CDMT00044
stoichiometry: 1.0
species: s27
type: SpeciesReference

CDMT00095
stoichiometry: 1.0
species: s39
type: SpeciesReference

s22
is version of: Q9LQT8
constant: false
boundary condition: false
has only substance units: true
initial concentration: NaN
initial amount: 0.01
in compartment: default
name: DELLA_U
type: Species

CDMT00111
stoichiometry: 1.0
species: s62
type: SpeciesReference

re44
kinetic law: CDMT00161
modifier: 351602
product: CDMT00160
reactant: CDMT00159
fast: false
reversible: false
name: degradation of GA24
type: Reaction

CDMT00106
stoichiometry: 1.0
species: s5
type: SpeciesReference

CDMT00054
stoichiometry: 1.0
species: s1
type: SpeciesReference

CDMT00168
persistant: true
initial value: true
type: Trigger

re38
kinetic law: CDMT00149
modifier: 351530
product: CDMT00106
reactant: CDMT00105
fast: false
reversible: false
name: GA3ox decay
type: Reaction

re16
kinetic law: CDMT00127
reactant: CDMT00037
type: Reaction
reactant: CDMT00038
reversible: false
modifier: 351253
fast: false
product: CDMT00039
modifier: 351241
name: GA24-GA20ox association

CDMT00112
stoichiometry: 1.0
species: s16
type: SpeciesReference

CDMT00094
kinetic law: CDMT00145
modifier: 351482
product: CDMT00096
reactant: CDMT00095
fast: false
reversible: false
name: ga20ox decay
type: Reaction

CDMT00157
stoichiometry: 1.0
species: s68
type: SpeciesReference

CDMT00045
stoichiometry: 1.0
species: s26
type: SpeciesReference

re43
kinetic law: CDMT00158
modifier: 351590
product: CDMT00157
reactant: CDMT00156
fast: false
reversible: false
name: degradation of GA15
type: Reaction

CDMT00105
stoichiometry: 1.0
species: s28
type: SpeciesReference

km15
units: substance
value: 763.777072066507
name: km15
type: LocalParameter

CDMT00055
stoichiometry: 1.0
species: s65
type: SpeciesReference

CDMT00084
stoichiometry: 1.0
species: s40
type: SpeciesReference

s36
in compartment: default
name: GA4-GID-DELLA2
has part: Q9LQT8
has part: CHEBI:32902
initial amount: 0.01
type: Species
has part: Q9MAA7
boundary condition: false
constant: false
initial concentration: NaN
has only substance units: true

re37
kinetic law: CDMT00148
modifier: 351518
product: CDMT00104
reactant: CDMT00103
fast: false
reversible: false
name: GID decay
type: Reaction

re23
kinetic law: CDMT00132
modifier: 351326
product: CDMT00054
product: CDMT00053
reactant: CDMT00052
fast: false
reversible: false
name: GA4 production
type: Reaction

re15
kinetic law: CDMT00126
modifier: 351228
product: CDMT00036
product: CDMT00035
reactant: CDMT00034
fast: false
reversible: false
name: GA24 production
type: Reaction

ka15
units: substance
value: 2073.22402517968
name: ka15
type: LocalParameter

A1
units: substance
value: 0.0307
name: A1
type: LocalParameter

s11
is: SBO:0000291
constant: false
boundary condition: true
has only substance units: true
initial concentration: NaN
initial amount: 0.0
in compartment: default
name: ga20ox_source
type: Species

re46
kinetic law: CDMT00167
modifier: 351626
product: CDMT00166
reactant: CDMT00165
fast: false
reversible: false
name: degradation of GA4
type: Reaction

s6
is: SBO:0000291
constant: false
boundary condition: true
has only substance units: true
initial concentration: NaN
initial amount: 0.0
in compartment: default
name: GA20ox_source
type: Species

CDMT00113
stoichiometry: 1.0
species: s66
type: SpeciesReference

CDMT00156
stoichiometry: 1.0
species: s24
type: SpeciesReference

CDMT00042
stoichiometry: 1.0
species: s27
type: SpeciesReference

s34
is: SBO:0000291
constant: false
boundary condition: true
has only substance units: true
initial concentration: NaN
initial amount: 0.0
in compartment: default
name: della_source
type: Species

