BIOMD0000000007
type: SBMLModel
parameter: metaid_0000051
parameter: metaid_0000041
parameter: metaid_0000031
parameter: metaid_0000039
parameter: metaid_0000029
reaction: metaid_0000102
species: metaid_0000089
species: metaid_0000088
species: metaid_0000079
parameter: metaid_0000063
rule: rule14
rule: rule10
reaction: metaid_0000107
reaction: metaid_0000105
reaction: metaid_0000098
is described by: http://identifiers.org/pubmed/9256450
parameter: metaid_0000032
parameter: metaid_0000022
rule: rule11
reaction: metaid_0000093
species: metaid_0000072
is: MODEL6614787694
species: metaid_0000071
parameter: metaid_0000055
parameter: metaid_0000045
parameter: metaid_0000035
parameter: metaid_0000025
species: metaid_0000090
rule: rule9
reaction: metaid_0000096
parameter: metaid_0000050
parameter: metaid_0000040
parameter: metaid_0000030
parameter: metaid_0000020
reaction: metaid_0000113
species: metaid_0000082
rule: rule2
reaction: metaid_0000101
parameter: metaid_0000067
parameter: metaid_0000058
parameter: metaid_0000048
parameter: metaid_0000038
parameter: metaid_0000028
name: Novak1997 - Cell Cycle
compartment: metaid_0000068
substance units: substance
parameter: metaid_0000062
parameter: metaid_0000053
species: metaid_0000083
time units: metaid_0000018
reaction: metaid_0000104
species: metaid_0000074
rule: rule1
species: metaid_0000073
parameter: metaid_0000021
species: metaid_0000080
reaction: metaid_0000112
reaction: metaid_0000109
species: metaid_0000076
parameter: metaid_0000054
parameter: metaid_0000044
parameter: metaid_0000034
parameter: metaid_0000024
rule: rule6
reaction: metaid_0000095
species: metaid_0000085
units def: metaid_0000018
parameter: metaid_0000057
parameter: metaid_0000047
parameter: metaid_0000037
parameter: metaid_0000027
reaction: metaid_0000100
reaction: metaid_0000092
occurs in: http://identifiers.org/taxonomy/4896
parameter: metaid_0000052
parameter: metaid_0000042
species: metaid_0000087
rule: rule4
reaction: metaid_0000115

metaid_0000051
type: Parameter
constant: true
value: 0.1
name: Kmcr

metaid_0000041
type: Parameter
constant: true
value: 0.25
name: kwr

metaid_0000031
type: Parameter
constant: true
value: 1.0
name: kc

metaid_0000039
type: Parameter
constant: true
value: 0.3
name: kur2

metaid_0000029
type: Parameter
notes: Rum1/G1K binding rate
constant: true
value: 10.0
name: k8

metaid_0000102
type: Reaction
kinetic law: 378215
modifier: 378203
reactant: 378191
is version of: GO:0008054
fast: false
reversible: false
name: Cig2 degradation in Cig2_Cdc2

metaid_0000070
type: Species
is version of: GO:0000502
constant: false
boundary condition: false
has only substance units: true
initial concentration: NaN
initial amount: 0.0
in compartment: metaid_0000068
name: ubiquitinProtease2

metaid_0000068
type: Compartment
is: GO:0005623
constant: true
units: volume
size: 1.0
spatial dimensions: 3.0
name: Cell

378191
type: SpeciesReference
stoichiometry: 1.0
species: metaid_0000075

metaid_0000075
type: Species
constant: false
has only substance units: true
boundary condition: false
in compartment: metaid_0000068
initial concentration: NaN
has part: P36630
name: Cig2_Cdc2
has part: P04551
initial amount: 0.0

metaid_0000089
type: Species
is: P10815
constant: false
boundary condition: false
has only substance units: true
initial concentration: NaN
initial amount: NaN
in compartment: metaid_0000068
name: TotalCdc13

metaid_0000088
type: Species
is: P40380
constant: false
boundary condition: false
has only substance units: true
initial concentration: NaN
initial amount: NaN
in compartment: metaid_0000068
name: TotalRum1

metaid_0000079
type: Species
constant: false
initial amount: 0.0
has part: P40380
in compartment: metaid_0000068
has part: P04551
initial concentration: NaN
has part: P10815
has only substance units: true
boundary condition: false
name: Cdc13_Cdc2_Rum1

metaid_0000063
type: Parameter
constant: true
value: 0.0
name: Cig1

metaid_0000107
type: Reaction
modifier: 378410
is version of: GO:0030163
fast: false
reactant: 378385
is version of: spo04120
product: 378397
kinetic law: 378422
reversible: false
name: UbE mediated degradation of Cdc13_Cdc2 in Rum1_Cdc13_Cdc2

metaid_0000069
type: Species
is version of: GO:0000502
constant: false
boundary condition: false
has only substance units: true
initial concentration: NaN
initial amount: 0.11
in compartment: metaid_0000068
name: ubiquitinProtease1

