BIOMD0000000096
type: SBMLModel
parameter: metaid_0000131
reaction: 150885
parameter: metaid_0000113
parameter: metaid_0000122
parameter: metaid_0000081
substance units: metaid_0000161
units def: metaid_0000162
parameter: metaid_0000141
is derived from: BIOMD0000000055
reaction: 150785
reaction: 151326
species: 114279
reaction: 150825
volume units: metaid_0000004
units def: metaid_0000165
species: 114299
parameter: metaid_0000156
parameter: metaid_0000095
reaction: 151085
parameter: metaid_0000147
parameter: metaid_0000119
parameter: metaid_0000088
is: GO:0007623
parameter: metaid_0000144
parameter: metaid_0000079
parameter: metaid_0000138
reaction: 151305
parameter: metaid_0000076
parameter: metaid_0000155
parameter: metaid_0000094
name: Zeilinger2006_PRR7-PRR9light-Y
reaction: 151225
parameter: metaid_0000117
parameter: metaid_0000126
reaction: 151365
reaction: 151245
parameter: metaid_0000078
reaction: 151005
parameter: metaid_0000137
parameter: metaid_0000121
parameter: metaid_0000168
parameter: metaid_0000080
parameter: metaid_0000103
reaction: 151565
event: metaid_0000175
species: 114179
parameter: metaid_0000118
reaction: 151025
parameter: metaid_0000123
parameter: metaid_0000082
parameter: metaid_0000154
event: metaid_0000174
parameter: metaid_0000108
reaction: 151505
parameter: metaid_0000160
reaction: 151465
parameter: metaid_0000142
parameter: metaid_0000077
parameter: metaid_0000171
reaction: 150965
reaction: 151265
parameter: metaid_0000153
species: 114059
occurs in: http://identifiers.org/taxonomy/3701
parameter: metaid_0000085
species: 114419
parameter: metaid_0000145
is: MODEL4025634026
reaction: 151306
reaction: 151045
length unit: length
parameter: metaid_0000130
parameter: metaid_0000127
species: 114219
parameter: metaid_0000092
parameter: metaid_0000112
species: 114199
species: 114359
notes: The model reproduces the time profile of cYm and cTm under light-dark cycles as depicted in Fig 4 and Fig 5 respectively. 12 hour light-dark cycles are accomplished using a simple algorithm in the event section. The model was successfully tested using 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.

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983420
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150885
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modifier: 983770
product: 983758
is: GO:0006351
fast: false
reversible: false
name: cTm transcription

114099
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metaid_0000172
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114419
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983758
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114279
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metaid_0000165
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983444
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metaid_0000122
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value: 3.2581
name: m14

metaid_0000081
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metaid_0000161
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983384
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metaid_0000162
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150785
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983516
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114079
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114219
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114159
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151326
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984572
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114139
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150825
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983650
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983638
type: SpeciesReference
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species: 114059

114059
type: Species
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114039
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constant: true
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114299
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initial amount: NaN
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metaid_0000156
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value: 2.2802
name: a

metaid_0000095
type: Parameter
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units: metaid_0000164
value: 13.4324
name: k8

151085
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984136
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114319
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984124
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metaid_0000163
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983408
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metaid_0000088
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metaid_0000144
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metaid_0000079
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metaid_0000138
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value: 49.4094
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151305
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984485
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114239
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metaid_0000076
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metaid_0000155
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metaid_0000094
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151225
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984382
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114379
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984369
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metaid_0000126
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151365
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product: 984645
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is: GO:0000060
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name: cP7c transport to nucleus

984645
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984633
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114119
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151245
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is: GO:0044257
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984407
type: SpeciesReference
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metaid_0000078
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151005
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modifier: 984002
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983990
type: SpeciesReference
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species: 114339

114339
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is: CHEBI:33699
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metaid_0000137
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value: 5.4062
name: m17

metaid_0000121
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value: 48.5862
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metaid_0000168
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value: 1.1065
name: i

metaid_0000080
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units: metaid_0000163
value: 9.1138
name: r2

metaid_0000103
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units: metaid_0000165
value: 8.4753
name: m12

151565
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984957
type: SpeciesReference
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species: 114219

metaid_0000175
type: Event
event assignment: 985029
trigger: 985017
use values from trigger time: true

metaid_0000154
type: Parameter
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units: dimensionless
value: 1.0
name: ld

985017
type: Trigger
persistant: true
initial value: true

114179
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metaid_0000118
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name: r7

151025
type: Reaction
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is: GO:0006402
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name: cXm degradation

984026
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species: 114339

metaid_0000123
type: Parameter
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metaid_0000082
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units: metaid_0000164
value: 32.7881
name: k2

metaid_0000174
type: Event
event assignment: 985005
event assignment: 984993
trigger: 984981
use values from trigger time: true

metaid_0000171
type: Parameter
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units: metaid_0000162
value: 24.0

984981
type: Trigger
persistant: true
initial value: true

metaid_0000108
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name: m6

151505
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product: 984873
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is: GO:0000060
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name: cP9c transport to nucleus

