454747
stoichiometry: 1.0
species: metaid_0000062
type: SpeciesReference

metaid_0000115
kinetic law: 455709
modifier: 455697
modifier: 455685
product: 455673
is version of: GO:0003700
fast: false
reversible: false
name: PDP binding clk promoter
type: Reaction

metaid_0000021
constant: true
value: 0.07
type: Parameter

metaid_0000035
constant: true
value: 0.952
type: Parameter

metaid_0000008
constant: true
value: 36.0
type: Parameter

metaid_0000105
kinetic law: 455361
reactant: 455349
is version of: GO:0044257
fast: false
reversible: false
name: TIM protein degradation
type: Reaction

metaid_0000060
constant: false
boundary condition: false
has only substance units: false
initial concentration: 0.003185
initial amount: NaN
in compartment: metaid_0000051
name: vrip
type: Species

metaid_0000120
unit: 454374
name: hour
type: SBMLUnitsDef

metaid_0000087
kinetic law: 454711
modifier: 454699
modifier: 454687
product: 454675
is version of: GO:0006351
fast: false
reversible: false
name: vri transcription
type: Reaction

metaid_0000077
constant: false
boundary condition: false
has only substance units: false
initial concentration: NaN
initial amount: 0.043
in compartment: metaid_0000051
name: CCbindingtim
type: Species

metaid_0000049
constant: true
value: 6.0
type: Parameter

454386
stoichiometry: 1.0
species: metaid_0000053
type: SpeciesReference

metaid_0000116
kinetic law: 455733
reactant: 455721
is version of: GO:0043433
fast: false
reversible: false
name: PDP unbinding clk promoter
type: Reaction

455024
stoichiometry: 1.0
species: metaid_0000053
type: SpeciesReference

455385
stoichiometry: 1.0
species: metaid_0000053
type: SpeciesReference

metaid_0000034
constant: true
value: 1.043
type: Parameter

455349
stoichiometry: 1.0
species: metaid_0000070
type: SpeciesReference

metaid_0000106
kinetic law: 455409
product: 455397
product: 455385
reactant: 455373
is version of: GO:0046982
fast: false
reversible: false
name: CC PT dimer dissociation
type: Reaction

metaid_0000009
constant: true
value: 11.0
type: Parameter

metaid_0000020
constant: true
value: 9.831
type: Parameter

454410
stoichiometry: 1.0
species: metaid_0000054
type: SpeciesReference

metaid_0000086
kinetic law: 454663
modifier: 454651
modifier: 454638
product: 454626
is version of: GO:0006351
fast: false
reversible: false
name: per transcription
type: Reaction

455541
stoichiometry: 1.0
species: metaid_0000074
type: SpeciesReference

455601
stoichiometry: 1.0
species: metaid_0000075
type: SpeciesReference

metaid_0000048
constant: true
value: 4.0
type: Parameter

metaid_0000076
constant: false
boundary condition: false
has only substance units: false
initial concentration: NaN
initial amount: 0.426
in compartment: metaid_0000051
name: PDPbindingclkp
type: Species

454675
stoichiometry: 1.0
species: metaid_0000061
type: SpeciesReference

metaid_0000061
constant: false
boundary condition: false
has only substance units: false
initial concentration: 0.2571
initial amount: NaN
in compartment: metaid_0000051
name: vrim
type: Species

455181
stoichiometry: 1.0
species: metaid_0000067
type: SpeciesReference

metaid_0000117
kinetic law: 455769
modifier: 455757
product: 455745
is version of: GO:0006357
fast: false
reversible: false
name: CC binding probability in tim promoter
type: Reaction

metaid_0000103
kinetic law: 455301
reactant: 455289
is version of: GO:0006402
fast: false
reversible: false
name: Degradation of tim mRNA
type: Reaction

