000013
is version of: GO:0005892
type: Species
constant: false
is version of: IPR002394
in compartment: 000002
name: Intermediate
is: SBO:0000420
initial amount: 0.0
has only substance units: false
initial concentration: NaN
boundary condition: false
notes: unliganted intermediate

metaid_0000046
is: SBO:0000038
constant: true
value: 17.28
type: Parameter

323906
notes: kf_15 * IL - kr_15 * DL
is: SBO:0000080
type: KineticLaw

323637
is: SBO:0000011
stoichiometry: 1.0
species: 000011
type: SpeciesReference

323546
is: SBO:0000010
stoichiometry: 1.0
species: 000007
type: SpeciesReference

000023
fast: false
is: SBO:0000177
is: GO:0042166
reactant: 323585
product: 323598
reversible: true
type: Reaction
name: React7
notes: first ligand on intermediate
kinetic law: 323611

323334
is: SBO:0000011
stoichiometry: 1.0
species: 000007
type: SpeciesReference

metaid_0000056
is: SBO:0000038
constant: true
value: 3.74
type: Parameter

metaid_0000066
is: SBO:0000038
constant: true
value: 0.0012
type: Parameter

323761
notes: kf_11 * ALL - kr_11 * ILL
is: SBO:0000080
type: KineticLaw

323798
notes: kf_12 * D - kr_12 * DL
is: SBO:0000080
type: KineticLaw

323585
is: SBO:0000010
stoichiometry: 1.0
species: 000013
type: SpeciesReference

323749
is: SBO:0000011
stoichiometry: 1.0
species: 000011
type: SpeciesReference

000003
is version of: IPR002394
initial amount: 0.0
notes: biliganded basal state
is version of: GO:0005892
constant: false
in compartment: 000002
boundary condition: false
name: BasalACh2
type: Species
has only substance units: false
initial concentration: NaN
is: SBO:0000297

323406
is: SBO:0000011
stoichiometry: 1.0
species: 000014
type: SpeciesReference

323932
is: SBO:0000011
stoichiometry: 1.0
species: 000009
type: SpeciesReference

000022
kinetic law: 323572
notes: opening of monoliganded
type: Reaction
is: SBO:0000181
reversible: true
fast: false
product: 323559
is: GO:0004889
reactant: 323546
name: React6

000012
notes: monoliganded desensitised state
is version of: GO:0005892
type: Species
name: DesensitisedACh
constant: false
is version of: IPR002394
initial concentration: NaN
initial amount: 0.0
boundary condition: false
has only substance units: false
in compartment: 000002
is: SBO:0000297

000032
kinetic law: 323944
product: 323932
reactant: 323921
notes: biliganded intermediate <=> biliganded desensitised
is: SBO:0000181
fast: false
reversible: true
name: React16
type: Reaction

metaid_0000047
is: SBO:0000035
constant: true
value: 0.54
type: Parameter

metaid_0000037
is: SBO:0000035
constant: false
value: 3000.0
type: Parameter

metaid_0000057
is: SBO:0000035
constant: true
value: 19.85
type: Parameter

000002
is: GO:0031594
is: SBO:0000290
constant: true
size: 1.0E-16
spatial dimensions: 3.0
name: compartment1
type: Compartment