CDMT00083
stoichiometry: 1.0
species: s34
type: SpeciesReference

CDMT00056
stoichiometry: 1.0
species: s62
type: SpeciesReference

CDMT00104
stoichiometry: 1.0
species: s33
type: SpeciesReference

deltaGA3ox
units: substance
value: 0.019299031437811
name: deltaGA3ox
type: LocalParameter

s35
is: SBO:0000291
constant: false
boundary condition: true
has only substance units: true
initial concentration: NaN
initial amount: 0.0
in compartment: default
name: ga3ox_source
type: Species

re26
kinetic law: CDMT00133
modifier: 351338
product: CDMT00056
reactant: CDMT00055
fast: false
reversible: false
name: GA4.GID lid closing
type: Reaction

CDMT00097
kinetic law: CDMT00146
modifier: 351494
product: CDMT00099
reactant: CDMT00098
fast: false
reversible: false
name: ga3ox decay
type: Reaction

s25
is version of: CHEBI:32906
constant: false
boundary condition: false
has only substance units: true
initial concentration: NaN
initial amount: 0.01
in compartment: default
name: GA24
type: Species

um
units: substance
value: 6.92208879449283
name: um
type: LocalParameter

re18
kinetic law: CDMT00129
modifier: 351278
product: CDMT00045
product: CDMT00044
reactant: CDMT00043
fast: false
reversible: false
name: GA9 production
type: Reaction

CDMT00103
stoichiometry: 1.0
species: s2
type: SpeciesReference

CDMT00043
stoichiometry: 1.0
species: s30
type: SpeciesReference

CDMT00114
stoichiometry: 1.0
species: s1
type: SpeciesReference

s7
is: SBO:0000291
constant: false
boundary condition: true
has only substance units: true
initial concentration: NaN
initial amount: 0.0
in compartment: default
name: DELLA_source
type: Species

s23
is version of: CHEBI:30088
constant: false
boundary condition: false
has only substance units: true
initial concentration: NaN
initial amount: 0.01
in compartment: default
name: GA12
type: Species

deltaDELLA
units: substance
value: 5.27749140286577E-4
name: deltaDELLA
type: LocalParameter

CDMT00169
persistant: true
initial value: true
type: Trigger

omegaGA12
constant: false
units: substance
value: 0.006602803853512
name: omegaGA12
type: Parameter

Pmem
constant: true
units: substance
value: 2.66664
name: Pmem
type: Parameter

s33
is: SBO:0000291
constant: false
boundary condition: true
has only substance units: true
initial concentration: NaN
initial amount: 0.0
in compartment: default
name: GID_source
type: Species

CDMT00057
stoichiometry: 1.0
species: s62
type: SpeciesReference

re45
kinetic law: CDMT00164
modifier: 351614
product: CDMT00163
reactant: CDMT00162
fast: false
reversible: false
name: degradation of GA9
type: Reaction

re9
type: Reaction
reactant: CDMT00019
modifier: 351151
modifier: 351138
reactant: CDMT00020
product: CDMT00021
kinetic law: CDMT00121
fast: false
name: GA12-GA20ox association
reversible: false

thetaGA20ox
units: substance
value: 0.6383
name: thetaGA20ox
type: LocalParameter

re35
kinetic law: CDMT00138
modifier: 351398
modifier: CDMT00070
product: CDMT00069
reactant: CDMT00068
fast: false
reversible: false
name: gid translation
type: Reaction

s24
is version of: CHEBI:29590
constant: false
boundary condition: false
has only substance units: true
initial concentration: NaN
initial amount: 0.01
in compartment: default
name: GA15
type: Species

re17
kinetic law: CDMT00128
modifier: 351265
product: CDMT00042
product: CDMT00041
reactant: CDMT00040
fast: false
reversible: false
name: GA24.GA20ox dissociation
type: Reaction

CDMT00096
stoichiometry: 1.0
species: s11
type: SpeciesReference

muGA20ox
constant: true
units: substance
value: 0.047770755070625
name: muGA20ox
type: Parameter

thetaGA3ox
units: substance
value: 0.0082
name: thetaGA3ox
type: LocalParameter

length
unit: CDMT00074
name: length
type: SBMLUnitsDef

CDMT00081
stoichiometry: 1.0
species: s42
type: SpeciesReference

CDMT00091
stoichiometry: 1.0
species: s34
type: SpeciesReference

http://identifiers.org/biomodels.db/BIOMD0000000422#q
units: substance
value: 0.025118864315096
name: q
type: LocalParameter

