MODEL4780441670
type: SBMLModel
units def: 070942
species: 129348
reaction: 129548
species: 129368
reaction: 129528
species: 129408
reaction: 129488
name: Condorelli2001_GuanylateCyclase
curated: false
reaction: 129569
units def: 070906
notes: This model features the observations of Condorelli P, George SC. Biophys J. (2001) 80(5):2110-9. They propose a in vivo mechanism for the binding of free NO to sGC based on in vitro data within both pulmonary and vascular smooth muscle. All the parameters used have been obtained from reported results based on experiments. One important conclusion they make is that control of sGC in vivo is most likely to be ultra-sensitive and that activation in vivo occurs at lower NO concentrations than reported. 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.
species: 129328
reaction: 129508
species: 129468
compartment: 129289
compartment: 129308
is described by: http://identifiers.org/pubmed/11325714
species: 129448
units def: 070990
time units: 013121
species: 129388
length unit: length
volume units: metaid_0000217
species: 129428
reaction: 129568
area units: area
substance units: 070990

070978
type: SBMLUnit
exponent: -1.0
scale: 0
multipler: 1.0
kind: SECOND

070966
type: SBMLUnit
exponent: -1.0
scale: -6
multipler: 1.0
kind: MOLE

070954
type: SBMLUnit
exponent: 2.0
scale: 0
multipler: 1.0
kind: LITRE

129348
type: Species
constant: false
boundary condition: false
has only substance units: false
initial concentration: 0.0
initial amount: NaN
in compartment: 129308

129308
type: Compartment
constant: true
size: 1.6667E-18
spatial dimensions: 3.0

129548
type: Reaction
kinetic law: 071255
product: 071243
product: 071231
reactant: 071219
notes: This is a modification by Condorelli et al., 2001, Biophys J of the recent binding scheme of Zhao et al., to include the NO dissociation from fully active complex of sGC... The dissociation is characterised by the respective first order rate constants depicted in the model... Rates are obtained at 4 degree C...
fast: false
reversible: true

071255
type: KineticLaw
local parameters: 071279
local parameters: 071267
notes: kf*GC_slash_NO_sGCfull_act-kb*GC_slash_NO*GC_slash_sGC_basal

071279
type: LocalParameter
units: 070942
value: 0.0

071267
type: LocalParameter
units: 070906
value: 1.16666666666667E-19

070930
type: SBMLUnit
exponent: -1.0
scale: 0
multipler: 1.0
kind: SECOND

070918
type: SBMLUnit
exponent: 1.0
scale: 0
multipler: 1.0
kind: LITRE

071243
type: SpeciesReference
stoichiometry: 1.0
species: 129448

129448
type: Species
constant: false
boundary condition: false
has only substance units: false
initial concentration: 3.0
initial amount: NaN
in compartment: 129308

071231
type: SpeciesReference
stoichiometry: 1.0
species: 129468

129468
type: Species
constant: false
boundary condition: false
has only substance units: false
initial concentration: 0.0
initial amount: NaN
in compartment: 129308

071219
type: SpeciesReference
stoichiometry: 1.0
species: 129348

129368
type: Species
constant: false
boundary condition: false
has only substance units: false
initial concentration: 0.0
initial amount: NaN
in compartment: 129308

129528
type: Reaction
kinetic law: 071183
product: 071171
reactant: 071159
notes: Rates used directly from Condorelli et al., 2001, Biophysical J, 80:2110-2119 .... Rates originally from Zhao et al., 1999, PNAS, 96:14753-14758 from stopped flow spectroscopy experiments performed 4 degree C.
fast: false
reversible: true

071183
type: KineticLaw
local parameters: 071207
local parameters: 071195
notes: kf*GC_slash_NO_sGCpart_act-kb*GC_slash_NO_sGCfull_act

071207
type: LocalParameter
units: 070906
value: 2.33333333333333E-20

071195
type: LocalParameter
units: 070906
value: 1.015E-19

071171
type: SpeciesReference
stoichiometry: 1.0
species: 129348

071159
type: SpeciesReference
stoichiometry: 1.0
species: 129328

129328
type: Species
constant: false
boundary condition: false
has only substance units: false
initial concentration: 0.0
initial amount: NaN
in compartment: 129308