323894
is: SBO:0000011
stoichiometry: 1.0
species: 000012
type: SpeciesReference

323559
is: SBO:0000011
stoichiometry: 1.0
species: 000005
type: SpeciesReference

323394
is: SBO:0000010
stoichiometry: 1.0
species: 000003
type: SpeciesReference

323572
notes: kf_6 * BL - kr_6 * AL
is: SBO:0000080
type: KineticLaw

metaid_0000067
is: SBO:0000035
constant: true
value: 0.05
type: Parameter

323431
is: SBO:0000010
stoichiometry: 1.0
species: 000006
type: SpeciesReference

metaid_0000060
is: SBO:0000038
constant: true
value: 0.81
type: Parameter

323468
is: SBO:0000010
stoichiometry: 1.0
species: 000005
type: SpeciesReference

BIOMD0000000001
parameter: metaid_0000043
reaction: 000023
is described by: http://identifiers.org/pubmed/8983160
reaction: 000029
species: 000010
curated: true
parameter: metaid_0000042
notes: Edelstein1996 - EPSP ACh event Model of a nicotinic Excitatory Post-Synaptic Potential in a Torpedo electric organ. Acetylcholine is not represented explicitely, but by an event that changes the constants of transition from unliganded to liganded. This model has initially been encoded using StochSim. This model is described in the article: A kinetic mechanism for nicotinic acetylcholine receptors based on multiple allosteric transitions. Edelstein SJ, Schaad O, Henry E, Bertrand D, Changeux JP. Biol. Cybern. 1996 Nov; 75(5):361-79 Abstract: Nicotinic acetylcholine receptors are transmembrane oligomeric proteins that mediate interconversions between open and closed channel states under the control of neurotransmitters. Fast in vitro chemical kinetics and in vivo electrophysiological recordings are consistent with the following multi-step scheme. Upon binding of agonists, receptor molecules in the closed but activatable resting state (the Basal state, B) undergo rapid transitions to states of higher affinities with either open channels (the Active state, A) or closed channels (the initial Inactivatable and fully Desensitized states, I and D). In order to represent the functional properties of such receptors, we have developed a kinetic model that links conformational interconversion rates to agonist binding and extends the general principles of the Monod-Wyman-Changeux model of allosteric transitions. The crucial assumption is that the linkage is controlled by the position of the interconversion transition states on a hypothetical linear reaction coordinate. Application of the model to the peripheral nicotine acetylcholine receptor (nAChR) accounts for the main properties of ligand-gating, including single-channel events, and several new relationships are predicted. Kinetic simulations reveal errors inherent in using the dose-response analysis, but justify its application under defined conditions. The model predicts that (in order to overcome the intrinsic stability o…
reaction: 000021
reaction: 000028
species: 000003
parameter: metaid_0000037
reaction: 000018
reaction: 000020
parameter: metaid_0000056
compartment: 000002
is: MODEL6613849442
parameter: metaid_0000066
parameter: metaid_0000047
event: 180306
reaction: 000030
area units: area
parameter: metaid_0000041
parameter: metaid_0000046
parameter: metaid_0000038
species: 000014
parameter: metaid_0000040
species: 000007
substance units: substance
parameter: metaid_0000070
reaction: 000022
parameter: metaid_0000065
length unit: length
reaction: 000017
species: 000011
parameter: metaid_0000064
parameter: metaid_0000050
species: 000004
parameter: metaid_0000045
parameter: metaid_0000055
reaction: 000027
name: Edelstein1996 - EPSP ACh event
reaction: 000026
parameter: metaid_0000069
parameter: metaid_0000068
time units: time
parameter: metaid_0000059
species: 000008
parameter: metaid_0000053
reaction: 000025
species: 000012
parameter: metaid_0000044
reaction: 000024
is version of: GO:0007274
reaction: 000016
species: 000005
is version of: GO:0007166
parameter: metaid_0000063
reaction: 000019
parameter: metaid_0000062
parameter: metaid_0000054
parameter: metaid_0000057
parameter: metaid_0000049
volume units: volume
reaction: 000032
occurs in: http://identifiers.org/taxonomy/7787
parameter: metaid_0000048
reaction: 000031
parameter: metaid_0000067
species: 000009
parameter: metaid_0000039
parameter: metaid_0000072
parameter: metaid_0000061
parameter: metaid_0000058
parameter: metaid_0000060
species: 000013
parameter: metaid_0000052
type: SBMLModel
species: 000006
parameter: metaid_0000051