thetaDELLA
units: substance
value: 0.01
name: thetaDELLA
type: LocalParameter

km12
units: substance
value: 198.80427707769
name: km12
type: LocalParameter

CDMT00009
stoichiometry: 1.0
species: s16
type: SpeciesReference

CDMT00020
stoichiometry: 1.0
species: s27
type: SpeciesReference

CDMT00071
exponent: 1.0
scale: 0
multipler: 1.0
kind: MOLE
type: SBMLUnit

s27
is version of: ath:AT4G25420
constant: false
boundary condition: false
has only substance units: true
initial concentration: NaN
initial amount: 0.01
in compartment: default
name: GA20ox
type: Species

re34
kinetic law: CDMT00137
modifier: 351386
modifier: CDMT00067
product: CDMT00066
reactant: CDMT00065
fast: false
reversible: false
name: ga3ox translation
type: Reaction

CDMT00040
stoichiometry: 1.0
species: s30
type: SpeciesReference

CDMT00050
stoichiometry: 1.0
species: s26
type: SpeciesReference

ld
units: substance
value: 2.84315148627376
name: ld
type: LocalParameter

CDMT00019
stoichiometry: 1.0
species: s23
type: SpeciesReference

CDMT00030
stoichiometry: 1.0
species: s31
type: SpeciesReference

appliedGA4
constant: true
units: substance
value: 2.0
name: appliedGA4
type: Parameter

CDMT00080
stoichiometry: 1.0
species: s15
type: SpeciesReference

CDMT00109
stoichiometry: 1.0
species: s36
type: SpeciesReference

http://identifiers.org/biomodels.db/BIOMD0000000422#p
units: substance
value: 0.077624711662869
name: p
type: LocalParameter

CDMT00041
stoichiometry: 1.0
species: s25
type: SpeciesReference

CDMT00090
stoichiometry: 1.0
species: s40
type: SpeciesReference

s45
initial concentration: NaN
name: GA4-GID-DELLA1
constant: false
type: Species
has only substance units: true
has part: Q9LQT8
has part: CHEBI:32902
initial amount: 0.01
in compartment: default
boundary condition: false
has part: Q9MAA7

CDMT00021
stoichiometry: 1.0
species: s32
type: SpeciesReference

s15
is: SBO:0000291
constant: false
boundary condition: true
has only substance units: true
initial concentration: NaN
initial amount: 0.0
in compartment: default
name: gid_source
type: Species

CDMT00008
stoichiometry: 1.0
species: s62
type: SpeciesReference

re33
kinetic law: CDMT00136
modifier: 351374
modifier: CDMT00064
product: CDMT00063
reactant: CDMT00062
fast: false
reversible: false
name: ga20ox translation
type: Reaction

s26
is version of: CHEBI:29605
constant: false
boundary condition: false
has only substance units: true
initial concentration: NaN
initial amount: 0.01
in compartment: default
name: GA9
type: Species

CDMT00051
stoichiometry: 1.0
species: s28
type: SpeciesReference

CDMT00031
stoichiometry: 1.0
species: s31
type: SpeciesReference

CDMT00060
stoichiometry: 1.0
species: s16
type: SpeciesReference

RemoveGA4
event assignment: CDMT00174
trigger: CDMT00169
use values from trigger time: true
name: RemoveGA4
type: Event

CDMT00108
stoichiometry: 1.0
species: s16
type: SpeciesReference

CDMT00052
stoichiometry: 1.0
species: s29
type: SpeciesReference

B1
units: substance
value: 3.9795E-4
name: B1
type: LocalParameter

muDELLA
constant: true
units: substance
value: 0.070794578438414
name: muDELLA
type: Parameter

AddGA4
event assignment: CDMT00170
trigger: CDMT00168
use values from trigger time: true
name: AddGA4
type: Event

gammaGA20ox
units: substance
value: 3.514
name: gammaGA20ox
type: LocalParameter

CDMT00093
stoichiometry: 1.0
species: s15
type: SpeciesReference

CDMT00007
stoichiometry: 1.0
species: s2
type: SpeciesReference

re32
kinetic law: CDMT00144
modifier: 351470
product: CDMT00093
reactant: CDMT00092
fast: false
reversible: false
name: gid decay
type: Reaction

s16
is version of: Q9LQT8
constant: false
boundary condition: false
has only substance units: true
initial concentration: NaN
initial amount: 0.01
in compartment: default
name: DELLA
type: Species