378385
type: SpeciesReference
stoichiometry: 1.0
species: metaid_0000079

378397
type: SpeciesReference
stoichiometry: 1.0
species: metaid_0000074

metaid_0000074
type: Species
is version of: P40380
constant: false
boundary condition: false
has only substance units: true
initial concentration: NaN
initial amount: 0.4
in compartment: metaid_0000068
name: FreeRum1

metaid_0000105
type: Reaction
kinetic law: 378325
product: 378313
reactant: 378300
is version of: GO:0008054
fast: false
reversible: false
name: Cig2 degradation in Rum1_Cig2_Cdc2

378313
type: SpeciesReference
stoichiometry: 1.0
species: metaid_0000074

378300
type: SpeciesReference
stoichiometry: 1.0
species: metaid_0000078

metaid_0000078
type: Species
constant: false
initial concentration: NaN
has only substance units: true
initial amount: 0.0
boundary condition: false
has part: P40380
has part: P36630
in compartment: metaid_0000068
name: Cig2_Cdc2_Rum1
has part: P04551

metaid_0000098
type: Reaction
kinetic law: 378069
product: 378057
reactant: 378045
is version of: GO:0030163
fast: false
reversible: false
name: Rum1 degradation in Rum1_Cdc13_P-Cdc2

378057
type: SpeciesReference
stoichiometry: 1.0
species: metaid_0000077

metaid_0000077
type: Species
in compartment: metaid_0000068
name: Cdc13_P-Cdc2
initial concentration: NaN
has part: P04551
has part: P10815
constant: false
initial amount: 0.0
has only substance units: true
boundary condition: false

378045
type: SpeciesReference
stoichiometry: 1.0
species: metaid_0000080

metaid_0000080
type: Species
constant: false
in compartment: metaid_0000068
initial amount: 0.0
name: Cdc13_P-Cdc2_Rum1
has part: P04551
has only substance units: true
has part: P10815
initial concentration: NaN
boundary condition: false
has part: P40380

metaid_0000032
type: Parameter
constant: true
value: 0.25
name: kcr

metaid_0000022
type: Parameter
constant: true
value: 0.05
name: k2'

metaid_0000093
type: Reaction
has part: REACT 6294
modifier: 377864
name: Cdc2 phosphorylation
kinetic law: 377876
has part: REACT 6257
has part: REACT 6178
modifier: 377852
has part: REACT 6327
reversible: true
product: 377840
is version of: http://identifiers.org/ec-code/2.7.10.2
fast: false
reactant: 377828
is version of: GO:0006468

metaid_0000072
type: Species
is: P06652
constant: false
boundary condition: false
has only substance units: true
initial concentration: NaN
initial amount: 0.0
in compartment: metaid_0000068
name: Cdc25

metaid_0000071
type: Species
constant: false
initial concentration: NaN
in compartment: metaid_0000068
initial amount: 0.0
name: Wee1
has version: P30290
has only substance units: true
boundary condition: false
has version: P07527

377840
type: SpeciesReference
stoichiometry: 1.0
species: metaid_0000077

377828
type: SpeciesReference
stoichiometry: 1.0
species: metaid_0000073

metaid_0000073
type: Species
initial amount: 0.0
name: Cdc13_Cdc2
constant: false
has only substance units: true
boundary condition: false
initial concentration: NaN
in compartment: metaid_0000068
has part: P04551
has part: P10815

metaid_0000055
type: Parameter
constant: true
value: 0.01
name: Kmu

metaid_0000045
type: Parameter
constant: true
value: 0.0375
name: V6'

metaid_0000035
type: Parameter
notes: Rum1 Phosphorylation Rate
constant: false
value: 3.25
name: kp

metaid_0000025
type: Parameter
notes: G1k production rate
constant: true
value: 0.00175
name: k5

metaid_0000090
type: Species
is: P36630
constant: false
boundary condition: false
has only substance units: true
initial concentration: NaN
initial amount: NaN
in compartment: metaid_0000068
name: TotalCig2

metaid_0000096
type: Reaction
kinetic law: 378009
product: 377997
reactant: 377985
is version of: GO:0030163
fast: false
reversible: false
name: Rum1 degradation in Rum1_Cdc13_Cdc2

