
parameter: metaid_0000005
parameter: metaid_0000015
species: metaid_0000039
parameter: metaid_0000011
is: GO:0007623
parameter: metaid_0000014
parameter: metaid_0000024
created:
  W3 CDTF: Wed Apr 16 12:56:13 BST 2008
reaction: metaid_0000060
parameter: metaid_0000010
species: metaid_0000037
length unit: length
is: MODEL8378813456
units def: metaid_0000061
parameter: metaid_0000009
parameter: metaid_0000019
reaction: metaid_0000046
name: Weimann2004_CircadianOscillator
parameter: metaid_0000018
parameter: metaid_0000028
units def: metaid_0000066
parameter: metaid_0000025
species: metaid_0000036
reaction: metaid_0000053
parameter: metaid_0000021
volume units: metaid_0000004
parameter: metaid_0000016
parameter: metaid_0000026
reaction: metaid_0000044
parameter: metaid_0000012
parameter: metaid_0000022

metaid_0000058
kinetic law: 749098
product: 749086
reactant: 749074
is version of: GO:0051091
fast: false
reversible: false
name: BMAL1_activation
type: Reaction

748564
exponent: -1.0
scale: 0
multipler: 1.0
kind: LITRE
type: SBMLUnit

749074
stoichiometry: 1.0
species: metaid_0000038
type: SpeciesReference

748650
exponent: -1.0
scale: 0
multipler: 3600.0
kind: SECOND
type: SBMLUnit

748976
stoichiometry: 1.0
species: metaid_0000037
type: SpeciesReference

metaid_0000048
kinetic law: 748796
product: 748784
reactant: 748771
is version of: GO:0051170
fast: false
reversible: false
name: per2_cry_nuclear_import
type: Reaction

metaid_0000061
unit: 748528
name: nano mole
type: SBMLUnitsDef

metaid_0000018
constant: true
units: metaid_0000065
value: 0.24
type: Parameter

metaid_0000027
constant: true
units: metaid_0000065
value: 0.09
type: Parameter

748638
exponent: 1.0
scale: 0
multipler: 1.0
kind: LITRE
type: SBMLUnit

metaid_0000008
constant: true
units: dimensionless
value: 8.0
type: Parameter

metaid_0000037
is version of: Q8IUT4
constant: false
boundary condition: false
has only substance units: false
initial concentration: 1.0
initial amount: NaN
in compartment: metaid_0000031
name: BMAL1_cytoplasm
type: Species

748710
stoichiometry: 1.0
species: metaid_0000034
type: SpeciesReference

metaid_0000010
constant: true
units: metaid_0000064
value: 3.6
type: Parameter

metaid_0000057
kinetic law: 749062
reactant: 749049
is version of: GO:0044257
fast: false
reversible: false
name: nuclear_BMAL1_degradation
type: Reaction

metaid_0000052
kinetic law: 748904
reactant: 748892
is version of: GO:0006402
fast: false
reversible: false
name: Bmal1_mRNA_degradation
type: Reaction

748844
stoichiometry: 1.0
species: metaid_0000035
type: SpeciesReference

metaid_0000047
kinetic law: 748759
reactant: 748747
is version of: GO:0044257
fast: false
reversible: false
name: cytoplasmic_per2_cry_complex_degradation
type: Reaction

metaid_0000062
unit: 748540
name: hour
type: SBMLUnitsDef

748589
exponent: -1.0
scale: 0
multipler: 1.0
kind: LITRE
type: SBMLUnit

748552
exponent: 1.0
scale: -9
multipler: 1.0
kind: MOLE
type: SBMLUnit

metaid_0000009
constant: false
units: metaid_0000064
value: 0.0
type: Parameter

748808
stoichiometry: 1.0
species: metaid_0000035
type: SpeciesReference

metaid_0000036
type: Species
is version of: CHEBI:33699
in compartment: metaid_0000031
is version of: C00046
initial amount: NaN
encodes: Q8IUT4
constant: false
has only substance units: false
boundary condition: false
name: Bmal1 mRNA
initial concentration: 0.8

metaid_0000022
constant: true
units: metaid_0000065
value: 0.24
type: Parameter

metaid_0000020
constant: true
units: metaid_0000065
value: 0.12
type: Parameter

749122
stoichiometry: 1.0
species: metaid_0000038
type: SpeciesReference

metaid_0000053
kinetic law: 748940
modifier: 748928
product: 748916
is version of: GO:0006412
fast: false
reversible: false
name: BMAL1_translation
type: Reaction

metaid_0000015
constant: true
units: metaid_0000066
value: 0.3
type: Parameter

748686
stoichiometry: 1.0
species: metaid_0000033
type: SpeciesReference

metaid_0000060
kinetic law: 749159
reactant: 749146
is version of: GO:0044257
fast: false
reversible: false
name: Active_BMAL1_degradation
type: Reaction