455289
stoichiometry: 1.0
species: metaid_0000069
type: SpeciesReference

metaid_0000006
constant: true
value: 51.0
type: Parameter

metaid_0000037
constant: true
value: 0.156
type: Parameter

metaid_0000089
kinetic law: 454771
modifier: 454759
product: 454747
is version of: GO:0006412
fast: false
reversible: false
name: vrim translation
type: Reaction

454374
exponent: 1.0
scale: 0
multipler: 3600.0
kind: SECOND
type: SBMLUnit

metaid_0000075
constant: false
boundary condition: false
has only substance units: false
initial concentration: NaN
initial amount: 0.489
in compartment: metaid_0000051
name: VRIbindingclkp
type: Species

454590
stoichiometry: 1.0
species: metaid_0000067
type: SpeciesReference

metaid_0000047
constant: true
value: 5.0
type: Parameter

metaid_0000046
constant: true
value: 11.0
type: Parameter

metaid_0000118
kinetic law: 455793
reactant: 455781
is version of: GO:0006357
fast: false
reversible: false
name: CC Unbinding probability in tim promoter
type: Reaction

metaid_0000104
kinetic law: 455337
modifier: 455325
product: 455313
is version of: GO:0006412
fast: false
reversible: false
name: timm translation
type: Reaction

metaid_0000007
constant: true
value: 0.053
type: Parameter

455421
stoichiometry: 1.0
species: metaid_0000072
type: SpeciesReference

455373
stoichiometry: 1.0
species: metaid_0000054
type: SpeciesReference

metaid_0000088
kinetic law: 454735
reactant: 454723
is version of: GO:0006402
fast: false
reversible: false
name: Degradation of vri mRNA
type: Reaction

metaid_0000036
constant: true
value: 0.053
type: Parameter

455121
stoichiometry: 1.0
species: metaid_0000067
type: SpeciesReference

455193
stoichiometry: 1.0
species: metaid_0000070
type: SpeciesReference

metaid_0000074
constant: false
boundary condition: false
has only substance units: false
initial concentration: NaN
initial amount: 0.08
in compartment: metaid_0000051
name: CCbindingpdp
type: Species

455481
stoichiometry: 1.0
species: metaid_0000073
type: SpeciesReference

metaid_0000109
kinetic law: 455493
reactant: 455481
is version of: GO:0006357
fast: false
reversible: false
name: CC Unbinding probability in vri promoter
type: Reaction

metaid_0000059
initial concentration: 0.4014
name: PT
has part: P07663
has part: Q59E16
has only substance units: false
boundary condition: false
initial amount: NaN
in compartment: metaid_0000051
type: Species
constant: false

454362
exponent: 1.0
scale: -9
multipler: 1.0
kind: MOLE
type: SBMLUnit

metaid_0000119
unit: 454362
name: nano mole
type: SBMLUnitsDef

metaid_0000018
constant: true
value: 0.62
type: Parameter

454723
stoichiometry: 1.0
species: metaid_0000061
type: SpeciesReference

metaid_0000039
constant: true
value: 0.184
type: Parameter

455745
stoichiometry: 1.0
species: metaid_0000077
type: SpeciesReference

metaid_0000058
constant: false
boundary condition: false
has only substance units: false
initial concentration: 0.2395
initial amount: NaN
in compartment: metaid_0000051
name: perm
type: Species

455133
stoichiometry: 1.0
species: metaid_0000070
type: SpeciesReference

455049
stoichiometry: 1.0
species: metaid_0000066
type: SpeciesReference

454783
stoichiometry: 1.0
species: metaid_0000062
type: SpeciesReference

metaid_0000019
constant: true
value: 16.86
type: Parameter

455457
stoichiometry: 1.0
species: metaid_0000072
type: SpeciesReference

metaid_0000038
constant: true
value: 35.0
type: Parameter

454434
stoichiometry: 1.0
species: metaid_0000053
type: SpeciesReference

454915
stoichiometry: 1.0
species: metaid_0000065
type: SpeciesReference

metaid_0000107
kinetic law: 455445
modifier: 455433
product: 455421
is version of: GO:0006357
fast: false
reversible: false
name: CC binding probability in per promoter
type: Reaction

metaid_0000099
kinetic law: 455157
product: 455145
reactant: 455133
reactant: 455121
is version of: GO:0046982
fast: false
reversible: false
name: PER TIM association
type: Reaction

metaid_0000079
kinetic law: 454446
reactant: 454434
is version of: GO:0044257
fast: false
reversible: false
name: Degradation of CLK CYK dimer
type: Reaction

