COPASI25
is: SBO:0000009
constant: true
value: 0.0
name: rep_TOC1
type: Parameter

COPASI35
kinetic law: 439869
product: 439857
reactant: 439845
is version of: GO:0051169
is: SBO:0000185
fast: false
reversible: false
name: CCA1 nuclear transport
type: Reaction

440351
stoichiometry: 1.0
species: COPASI13
type: SpeciesReference

COPASI15
is: SBO:0000278
boundary condition: false
type: Species
name: luc_mrna
in compartment: COPASI2
initial concentration: 0.0
has only substance units: false
is version of: CHEBI:33699
constant: false
initial amount: NaN

COPASI45
kinetic law: 440243
reactant: 440231
is version of: GO:0030163
is: SBO:0000176
fast: false
reversible: false
name: TOC1-LUC(1) deactivation
type: Reaction

440207
stoichiometry: 1.0
species: COPASI12
type: SpeciesReference

metaid_0000090
is: SBO:0000356
constant: true
value: 0.424177877449438
name: D_cca1_l
type: Parameter

COPASI24
is: SBO:0000009
constant: true
value: 1.0
name: effcopies_toc1_TOC8
type: Parameter

COPASI14
is: SBO:0000252
initial concentration: 0.0
in compartment: COPASI2
name: cca1luc
constant: false
type: Species
is version of: P92973
initial amount: NaN
has only substance units: false
boundary condition: false

440001
stoichiometry: 1.0
species: COPASI16
type: SpeciesReference

metaid_0000080
is: SBO:0000153
constant: true
value: 1.0E-4
name: L_toc1
type: Parameter

COPASI34
kinetic law: 439797
reactant: 439785
is version of: GO:0009056
is: SBO:0000179
fast: false
reversible: false
name: CCA1 mRNA degradation
type: Reaction

BIOMD0000000350
compartment: COPASI2
units def: metaid_0000076
name: TOC1 transcription
name: light
name: transcription
parameter: COPASI18
function def: COPASI56
function def: COPASI55
reaction: metaid_0000097
parameter: COPASI24
species: COPASI6
parameter: metaid_0200077
reaction: COPASI43
parameter: metaid_0000088
reaction: COPASI50
reaction: COPASI47
rule: metaid_0000102
function def: COPASI53
parameter: metaid_0000082
reaction: metaid_0000094
name: CCA1-LUC transcription
function def: metaid_0000072
parameter: metaid_0000087
reaction: COPASI31
name: ox_toc1
reaction: COPASI49
reaction: COPASI35
species: COPASI13
is version of: map04710
type: SBMLModel
parameter: metaid_0000081
species: COPASI3
name: ox_cca1
name: Light-dependent transport
reaction: COPASI30
name: Light-dependent protein decay
reaction: COPASI37
reaction: COPASI34
name: LD1212
function def: COPASI63
curated: true
parameter: COPASI22
species: COPASI10
name: Light accumulator decrease
parameter: COPASI21
species: COPASI15
parameter: metaid_0000086
name: translation
reaction: metaid_0000096
units def: metaid_0000075
function def: COPASI58
parameter: metaid_0000092
name: CCA1 transcription
species: COPASI7
parameter: COPASI17
function def: COPASI59
function def: COPASI67
parameter: metaid_0000078
reaction: COPASI42
function def: metaid_0000074
reaction: COPASI46
time units: metaid_0000075
species: COPASI14
function def: metaid_0000071
species: COPASI4
reaction: metaid_0000093
reaction: COPASI41
occurs in: http://identifiers.org/taxonomy/70448
reaction: COPASI48
reaction: COPASI45
length unit: length
function def: COPASI65
parameter: metaid_0000080
function def: COPASI62
parameter: COPASI27
function def: COPASI61
parameter: metaid_0000090
name: proteasome
reaction: COPASI33
species: COPASI11

COPASI44
kinetic law: 440219
reactant: 440207
is version of: GO:0009056
is: SBO:0000179
fast: false
reversible: false
name: TOC1-LUC degradation
type: Reaction

439977
stoichiometry: 1.0
species: COPASI15
type: SpeciesReference

COPASI13
initial amount: NaN
has only substance units: false
initial concentration: 0.0
name: cca1luc_mrna
in compartment: COPASI2
is version of: CHEBI:33699
constant: false
type: Species
boundary condition: false
is: SBO:0000278

439689
stoichiometry: 1.0
species: COPASI5
type: SpeciesReference

COPASI33
kinetic law: 439773
modifier: 439761
product: 439749
is version of: GO:0006351
is: SBO:0000183
fast: false
reversible: false
name: CCA1 transcription
type: Reaction

metaid_0000081
is: SBO:0000153
constant: true
value: 0.231107032949407
name: R_toc1_acc
type: Parameter