CDMT00073
exponent: 2.0
scale: 0
multipler: 1.0
kind: METRE
type: SBMLUnit

s29
initial amount: 0.01
has part: ath:AT4G21690
in compartment: default
has part: CHEBI:29605
constant: false
initial concentration: NaN
type: Species
name: GA9-GA3ox
boundary condition: false
has only substance units: true

tGA4off
constant: true
units: substance
value: 620.0
name: tGA4off
type: Parameter

CDMT00032
stoichiometry: 1.0
species: s24
type: SpeciesReference

muGID
constant: true
units: substance
value: 0.045708818961487
name: muGID
type: Parameter

s39
is version of: ath:AT4G25420
constant: false
boundary condition: false
has only substance units: true
initial concentration: NaN
initial amount: 0.01
in compartment: default
name: ga20ox
type: Species

re22
kinetic law: CDMT00131
modifier: 351314
product: CDMT00051
product: CDMT00050
reactant: CDMT00049
fast: false
reversible: false
name: GA9.GA3ox dissociation
type: Reaction

CDMT00159
stoichiometry: 1.0
species: s25
type: SpeciesReference

CDMT00053
stoichiometry: 1.0
species: s28
type: SpeciesReference

time
unit: CDMT00075
name: time
type: SBMLUnitsDef

kd15
units: substance
value: 0.008827838388125
name: kd15
type: LocalParameter

CDMT00107
stoichiometry: 1.0
species: s62
type: SpeciesReference

CDMT00110
stoichiometry: 1.0
species: s36
type: SpeciesReference

tGA4on
constant: true
units: substance
value: 500.0
name: tGA4on
type: Parameter

CDMT00092
stoichiometry: 1.0
species: s42
type: SpeciesReference

default
is version of: GO:0005623
constant: true
units: volume
size: 1.0
spatial dimensions: 3.0
type: Compartment

re31
kinetic law: CDMT00135
modifier: 351362
modifier: CDMT00061
product: CDMT00060
reactant: CDMT00059
fast: false
reversible: false
name: della translation
type: Reaction

CDMT00006
stoichiometry: 1.0
species: s1
type: SpeciesReference

BIOMD0000000422
parameter: tGA4off
species: s2
parameter: muGA20ox
reaction: CDMT00076
notes: This model is from the article: Mathematical modeling elucidates the role of transcriptional feedback in gibberellin signaling. Middleton AM , Úbeda-Tomás S , Griffiths J , Holman T , Hedden P , Thomas SG , Phillips AL , Holdsworth MJ , Bennett MJ , King JR, Owen MR Proc. Natl. Acad. Sci. U.S.A. 2012 May; 109(19): 7571-6 22523240 , Abstract: The hormone gibberellin (GA) is a key regulator of plant growth. Many of the components of the gibberellin signal transduction [e.g., GIBBERELLIN INSENSITIVE DWARF 1 (GID1) and DELLA], biosynthesis [e.g., GA 20-oxidase (GA20ox) and GA3ox], and deactivation pathways have been identified. Gibberellin binds its receptor, GID1, to form a complex that mediates the degradation of DELLA proteins. In this way, gibberellin relieves DELLA-dependent growth repression. However, gibberellin regulates expression of GID1, GA20ox, and GA3ox, and there is also evidence that it regulates DELLA expression. In this paper, we use integrated mathematical modeling and experiments to understand how these feedback loops interact to control gibberellin signaling. Model simulations are in good agreement with in vitro data on the signal transduction and biosynthesis pathways and in vivo data on the expression levels of gibberellin-responsive genes. We find that GA-GID1 interactions are characterized by two timescales (because of a lid on GID1 that can open and close slowly relative to GA-GID1 binding and dissociation). Furthermore, the model accurately predicts the response to exogenous gibberellin after a number of chemical and genetic perturbations. Finally, we investigate the role of the various feedback loops in gibberellin signaling. We find that regulation of GA20ox transcription plays a significant role in both modulating the level of endogenous gibberellin and generating overshoots after the removal of exogenous gibberellin. Moreover, although the contribution of other individual feedback loops seems relatively small, GID1 and DELLA transcriptional…
species: s69
is: MODEL1206190000
reaction: re31
reaction: re22
reaction: re30
parameter: muDELLA
species: s32
species: s39
type: SBMLModel
reaction: re34
species: s16
reaction: re16
reaction: re29
is: http://identifiers.org/taxonomy/3701
species: s26
species: s1
species: s40
reaction: re37
reaction: re4
species: s34
species: s22
parameter: muGID
reaction: re43
units def: volume
reaction: re42
reaction: re46
species: s68
parameter: Pmem
volume units: volume
units def: substance
parameter: omegaGA12ga13
species: s25
species: s5
species: s30
species: s31
reaction: re10
reaction: re32
species: s71
reaction: re23
species: s45
species: s15
species: s7
reaction: re27
curated: true
event: AddGA4
reaction: re35
reaction: re13
reaction: re2
reaction: re26
species: s33
units def: length
reaction: re17
reaction: CDMT00094
reaction: re39
parameter: omegaGA4
species: s11
reaction: CDMT00089
reaction: re5
reaction: re38
reaction: CDMT00097
reaction: re9
rule: CDMT00018
species: s29
reaction: re40
reaction: re8
species: s67
reaction: re44
species: s36
event: RemoveGA4
species: s24
units def: time
species: s70
species: s3
species: s41
species: s42

