311497
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species: 698712
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698892
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product: 311370
product: 311357
reactant: 311344
fast: false
reversible: false
type: Reaction

698553
constant: true
size: 1.0E-17
spatial dimensions: 3.0
type: Compartment

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units: 310918
value: 8.0001E-17
type: LocalParameter

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boundary condition: false
has only substance units: false
initial concentration: 0.0
initial amount: NaN
in compartment: 698553
type: Species

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species: 698792
type: SpeciesReference

698573
constant: false
boundary condition: false
has only substance units: false
initial concentration: 0.333333333333333
initial amount: NaN
in compartment: 698553
type: Species

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species: 698613
type: SpeciesReference

178617
units: 310882
value: 8.0E-20
type: LocalParameter

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species: 698573
type: SpeciesReference

698673
constant: false
boundary condition: false
has only substance units: false
initial concentration: 0.0
initial amount: NaN
in compartment: 698553
type: Species

311776
local parameters: 178649
notes: k3*PKA_minus_active_slash_internal_minus_PKA_minus_act_sbo_1_sbc__slash_internal_minus_PKA_minus_act_sbo_1_sbc__cplx
type: KineticLaw

311435
local parameters: 178636
local parameters: 178635
notes: k1*Membrane_slash_MR*PKA_minus_active-k2*PKA_minus_active_slash_memb_minus_PKA_minus_act_slash_memb_minus_PKA_minus_act_cplx
type: KineticLaw

178636
units: 310882
value: 2.16E-15
type: LocalParameter

698872
kinetic law: 311283
product: 311271
product: 311259
reactant: 311247
fast: false
reversible: false
type: Reaction

178622
units: 310882
value: 1.8E-21
type: LocalParameter

311014
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species: 698673
type: SpeciesReference

311247
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species: 698593
type: SpeciesReference

311271
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species: 698573
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311691
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species: 698713
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311593
stoichiometry: 1.0
species: 698633
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species: 698753
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311173
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species: 698793
type: SpeciesReference

698593
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has only substance units: false
initial concentration: 0.0
initial amount: NaN
in compartment: 698553
type: Species

311086
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species: 698793
type: SpeciesReference

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units: 310918
value: 1.08E-19
type: LocalParameter

310930
exponent: 2.0
scale: 0
multipler: 1.0
kind: LITRE
type: SBMLUnit

311716
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species: 698772
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constant: false
boundary condition: false
has only substance units: false
initial concentration: 0.0
initial amount: NaN
in compartment: 698553
type: Species

178637
units: 310882
value: 5.4E-16
type: LocalParameter

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units: 310882
value: 0.0
type: LocalParameter

311703
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species: 698792
type: SpeciesReference

178644
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value: 2.16E-15
type: LocalParameter

311557
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species: 698713
type: SpeciesReference

310894
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scale: 0
multipler: 1.0
kind: LITRE
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698992
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product: 311667
product: 311654
reactant: 311642
fast: false
reversible: false
type: Reaction

311222
stoichiometry: 1.0
species: 698593
type: SpeciesReference

311396
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species: 698653
type: SpeciesReference

698972
kinetic law: 311630
product: 311617
reactant: 311605
reactant: 311593
notes: Note halving of Km. See notes for internal-PKA-act enzyme step.
fast: false
reversible: true
type: Reaction

178634
units: 310882
value: 3.5E-18
type: LocalParameter

310978
exponent: 1.0
scale: -6
multipler: 1.0
kind: MOLE
type: SBMLUnit

311026
local parameters: 178617
local parameters: 178616
notes: kf*Anchor*Internal_slash_IR_star__star_-kb*Membrane_slash_MR_star__star_
type: KineticLaw

178624
units: 310882
value: 1.8E-21
type: LocalParameter

698933
kinetic law: 311533
product: 311521
reactant: 311509
reactant: 311497
notes: Note that Km is halved from the main model, from 7.5 to 3.75. This is because here we lump two subunits into one, thus double the effective substrate conc that the enzyme must deal with. We thank an anonymous reviewer for pointing this out.
fast: false
reversible: true
type: Reaction