323810
is: SBO:0000010
stoichiometry: 1.0
species: 000012
type: SpeciesReference

metaid_0000048
is: SBO:0000038
constant: true
value: 10800.0
type: Parameter

323494
notes: kf_4 * AL - kr_4 * ALL
is: SBO:0000080
type: KineticLaw

000031
kinetic law: 323906
product: 323894
reactant: 323882
notes: monoliganded intermediate <=> monoliganded desensitised
is: SBO:0000181
fast: false
reversible: true
name: React15
type: Reaction

323611
notes: kf_7 * I - kr_7 * IL
is: SBO:0000080
type: KineticLaw

000025
fast: false
kinetic law: 323689
type: Reaction
name: React9
reversible: true
reactant: 323663
product: 323676
notes: unliganded active <=> unliganded intermediate
is: SBO:0000181
is: GO:0004889

000011
notes: biliganded intermediate
in compartment: 000002
is version of: GO:0005892
boundary condition: false
is version of: IPR002394
initial amount: 0.0
type: Species
constant: false
initial concentration: NaN
is: SBO:0000297
has only substance units: false
name: IntermediateACh2

000019
is: GO:0042166
kinetic law: 323455
reactant: 323431
product: 323443
reversible: true
name: React3
type: Reaction
is: SBO:0000177
notes: first ligand on active
fast: false

323358
is: SBO:0000010
stoichiometry: 1.0
species: 000007
type: SpeciesReference

323418
notes: kf_2 * BLL - kr_2 * ALL
is: SBO:0000080
type: KineticLaw

000005
boundary condition: false
notes: monoliganded active state
has only substance units: false
in compartment: 000002
constant: false
name: ActiveACh
is version of: IPR002394
is: SBO:0000297
type: Species
initial concentration: NaN
initial amount: 0.0
is version of: GO:0005892

323650
notes: kf_8 * IL - kr_8 * ILL
is: SBO:0000080
type: KineticLaw

323346
notes: kf_0 * B - kr_0 * BL
is: SBO:0000080
type: KineticLaw

metaid_0000068
is: SBO:0000038
constant: true
value: 0.0012
type: Parameter

metaid_0000040
is: SBO:0000038
constant: true
value: 16000.0
type: Parameter

metaid_0000054
is: SBO:0000038
constant: true
value: 8.0
type: Parameter

323737
is: SBO:0000010
stoichiometry: 1.0
species: 000014
type: SpeciesReference

323533
notes: kf_5 * B - kr_5 * A
is: SBO:0000080
type: KineticLaw

metaid_0000061
is: SBO:0000035
constant: false
value: 3000.0
type: Parameter

000030
kinetic law: 323870
product: 323858
reactant: 323846
notes: unliganded intermediate <=> unliganded desensitised
is: SBO:0000181
fast: false
reversible: true
name: React14
type: Reaction

metaid_0000049
is: SBO:0000035
constant: true
value: 130.0
type: Parameter

000010
constant: false
boundary condition: false
name: Desensitised
has only substance units: false
notes: fully desensitised state
initial concentration: NaN
is version of: GO:0005892
is version of: IPR002394
in compartment: 000002
is: SBO:0000420
initial amount: 0.0
type: Species

323624
is: SBO:0000010
stoichiometry: 1.0
species: 000004
type: SpeciesReference

000024
notes: second ligand on intermediate
type: Reaction
name: React8
fast: false
is: GO:0042166
product: 323637
is: SBO:0000177
kinetic law: 323650
reactant: 323624
reversible: true

323944
notes: kf_16 * ILL - kr_16 * DLL
is: SBO:0000080
type: KineticLaw

000004
initial concentration: NaN
is version of: GO:0005892
name: IntermediateACh
type: Species
has only substance units: false
in compartment: 000002
boundary condition: false
is: SBO:0000297
initial amount: 0.0
notes: monoliganded intermediate
is version of: IPR002394
constant: false

000018
is: SBO:0000181
reactant: 323394
is: GO:0004889
notes: opening of biliganded
product: 323406
fast: false
name: React2
reversible: true
kinetic law: 323418
type: Reaction