439725
stoichiometry: 1.0
species: COPASI4
type: SpeciesReference

COPASI47
kinetic law: 440303
modifier: 440291
product: 440279
is version of: GO:0006351
is: SBO:0000183
fast: false
reversible: false
name: LUC transcription, pCCA1
type: Reaction

440279
stoichiometry: 1.0
species: COPASI15
type: SpeciesReference

COPASI50
kinetic law: 440399
modifier: 440387
product: 440375
is version of: GO:0006412
is: SBO:0000184
fast: false
reversible: false
name: CCA1-LUC translation
type: Reaction

COPASI27
is: SBO:0000009
constant: true
value: 0.0
name: rep_CCA1
type: Parameter

439653
stoichiometry: 1.0
species: COPASI5
type: SpeciesReference

439629
stoichiometry: 1.0
species: COPASI6
type: SpeciesReference

COPASI12
is: SBO:0000252
initial concentration: 0.0
in compartment: COPASI2
constant: false
type: Species
has only substance units: false
name: toc1luc_2
is version of: Q9LKL2
initial amount: NaN
boundary condition: false

metaid_0000082
is: SBO:0000356
constant: true
value: 0.29213049778373
name: D_mrna_toc1
type: Parameter

COPASI32
kinetic law: 439737
reactant: 439725
is version of: GO:0009056
is: SBO:0000179
fast: false
reversible: false
name: TOC1 mRNA degradation
type: Reaction

COPASI51
kinetic law: 440423
reactant: 440411
is version of: GO:0009056
is: SBO:0000179
fast: false
reversible: false
name: CCA1-LUC degradation
type: Reaction

COPASI46
kinetic law: 440267
reactant: 440255
has version: GO:0030163
is: SBO:0000176
fast: false
reversible: false
name: TOC1-LUC(2) deactivation
type: Reaction

COPASI26
is: SBO:0000009
constant: true
value: 0.0
name: rep_pTOC1
type: Parameter

440411
stoichiometry: 1.0
species: COPASI14
type: SpeciesReference

COPASI11
name: toc1luc_1
type: Species
initial amount: NaN
in compartment: COPASI2
is: SBO:0000252
boundary condition: false
has part: Q9LKL2
initial concentration: 0.0
has only substance units: false
constant: false

440375
stoichiometry: 1.0
species: COPASI14
type: SpeciesReference

440062
stoichiometry: 1.0
species: COPASI10
type: SpeciesReference

COPASI39
kinetic law: 440050
reactant: 440038
is version of: GO:0030163
is: SBO:0000179
fast: false
reversible: false
name: LUC decay
type: Reaction

COPASI49
kinetic law: 440363
reactant: 440351
is version of: GO:0009056
is: SBO:0000179
fast: false
reversible: false
name: CCA1-LUC mRNA degradation
type: Reaction

metaid_0000093
kinetic law: 439545
product: 439533
is version of: GO:0009058
is: SBO:0000393
fast: false
reversible: false
name: Light accumulator increase
type: Reaction

COPASI21
is: SBO:0000356
constant: true
value: 1.33082080954527
name: D_mrna_cca1
type: Parameter

metaid_0200077
constant: false
value: 0.0
name: toc1luc
type: Parameter

440038
stoichiometry: 1.0
species: COPASI16
type: SpeciesReference

COPASI52
kinetic law: 440447
reactant: 440435
is version of: GO:0030163
is: SBO:0000176
fast: false
reversible: false
name: CCA1-LUC deactivation
type: Reaction

COPASI10
has only substance units: false
initial amount: NaN
boundary condition: false
constant: false
in compartment: COPASI2
type: Species
is version of: CHEBI:33699
is: SBO:0000278
initial concentration: 0.0
name: toc1luc_mrna

COPASI38
modifier: 439953
kinetic law: 439965
modifier: 439941
is: SBO:0000183
product: 439929
reversible: false
fast: false
type: Reaction
name: LUC transcription, pTOC1
is version of: GO:0006351

COPASI20
is: SBO:0000153
constant: true
value: 3.27520292103832
name: R_cca1_toc1_2_l
type: Parameter

metaid_0000094
kinetic law: 439569
reactant: 439557
is version of: GO:0009056
is: SBO:0000179
fast: false
reversible: false
name: Light accumulator decrease
type: Reaction

COPASI48
kinetic law: 440339
modifier: 440327
product: 440315
is version of: GO:0006351
is: SBO:0000183
fast: false
reversible: false
name: CCA1-LUC transcription
type: Reaction