311149
local parameters: 178623
local parameters: 178622
notes: kf*Internal_slash_IR_star__star_-kb*Bulk_AMPAR
type: KineticLaw

311581
local parameters: 178640
notes: k3*PKA_minus_active_slash_internal_minus_PKA_minus_act_slash_internal_minus_PKA_minus_act_cplx
type: KineticLaw

311654
stoichiometry: 1.0
species: 698673
type: SpeciesReference

311161
stoichiometry: 1.0
species: 698713
type: SpeciesReference

MODEL9086628127
compartment: 698533
species: 698732
species: 698712
reaction: 698873
species: 698673
type: SBMLModel
species: 698653
reaction: 698933
reaction: 698813
reaction: 699013
reaction: 698932
reaction: 698852
species: 698793
time units: 131570
compartment: 698553
notes: This is a highly simplified model of the AMPAR trafficking cycle that exhibits bistability. It is model 2 from Hayer and Bhalla, PLoS 2005. Its main purpose it to illustrate how the bistability arises. This model originates from BioModels Database: A Database of Annotated Published Models (http://www.ebi.ac.uk/biomodels/). It is copyright (c) 2005-2011 The BioModels.net Team. 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.
reaction: 698833
reaction: 698872
reaction: 698952
area units: area
species: 698633
length unit: length
units def: 310966
reaction: 699012
compartment: 698499
species: 698733
species: 698713
species: 698693
units def: 310918
is described by: http://identifiers.org/pubmed/16110334
reaction: 698853
species: 698772
curated: false
species: 698613
units def: 310882
reaction: 698832
reaction: 698972
reaction: 698992
species: 698773
species: 698753
name: Hayer2005_simple_AMPAR_traff_model2
reaction: 698812
reaction: 698892
species: 698792
substance units: 310966
compartment: 698513
volume units: 679943
reaction: 698912
species: 698593
species: 698573

311509
stoichiometry: 1.0
species: 698792
type: SpeciesReference

311521
stoichiometry: 1.0
species: 698733
type: SpeciesReference

311283
local parameters: 178628
notes: k3*Membrane_slash_PP1_minus_active_slash_PP1_slash_PP1_cplx
type: KineticLaw

178635
units: 310918
value: 8.0001E-17
type: LocalParameter

311111
local parameters: 178621
local parameters: 178620
notes: kf*Bulk_AMPAR-kb*Internal_slash_IR
type: KineticLaw

311234
local parameters: 178627
local parameters: 178626
notes: k1*Membrane_slash_MR_star_*Membrane_slash_PP1_minus_active-k2*Membrane_slash_PP1_minus_active_slash_PP1_slash_PP1_cplx
type: KineticLaw

311074
local parameters: 178619
local parameters: 178618
notes: kf*Membrane_slash_MR-kb*Anchor*Internal_slash_IR
type: KineticLaw

698873
kinetic law: 311331
product: 311319
reactant: 311307
reactant: 311295
notes: Note halving of Km from 2 to 1. See also notes for internal-PKA-act. Basically, the enzyme must act on two substrate subunits which are lumped in the current simplification of the original detailed model. We thank an anonymous reviewer for pointing this out.
fast: false
reversible: true
type: Reaction

310942
exponent: -1.0
scale: -6
multipler: 1.0
kind: MOLE
type: SBMLUnit

311728
local parameters: 178648
local parameters: 178647
notes: k1*Internal_slash_IR_star_*PKA_minus_active-k2*PKA_minus_active_slash_internal_minus_PKA_minus_act_sbo_1_sbc__slash_internal_minus_PKA_minus_act_sbo_1_sbc__cplx
type: KineticLaw

311422
stoichiometry: 1.0
species: 698732
type: SpeciesReference

178625
units: 310882
value: 0.0
type: LocalParameter

178626
units: 310918
value: 1.75002E-17
type: LocalParameter

311752
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species: 698693
type: SpeciesReference

698813
kinetic law: 311074
product: 311062
product: 311050
reactant: 311038
fast: false
reversible: true
type: Reaction

698833
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product: 311137
reactant: 311124
fast: false
reversible: true
type: Reaction