323382
notes: kf_1 * BL - kr_1 * BLL
is: SBO:0000080
type: KineticLaw

323676
is: SBO:0000011
stoichiometry: 1.0
species: 000013
type: SpeciesReference

metaid_0000055
is: SBO:0000035
constant: true
value: 19.7
type: Parameter

metaid_0000069
is: SBO:0000035
constant: true
value: 0.05
type: Parameter

metaid_0000041
is: SBO:0000035
constant: true
value: 30000.0
type: Parameter

323882
is: SBO:0000010
stoichiometry: 1.0
species: 000004
type: SpeciesReference

metaid_0000042
is: SBO:0000038
constant: true
value: 700.0
type: Parameter

000027
type: Reaction
is: GO:0004889
fast: false
reactant: 323737
is: SBO:0000181
product: 323749
kinetic law: 323761
reversible: true
notes: biliganded active <=> biliganded intermediate
name: React11

323785
is: SBO:0000011
stoichiometry: 1.0
species: 000012
type: SpeciesReference

323725
notes: kf_10 * AL - kr_10 * IL
is: SBO:0000080
type: KineticLaw

323870
notes: kf_14 * I - kr_14 * D
is: SBO:0000080
type: KineticLaw

metaid_0000052
is: SBO:0000038
constant: true
value: 4.0
type: Parameter

180306
event assignment: 324053
is: GO:0001507
trigger: 323956
event assignment: 323992
use values from trigger time: true
type: Event
name: removal of ACh
event assignment: 324041
event assignment: 323968
event assignment: 324004
event assignment: 323980
event assignment: 324028
event assignment: 324016

000007
type: Species
is version of: IPR002394
initial concentration: NaN
initial amount: 0.0
in compartment: 000002
name: BasalACh
has only substance units: false
constant: false
notes: monoliganded basal state
is: SBO:0000297
is version of: GO:0005892
boundary condition: false

000017
fast: false
is: GO:0042166
kinetic law: 323382
reversible: true
notes: second ligand on basal
product: 323370
is: SBO:0000177
type: Reaction
reactant: 323358
name: React1

metaid_0000062
is: SBO:0000038
constant: true
value: 4.0
type: Parameter

323689
notes: kf_9 * A - kr_9 * I
is: SBO:0000080
type: KineticLaw

323822
is: SBO:0000011
stoichiometry: 1.0
species: 000009
type: SpeciesReference

323481
is: SBO:0000011
stoichiometry: 1.0
species: 000014
type: SpeciesReference

323858
is: SBO:0000011
stoichiometry: 1.0
species: 000010
type: SpeciesReference

metaid_0000043
is: SBO:0000035
constant: false
value: 3000.0
type: Parameter

000026
reversible: true
reactant: 323701
type: Reaction
is: GO:0004889
kinetic law: 323725
fast: false
notes: monoliganded active <=> monoliganded intermediate
product: 323713
name: React10
is: SBO:0000181

metaid_0000053
is: SBO:0000035
constant: false
value: 1500.0
type: Parameter

metaid_0000063
is: SBO:0000035
constant: false
value: 1500.0
type: Parameter

000006
boundary condition: false
initial amount: 0.0
has only substance units: false
notes: unkiganded active state
initial concentration: NaN
in compartment: 000002
is version of: GO:0005892
name: Active
constant: false
is version of: IPR002394
is: SBO:0000420
type: Species

000016
product: 323334
notes: first ligand on basal
name: React0
reversible: true
reactant: 323321
fast: false
kinetic law: 323346
is: SBO:0000177
is: GO:0042166
type: Reaction

