metaid_0000078
constant: false
units: dimensionless
value: NaN
name: fGactive
type: Parameter

178015
stoichiometry: 9.967E-4
species: metaid_0000017
type: SpeciesReference

178364
stoichiometry: 1.0
species: metaid_0000038
type: SpeciesReference

698051
units: metaid_0000009
value: 0.06
type: LocalParameter

177895
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species: metaid_0000040
type: SpeciesReference

metaid_0000052
name: PIP2_5Pase
reactant: 178220
is version of: GO:0004439
fast: false
product: 178232
is version of: http://identifiers.org/ec-code/3.1.3.36
kinetic law: 178244
reversible: true
type: Reaction
is: R04404

177943
stoichiometry: 1.0
species: metaid_0000041
type: SpeciesReference

metaid_0000079
constant: false
units: dimensionless
value: NaN
name: I_KCNQ
type: Parameter

178436
persistant: true
initial value: true
type: Trigger

177847
stoichiometry: 1.0
species: metaid_0000019
type: SpeciesReference

metaid_0000023
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is: C00002
initial concentration: 3000.0
constant: false
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is: CHEBI:15422
substance units: metaid_0000003
boundary condition: false

metaid_0000053
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kinetic law: 178280
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is version of: http://identifiers.org/ec-code/3.1.4.11
is: R03435
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reversible: true
type: Reaction
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is version of: GO:0007200
reactant: 178256

178268
stoichiometry: 9.967E-4
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698071
units: metaid_0000011
value: 0.003
type: LocalParameter

metaid_0010078
constant: true
units: metaid_0100103
value: 6.022E17
name: NA(micro)
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178352
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metaid_0000024
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has only substance units: false
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boundary condition: false
name: oxoM_EX
is: CHEBI:38322
type: Species
initial concentration: 0.0
initial amount: NaN
in compartment: metaid_0000015

metaid_0000039
has part: C04637
type: Species
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name: PIP2xKCNQ_M
initial concentration: 33.3
in compartment: metaid_0000016
initial amount: NaN
constant: false
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has only substance units: false
substance units: metaid_0000004
has part: O88944
has part: O43526

177931
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species: metaid_0000026
type: SpeciesReference

metaid_0000050
kinetic law: 178147
modifier: 178135
product: 178123
reactant: 178111
is part of: GO:0031684
fast: false
reversible: true
name: MgGTPon
type: Reaction

metaid_0000064
constant: false
units: dimensionless
value: NaN
name: OxoSat
type: Parameter

177883
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species: metaid_0000036
type: SpeciesReference

177599
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kind: SECOND
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177859
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species: metaid_0000039
type: SpeciesReference

177417
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kind: MOLE
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177430
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metaid_0000051
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modifier: 178195
type: Reaction
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reversible: true
product: 178183
is part of: GO:0031684
kinetic law: 178207

metaid_0000038
substance units: metaid_0000004
type: Species
is: CHEBI:17526
name: PIP_M
in compartment: metaid_0000016
initial amount: NaN
constant: false
initial concentration: 1150.0
has only substance units: false
is: C01277
boundary condition: false

metaid_0000025
boundary condition: false
constant: false
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has only substance units: false
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is version of: CHEBI:38309
initial concentration: 0.0
substance units: metaid_0000003
type: Species
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178292
stoichiometry: 9.967E-4
species: metaid_0000031
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698068
units: dimensionless
value: 0.002
type: LocalParameter

178039
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type: SpeciesReference

177482
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metaid_0000081
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698054
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177521
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178111
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178388
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177443
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metaid_0000020
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substance units: metaid_0000004
has part: CHEBI:38309
name: GGDPbS_M
boundary condition: false
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type: Species
has part: GO:0005834

177560
exponent: -1.0
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178316
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species: metaid_0000035
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metaid_0000040
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has only substance units: false
constant: false
initial amount: NaN
boundary condition: false
has part: GO:0005834
initial concentration: 0.0
in compartment: metaid_0000016
has part: CHEBI:5235
has part: C01806
type: Species
substance units: metaid_0000004

metaid_0000060
constant: false
units: dimensionless
value: NaN
name: ATPSat300
type: Parameter