377997
type: SpeciesReference
stoichiometry: 1.0
species: metaid_0000073

377985
type: SpeciesReference
stoichiometry: 1.0
species: metaid_0000079

metaid_0000050
type: Parameter
constant: true
value: 0.1
name: Kmc

metaid_0000040
type: Parameter
constant: true
value: 1.0
name: kw

metaid_0000030
type: Parameter
constant: true
value: 0.1
name: k8r

metaid_0000020
type: Parameter
constant: false
value: 0.49
name: Mass

metaid_0000113
type: Reaction
kinetic law: 378677
modifier: 378665
product: 378652
reactant: 378640
fast: false
reversible: true
name: UbE2 production & degradation

metaid_0000082
type: Species
name: M-phasePromotingFactor
constant: false
boundary condition: false
has part: P04551
initial concentration: NaN
in compartment: metaid_0000068
has part: P10815
has only substance units: true
initial amount: 0.0

378652
type: SpeciesReference
stoichiometry: 1.0
species: metaid_0000070

378640
type: SpeciesReference
stoichiometry: 1.0
species: metaid_0000085

metaid_0000085
type: Species
is version of: GO:0000502
constant: false
boundary condition: true
has only substance units: true
initial concentration: NaN
initial amount: 0.0
in compartment: metaid_0000068
name: BoundUbiquitinProtease2

metaid_0000101
type: Reaction
kinetic law: 378179
modifier: 378167
reactant: 378154
is version of: GO:0008054
fast: false
reversible: false
name: Cdc13 degradation in Cdc13_P-Cdc2

378154
type: SpeciesReference
stoichiometry: 1.0
species: metaid_0000077

metaid_0000067
type: Parameter
notes: Cdc2 dephosphorylation rate
constant: false
value: NaN
name: k25

metaid_0000058
type: Parameter
constant: true
value: 0.05
name: Kmur2

metaid_0000048
type: Parameter
constant: true
value: 0.35
name: Vw

metaid_0000038
type: Parameter
constant: true
value: 1.0
name: ku2

metaid_0000028
type: Parameter
notes: G2R dissociation rate
constant: true
value: 0.1
name: k7r

metaid_0000062
type: Parameter
constant: true
value: 0.05
name: beta

metaid_0000053
type: Parameter
constant: true
value: 0.01
name: Kmir

metaid_0000083
type: Species
constant: false
boundary condition: true
has only substance units: true
initial concentration: NaN
initial amount: 0.0
in compartment: metaid_0000068
name: BoundIntermediaryEnzyme

metaid_0000018
type: SBMLUnitsDef
unit: 377768
name: minutes

377768
type: SBMLUnit
exponent: 1.0
scale: 0
multipler: 60.0
kind: SECOND

metaid_0000104
type: Reaction
kinetic law: 378288
product: 378276
reactant: 378263
is version of: GO:0008054
fast: false
reversible: false
name: Cdc13 degradation in Rum1_Cdc13_Cdc2

378276
type: SpeciesReference
stoichiometry: 1.0
species: metaid_0000074

378263
type: SpeciesReference
stoichiometry: 1.0
species: metaid_0000079

metaid_0000021
type: Parameter
notes: G2K production rate
constant: true
value: 0.015
name: k1

metaid_0000112
type: Reaction
kinetic law: 378628
modifier: 378616
product: 378604
reactant: 378592
fast: false
reversible: true
name: UbE production & degradation

metaid_0000076
type: Species
constant: false
boundary condition: false
has only substance units: true
initial concentration: NaN
initial amount: 0.0
in compartment: metaid_0000068
name: IntermediaryEnzyme

378604
type: SpeciesReference
stoichiometry: 1.0
species: metaid_0000069

378592
type: SpeciesReference
stoichiometry: 1.0
species: metaid_0000084

metaid_0000084
type: Species
is version of: GO:0000502
constant: false
boundary condition: true
has only substance units: true
initial concentration: NaN
initial amount: 0.0
in compartment: metaid_0000068
name: BoundUbiquitinProtease1

metaid_0000109
type: Reaction
kinetic law: 378495
product: 378483
fast: false
reversible: false
name: Rum1 creation