COPASI37
kinetic law: 439917
reactant: 439905
is version of: GO:0009056
is: SBO:0000179
fast: false
reversible: false
name: CCA1 degradation, nucleus
type: Reaction

439749
stoichiometry: 1.0
species: COPASI7
type: SpeciesReference

metaid_0000091
is: SBO:0000356
constant: true
value: 0.269380178154091
name: D_cca1_d
type: Parameter

COPASI23
is: SBO:0000009
constant: true
value: 1.13965755508623
name: effcopies_cca1_LHY7
type: Parameter

439533
stoichiometry: 1.0
species: COPASI3
type: SpeciesReference

COPASI22
is: SBO:0000009
constant: true
value: 10.0
name: Di_cca1_cn
type: Parameter

metaid_0000092
is: SBO:0000009
constant: true
value: 1.0
name: T_luc
type: Parameter

440435
stoichiometry: 1.0
species: COPASI14
type: SpeciesReference

440111
stoichiometry: 1.0
species: COPASI10
type: SpeciesReference

metaid_0000079
is: SBO:0000009
constant: true
value: 1.08706126858966
name: R_toc1_cca1
type: Parameter

COPASI36
kinetic law: 439893
reactant: 439881
is version of: GO:0009056
is: SBO:0000179
fast: false
reversible: false
name: CCA1 degradation, cytosol
type: Reaction

metaid_0000078
is: SBO:0000356
constant: true
value: 1.0
name: D_mrna_luc
type: Parameter

metaid_0000088
is: SBO:0000153
constant: true
value: 1.38563901682266
name: R_cca1_toc1_2_d
type: Parameter

COPASI4
initial concentration: 0.0385665277682963
initial amount: NaN
is: SBO:0000278
has only substance units: false
type: Species
is homolog to: CHEBI:33699
name: toc1_mrna
boundary condition: false
constant: false
in compartment: COPASI2

metaid_0000098
kinetic law: 440026
modifier: 440013
product: 440001
is version of: GO:0006412
is: SBO:0000184
fast: false
reversible: false
name: LUC translation
type: Reaction

metaid_0000077
is: SBO:0000349
constant: true
value: 0.182881217463259
name: D_luc
type: Parameter

440171
stoichiometry: 1.0
species: COPASI11
type: SpeciesReference

metaid_0000087
is: SBO:0000153
constant: true
value: 2.5007062880634
name: H_cca1_toc1
type: Parameter

439508
exponent: 1.0
scale: 0
multipler: 3600.0
kind: SECOND
type: SBMLUnit

COPASI5
initial amount: NaN
initial concentration: 0.206521274112594
has only substance units: false
is version of: Q9LKL2
type: Species
is: SBO:0000252
constant: false
in compartment: COPASI2
name: toc1_1
boundary condition: false

ORG:
  orgname: Institute of Molecular Plant Sciences, University of Edinburgh
n:
  given: Troein
  family: Carl

metaid_0000097
kinetic law: 439989
reactant: 439977
is version of: GO:0009056
is: SBO:0000179
fast: false
reversible: false
name: LUC mRNA degradation
type: Reaction

439845
stoichiometry: 1.0
species: COPASI8
type: SpeciesReference

440135
stoichiometry: 1.0
species: COPASI11
type: SpeciesReference

439557
stoichiometry: 1.0
species: COPASI3
type: SpeciesReference

metaid_0000096
kinetic law: 439833
modifier: 439821
product: 439809
is version of: GO:0006412
is: SBO:0000184
fast: false
reversible: false
name: CCA1 translation
type: Reaction

W3 CDTF: Tue Aug 30 13:39:23 BST 2011

439905
stoichiometry: 1.0
species: COPASI9
type: SpeciesReference

440183
stoichiometry: 1.0
species: COPASI12
type: SpeciesReference

COPASI2
is: GO:0005623
is: SBO:0000290
constant: true
size: 1.0
spatial dimensions: 3.0
name: compartment
type: Compartment

COPASI28
is: SBO:0000009
constant: true
value: 0.0
name: rep_pCCA1
type: Parameter

439520
exponent: 1.0
scale: -9
multipler: 1.0
kind: MOLE
type: SBMLUnit

439581
stoichiometry: 1.0
species: COPASI4
type: SpeciesReference

metaid_0000089
is: SBO:0000153
constant: true
value: 4.90486610428652
name: T_cca1
type: Parameter

439857
stoichiometry: 1.0
species: COPASI9
type: SpeciesReference

439881
stoichiometry: 1.0
species: COPASI8
type: SpeciesReference

439785
stoichiometry: 1.0
species: COPASI7
type: SpeciesReference

metaid_0000095
kinetic law: 439677
modifier: 439665
product: 439653
is version of: GO:0006412
is: SBO:0000184
fast: false
reversible: false
name: TOC1 translation
type: Reaction