178183
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species: metaid_0000032
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178027
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species: metaid_0000032
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177456
exponent: -1.0
scale: -6
multipler: 1.0
kind: MOLE
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metaid_0000021
initial amount: NaN
constant: false
boundary condition: true
is: C00305
is: CHEBI:25107
initial concentration: 2100.0
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type: Species
in compartment: metaid_0000014
substance units: metaid_0000003

178123
stoichiometry: 1.0
species: metaid_0000026
type: SpeciesReference

178460
persistant: true
initial value: true
type: Trigger

698052
units: metaid_0000009
value: 0.3
type: LocalParameter

metaid_0000041
has only substance units: false
substance units: metaid_0000004
initial amount: NaN
type: Species
has part: C00035
has part: GO:0005834
in compartment: metaid_0000016
initial concentration: 200.0
constant: false
has part: CHEBI:17552
name: GGDP_M
boundary condition: false

177495
exponent: -2.0
scale: -6
multipler: 1.0
kind: METRE
type: SBMLUnit

metaid_0000061
constant: false
units: dimensionless
value: NaN
name: MgSat10
type: Parameter

177775
stoichiometry: 1.0
species: metaid_0000038
type: SpeciesReference

BIOMD0000000081
species: metaid_0000038
length unit: length
parameter: metaid_0000075
units def: metaid_0000004
substance units: metaid_0100003
is: map04020
units def: metaid_0100103
has part: GO:0007207
species: metaid_0000041
parameter: metaid_0000061
rule: metaid_0000077
notes: The model reproduces FIG 11A and FIG 11B of the paper. However, please note that FIG 11B is a plot of normalised amounts versus time. The "stoichiometry" field has been used to convert fluxes from membrane species to volume species. The value of 0.0009967 is a product of (Surface to Volume_M*(1/Avagadro's number)*1E21. 0.6 is the surface to volume ratio of the plasma membrane, 1E21 is required for a unit surface to volume ratio and the Avagadro's number is present in the denominator to convert molecules to moles. The model was successfully tested using MathSBML and SBML ODESolver. All the kinetic laws have the unit items per second , which requires the one reaction taking place in the cytoplasm - IP3Phosphatase - to include an explicit conversion factor both in the kinetic law and the stoichiometry of IP3_C . The kinetic law is multiplied and the stoichiometry divided by the number of molecules per micro-mole. This conversion factor is only required for correct units and can be replaced by 1, if it should lead to numerical problems. 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.
units def: metaid_0000006
volume units: metaid_0000004
name: Suh2004_KCNQ_Regulation
species: metaid_0000018
type: SBMLModel
parameter: metaid_0000059
species: metaid_0000030
species: metaid_0000037
reaction: metaid_0000046
reaction: metaid_0000042
species: metaid_0000029
species: metaid_0000028
area units: metaid_0000005
rule: metaid_0000071
units def: metaid_0000010
compartment: metaid_0000016
species: metaid_0000039
units def: metaid_0000003
rule: metaid_0000072
species: metaid_0000026
parameter: metaid_0000078
parameter: metaid_0000074
event: metaid_0000083
reaction: metaid_0000055
units def: metaid_0000005
reaction: metaid_0000056
species: metaid_0000021
units def: metaid_0000009
species: metaid_0000020
species: metaid_0000019
parameter: metaid_0000060
species: metaid_0000040
species: metaid_0000032
species: metaid_0000031
reaction: metaid_0000053
reaction: metaid_0000048
curated: true
reaction: metaid_0000044
species: metaid_0000023
compartment: metaid_0000015
reaction: metaid_0000045
units def: metaid_0000076
reaction: metaid_0000051
units def: metaid_0100003
species: metaid_0000034
is: MODEL4662889298
rule: metaid_0000085
parameter: metaid_0000068
parameter: metaid_0000064
is: map04070
units def: metaid_0100006
event: metaid_0000082
parameter: metaid_0010078
is described by: http://identifiers.org/pubmed/15173220
reaction: metaid_0000054
occurs in: http://identifiers.org/taxonomy/9606
reaction: metaid_0000049
units def: metaid_0000008
units def: metaid_0000013
species: metaid_0000025
species: metaid_0000024
reaction: metaid_0000052
reaction: metaid_0000047
reaction: metaid_0000043
species: metaid_0000036
parameter: metaid_0000081
species: metaid_0000035
compartment: metaid_0000014