378483
type: SpeciesReference
stoichiometry: 1.0
species: metaid_0000074

metaid_0000054
type: Parameter
constant: true
value: 0.001
name: Kmp

metaid_0000044
type: Parameter
constant: true
value: 7.5
name: V6

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

metaid_0000024
type: Parameter
notes: Rum1 degradation rate
constant: true
value: 0.1875
name: k4

metaid_0000095
type: Reaction
kinetic law: 377973
product: 377961
reactant: 377949
reactant: 377937
is version of: GO:0006461
fast: false
reversible: true
name: binding of Rum1 with Cdc13_P-Cdc2

377961
type: SpeciesReference
stoichiometry: 1.0
species: metaid_0000080

377949
type: SpeciesReference
stoichiometry: 1.0
species: metaid_0000074

377937
type: SpeciesReference
stoichiometry: 1.0
species: metaid_0000077

metaid_0000057
type: Parameter
constant: true
value: 0.05
name: Kmu2

metaid_0000047
type: Parameter
constant: true
value: 0.025
name: V25'

metaid_0000037
type: Parameter
constant: true
value: 0.1
name: kur

metaid_0000027
type: Parameter
notes: Rum1/G2K binding rate
constant: true
value: 100.0
name: k7

metaid_0000100
type: Reaction
kinetic law: 378142
modifier: 378130
reactant: 378118
is version of: GO:0008054
fast: false
reversible: false
name: Cdc13 degradation in Cdc13_Cdc2

378118
type: SpeciesReference
stoichiometry: 1.0
species: metaid_0000073

metaid_0000092
type: Reaction
kinetic law: 377816
product: 377804
fast: false
reversible: false
name: Cig2_Cdc2 creation

377804
type: SpeciesReference
stoichiometry: 1.0
species: metaid_0000075

metaid_0000052
type: Parameter
constant: true
value: 0.01
name: Kmi

metaid_0000042
type: Parameter
constant: true
value: 0.25
name: V2

metaid_0000087
type: Species
is version of: P06652
constant: false
boundary condition: true
has only substance units: true
initial concentration: NaN
initial amount: 0.0
in compartment: metaid_0000068
name: BoundCdc25

metaid_0000115
type: Reaction
kinetic law: 378773
modifier: 378761
product: 378749
reactant: 378737
fast: false
reversible: true
name: Cdc25 production & degradation

378749
type: SpeciesReference
stoichiometry: 1.0
species: metaid_0000072

378737
type: SpeciesReference
stoichiometry: 1.0
species: metaid_0000087

metaid_0000066
type: Parameter
notes: Cdc2 phosphorylation rate
constant: false
value: NaN
name: kwee

metaid_0000110
type: Reaction
kinetic law: 378531
modifier: 378519
reactant: 378507
is version of: GO:0030163
fast: false
reversible: false
name: Rum1 degradation by SPF

metaid_0000081
type: Species
initial concentration: NaN
name: S-phasePromotingFactor
has only substance units: true
constant: false
has part: P04551
in compartment: metaid_0000068
has part: P10815
has part: P36630
initial amount: 0.0
boundary condition: false

378507
type: SpeciesReference
stoichiometry: 1.0
species: metaid_0000074

metaid_0000061
type: Parameter
constant: true
value: 0.25
name: alpha

metaid_0000103
type: Reaction
kinetic law: 378251
product: 378239
reactant: 378227
is version of: GO:0008054
fast: false
reversible: false
name: Cdc13 degradation in Rum1_Cdc13_P-Cdc2

378239
type: SpeciesReference
stoichiometry: 1.0
species: metaid_0000074

378227
type: SpeciesReference
stoichiometry: 1.0
species: metaid_0000080

W3 CDTF: Thu Oct 15 14:21:50 BST 2009

metaid_0000019
type: Parameter
notes: mass growth rate
constant: true
value: 0.00495
name: mu

metaid_0000064
type: Parameter
notes: Cdc13/Cdc2 dissociation rate (degradation of G2K)
constant: false
value: NaN
name: k2

metaid_0000117
type: Event
event assignment: 378845
event assignment: 378833
trigger: 378821
is: GO:0051301
use values from trigger time: true
name: Cell Division

378821
type: Trigger
persistant: true
initial value: true

metaid_0000108
type: Reaction
name: UbE mediated degradation of Cdc13_Cdc2 in Rum1_Cdc13_P-Cdc2
is version of: spo04120
product: 378447
modifier: 378459
is version of: GO:0030163
kinetic law: 378471
reversible: false
fast: false
reactant: 378434