984873
type: SpeciesReference
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984861
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metaid_0000160
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name: e

151465
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fast: false
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name: cP79m degradation

984801
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species: 114199

114199
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metaid_0000142
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metaid_0000077
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150965
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name: cTc degradation

983939
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species: 114259

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151265
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984433
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metaid_0000153
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metaid_0000085
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metaid_0000145
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151306
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is: GO:0009642
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name: Light dependent cPn degradation

984511
type: SpeciesReference
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151045
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modifier: 984063
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984051
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metaid_0000130
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metaid_0000127
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metaid_0000092
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metaid_0000112
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metaid_0000099
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metaid_0000100
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151125
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984184
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metaid_0000106
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metaid_0000111
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metaid_0000136
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metaid_0000098
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metaid_0000148
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metaid_0000109
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metaid_0000091
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name: p3

metaid_0000124
type: Parameter
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units: metaid_0000165
value: 0.5
name: p5

metaid_0000173
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metaid_0000083
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metaid_0000159
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metaid_0000143
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metaid_0000135
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metaid_0000075
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metaid_0000093
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150805
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983600
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150906
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metaid_0000116
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150846
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metaid_0000110
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metaid_0000086
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metaid_0000090
type: Parameter
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value: 1.0494
name: p2

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type: Species
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is: C00046
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is: CHEBI:33699
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151165
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name: cYm degradation

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metaid_0000104
type: Parameter
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units: metaid_0000164
value: 16.1162
name: k10

metaid_0000074
type: Parameter
constant: true
units: metaid_0000165
value: 2.3023
name: n1

W3 CDTF: Thu Jul 05 15:47:08 BST 2012

151485
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modifier: 984837
product: 984825
is: GO:0006412
fast: false
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name: cP9c synthesis

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metaid_0000115
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151405
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name: cP7c degradation

984705
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150845
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reversible: false
name: cLn transport into cytoplasm

983686
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983674
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species: 114099

metaid_0000157
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value: 3.1075
name: b

metaid_0000166
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units: dimensionless
value: 1.9491
name: f

metaid_0000101
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value: 0.5061
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151425
type: Reaction
kinetic law: 984741
reactant: 984729
is: GO:0044257
fast: false
reversible: false
name: cP7n degradation

984729
type: SpeciesReference
stoichiometry: 1.0
species: 114159

metaid_0000128
type: Parameter
constant: true
units: metaid_0000164
value: 0.4444
name: g7

metaid_0000107
type: Parameter
constant: true
units: metaid_0000165
value: 9.3024
name: m5

151105
type: Reaction
kinetic law: 984172
reactant: 984160
is: GO:0044257
fast: false
reversible: false
name: cXc degradation

984160
type: SpeciesReference
stoichiometry: 1.0
species: 114319

150925
type: Reaction
kinetic law: 983891
product: 983879
reactant: 983867
is: GO:0000060
fast: false
reversible: false
name: cTc transport into nucleus

983879
type: SpeciesReference
stoichiometry: 1.0
species: 114299

983867
type: SpeciesReference
stoichiometry: 1.0
species: 114259

metaid_0000139
type: Parameter
constant: true
units: metaid_0000165
value: 8.671
name: m18

metaid_0000170
type: Parameter
constant: true
units: dimensionless
value: 3.3953
name: k

metaid_0000073
type: Parameter
constant: true
units: metaid_0000163
value: 7.9798
name: q1

metaid_0000152
type: Parameter
constant: true
units: metaid_0000163
value: 7.4548
name: q4

150985
type: Reaction
kinetic law: 983977
reactant: 983965
is: GO:0044257
fast: false
reversible: false
name: cTn degradation

983965
type: SpeciesReference
stoichiometry: 1.0
species: 114299

metaid_0000149
type: Parameter
constant: true
units: metaid_0000164
value: 16.2407
name: k18

metaid_0000125
type: Parameter
constant: true
units: metaid_0000164
value: 1.2
name: k13

metaid_0000084
type: Parameter
constant: true
units: metaid_0000164
value: 29.0823
name: k3

metaid_0000140
type: Parameter
constant: true
units: metaid_0000164
value: 42.4837
name: k16

W3 CDTF: Sat Mar 03 06:07:14 GMT 2007

151525
type: Reaction
kinetic law: 984921
product: 984909
reactant: 984897
is: GO:0065002
fast: false
reversible: false
name: cP9n transport to cytoplasm

984909
type: SpeciesReference
stoichiometry: 1.0
species: 114179

984897
type: SpeciesReference
stoichiometry: 1.0
species: 114219

metaid_0000133
type: Parameter
constant: true
units: metaid_0000164
value: 50.9418
name: k14

metaid_0000151
type: Parameter
constant: true
units: metaid_0000164
value: 26.5795
name: k19

151325
type: Reaction
kinetic law: 984560
modifier: 984548
product: 984536
is: GO:0006351
fast: false
reversible: false
name: cP7m transcription