177835
stoichiometry: 1.0
species: metaid_0000018
type: SpeciesReference

178400
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species: metaid_0000029
type: SpeciesReference

177677
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scale: 0
multipler: 1.0
kind: SECOND
type: SBMLUnit

177763
stoichiometry: 9.967E-4
species: metaid_0000023
type: SpeciesReference

698078
units: metaid_0000011
value: 0.002
type: LocalParameter

metaid_0000043
kinetic law: 177823
reactant: 177811
is version of: GO:0004445
is version of: http://identifiers.org/ec-code/3.1.3.56
is: R03394
fast: false
reversible: true
name: IP3Phosphatase
type: Reaction

698059
units: metaid_0000009
value: 1.8
name: kGGTPase
type: LocalParameter

698064
units: metaid_0000011
value: 0.28
type: LocalParameter

178087
stoichiometry: 1.0
species: metaid_0000020
type: SpeciesReference

178220
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species: metaid_0000019
type: SpeciesReference

177664
exponent: -1.0
scale: -6
multipler: 1.0
kind: MOLE
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178171
stoichiometry: 9.967E-4
species: metaid_0000027
type: SpeciesReference

177714
exponent: -1.0
scale: 0
multipler: 1.0
kind: SECOND
type: SBMLUnit

metaid_0000042
is version of: GO:0016308
name: PIP5kinase
reactant: 177763
reactant: 177775
reversible: true
type: Reaction
fast: false
is version of: http://identifiers.org/ec-code/2.7.1.68
product: 177787
is: R03469
kinetic law: 177799

metaid_0000032
name: G_M
has only substance units: false
initial amount: NaN
type: Species
initial concentration: 0.065
in compartment: metaid_0000016
substance units: metaid_0000004
boundary condition: false
constant: false
is: GO:0005834

177638
exponent: -1.0
scale: 0
multipler: 1.0
kind: SECOND
type: SBMLUnit

metaid_0100003
unit: 177430
name: items
type: SBMLUnitsDef

698058
units: metaid_0000011
value: 0.002
type: LocalParameter

698065
units: metaid_0000009
value: 0.1
type: LocalParameter

177811
stoichiometry: 1.666111296E-18
species: metaid_0000030
type: SpeciesReference

177727
exponent: -1.0
scale: 0
multipler: 1.0
kind: LITRE
type: SBMLUnit

177751
exponent: -1.0
scale: 0
multipler: 1.0
kind: LITRE
type: SBMLUnit

metaid_0000083
event assignment: 178472
trigger: 178460
use values from trigger time: true
type: Event

metaid_0000045
kinetic law: 177919
modifier: 177907
product: 177895
reactant: 177883
is part of: GO:0031684
fast: false
reversible: true
name: MgonGGTPgS
type: Reaction

metaid_0000018
has only substance units: false
has part: O43526
type: Species
substance units: metaid_0000004
name: KCNQsites_M
initial concentration: 6.7
constant: false
initial amount: NaN
boundary condition: false
has part: O88944
in compartment: metaid_0000016

698076
units: metaid_0000009
value: 0.005
type: LocalParameter

698066
units: metaid_0000011
value: 0.003
type: LocalParameter

698057
units: metaid_0000009
value: 0.25
type: LocalParameter

metaid_0000059
constant: false
units: dimensionless
value: NaN
name: MgSat20
type: Parameter

177625
exponent: 2.0
scale: -6
multipler: 1.0
kind: METRE
type: SBMLUnit

metaid_0000031
boundary condition: false
is: CHEBI:30111
in compartment: metaid_0000014
initial concentration: 0.0
initial amount: NaN
type: Species
substance units: metaid_0000003
constant: false
has only substance units: false
name: AIF4_C

metaid_0000082
event assignment: 178448
trigger: 178436
is: GO:0031789
use values from trigger time: true
type: Event

metaid_0000019
boundary condition: false
constant: false
initial concentration: 5000.0
name: PIP2_M
is: C04637
initial amount: NaN
substance units: metaid_0000004
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is: CHEBI:18348
type: Species