454626
stoichiometry: 1.0
species: metaid_0000058
type: SpeciesReference

455145
stoichiometry: 1.0
species: metaid_0000059
type: SpeciesReference

metaid_0000108
kinetic law: 455469
reactant: 455457
is version of: GO:0006357
fast: false
reversible: false
name: CC Unbinding probability in per promoter
type: Reaction

455217
stoichiometry: 1.0
species: metaid_0000067
type: SpeciesReference

metaid_0000098
kinetic law: 455109
product: 455097
product: 455085
reactant: 455073
is version of: GO:0043624
fast: false
reversible: false
name: CLK CYC dissociation
type: Reaction

metaid_0000078
kinetic law: 454422
product: 454410
reactant: 454398
reactant: 454386
is version of: GO:0046982
fast: false
reversible: false
name: CC PT association
type: Reaction

455781
stoichiometry: 1.0
species: metaid_0000077
type: SpeciesReference

455397
stoichiometry: 1.0
species: metaid_0000059
type: SpeciesReference

metaid_0000028
constant: true
value: 0.276
type: Parameter

metaid_0000054
in compartment: metaid_0000051
initial amount: NaN
type: Species
has part: Q59E16
initial concentration: 0.4982
has part: O61735
has part: P07663
constant: false
has only substance units: false
name: CCPT
has part: O61734
boundary condition: false

454939
stoichiometry: 1.0
species: metaid_0000057
type: SpeciesReference

metaid_0000068
constant: false
boundary condition: false
has only substance units: false
initial concentration: 0.003185
initial amount: NaN
in compartment: metaid_0000051
name: timp
type: Species

454458
stoichiometry: 1.0
species: metaid_0000054
type: SpeciesReference

metaid_0000014
constant: true
value: 0.2
type: Parameter

metaid_0000097
kinetic law: 455061
reactant: 455049
is version of: GO:0044257
fast: false
reversible: false
name: CLK protein degradation
type: Reaction

metaid_0000040
constant: true
value: 0.279
type: Parameter

455649
stoichiometry: 1.0
species: metaid_0000075
type: SpeciesReference

metaid_0000029
constant: true
value: 0.145
type: Parameter

metaid_0000055
constant: false
boundary condition: false
has only substance units: false
initial concentration: 0.003185
initial amount: NaN
in compartment: metaid_0000051
name: clkp
type: Species

455169
stoichiometry: 1.0
species: metaid_0000059
type: SpeciesReference

454879
stoichiometry: 1.0
species: metaid_0000065
type: SpeciesReference

metaid_0000015
constant: true
value: 0.89
type: Parameter

455085
stoichiometry: 1.0
species: metaid_0000066
type: SpeciesReference

metaid_0000041
constant: true
value: 0.62
type: Parameter

metaid_0000096
kinetic law: 455036
product: 455024
reactant: 455012
reactant: 455000
is version of: GO:0046982
fast: false
reversible: false
name: CLK CYC association
type: Reaction

metaid_0000069
constant: false
boundary condition: false
has only substance units: false
initial concentration: 0.2395
initial amount: NaN
in compartment: metaid_0000051
name: timm
type: Species