748988
stoichiometry: 1.0
species: metaid_0000038
type: SpeciesReference

metaid_0000035
name: PER2_CRY_complex_nucleus
has part: Q16526
boundary condition: false
in compartment: metaid_0000030
type: Species
initial concentration: 1.1
initial amount: NaN
has part: O15055
constant: false
has only substance units: false

749086
stoichiometry: 1.0
species: metaid_0000039
type: SpeciesReference

metaid_0000049
kinetic law: 748832
product: 748820
reactant: 748808
is version of: GO:0051168
fast: false
reversible: false
name: per2_cry_nuclear_export
type: Reaction

metaid_0000021
constant: true
units: metaid_0000065
value: 0.75
type: Parameter

748771
stoichiometry: 1.0
species: metaid_0000034
type: SpeciesReference

metaid_0000054
kinetic law: 748964
reactant: 748952
is version of: GO:0044257
fast: false
reversible: false
name: cytoplasmic_BMAL1_degradation
type: Reaction

metaid_0000016
constant: true
units: dimensionless
value: 2.0
type: Parameter

metaid_0000029
constant: true
units: metaid_0000065
value: 0.09
type: Parameter

748868
stoichiometry: 1.0
species: metaid_0000036
type: SpeciesReference

748540
exponent: 1.0
scale: 0
multipler: 3600.0
kind: SECOND
type: SBMLUnit

metaid_0000024
constant: true
units: metaid_0000065
value: 0.45
type: Parameter

748952
stoichiometry: 1.0
species: metaid_0000037
type: SpeciesReference

748601
exponent: -1.0
scale: 0
multipler: 3600.0
kind: SECOND
type: SBMLUnit

metaid_0000065
unit: 748613
name: hr_inv
type: SBMLUnitsDef

metaid_0000003
constant: false
units: metaid_0000064
value: 0.0
type: Parameter

metaid_0000013
constant: false
units: metaid_0000063
value: 3.05
type: Parameter

metaid_0000055
kinetic law: 749001
product: 748988
reactant: 748976
is version of: GO:0051170
fast: false
reversible: false
name: BMAL1_nuclear_import
type: Reaction

metaid_0000034
initial concentration: 0.0
boundary condition: false
name: PER2_CRY_complex_cytoplasm
constant: false
initial amount: NaN
in compartment: metaid_0000031
has part: O15055
type: Species
has part: Q16526
has only substance units: false

749110
stoichiometry: 1.0
species: metaid_0000039
type: SpeciesReference

748820
stoichiometry: 1.0
species: metaid_0000034
type: SpeciesReference

748916
stoichiometry: 1.0
species: metaid_0000037
type: SpeciesReference

749025
stoichiometry: 1.0
species: metaid_0000037
type: SpeciesReference

metaid_0000066
unit: 748650
unit: 748638
unit: 748625
name: nM_inv_hr_inv
type: SBMLUnitsDef

metaid_0000023
constant: true
units: metaid_0000065
value: 0.06
type: Parameter

metaid_0000004
constant: true
units: metaid_0000064
value: 9.0
type: Parameter

748892
stoichiometry: 1.0
species: metaid_0000036
type: SpeciesReference

metaid_0000014
constant: true
units: metaid_0000065
value: 0.12
type: Parameter

metaid_0000033
type: Species
name: Per2 or Cry mRNA
in compartment: metaid_0000031
has only substance units: false
constant: false
initial amount: NaN
encodes: Q16526
is version of: C00046
encodes: O15055
is version of: CHEBI:33699
initial concentration: 0.2
boundary condition: false

metaid_0000056
kinetic law: 749037
product: 749025
reactant: 749013
is version of: GO:0051168
fast: false
reversible: false
name: BMAL1_nuclear_export
type: Reaction