178075
stoichiometry: 9.967E-4
species: metaid_0000025
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178232
stoichiometry: 1.0
species: metaid_0000038
type: SpeciesReference

177739
exponent: 1.0
scale: -6
multipler: 1.0
kind: MOLE
type: SBMLUnit

metaid_0000044
kinetic law: 177871
product: 177859
reversible: true
type: Reaction
fast: false
reactant: 177847
name: PIP2binding
is version of: GO:0005267
reactant: 177835
is version of: GO:0005546

698077
units: metaid_0000009
value: 1.0E-4
type: LocalParameter

177979
stoichiometry: 1.0
species: metaid_0000034
type: SpeciesReference

698067
units: metaid_0000009
value: 0.5
type: LocalParameter

metaid_0000030
constant: false
has only substance units: false
is: C01245
substance units: metaid_0000003
in compartment: metaid_0000014
initial concentration: 0.48
initial amount: NaN
type: Species
name: IP3_C
is: CHEBI:16595
boundary condition: false

metaid_0000016
is: GO:0005886
constant: true
units: metaid_0000005
size: 1.0
spatial dimensions: 2.0
name: Membrane
type: Compartment

metaid_0000075
constant: true
units: metaid_0000076
value: 8.0
name: Koxom
type: Parameter

metaid_0000047
kinetic law: 178003
modifier: 177991
product: 177979
reactant: 177967
is part of: GO:0031684
fast: false
reversible: true
name: GTPon
type: Reaction

178256
stoichiometry: 1.0
species: metaid_0000019
type: SpeciesReference

metaid_0000026
type: Species
has part: C00044
has part: C00305
initial amount: NaN
has only substance units: false
has part: CHEBI:25107
constant: false
substance units: metaid_0000004
name: GGTPMg_M
initial concentration: 0.1
has part: CHEBI:15996
in compartment: metaid_0000016
has part: GO:0005834
boundary condition: false

metaid_0000037
initial amount: NaN
initial concentration: 200000.0
name: PI_M
is: CHEBI:16749
type: Species
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constant: false
has only substance units: false
substance units: metaid_0000004
boundary condition: false
is: C01194

698074
units: dimensionless
value: 7.5E-4
type: LocalParameter

W3 CDTF: Thu Jul 05 17:29:50 BST 2012

177508
exponent: -1.0
scale: 0
multipler: 1.0
kind: SECOND
type: SBMLUnit

698060
units: metaid_0000011
value: 0.45
type: LocalParameter

metaid_0000074
constant: true
units: metaid_0000076
value: 10.0
name: KMgGTPase
type: Parameter

metaid_0000046
kinetic law: 177955
product: 177943
reactant: 177931
is version of: GO:0003924
fast: false
reversible: true
name: GGTPase
type: Reaction

metaid_0000017
type: Species
constant: false
substance units: metaid_0000003
is: CHEBI:5235
in compartment: metaid_0000014
initial concentration: 0.0
has only substance units: false
initial amount: NaN
is: C01806
name: GTPgS_C
boundary condition: false

177967
stoichiometry: 1.0
species: metaid_0000032
type: SpeciesReference

metaid_0000066
constant: false
units: metaid_0100006
value: NaN
name: Gactive
type: Parameter

177534
exponent: -2.0
scale: -6
multipler: 1.0
kind: METRE
type: SBMLUnit

metaid_0000036
has only substance units: false
has part: CHEBI:5235
initial amount: NaN
has part: GO:0005834
substance units: metaid_0000004
has part: C01806
boundary condition: false
initial concentration: 0.0
type: Species
name: GGTPgS_M
in compartment: metaid_0000016
constant: false

metaid_0000027
initial concentration: 0.0
has only substance units: false
initial amount: NaN
boundary condition: false
type: Species
is: C00035
is: CHEBI:17552
name: GDP_C
in compartment: metaid_0000014
constant: false
substance units: metaid_0000003