310990
stoichiometry: 1.0
species: 698773
type: SpeciesReference

178646
units: 310882
value: 5.4E-16
type: LocalParameter

311740
stoichiometry: 1.0
species: 698772
type: SpeciesReference

311038
stoichiometry: 1.0
species: 698653
type: SpeciesReference

698753
constant: false
boundary condition: false
has only substance units: false
initial concentration: 0.0
initial amount: NaN
in compartment: 698533
type: Species

311409
stoichiometry: 1.0
species: 698792
type: SpeciesReference

698912
kinetic law: 311435
product: 311422
reactant: 311409
reactant: 311396
notes: Note halving of Km. See notes for internal-PKA-act enzymatic step.
fast: false
reversible: true
type: Reaction

311185
local parameters: 178625
local parameters: 178624
notes: kf*Internal_slash_IR_star_-kb*Bulk_AMPAR
type: KineticLaw

698772
constant: false
boundary condition: false
has only substance units: false
initial concentration: 0.0
initial amount: NaN
in compartment: 698533
type: Species

178632
units: 310882
value: 1.4E-17
type: LocalParameter

311137
stoichiometry: 1.0
species: 698793
type: SpeciesReference

698792
constant: true
boundary condition: true
has only substance units: false
initial concentration: 0.0185185185185185
initial amount: NaN
in compartment: 698533
type: Species

698932
kinetic law: 311484
product: 311471
product: 311459
reactant: 311447
fast: false
reversible: false
type: Reaction

311545
stoichiometry: 1.0
species: 698733
type: SpeciesReference

698513
constant: true
size: 5.0E-15
spatial dimensions: 3.0
type: Compartment

698499
constant: true
size: 1.0E-18
spatial dimensions: 3.0
type: Compartment

311357
stoichiometry: 1.0
species: 698633
type: SpeciesReference

698812
kinetic law: 311026
product: 311014
reactant: 311002
reactant: 310990
fast: false
reversible: true
type: Reaction

311459
stoichiometry: 1.0
species: 698633
type: SpeciesReference

311062
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species: 698712
type: SpeciesReference

698952
kinetic law: 311581
product: 311569
product: 311557
reactant: 311545
fast: false
reversible: false
type: Reaction

698832
kinetic law: 311111
product: 311098
reactant: 311086
fast: false
reversible: true
type: Reaction

178647
units: 310918
value: 7.20009E-16
type: LocalParameter

699012
kinetic law: 311728
product: 311716
reactant: 311703
reactant: 311691
notes: Note that Km is halved from the detailed model, as the reaction represents enzyme activity on 2 subunits.
fast: false
reversible: true
type: Reaction

698713
constant: false
boundary condition: false
has only substance units: false
initial concentration: 0.0
initial amount: NaN
in compartment: 698533
type: Species

311471
stoichiometry: 1.0
species: 698792
type: SpeciesReference

178627
units: 310882
value: 1.4E-17
type: LocalParameter

311679
local parameters: 178646
notes: k3*PKA_minus_active_slash_memb_minus_PKA_minus_act_sbo_1_sbc__slash_memb_minus_PKA_minus_act_sbo_1_sbc__cplx
type: KineticLaw

311617
stoichiometry: 1.0
species: 698753
type: SpeciesReference

698732
constant: false
boundary condition: false
has only substance units: false
initial concentration: 0.0
initial amount: NaN
in compartment: 698533
type: Species

311295
stoichiometry: 1.0
species: 698673
type: SpeciesReference

698773
constant: false
boundary condition: false
has only substance units: false
initial concentration: 27.3333333333333
initial amount: NaN
in compartment: 698553
type: Species

698793
constant: true
boundary condition: true
has only substance units: false
initial concentration: 0.003
initial amount: NaN
in compartment: 698513
type: Species

311331
local parameters: 178632
local parameters: 178630
notes: k1*Membrane_slash_MR_star__star_*Membrane_slash_PP1_minus_active-k2*Membrane_slash_PP1_minus_active_slash_PP1_sbo_1_sbc__slash_PP1_sbo_1_sbc__cplx
type: KineticLaw