455565
stoichiometry: 1.0
species: metaid_0000074
type: SpeciesReference

metaid_0000056
constant: false
boundary condition: false
has only substance units: false
initial concentration: 0.003185
initial amount: NaN
in compartment: metaid_0000051
name: perp
type: Species

metaid_0000026
constant: true
value: 0.1
type: Parameter

metaid_0000081
kinetic law: 454494
reactant: 454482
is version of: GO:0044257
fast: false
reversible: false
name: Degradation of PER TIM dimer
type: Reaction

metaid_0000016
constant: true
value: 1.1
type: Parameter

metaid_0000066
is version of: O61735
constant: false
boundary condition: false
has only substance units: false
initial concentration: 3.6628
initial amount: NaN
in compartment: metaid_0000051
name: CLK
type: Species

metaid_0000095
reversible: false
product: 454939
is version of: GO:0006351
kinetic law: 454988
type: Reaction
fast: false
modifier: 454963
modifier: 454975
modifier: 454951
name: clk transcription

455241
stoichiometry: 1.0
species: metaid_0000069
type: SpeciesReference

455673
stoichiometry: 1.0
species: metaid_0000076
type: SpeciesReference

metaid_0000057
constant: false
boundary condition: false
has only substance units: false
initial concentration: 0.2583
initial amount: NaN
in compartment: metaid_0000051
name: clkm
type: Species

455073
stoichiometry: 1.0
species: metaid_0000053
type: SpeciesReference

metaid_0000027
constant: true
value: 0.062
type: Parameter

metaid_0000080
kinetic law: 454470
reactant: 454458
is version of: GO:0044257
fast: false
reversible: false
name: Degradation of CC PT dimer
type: Reaction

metaid_0000110
kinetic law: 455529
modifier: 455517
product: 455505
is version of: GO:0006357
fast: false
reversible: false
name: CC binding probability in vri promoter
type: Reaction

metaid_0000017
constant: true
value: 2.93
type: Parameter

455721
stoichiometry: 1.0
species: metaid_0000076
type: SpeciesReference

metaid_0000067
is version of: P07663
constant: false
boundary condition: false
has only substance units: false
initial concentration: 2.7527
initial amount: NaN
in compartment: metaid_0000051
name: PER
type: Species

metaid_0000094
kinetic law: 454927
reactant: 454915
is version of: GO:0044257
fast: false
reversible: false
name: PDP protein degradation
type: Reaction

454530
stoichiometry: 1.0
species: metaid_0000066
type: SpeciesReference

metaid_0000111
kinetic law: 455553
reactant: 455541
is version of: GO:0006357
fast: false
reversible: false
name: CC Unbinding probability in pdp1 promoter
type: Reaction

metaid_0000073
constant: false
boundary condition: false
has only substance units: false
initial concentration: NaN
initial amount: 0.0585
in compartment: metaid_0000051
name: CCbindingvri
type: Species

metaid_0000064
constant: false
boundary condition: false
has only substance units: false
initial concentration: 0.3175
initial amount: NaN
in compartment: metaid_0000051
name: pdpm
type: Species

metaid_0000101
kinetic law: 455229
reactant: 455217
is version of: GO:0044257
fast: false
reversible: false
name: PER protein degradation
type: Reaction

metaid_0000083
kinetic law: 454554
modifier: 454542
product: 454530
is version of: GO:0006412
fast: false
reversible: false
name: clkm translation
type: Reaction

455000
stoichiometry: 1.0
species: metaid_0000066
type: SpeciesReference

metaid_0000093
kinetic law: 454903
modifier: 454891
product: 454879
is version of: GO:0006412
fast: false
reversible: false
name: pdpm translation
type: Reaction

metaid_0000004
constant: true
value: 0.069
type: Parameter

metaid_0000030
constant: true
value: 125.54
type: Parameter

metaid_0000024
constant: true
value: 14.68
type: Parameter

metaid_0000044
constant: true
value: 0.069
type: Parameter

metaid_0000010
constant: true
value: 0.028
type: Parameter

metaid_0000065
is version of: Q9TW49
constant: false
boundary condition: false
has only substance units: false
initial concentration: 4.1953
initial amount: NaN
in compartment: metaid_0000051
name: PDP
type: Species

