658685
stoichiometry: 1.0
species: 119108
type: SpeciesReference

119108
is: SBO:0000297
type: Species
has only substance units: false
has part: Q940U6
has part: Q9XFM0
initial amount: NaN
initial concentration: 40.4
boundary condition: false
constant: false
in compartment: 119099

119104
type: Species
has part: Q570C0
is: SBO:0000297
has only substance units: false
in compartment: 119099
has part: P49677
constant: false
initial concentration: 0.28
initial amount: NaN
boundary condition: false

119099
is version of: GO:0005623
is: SBO:0000290
constant: true
size: 1.0
spatial dimensions: 3.0
type: Compartment

658613
stoichiometry: 1.0
species: 119104
type: SpeciesReference

658576
stoichiometry: 1.0
species: 119101
type: SpeciesReference

119149
constant: true
value: 0.486
type: Parameter

119145
constant: true
value: 0.175
type: Parameter

119139
constant: true
value: 8.22E-4
type: Parameter

119120
kinetic law: 658757
product: 658745
is version of: GO:0006412
is: SBO:0000393
fast: false
reversible: false
type: Reaction

119143
constant: true
value: 4.49
type: Parameter

119114
type: Reaction
is: SBO:0000526
product: 658637
reactant: 658625
kinetic law: 658649
reversible: false
reactant: 658613
fast: false
is version of: GO:0006461

119153
constant: true
value: 18.5
type: Parameter

119110
type: Reaction
product: 658540
reactant: 658528
fast: false
is version of: GO:0006461
reactant: 658516
reversible: false
is: SBO:0000526
kinetic law: 658552

119124
kinetic law: 658807
product: 658794
is version of: GO:0006412
is: SBO:0000393
fast: false
reversible: false
type: Reaction

658709
stoichiometry: 1.0
species: 119106
type: SpeciesReference

658528
stoichiometry: 1.0
species: 119102
type: SpeciesReference

119118
kinetic law: 658733
product: 658721
reactant: 658709
is version of: GO:0043241
is: SBO:0000180
fast: false
reversible: false
type: Reaction

658637
stoichiometry: 1.0
species: 119106
type: SpeciesReference

119101
is version of: P49677
is: SBO:0000252
constant: false
boundary condition: false
has only substance units: false
initial concentration: 7.38
initial amount: NaN
in compartment: 119099
type: Species

119138
constant: true
value: 0.334
type: Parameter

658564
stoichiometry: 1.0
species: 119104
type: SpeciesReference

658625
stoichiometry: 1.0
species: 119108
type: SpeciesReference

658673
stoichiometry: 1.0
species: 119104
type: SpeciesReference

119106
type: Species
is: SBO:0000297
has part: Q570C0
has part: Q940U6
constant: false
has only substance units: false
in compartment: 119099
initial concentration: 2.78
has part: Q9XFM0
initial amount: NaN
has part: P49677
boundary condition: false

658540
stoichiometry: 1.0
species: 119104
type: SpeciesReference

658769
stoichiometry: 1.0
species: 119101
type: SpeciesReference

119147
constant: true
value: 1.15
type: Parameter

119102
is version of: Q9LPW7
is: SBO:0000252
boundary condition: false
type: Species
is version of: Q9ZR12
is version of: Q9LW29
in compartment: 119099
is version of: Q570C0
initial amount: NaN
initial concentration: 15.4
has only substance units: false
constant: false

658589
stoichiometry: 1.0
species: 119102
type: SpeciesReference

119151
constant: true
value: 0.00316
type: Parameter

119122
kinetic law: 658781
reactant: 658769
is version of: GO:0030163
is: SBO:0000179
fast: false
reversible: false
type: Reaction

658745
stoichiometry: 1.0
species: 119101
type: SpeciesReference

119112
kinetic law: 658601
product: 658576
type: Reaction
reversible: false
product: 658589
is: SBO:0000180
is version of: GO:0043241
fast: false
reactant: 658564