178340
stoichiometry: 9.967E-4
species: metaid_0000023
type: SpeciesReference

177586
exponent: -1.0
scale: 0
multipler: 1.0
kind: SECOND
type: SBMLUnit

178159
stoichiometry: 1.0
species: metaid_0000041
type: SpeciesReference

178063
stoichiometry: 1.0
species: metaid_0000032
type: SpeciesReference

metaid_0000056
kinetic law: 178424
modifier: 178412
product: 178400
reactant: 178388
is part of: GO:0031684
fast: false
reversible: true
name: MgonGDPAIF4
type: Reaction

698061
units: metaid_0000009
value: 0.08
type: LocalParameter

698075
units: metaid_0000011
value: 7.0E-6
type: LocalParameter

177690
exponent: 1.0
scale: -6
multipler: 1.0
kind: METRE
type: SBMLUnit

metaid_0000049
kinetic law: 178099
product: 178087
reactant: 178075
reactant: 178063
is part of: GO:0031684
fast: false
reversible: true
name: GDPbSon
type: Reaction

metaid_0000014
is: GO:0005737
constant: true
units: litre
size: 1.0
spatial dimensions: 3.0
name: Cytoplasm
type: Compartment

177547
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scale: 0
multipler: 1.0
kind: ITEM
type: SBMLUnit

metaid_0000035
has part: CHEBI:17552
has part: CHEBI:30111
has part: GO:0005834
initial amount: NaN
in compartment: metaid_0000016
name: GGDPAIF4_M
type: Species
has only substance units: false
substance units: metaid_0000004
boundary condition: false
constant: false
has part: C00035
initial concentration: 0.0

metaid_0000028
substance units: metaid_0000003
initial concentration: 0.0
name: GTP_C
type: Species
boundary condition: false
constant: false
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is: C00044
is: CHEBI:15996
has only substance units: false
initial amount: NaN

177469
exponent: 1.0
scale: 0
multipler: 1.0
kind: ITEM
type: SBMLUnit

metaid_0000055
reactant: 178340
reactant: 178352
name: PI4Kinase
fast: false
reversible: true
product: 178364
type: Reaction
is: R03361
kinetic law: 178376
is version of: GO:0004430
is version of: http://identifiers.org/ec-code/2.7.1.67

177651
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scale: 0
multipler: 1.0
kind: LITRE
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698072
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value: 0.005
type: LocalParameter

698062
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type: LocalParameter

177612
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scale: 0
multipler: 1.0
kind: ITEM
type: SBMLUnit

metaid_0000015
is: GO:0005576
constant: true
units: litre
size: 1.0
spatial dimensions: 3.0
name: Extracellular
type: Compartment

177573
exponent: 1.0
scale: -6
multipler: 1.0
kind: MOLE
type: SBMLUnit

metaid_0000076
unit: 177751
unit: 177739
name: microMolar
type: SBMLUnitsDef

metaid_0000048
kinetic law: 178051
product: 178039
reactant: 178027
reactant: 178015
is part of: GO:0031684
fast: false
reversible: true
name: GTPgSon
type: Reaction

metaid_0000029
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has part: CHEBI:25107
has part: P29992
has only substance units: false
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boundary condition: false
type: Species
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substance units: metaid_0000004
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has part: CHEBI:17552

metaid_0000034
has part: CHEBI:15996
constant: false
has part: GO:0005834
substance units: metaid_0000004
boundary condition: false
initial amount: NaN
name: GGTP_M
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in compartment: metaid_0000016
has part: C00044
type: Species
has only substance units: false

metaid_0000054
kinetic law: 178328
product: 178316
reactant: 178304
reactant: 178292
is part of: GO:0031684
fast: false
reversible: true
name: AIF4on
type: Reaction

698073
units: metaid_0000009
value: 4.8
type: LocalParameter

178304
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species: metaid_0000041
type: SpeciesReference

177702
exponent: 1.0
scale: -6
multipler: 1.0
kind: MOLE
type: SBMLUnit

metaid_0000068
constant: false
units: dimensionless
value: NaN
name: ATPSat1000
type: Parameter

698063
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given: Harish
family: Dharuri

ORG:
  orgname: California Institute of Technology

W3 CDTF: Thu Nov 09 18:25:52 GMT 2006