454566
stoichiometry: 1.0
species: metaid_0000058
type: SpeciesReference

metaid_0000072
constant: false
boundary condition: false
has only substance units: false
initial concentration: NaN
initial amount: 0.0431
in compartment: metaid_0000051
name: CCbindingPer
type: Species

metaid_0000112
kinetic law: 455589
modifier: 455577
product: 455565
is version of: GO:0006357
fast: false
reversible: false
name: CC binding probability in pdp1 promoter
type: Reaction

metaid_0000082
kinetic law: 454518
reactant: 454506
is version of: GO:0006402
fast: false
reversible: false
name: Degradation of clk mRNA
type: Reaction

metaid_0000025
constant: true
value: 1.87
type: Parameter

metaid_0000051
is: GO:0005623
constant: true
size: 1.0
spatial dimensions: 3.0
name: wholeCell
type: Compartment

metaid_0000031
constant: true
value: 0.643
type: Parameter

metaid_0000092
kinetic law: 454867
reactant: 454855
is version of: GO:0006402
fast: false
reversible: false
name: Degradation of pdp mRNA
type: Reaction

metaid_0000005
constant: true
value: 0.262
type: Parameter

metaid_0000102
kinetic law: 455277
modifier: 455265
modifier: 455253
product: 455241
is version of: GO:0006351
fast: false
reversible: false
name: tim transcription
type: Reaction

454855
stoichiometry: 1.0
species: metaid_0000064
type: SpeciesReference

metaid_0000011
constant: true
value: 1.226
type: Parameter

metaid_0000045
constant: true
value: 0.262
type: Parameter

metaid_0000062
is: Q9VMS4
constant: false
boundary condition: false
has only substance units: false
initial concentration: 3.175
initial amount: NaN
in compartment: metaid_0000051
name: VRI
type: Species

455505
stoichiometry: 1.0
species: metaid_0000073
type: SpeciesReference

BIOMD0000000160
species: metaid_0000072
species: metaid_0000070
area units: metaid_0000005
parameter: metaid_0000006
parameter: metaid_0000009
parameter: metaid_0000003
parameter: metaid_0000008
parameter: metaid_0000017
species: metaid_0000076
parameter: metaid_0000036
parameter: metaid_0000020
reaction: metaid_0000116
reaction: metaid_0000109
reaction: metaid_0000118
reaction: metaid_0000086
reaction: metaid_0000095
reaction: metaid_0000089
parameter: metaid_0000035
reaction: metaid_0000088
reaction: metaid_0000082
reaction: metaid_0000091
species: metaid_0000060
species: metaid_0000064
species: metaid_0000066
species: metaid_0000056
reaction: metaid_0000096
parameter: metaid_0000011
parameter: metaid_0000043
reaction: metaid_0000092
occurs in: http://identifiers.org/taxonomy/7227
parameter: metaid_0000019
parameter: metaid_0000038
parameter: metaid_0000047
reaction: metaid_0000102
type: SBMLModel
parameter: metaid_0000031
parameter: metaid_0000012
parameter: metaid_0000033
reaction: metaid_0000099
reaction: metaid_0000111
species: metaid_0000058
is: GO:0045187
parameter: metaid_0000014
parameter: metaid_0000028
parameter: metaid_0000037
species: metaid_0000069
is part of: dme04711
parameter: metaid_0000041
parameter: metaid_0000040
parameter: metaid_0000046
reaction: metaid_0000110
reaction: metaid_0000101
species: metaid_0000061
species: metaid_0000063
species: metaid_0000053
parameter: metaid_0000005
species: metaid_0000065
parameter: metaid_0000004
species: metaid_0000055
reaction: metaid_0000104
reaction: metaid_0000103
reaction: metaid_0000106
reaction: metaid_0000083
parameter: metaid_0000023
reaction: metaid_0000097
parameter: metaid_0000022
units def: metaid_0000119
reaction: metaid_0000093
parameter: metaid_0000039
reaction: metaid_0000113
species: metaid_0000068
parameter: metaid_0000042
parameter: metaid_0000013
parameter: metaid_0000045
name: Xie2007_CircClock
parameter: metaid_0000044
reaction: metaid_0000112
volume units: metaid_0000084
parameter: metaid_0000007
parameter: metaid_0000015