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boundary condition: false
has only substance units: false
initial concentration: 0.0
initial amount: NaN
in compartment: 698553
type: Species

178640
units: 310882
value: 5.4E-16
type: LocalParameter

311484
local parameters: 178637
notes: k3*PKA_minus_active_slash_memb_minus_PKA_minus_act_slash_memb_minus_PKA_minus_act_cplx
type: KineticLaw

178638
units: 310918
value: 7.20009E-16
type: LocalParameter

310954
exponent: -1.0
scale: 0
multipler: 1.0
kind: SECOND
type: SBMLUnit

311098
stoichiometry: 1.0
species: 698712
type: SpeciesReference

311630
local parameters: 178644
local parameters: 178642
notes: k1*Membrane_slash_MR_star_*PKA_minus_active-k2*PKA_minus_active_slash_memb_minus_PKA_minus_act_sbo_1_sbc__slash_memb_minus_PKA_minus_act_sbo_1_sbc__cplx
type: KineticLaw

178628
units: 310882
value: 3.5E-18
type: LocalParameter

698712
constant: false
boundary condition: false
has only substance units: false
initial concentration: 0.0
initial amount: NaN
in compartment: 698533
type: Species

699013
kinetic law: 311776
product: 311764
product: 311752
reactant: 311740
fast: false
reversible: false
type: Reaction

178648
units: 310882
value: 2.16E-15
type: LocalParameter

311124
stoichiometry: 1.0
species: 698693
type: SpeciesReference

311764
stoichiometry: 1.0
species: 698792
type: SpeciesReference

178620
units: 310882
value: 9.0E-17
type: LocalParameter

698733
constant: false
boundary condition: false
has only substance units: false
initial concentration: 0.0
initial amount: NaN
in compartment: 698533
type: Species

311533
local parameters: 178639
local parameters: 178638
notes: k1*Internal_slash_IR*PKA_minus_active-k2*PKA_minus_active_slash_internal_minus_PKA_minus_act_slash_internal_minus_PKA_minus_act_cplx
type: KineticLaw

311002
stoichiometry: 1.0
species: 698693
type: SpeciesReference

178619
units: 310918
value: 0.0
type: LocalParameter

178630
units: 310918
value: 1.75002E-17
type: LocalParameter

311197
stoichiometry: 1.0
species: 698633
type: SpeciesReference

311209
stoichiometry: 1.0
species: 698573
type: SpeciesReference

178649
units: 310882
value: 5.4E-16
type: LocalParameter

311050
stoichiometry: 1.0
species: 698773
type: SpeciesReference

178639
units: 310882
value: 2.16E-15
type: LocalParameter

311383
local parameters: 178634
notes: k3*Membrane_slash_PP1_minus_active_slash_PP1_sbo_1_sbc__slash_PP1_sbo_1_sbc__cplx
type: KineticLaw

698852
kinetic law: 311185
product: 311173
reactant: 311161
fast: false
reversible: true
type: Reaction

311447
stoichiometry: 1.0
species: 698732
type: SpeciesReference

698853
kinetic law: 311234
product: 311222
reactant: 311209
reactant: 311197
notes: Note that Km is halved from 2 to 1, as compared to original detailed model. This is because each substrate represents two subunits of the original detailed model.
fast: false
reversible: true
type: Reaction

178621
units: 310882
value: 9.0E-17
type: LocalParameter

311344
stoichiometry: 1.0
species: 698613
type: SpeciesReference

311307
stoichiometry: 1.0
species: 698573
type: SpeciesReference

311605
stoichiometry: 1.0
species: 698792
type: SpeciesReference

310906
exponent: -1.0
scale: 0
multipler: 1.0
kind: SECOND
type: SBMLUnit

311259
stoichiometry: 1.0
species: 698653
type: SpeciesReference

698693
constant: false
boundary condition: false
has only substance units: false
initial concentration: 0.0
initial amount: NaN
in compartment: 698533
type: Species

698533
constant: true
size: 9.0E-17
spatial dimensions: 3.0
type: Compartment

178618
units: 310882
value: 8.0E-21
type: LocalParameter

311667
stoichiometry: 1.0
species: 698792
type: SpeciesReference