636922
stoichiometry: 2.0
species: metaid_0000048
type: SpeciesReference

metaid_0000031
unit: 636740
unit: 636728
name: gramm per ml
type: SBMLUnitsDef

636814
exponent: -1.0
scale: 0
multipler: 1.0
kind: KILOGRAM
type: SBMLUnit

metaid_0000049
constant: true
units: metaid_0000030
value: 0.5
name: Pfba
type: Parameter

metaid_0000017
constant: true
units: metaid_0000031
value: 0.3333
name: dw_per_ml
type: Parameter

metaid_0000024
has version: GO:0004347
fast: false
has version: R00771
has version: http://identifiers.org/ec-code/2.7.1.1
has version: http://identifiers.org/ec-code/5.3.1.9
product: 636838
type: Reaction
kinetic law: 636850
name: vgk
reactant: 636826
has version: R00725
is: SBO:0000167
reversible: true
has version: GO:0004396

636838
stoichiometry: 1.0
species: metaid_0000020
type: SpeciesReference

metaid_0000010
constant: true
units: metaid_0000030
value: 0.005
name: Sfba
type: Parameter

metaid_0000050
constant: true
units: metaid_0000030
value: 0.275
name: Qfba
type: Parameter

636862
stoichiometry: 1.0
species: metaid_0000020
type: SpeciesReference

metaid_0000007
constant: false
units: metaid_0000032
value: NaN
name: Vfba
type: Parameter

metaid_0000020
boundary condition: false
has part: C00092
in compartment: metaid_0000018
constant: false
has only substance units: false
initial concentration: 3.71728
type: Species
has part: CHEBI:14314
name: G6P_F6P
initial amount: NaN
has part: CHEBI:15946
has part: C00085
is: SBO:0000247

metaid_0000003
constant: false
units: metaid_0000032
value: NaN
name: Vgk
type: Parameter

metaid_0000014
constant: true
units: dimensionless
value: 2.5
name: hpfk
type: Parameter

metaid_0000032
unit: 636777
unit: 636764
unit: 636752
name: mM per sec
type: SBMLUnitsDef

metaid_0000028
unit: 636679
name: mmole
type: SBMLUnitsDef

metaid_0001038
constant: true
units: metaid_0000033
value: 250.0
name: Vgapdh_min
type: Parameter

metaid_0000052
is version of: GO:0004365
modifier: 636983
fast: false
is version of: R01061
reversible: false
reactant: 636971
kinetic law: 636995
name: vgapdh
is: SBO:0000201
is version of: http://identifiers.org/ec-code/1.2.1.12
type: Reaction

636740
exponent: -1.0
scale: -3
multipler: 1.0
kind: LITRE
type: SBMLUnit

metaid_0001010
constant: true
units: metaid_0000030
value: 0.005
name: Sgapdh
type: Parameter

metaid_0000018
is version of: GO:0005623
is version of: FMA:70586
is: SBO:0000290
constant: true
size: 1.0
spatial dimensions: 3.0
name: cell
type: Compartment

metaid_0000036
constant: true
units: metaid_0000033
value: 10.0
name: Vgk_min
type: Parameter

metaid_0000023
name: glyceraldehyde--phosphate
has only substance units: false
is version of: CHEBI:29052
in compartment: metaid_0000018
initial amount: NaN
constant: false
initial concentration: NaN
is: SBO:0000247
type: Species
is version of: C00118
boundary condition: true

metaid_0010007
constant: false
units: metaid_0000032
value: NaN
name: Vgapdh
type: Parameter

metaid_0000051
constant: true
units: metaid_0000030
value: 0.1
name: KeqFBA
type: Parameter

metaid_0000008
constant: true
units: metaid_0000030
value: 8.0
name: Sgk
type: Parameter

636802
exponent: -1.0
scale: 0
multipler: 60.0
kind: SECOND
type: SBMLUnit

636764
exponent: -1.0
scale: 0
multipler: 1.0
kind: SECOND
type: SBMLUnit

metaid_0000004
constant: true
units: dimensionless
value: 1.7
name: hGK
type: Parameter