454506
stoichiometry: 1.0
species: metaid_0000057
type: SpeciesReference

metaid_0000085
kinetic law: 454614
modifier: 454602
product: 454590
is version of: GO:0006412
fast: false
reversible: false
name: perm translation
type: Reaction

metaid_0000071
is version of: O61734
constant: true
boundary condition: true
has only substance units: false
initial concentration: 1.0
initial amount: NaN
in compartment: metaid_0000051
name: CYC
type: Species

metaid_0000032
constant: true
value: 1.858
type: Parameter

metaid_0000022
constant: true
value: 0.06
type: Parameter

metaid_0000091
kinetic law: 454843
modifier: 454831
modifier: 454819
product: 454807
is version of: GO:0006351
fast: false
reversible: false
name: pdp transcription
type: Reaction

455313
stoichiometry: 1.0
species: metaid_0000070
type: SpeciesReference

454398
stoichiometry: 1.0
species: metaid_0000059
type: SpeciesReference

metaid_0000042
constant: true
value: 0.053
type: Parameter

455012
stoichiometry: 1.0
species: metaid_0000071
type: SpeciesReference

metaid_0000012
constant: true
value: 1.42
type: Parameter

metaid_0000113
kinetic law: 455637
modifier: 455625
modifier: 455613
product: 455601
is version of: GO:0030528
fast: false
reversible: false
name: VRI binding clk promoter
type: Reaction

metaid_0000063
constant: false
boundary condition: false
has only substance units: false
initial concentration: 0.003185
initial amount: NaN
in compartment: metaid_0000051
name: pdpp
type: Species

metaid_0000084
kinetic law: 454578
reactant: 454566
is version of: GO:0006402
fast: false
reversible: false
name: Degradation of per mRNA
type: Reaction

metaid_0000053
type: Species
constant: false
initial concentration: 0.5566
initial amount: NaN
boundary condition: false
name: CC
has part: O61734
in compartment: metaid_0000051
has only substance units: false
has part: O61735

454482
stoichiometry: 1.0
species: metaid_0000059
type: SpeciesReference

metaid_0000070
is version of: Q59E16
constant: false
boundary condition: false
has only substance units: false
initial concentration: 2.7527
initial amount: NaN
in compartment: metaid_0000051
name: TIM
type: Species

metaid_0000100
kinetic law: 455205
product: 455193
product: 455181
reactant: 455169
is version of: GO:0043624
fast: false
reversible: false
name: PER TIM dissociation
type: Reaction

metaid_0000033
constant: true
value: 1.155
type: Parameter

metaid_0000023
constant: true
value: 7.89
type: Parameter

metaid_0000003
constant: true
value: 15.06
type: Parameter

metaid_0000090
kinetic law: 454795
reactant: 454783
is version of: GO:0044257
fast: false
reversible: false
name: VRI protein degradation
type: Reaction

455097
stoichiometry: 1.0
species: metaid_0000071
type: SpeciesReference

454807
stoichiometry: 1.0
species: metaid_0000064
type: SpeciesReference

metaid_0000114
kinetic law: 455661
reactant: 455649
is version of: GO:0030528
fast: false
reversible: false
name: VRI unbinding clk promoter
type: Reaction

metaid_0000013
constant: true
value: 2.349
type: Parameter

metaid_0000043
constant: true
value: 36.0
type: Parameter

W3 CDTF: Tue Jan 22 07:26:48 GMT 2008

W3 CDTF: Thu Jul 05 15:37:46 BST 2012

given: Harish
family: Dharuri

orgname: California Institute of Technology