COPASI3
is: SBO:0000236
constant: false
boundary condition: false
has only substance units: false
initial concentration: 0.272067372878265
initial amount: NaN
in compartment: COPASI2
name: acc
type: Species

440231
stoichiometry: 1.0
species: COPASI11
type: SpeciesReference

COPASI29
fast: false
is version of: GO:0006351
name: TOC1 transcription
product: 439581
modifier: 439605
is: SBO:0000183
reversible: false
type: Reaction
modifier: 439593
kinetic law: 439617

COPASI41
kinetic law: 440123
reactant: 440111
is version of: GO:0009056
is: SBO:0000179
fast: false
reversible: false
name: TOC1-LUC mRNA degradation
type: Reaction

COPASI16
in compartment: COPASI2
boundary condition: false
type: Species
name: luc
constant: false
initial amount: NaN
is version of: CHEBI:25078
is: SBO:0000247
has only substance units: false
initial concentration: 0.0

metaid_0000084
is: SBO:0000153
constant: true
value: 0.326619492089715
name: Di_toc1_12_d
type: Parameter

COPASI31
kinetic law: 439713
product: 439701
reactant: 439689
is version of: MOD:00000
is: SBO:0000182
fast: false
reversible: false
name: TOC1 conversion
type: Reaction

COPASI8
initial concentration: 0.051315426489096
has only substance units: false
is homolog to: P92973
name: cca1_c
in compartment: COPASI2
boundary condition: false
type: Species
is: SBO:0000252
initial amount: NaN
constant: false

440315
stoichiometry: 1.0
species: COPASI13
type: SpeciesReference

COPASI40
type: Reaction
modifier: 440087
fast: false
reversible: false
is: SBO:0000183
modifier: 440075
product: 440062
is version of: GO:0006351
name: TOC1-LUC transcription
kinetic law: 440099

COPASI17
is: SBO:0000009
constant: true
value: 0.0820132250303287
name: acc_rate
type: Parameter

metaid_0000083
is: SBO:0000153
constant: true
value: 0.136490583368648
name: Di_toc1_12_l
type: Parameter

COPASI30
kinetic law: 439641
reactant: 439629
is version of: GO:0009056
is: SBO:0000179
fast: false
reversible: false
name: TOC1 degradation
type: Reaction

439701
stoichiometry: 1.0
species: COPASI6
type: SpeciesReference

COPASI9
is homolog to: P92973
in compartment: COPASI2
type: Species
initial concentration: 3.07283764226433
is: SBO:0000252
initial amount: NaN
constant: false
boundary condition: false
has only substance units: false
name: cca1_n

W3 CDTF: Tue Aug 09 17:20:30 BST 2011

439929
stoichiometry: 1.0
species: COPASI15
type: SpeciesReference

COPASI18
is: SBO:0000009
constant: true
value: 2.07807738692343
name: H_toc1_cca1
type: Parameter

metaid_0000086
is: SBO:0000356
constant: true
value: 0.356613920551118
name: D_toc1_2_d
type: Parameter

COPASI43
kinetic law: 440195
product: 440183
reactant: 440171
is version of: MOD:00000
is: SBO:0000182
fast: false
reversible: false
name: TOC1-LUC conversion
type: Reaction

439809
stoichiometry: 1.0
species: COPASI8
type: SpeciesReference

COPASI6
initial amount: NaN
constant: false
initial concentration: 0.312711901675853
in compartment: COPASI2
is version of: Q9LKL2
boundary condition: false
type: Species
name: toc1_2
has only substance units: false
is: SBO:0000252

440255
stoichiometry: 1.0
species: COPASI12
type: SpeciesReference

COPASI42
kinetic law: 440159
modifier: 440147
product: 440135
is version of: GO:0006412
is: SBO:0000184
fast: false
reversible: false
name: TOC1-LUC translation
type: Reaction

COPASI19
is: SBO:0000153
constant: true
value: 0.769970172977886
name: T_toc1
type: Parameter

metaid_0000085
is: SBO:0000356
constant: true
value: 0.461550559180802
name: D_toc1_2_l
type: Parameter

COPASI7
in compartment: COPASI2
type: Species
is: SBO:0000278
has only substance units: false
boundary condition: false
initial amount: NaN
initial concentration: 0.104555645465821
constant: false
is version of: CHEBI:33699
name: cca1_mrna

given: Andrew J
family: Millar

ORG:
  orgname: EMBL-EBI
n:
  given: Vijayalakshmi
  family: Chelliah

orgname: nstitute of Molecular Plant Sciences, University of Edinburgh