323520
is: SBO:0000011
stoichiometry: 1.0
species: 000006
type: SpeciesReference

323956
persistant: true
initial value: true
type: Trigger

323507
is: SBO:0000010
stoichiometry: 1.0
species: 000008
type: SpeciesReference

metaid_0000072
constant: true
value: 20.0
type: Parameter

323443
is: SBO:0000011
stoichiometry: 1.0
species: 000005
type: SpeciesReference

323921
is: SBO:0000010
stoichiometry: 1.0
species: 000011
type: SpeciesReference

metaid_0000050
is: SBO:0000038
constant: true
value: 2740.0
type: Parameter

metaid_0000044
is: SBO:0000038
constant: true
value: 8.64
type: Parameter

000029
is: SBO:0000177
type: Reaction
fast: false
is: GO:0042166
product: 323822
name: React13
kinetic law: 323834
notes: second ligand on desensitised
reactant: 323810
reversible: true

323773
is: SBO:0000010
stoichiometry: 1.0
species: 000010
type: SpeciesReference

323713
is: SBO:0000011
stoichiometry: 1.0
species: 000004
type: SpeciesReference

323663
is: SBO:0000010
stoichiometry: 1.0
species: 000006
type: SpeciesReference

metaid_0000064
is: SBO:0000038
constant: true
value: 8.0
type: Parameter

000009
has only substance units: false
initial amount: 0.0
boundary condition: false
in compartment: 000002
is version of: GO:0005892
type: Species
initial concentration: NaN
is version of: IPR002394
is: SBO:0000297
notes: biliganded desensitised state
name: DesensitisedACh2
constant: false

323370
is: SBO:0000011
stoichiometry: 1.0
species: 000003
type: SpeciesReference

metaid_0000039
is: SBO:0000035
constant: false
value: 1500.0
type: Parameter

323834
notes: kf_13 * DL - kr_13 * DLL
is: SBO:0000080
type: KineticLaw

000020
type: Reaction
name: React4
is: SBO:0000177
reversible: true
product: 323481
kinetic law: 323494
reactant: 323468
notes: second ligand on active
fast: false
is: GO:0042166

metaid_0000058
is: SBO:0000038
constant: true
value: 1.74
type: Parameter

000028
reactant: 323773
product: 323785
name: React12
notes: first ligand on desensitised
reversible: true
fast: false
is: GO:0042166
kinetic law: 323798
is: SBO:0000177
type: Reaction

metaid_0000051
is: SBO:0000035
constant: false
value: 3000.0
type: Parameter

323321
is: SBO:0000010
stoichiometry: 1.0
species: 000008
type: SpeciesReference

323846
is: SBO:0000010
stoichiometry: 1.0
species: 000013
type: SpeciesReference

metaid_0000045
is: SBO:0000035
constant: false
value: 1500.0
type: Parameter

000014
type: Species
in compartment: 000002
name: ActiveACh2
is version of: GO:0005892
constant: false
is version of: IPR002394
initial amount: 0.0
notes: biliganted active state
initial concentration: NaN
boundary condition: false
has only substance units: false
is: SBO:0000297

metaid_0000065
is: SBO:0000035
constant: true
value: 0.05
type: Parameter

323598
is: SBO:0000011
stoichiometry: 1.0
species: 000004
type: SpeciesReference

000008
boundary condition: false
initial concentration: NaN
has only substance units: false
in compartment: 000002
constant: false
notes: unliganded basal state
is version of: GO:0005892
is: SBO:0000420
name: Basal
type: Species
initial amount: 1.66057788110262E-21
is version of: IPR002394

323455
notes: kf_3 * A - kr_3 * AL
is: SBO:0000080
type: KineticLaw

323701
is: SBO:0000010
stoichiometry: 1.0
species: 000005
type: SpeciesReference

metaid_0000038
is: SBO:0000038
constant: true
value: 8000.0
type: Parameter

000021
type: Reaction
fast: false
notes: opening of unliganded
is: GO:0004889
reactant: 323507
reversible: true
is: SBO:0000181
name: React5
product: 323520
kinetic law: 323533

metaid_0000059
is: SBO:0000035
constant: true
value: 20.0
type: Parameter

metaid_0000070
is: SBO:0000038
constant: true
value: 0.0012
type: Parameter

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

W3 CDTF: Wed Feb 02 14:56:11 GMT 2005

W3 CDTF: Mon Jun 03 14:34:46 BST 2013