378447
type: SpeciesReference
stoichiometry: 1.0
species: metaid_0000074

378434
type: SpeciesReference
stoichiometry: 1.0
species: metaid_0000080

metaid_0000106
type: Reaction
kinetic law: 378373
product: 378361
reactant: 378349
reactant: 378337
is version of: GO:0006461
fast: false
reversible: true
name: Binding of Rum1 to Cig2_Cdc2

378361
type: SpeciesReference
stoichiometry: 1.0
species: metaid_0000078

378349
type: SpeciesReference
stoichiometry: 1.0
species: metaid_0000074

378337
type: SpeciesReference
stoichiometry: 1.0
species: metaid_0000075

metaid_0000099
type: Reaction
kinetic law: 378106
product: 378094
reactant: 378081
is version of: GO:0030163
fast: false
reversible: false
name: Rum1 degradation in Rum1_Cig2_Cdc2

378094
type: SpeciesReference
stoichiometry: 1.0
species: metaid_0000075

378081
type: SpeciesReference
stoichiometry: 1.0
species: metaid_0000078

metaid_0000043
type: Parameter
constant: true
value: 0.0075
name: V2'

metaid_0000033
type: Parameter
constant: true
value: 0.4
name: ki

metaid_0000023
type: Parameter
notes: Rum1 production rate
constant: true
value: 0.09375
name: k3

metaid_0000094
type: Reaction
kinetic law: 377925
product: 377913
reactant: 377901
reactant: 377889
is version of: GO:0006461
fast: false
reversible: true
name: binding of Rum1 with Cdc13_Cdc2

377913
type: SpeciesReference
stoichiometry: 1.0
species: metaid_0000079

377901
type: SpeciesReference
stoichiometry: 1.0
species: metaid_0000074

377889
type: SpeciesReference
stoichiometry: 1.0
species: metaid_0000073

metaid_0000116
type: Event
event assignment: 378809
delay: 378797
trigger: 378785
is: GO:0045750
use values from trigger time: true
name: S-Phase Start

378785
type: Trigger
persistant: true
initial value: true

metaid_0000111
type: Reaction
kinetic law: 378580
modifier: 378568
product: 378555
reactant: 378543
fast: false
reversible: true
name: IE production & degradation

378555
type: SpeciesReference
stoichiometry: 1.0
species: metaid_0000076

378543
type: SpeciesReference
stoichiometry: 1.0
species: metaid_0000083

ORG:
  orgname: EMBL-EBI
n:
  given: Nicolas
  family: Le Novère

metaid_0000086
type: Species
has version: P07527
constant: false
initial amount: 0.0
has only substance units: true
initial concentration: NaN
name: BoundWee1
in compartment: metaid_0000068
boundary condition: true
has version: P30290

metaid_0000114
type: Reaction
kinetic law: 378725
modifier: 378713
product: 378701
reactant: 378689
fast: false
reversible: true
name: Wee1 production & degradation

378701
type: SpeciesReference
stoichiometry: 1.0
species: metaid_0000071

378689
type: SpeciesReference
stoichiometry: 1.0
species: metaid_0000086

metaid_0000065
type: Parameter
notes: Cig2/Cdc2 dissociation rate (degradation of G1K)
constant: false
value: NaN
name: k6

metaid_0000056
type: Parameter
constant: true
value: 0.01
name: Kmur

metaid_0000046
type: Parameter
constant: true
value: 0.5
name: V25

metaid_0000036
type: Parameter
constant: true
value: 0.2
name: ku

metaid_0000026
type: Parameter
constant: true
value: 0.0
name: k6'

metaid_0000091
type: Reaction
kinetic law: 377792
product: 377780
fast: false
reversible: false
name: Cdc13_Cdc2 creation

377780
type: SpeciesReference
stoichiometry: 1.0
species: metaid_0000073

metaid_0000097
type: Reaction
kinetic law: 378033
reactant: 378021
is version of: GO:0030163
fast: false
reversible: false
name: Rum1 degradation in solution

378021
type: SpeciesReference
stoichiometry: 1.0
species: metaid_0000074

metaid_0000060
type: Parameter
constant: true
value: 0.1
name: Kmwr

metaid_0000059
type: Parameter
constant: true
value: 0.1
name: Kmw

metaid_0000049
type: Parameter
constant: true
value: 0.035
name: Vw'

W3 CDTF: Tue Dec 11 15:58:49 GMT 2012

ORG:
  orgname: NASA Jet Propulsion Laboratory
n:
  given: Bruce
  family: Shapiro