s28
is version of: ath:AT4G21690
constant: false
boundary condition: false
has only substance units: true
initial concentration: NaN
initial amount: 0.01
in compartment: default
name: GA3ox
type: Species

CDMT00072
exponent: 1.0
scale: 0
multipler: 1.0
kind: LITRE
type: SBMLUnit

CDMT00033
stoichiometry: 1.0
species: s27
type: SpeciesReference

re21
reactant: CDMT00046
modifier: 351302
fast: false
type: Reaction
name: GA9-GA3ox association
kinetic law: CDMT00130
product: CDMT00048
reactant: CDMT00047
modifier: 351290
reversible: false

s67
is: SBO:0000291
constant: false
boundary condition: true
has only substance units: true
initial concentration: NaN
initial amount: 0.0
in compartment: default
name: sa5_degraded
type: Species

gammaGA3ox
units: substance
value: 3.514
name: gammaGA3ox
type: LocalParameter

s3
is: SBO:0000291
constant: false
boundary condition: true
has only substance units: true
initial concentration: NaN
initial amount: 0.0
in compartment: default
name: GA12_source
type: Species

CDMT00035
stoichiometry: 1.0
species: s27
type: SpeciesReference

kd12
units: substance
value: 2.67298621993027
name: kd12
type: LocalParameter

CDMT00025
stoichiometry: 1.0
species: s32
type: SpeciesReference

re30
kinetic law: CDMT00142
modifier: 351446
modifier: CDMT00088
product: CDMT00087
reactant: CDMT00086
fast: false
reversible: false
name: ga3ox transcription (activated by DELLA)
type: Reaction

CDMT00015
stoichiometry: 1.0
species: s62
type: SpeciesReference

CDMT00005
stoichiometry: 1.0
species: s65
type: SpeciesReference

CDMT00075
exponent: 1.0
scale: 0
multipler: 1.0
kind: SECOND
type: SBMLUnit

omegaGA4
constant: false
units: substance
value: 0.0
name: omegaGA4
type: Parameter

CDMT00065
stoichiometry: 1.0
species: s5
type: SpeciesReference

substance
unit: CDMT00071
name: substance
type: SBMLUnitsDef

s68
is: SBO:0000291
constant: false
boundary condition: true
has only substance units: true
initial concentration: NaN
initial amount: 0.0
in compartment: default
name: sa6_degraded
type: Species

la
units: substance
value: 1.35
name: la
type: LocalParameter

CDMT00160
stoichiometry: 1.0
species: s69
type: SpeciesReference

CDMT00004
stoichiometry: 1.0
species: s65
type: SpeciesReference

CDMT00034
stoichiometry: 1.0
species: s31
type: SpeciesReference

s2
is version of: Q9MAA7
constant: false
boundary condition: false
has only substance units: true
initial concentration: NaN
initial amount: 0.01
in compartment: default
name: GID
type: Species