129408
type: Species
constant: false
boundary condition: false
has only substance units: false
initial concentration: 0.0
initial amount: NaN
in compartment: 129308

129488
type: Reaction
kinetic law: 071050
product: 071038
reactant: 071026
reactant: 071014
notes: Rates at 4 degree C... used directly from paper by Condorelli P, 2001, Biophysical J, 80:2110-2119, which in turn have been obtained mainly from Zhao et al., PNAS,96:14753-14758.
fast: false
reversible: true

071050
type: KineticLaw
local parameters: 071074
local parameters: 071062
notes: kf*GC_slash_sGC_basal*GC_slash_NO-kb*GC_slash_NO_sGCpart_act

071074
type: LocalParameter
units: 070906
value: 5.83333333333333E-16

071062
type: LocalParameter
units: 070942
value: 1.63333333333333E-15

071038
type: SpeciesReference
stoichiometry: 1.0
species: 129328

071026
type: SpeciesReference
stoichiometry: 1.0
species: 129468

071014
type: SpeciesReference
stoichiometry: 1.0
species: 129448

129569
type: Reaction
kinetic law: 071401
product: 071389
product: 071376
reactant: 071364
fast: false
reversible: false

071401
type: KineticLaw
local parameters: 071413
notes: k3*GC_slash_NO_sGCfull_act_slash_full_act_sGC_slash_full_act_sGC_cplx

071413
type: LocalParameter
units: 070906
value: 6.66666666666667E-17

071389
type: SpeciesReference
stoichiometry: 1.0
species: 129348

071376
type: SpeciesReference
stoichiometry: 1.0
species: 129408

071364
type: SpeciesReference
stoichiometry: 1.0
species: 129368

129508
type: Reaction
kinetic law: 071123
product: 071111
reactant: 071099
reactant: 071087
notes: Rates from stopped flow experiments performed at 4 degree C from Zhao et al., 1999, PNAS,96:14753-14758. Same rates used by Condorelli P, for simulations...
fast: false
reversible: true

071123
type: KineticLaw
local parameters: 071147
local parameters: 071135
notes: kf*GC_slash_NO_sGCpart_act*GC_slash_NO_a-kb*GC_slash_NO_sGCfull_act

071147
type: LocalParameter
units: 070906
value: 0.0

071135
type: LocalParameter
units: 070942
value: 2.8E-18

071111
type: SpeciesReference
stoichiometry: 1.0
species: 129348

071099
type: SpeciesReference
stoichiometry: 1.0
species: 129428

129428
type: Species
constant: false
boundary condition: false
has only substance units: false
initial concentration: 0.1
initial amount: NaN
in compartment: 129308

071087
type: SpeciesReference
stoichiometry: 1.0
species: 129328

129289
type: Compartment
constant: true
size: 1.0E-18
spatial dimensions: 3.0

071002
type: SBMLUnit
exponent: 1.0
scale: -6
multipler: 1.0
kind: MOLE

129388
type: Species
constant: false
boundary condition: false
has only substance units: false
initial concentration: 1000.0
initial amount: NaN
in compartment: 129308

129568
type: Reaction
kinetic law: 071327
product: 071315
reactant: 071303
reactant: 071291
notes: Km values for the basal and fully activated forms of sGC have been determined as 85-120 uM and 58 uM, respectively ... (Ignarro et al., 1982, BBA, 718:49-59)..and the same has been used by Condorelli et al., 2001... Vmax values are around 10-100 nmol/min/mg (without NO) and 10-40 umol/min/mg (with NO) ..... thru personal correspondence with T Bellamy,
fast: false
reversible: true

071327
type: KineticLaw
local parameters: 071352
local parameters: 071340
notes: k1*GC_slash_GTP*GC_slash_NO_sGCfull_act-k2*GC_slash_NO_sGCfull_act_slash_full_act_sGC_slash_full_act_sGC_cplx

071352
type: LocalParameter
units: 070906
value: 2.66666666666667E-16

071340
type: LocalParameter
units: 070942
value: 5.74716666666667E-18

071315
type: SpeciesReference
stoichiometry: 1.0
species: 129368

071303
type: SpeciesReference
stoichiometry: 1.0
species: 129348

071291
type: SpeciesReference
stoichiometry: 1.0
species: 129388