984536
type: SpeciesReference
stoichiometry: 1.0
species: 114139

151205
type: Reaction
kinetic law: 984356
product: 984343
reactant: 984331
is: GO:0000060
fast: false
reversible: false
name: cYc transport to nucleus

984343
type: SpeciesReference
stoichiometry: 1.0
species: 114419

984331
type: SpeciesReference
stoichiometry: 1.0
species: 114379

151545
type: Reaction
kinetic law: 984945
reactant: 984933
is: GO:0044257
fast: false
reversible: false
name: cP9c degradation

984933
type: SpeciesReference
stoichiometry: 1.0
species: 114179

metaid_0000158
type: Parameter
constant: true
units: dimensionless
value: 1.6808
name: c

metaid_0000105
type: Parameter
constant: true
units: metaid_0000163
value: 29.4222
name: r3

150945
type: Reaction
kinetic law: 983927
product: 983915
reactant: 983903
is: GO:0065002
fast: false
reversible: false
name: cTn transport into cytoplasm

983915
type: SpeciesReference
stoichiometry: 1.0
species: 114259

983903
type: SpeciesReference
stoichiometry: 1.0
species: 114299

metaid_0000146
type: Parameter
constant: true
units: metaid_0000163
value: 34.6266
name: r11

metaid_0000087
type: Parameter
constant: true
units: metaid_0000164
value: 11.5922
name: g3

151145
type: Reaction
kinetic law: 984257
name: cYm transcription
fast: false
modifier: 984245
product: 984208
modifier: 984233
is: GO:0006351
reversible: false
is: GO:0009642
modifier: 984220

984208
type: SpeciesReference
stoichiometry: 1.0
species: 114399

150766
type: Reaction
kinetic law: 983504
modifier: 983492
product: 983480
is: GO:0009642
is: GO:0006351
fast: false
reversible: false
name: Light dependent cLm synthesis

983480
type: SpeciesReference
stoichiometry: 1.0
species: 114079

metaid_0000097
type: Parameter
constant: true
units: metaid_0000164
value: 14.605
name: k9

151285
type: Reaction
kinetic law: 984472
product: 984459
is: GO:0006412
is: GO:0009642
fast: false
reversible: false
name: cPn synthesis

984459
type: SpeciesReference
stoichiometry: 1.0
species: 114239

metaid_0000089
type: Parameter
constant: true
units: metaid_0000164
value: 4.0551
name: k4

metaid_0000167
type: Parameter
constant: true
units: dimensionless
value: 2.2116
name: h

metaid_0000132
type: Parameter
constant: true
units: metaid_0000165
value: 9.531
name: m16

150786
type: Reaction
kinetic law: 983588
reactant: 983576
is: GO:0006402
fast: false
reversible: false
name: cLm degradation

983576
type: SpeciesReference
stoichiometry: 1.0
species: 114079

metaid_0000150
type: Parameter
constant: true
units: metaid_0000165
value: 0.028
name: m21

151385
type: Reaction
kinetic law: 984693
product: 984681
reactant: 984669
is: GO:0065002
fast: false
reversible: false
name: cP7n transport to cytoplasm

984681
type: SpeciesReference
stoichiometry: 1.0
species: 114119

984669
type: SpeciesReference
stoichiometry: 1.0
species: 114159

metaid_0000129
type: Parameter
constant: true
units: metaid_0000164
value: 11.0459
name: g8

metaid_0000114
type: Parameter
constant: true
units: metaid_0000164
value: 11.3625
name: g4

151185
type: Reaction
kinetic law: 984318
modifier: 984306
product: 984294
is: GO:0006412
fast: false
reversible: false
name: cYc transcription

984294
type: SpeciesReference
stoichiometry: 1.0
species: 114379

metaid_0000120
type: Parameter
constant: true
units: metaid_0000165
value: 6.8544
name: m13

150865
type: Reaction
kinetic law: 983746
reactant: 983734
is: GO:0044257
fast: false
reversible: false
name: cLn degradation

983734
type: SpeciesReference
stoichiometry: 1.0
species: 114099

metaid_0000134
type: Parameter
constant: true
units: metaid_0000163
value: 6.7738
name: p6

151065
type: Reaction
kinetic law: 984112
product: 984100
reactant: 984087
is: GO:0000060
fast: false
reversible: false
name: cXc transport into nucleus

984100
type: SpeciesReference
stoichiometry: 1.0
species: 114359

984087
type: SpeciesReference
stoichiometry: 1.0
species: 114319

metaid_0000102
type: Parameter
constant: true
units: metaid_0000164
value: 7.8469
name: g6

metaid_0000096
type: Parameter
constant: true
units: metaid_0000165
value: 7.9066
name: m11

150905
type: Reaction
kinetic law: 983819
reactant: 983807
is: GO:0006402
fast: false
reversible: false
name: cTm degradation

983807
type: SpeciesReference
stoichiometry: 1.0
species: 114279

ORG:
  orgname: California Institute of Technology
n:
  given: Harish
  family: Dharuri