CDMT00024
stoichiometry: 1.0
species: s27
type: SpeciesReference

CDMT00014
stoichiometry: 1.0
species: s45
type: SpeciesReference

deltaGA20ox
units: substance
value: 0.192990314378105
name: deltaGA20ox
type: LocalParameter

km24
units: substance
value: 2.58846077319221
name: km24
type: LocalParameter

CDMT00074
exponent: 1.0
scale: 0
multipler: 1.0
kind: METRE
type: SBMLUnit

re2
name: GA4-GID association
reversible: false
reactant: CDMT00002
modifier: 351051
reactant: CDMT00003
modifier: 351063
type: Reaction
product: CDMT00004
fast: false
kinetic law: CDMT00115

s69
is: SBO:0000291
constant: false
boundary condition: true
has only substance units: true
initial concentration: NaN
initial amount: 0.0
in compartment: default
name: sa7_degraded
type: Species

s40
is version of: Q9LQT8
constant: false
boundary condition: false
has only substance units: true
initial concentration: NaN
initial amount: 0.01
in compartment: default
name: della
type: Species

CDMT00037
stoichiometry: 1.0
species: s25
type: SpeciesReference

CDMT00003
stoichiometry: 1.0
species: s2
type: SpeciesReference

ka9
units: substance
value: 2073.22402517968
name: ka9
type: LocalParameter

CDMT00017
stoichiometry: 1.0
species: s23
type: SpeciesReference

s5
is: SBO:0000291
constant: false
boundary condition: true
has only substance units: true
initial concentration: NaN
initial amount: 0.0
in compartment: default
name: GA3ox_source
type: Species

s65
name: GA4-GID
has only substance units: true
initial concentration: NaN
initial amount: 0.01
has part: Q9MAA7
type: Species
constant: false
in compartment: default
has part: CHEBI:32902
boundary condition: false

omegaGA12ga13
constant: true
units: substance
value: 0.006602803853512
name: omegaGA12ga13
type: Parameter

CDMT00023
stoichiometry: 1.0
species: s23
type: SpeciesReference

re3
kinetic law: CDMT00116
modifier: 351075
product: CDMT00007
product: CDMT00006
reactant: CDMT00005
fast: false
reversible: false
name: GA4.GID dissociation
type: Reaction

CDMT00077
stoichiometry: 1.0
species: s11
type: SpeciesReference

CDMT00063
stoichiometry: 1.0
species: s27
type: SpeciesReference

thetaGID
units: substance
value: 5.5995E-4
name: thetaGID
type: LocalParameter

CDMT00062
stoichiometry: 1.0
species: s6
type: SpeciesReference

CDMT00036
stoichiometry: 1.0
species: s25
type: SpeciesReference

CDMT00002
stoichiometry: 1.0
species: s1
type: SpeciesReference

re10
kinetic law: CDMT00122
modifier: 351164
product: CDMT00024
product: CDMT00023
reactant: CDMT00022
fast: false
reversible: false
name: GA12.GA20ox dissociation
type: Reaction

CDMT00016
stoichiometry: 1.0
species: s22
type: SpeciesReference

s66
is: SBO:0000291
constant: false
boundary condition: true
has only substance units: true
initial concentration: NaN
initial amount: 0.0
in compartment: default
name: GA4_source
type: Species

ud1
units: substance
value: 0.133045441797809
name: ud1
type: LocalParameter

CDMT00022
stoichiometry: 1.0
species: s32
type: SpeciesReference

km9
units: substance
value: 763.777072066507
name: km9
type: LocalParameter

CDMT00076
kinetic law: CDMT00139
modifier: 351410
modifier: CDMT00079
product: CDMT00078
reactant: CDMT00077
fast: false
reversible: false
name: ga20ox transcription (activated by DELLA)
type: Reaction

re4
modifier: 351099
reactant: CDMT00009
fast: false
product: CDMT00010
kinetic law: CDMT00117
modifier: 351087
reactant: CDMT00008
type: Reaction
reversible: false
name: GA4.GID-DELLA1 association

CDMT00162
stoichiometry: 1.0
species: s26
type: SpeciesReference

ka12
units: substance
value: 2904.11853677638
name: ka12
type: LocalParameter

re27
kinetic law: CDMT00134
modifier: 351350
product: CDMT00058
reactant: CDMT00057
fast: false
reversible: false
name: GA4.GID-Closed lid opening
type: Reaction

CDMT00011
stoichiometry: 1.0
species: s45
type: SpeciesReference

CDMT00039
stoichiometry: 1.0
species: s30
type: SpeciesReference

s70
is: SBO:0000291
constant: false
boundary condition: true
has only substance units: true
initial concentration: NaN
initial amount: 0.0
in compartment: default
name: sa8_degraded
type: Species