119141
constant: true
value: 0.79
type: Parameter

119126
kinetic law: 658831
reactant: 658819
is version of: GO:0030163
is: SBO:0000179
fast: false
reversible: false
type: Reaction

658516
stoichiometry: 1.0
species: 119101
type: SpeciesReference

119155
constant: true
value: 30.5
type: Parameter

119116
is version of: GO:0043241
type: Reaction
product: 658685
fast: false
reversible: false
reactant: 658661
product: 658673
kinetic law: 658697
is: SBO:0000180

BIOMD0000000413
reaction: 119126
curated: true
reaction: 119114
substance units: substance
parameter: 119151
is described by: http://identifiers.org/pubmed/22393022
species: 119104
parameter: 119147
compartment: 119099
area units: area
creator:
  ORG:
    orgname: Centre for Plant Integrative Biology, University of Nottingham
  n:
    given: Leah
    family: Band
reaction: 119122
species: 119101
parameter: 119138
reaction: 119110
species: 119102
is version of: GO:0090354
time units: time
creator:
  ORG:
    orgname: EMBL-EBI
  n:
    given: Vijayalakshmi
    family: Chelliah
reaction: 119116
modified:
  W3 CDTF: Fri May 18 10:44:57 BST 2012
name: Band2012_DII-Venus_FullModel
parameter: 119153
species: 119106
volume units: volume
parameter: 119149
parameter: 119141
type: SBMLModel
is: MODEL1203230002
reaction: 119124
created:
  W3 CDTF: Thu Apr 05 15:38:40 BST 2012
reaction: 119112
length unit: length
occurs in: http://identifiers.org/taxonomy/3701
species: 119108
parameter: 119145
reaction: 119120
reaction: 119118
notes: This model is from the article: Root gravitropism is regulated by a transient lateral auxin gradient controlled by a tipping-point mechanism. Band LR, Wells DM, Larrieu A, Sun J, Middleton AM, French AP, Brunoud G, Sato EM, Wilson MH, Péret B, Oliva M, Swarup R, Sairanen I, Parry G, Ljung K, Beeckman T, Garibaldi JM, Estelle M, Owen MR, Vissenberg K, Hodgman TC, Pridmore TP, King JR, Vernoux T, Bennett MJ. Proc Natl Acad Sci U S A. 2012 Mar 20;109(12):4668-73 22393022 , Abstract: Gravity profoundly influences plant growth and development. Plants respond to changes in orientation by using gravitropic responses to modify their growth. Cholodny and Went hypothesized over 80 years ago that plants bend in response to a gravity stimulus by generating a lateral gradient of a growth regulator at an organ's apex, later found to be auxin. Auxin regulates root growth by targeting Aux/IAA repressor proteins for degradation. We used an Aux/IAA-based reporter, domain II (DII)-VENUS, in conjunction with a mathematical model to quantify auxin redistribution following a gravity stimulus. Our multidisciplinary approach revealed that auxin is rapidly redistributed to the lower side of the root within minutes of a 90° gravity stimulus. Unexpectedly, auxin asymmetry was rapidly lost as bending root tips reached an angle of 40° to the horizontal. We hypothesize roots use a "tipping point" mechanism that operates to reverse the asymmetric auxin flow at the midpoint of root bending. These mechanistic insights illustrate the scientific value of developing quantitative reporters such as DII-VENUS in conjunction with parameterized mathematical models to provide high-resolution kinetics of hormone redistribution. This model corresponds to the full model described in the article.
parameter: 119155
parameter: 119143
parameter: 119139

658661
stoichiometry: 1.0
species: 119106
type: SpeciesReference

658721
stoichiometry: 1.0
species: 119104
type: SpeciesReference

658819
stoichiometry: 1.0
species: 119108
type: SpeciesReference

658794
stoichiometry: 1.0
species: 119108
type: SpeciesReference