CDMT00099
stoichiometry: 1.0
species: s35
type: SpeciesReference

re11
kinetic law: CDMT00123
modifier: 351177
product: CDMT00027
product: CDMT00026
reactant: CDMT00025
fast: false
reversible: false
name: GA15 production
type: Reaction

CDMT00001
stoichiometry: 1.0
species: s3
type: SpeciesReference

ud2
units: substance
value: 2.8184
name: ud2
type: LocalParameter

CDMT00029
stoichiometry: 1.0
species: s27
type: SpeciesReference

CDMT00089
kinetic law: CDMT00143
modifier: 351458
product: CDMT00091
reactant: CDMT00090
fast: false
reversible: false
name: della decay
type: Reaction

muGA
constant: true
units: substance
value: 0.290804218727464
name: muGA
type: Parameter

CDMT00059
stoichiometry: 1.0
species: s7
type: SpeciesReference

re40
kinetic law: CDMT00151
modifier: 351566
product: CDMT00112
product: CDMT00111
reactant: CDMT00110
fast: false
reversible: false
name: GA4.GID.DELLA2 dissociation
type: Reaction

CDMT00049
stoichiometry: 1.0
species: s29
type: SpeciesReference

CDMT00163
stoichiometry: 1.0
species: s70
type: SpeciesReference

CDMT00069
stoichiometry: 1.0
species: s2
type: SpeciesReference

ua1
units: substance
value: 10.0
name: ua1
type: LocalParameter

CDMT00153
stoichiometry: 1.0
species: s23
type: SpeciesReference

re5
kinetic law: CDMT00118
modifier: 351111
product: CDMT00013
product: CDMT00012
reactant: CDMT00011
fast: false
reversible: false
name: GA4.GID.DELLA1 dissociation
type: Reaction

CDMT00102
stoichiometry: 1.0
species: s6
type: SpeciesReference

CDMT00038
stoichiometry: 1.0
species: s27
type: SpeciesReference

CDMT00010
stoichiometry: 1.0
species: s45
type: SpeciesReference

CDMT00098
stoichiometry: 1.0
species: s41
type: SpeciesReference

re28
kinetic law: CDMT00140
modifier: 351422
modifier: CDMT00082
product: CDMT00081
reactant: CDMT00080
fast: false
reversible: false
name: gid transcription (activated by DELLA)
type: Reaction

ka24
units: substance
value: 3099.18915892587
name: ka24
type: LocalParameter

CDMT00028
stoichiometry: 1.0
species: s24
type: SpeciesReference

muGA3ox
constant: true
units: substance
value: 0.102600014140148
name: muGA3ox
type: Parameter

CDMT00068
stoichiometry: 1.0
species: s33
type: SpeciesReference

CDMT00058
stoichiometry: 1.0
species: s65
type: SpeciesReference

CDMT00048
stoichiometry: 1.0
species: s29
type: SpeciesReference

CDMT00078
stoichiometry: 1.0
species: s39
type: SpeciesReference

s30
boundary condition: false
has part: ath:AT4G25420
name: GA24-GA20ox
type: Species
initial amount: 0.01
constant: false
in compartment: default
initial concentration: NaN
has part: CHEBI:32906
has only substance units: true

CDMT00154
stoichiometry: 1.0
species: s67
type: SpeciesReference

re6
kinetic law: CDMT00119
modifier: 351123
product: CDMT00016
product: CDMT00015
reactant: CDMT00014
fast: false
reversible: false
name: DELLA ubiquitination
type: Reaction

CDMT00101
stoichiometry: 1.0
species: s27
type: SpeciesReference

re29
kinetic law: CDMT00141
modifier: 351434
modifier: CDMT00085
product: CDMT00084
reactant: CDMT00083
fast: false
reversible: false
name: della transcription (repressed by DELLA)
type: Reaction

CDMT00013
stoichiometry: 1.0
species: s16
type: SpeciesReference

re13
modifier: 351202
reactant: CDMT00028
kinetic law: CDMT00124
fast: false
type: Reaction
product: CDMT00030
reactant: CDMT00029
name: GA15-GA20ox association
reversible: false
modifier: 351190

CDMT00027
stoichiometry: 1.0
species: s24
type: SpeciesReference

s1
is version of: CHEBI:32902
constant: false
boundary condition: false
has only substance units: true
initial concentration: NaN
initial amount: 0.01
in compartment: default
name: GA4
type: Species

CDMT00087
stoichiometry: 1.0
species: s41
type: SpeciesReference

re39
reversible: false
modifier: 351542
reactant: CDMT00108
type: Reaction
name: GA4.GID-DELLA2 association
modifier: 351554
reactant: CDMT00107
fast: false
product: CDMT00109
kinetic law: CDMT00150

CDMT00165
stoichiometry: 1.0
species: s1
type: SpeciesReference

s41
is version of: ath:AT4G21690
constant: false
boundary condition: false
has only substance units: true
initial concentration: NaN
initial amount: 0.01
in compartment: default
name: ga3ox
type: Species

kd9
units: substance
value: 0.008827838388125
name: kd9
type: LocalParameter

deltaGID
units: substance
value: 19.2990314378105
name: deltaGA3ox
type: LocalParameter

volume
unit: CDMT00072
name: volume
type: SBMLUnitsDef

re42
kinetic law: CDMT00155
modifier: 351578
product: CDMT00154
reactant: CDMT00153
fast: false
reversible: false
name: degradation of GA12
type: Reaction

CDMT00100
kinetic law: CDMT00147
modifier: 351506
product: CDMT00102
reactant: CDMT00101
fast: false
reversible: false
name: GA20ox decay
type: Reaction

s31
constant: false
name: GA15-GA20ox
has only substance units: true
boundary condition: false
has part: ath:AT4G25420
initial amount: 0.01
initial concentration: NaN
has part: CHEBI:29590
type: Species
in compartment: default

kd24
units: substance
value: 0.01588492846351
name: kd24
type: LocalParameter

CDMT00047
stoichiometry: 1.0
species: s28
type: SpeciesReference

area
unit: CDMT00073
name: area
type: SBMLUnitsDef

re14
kinetic law: CDMT00125
modifier: 351215
product: CDMT00033
product: CDMT00032
reactant: CDMT00031
fast: false
reversible: false
name: GA15.GA20ox dissociation
type: Reaction

CDMT00012
stoichiometry: 1.0
species: s62
type: SpeciesReference

re8
kinetic law: CDMT00120
product: CDMT00017
reactant: CDMT00001
fast: false
reversible: false
name: GA12 supply
type: Reaction

CDMT00026
stoichiometry: 1.0
species: s27
type: SpeciesReference

s62
has only substance units: true
has part: Q9MAA7
has part: CHEBI:32902
type: Species
initial amount: 0.01
constant: false
in compartment: default
initial concentration: NaN
name: GA4-GID-closed
boundary condition: false

s71
is: SBO:0000291
constant: false
boundary condition: true
has only substance units: true
initial concentration: NaN
initial amount: 0.0
in compartment: default
name: sa1_degraded
type: Species

CDMT00086
stoichiometry: 1.0
species: s35
type: SpeciesReference

ua2
units: substance
value: 316.2278
name: ua2
type: LocalParameter

re41
kinetic law: CDMT00152
product: CDMT00114
reactant: CDMT00113
fast: false
reversible: false
name: GA4 supply
type: Reaction

CDMT00066
stoichiometry: 1.0
species: s28
type: SpeciesReference

s42
is version of: Q9MAA7
constant: false
boundary condition: false
has only substance units: true
initial concentration: NaN
initial amount: 0.01
in compartment: default
name: gid
type: Species

CDMT00166
stoichiometry: 1.0
species: s71
type: SpeciesReference

gammaGID
units: substance
value: 3.514
name: gammaGID
type: LocalParameter

s32
initial amount: 0.01
in compartment: default
name: GA12-GA20ox
has only substance units: true
type: Species
boundary condition: false
has part: ath:AT4G25420
has part: CHEBI:30088
constant: false
initial concentration: NaN

http://identifiers.org/biomodels.db/BIOMD0000000422#R
constant: true
units: substance
value: 1.0
name: R
type: Parameter

CDMT00046
stoichiometry: 1.0
species: s26
type: SpeciesReference

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

W3 CDTF: Fri Jul 20 18:39:15 BST 2012

W3 CDTF: Fri Aug 03 14:19:38 BST 2012

orgname: Centre for Plant Integrative Biology, School of Biosciences, University of Nottingham, Sutton Bonington Campus, Loughborough LE12 5RD, UK.

given: Markus R.
family: Owen