636971
stoichiometry: 1.0
species: metaid_0000048
type: SpeciesReference

636789
exponent: 1.0
scale: -3
multipler: 1.0
kind: MOLE
type: SBMLUnit

metaid_0000013
constant: true
units: dimensionless
value: 2.5
name: hx
type: Parameter

636716
exponent: -1.0
scale: 0
multipler: 1.0
kind: LITRE
type: SBMLUnit

metaid_0000019
boundary condition: true
name: intracellular glucose
type: Species
is version of: CHEBI:17234
initial concentration: 10.0
constant: true
initial amount: NaN
has only substance units: false
is version of: C00293
is: SBO:0000247
in compartment: metaid_0000018

metaid_0000033
unit: 636814
unit: 636802
unit: 636789
name: mmole per (min kg)
type: SBMLUnitsDef

metaid_0000029
unit: 636691
name: seconds
type: SBMLUnitsDef

metaid_0000047
is version of: C00111
name: dihydroxyacetone-phosphate
has only substance units: false
is: SBO:0000247
initial concentration: NaN
in compartment: metaid_0000018
constant: false
initial amount: NaN
type: Species
is version of: CHEBI:16108
boundary condition: true

636728
exponent: 1.0
scale: -3
multipler: 1.0
kind: KILOGRAM
type: SBMLUnit

metaid_0000015
constant: true
units: dimensionless
value: 1.0
name: hact
type: Parameter

636826
stoichiometry: 1.0
species: metaid_0000019
type: SpeciesReference

metaid_0000037
constant: true
units: metaid_0000033
value: 100.0
name: Vpfk_min
type: Parameter

BIOMD0000000236
occurs in: http://identifiers.org/taxonomy/40674
curated: true
parameter: metaid_0000034
species: metaid_0000022
parameter: metaid_0000051
area units: metaid_0000005
rule: metaid_0000041
parameter: metaid_0000017
name: Westermark2003_Pancreatic_GlycOsc_extended
notes: This is the extended model described in eq. 2 of the article: A model of phosphofructokinase and glycolytic oscillations in the pancreatic beta-cell. Westermark PO and Lansner A. Biophys J. 2003 Jul;85(1):126-39. PMID: 12829470 , doi: 10.1016/S0006-3495(03)74460-9 Abstract: We have constructed a model of the upper part of the glycolysis in the pancreatic beta-cell. The model comprises the enzymatic reactions from glucokinase to glyceraldehyde-3-phosphate dehydrogenase (GAPD). Our results show, for a substantial part of the parameter space, an oscillatory behavior of the glycolysis for a large range of glucose concentrations. We show how the occurrence of oscillations depends on glucokinase, aldolase and/or GAPD activities, and how the oscillation period depends on the phosphofructokinase activity. We propose that the ratio of glucokinase and aldolase and/or GAPD activities are adequate as characteristics of the glucose responsiveness, rather than only the glucokinase activity. We also propose that the rapid equilibrium between different oligomeric forms of phosphofructokinase may reduce the oscillation period sensitivity to phosphofructokinase activity. Methodologically, we show that a satisfying description of phosphofructokinase kinetics can be achieved using the irreversible Hill equation with allosteric modifiers. We emphasize the use of parameter ranges rather than fixed values, and the use of operationally well-defined parameters in order for this methodology to be feasible. The theoretical results presented in this study apply to the study of insulin secretion mechanisms, since glycolytic oscillations have been proposed as a cause of oscillations in the ATP/ADP ratio which is linked to insulin secretion. This model originates from BioModels Database: A Database of Annotated Published Models. It is copyright (c) 2005-2009 The BioModels Team. For more information see the terms of use . To cite BioModels Database, please use Le Novère N., Bornstein B., Broicher …
species: metaid_0000048
parameter: metaid_0000037
units def: metaid_0000033
rule: metaid_0000039
length unit: length
rule: metaid_0020027
parameter: metaid_0000010
parameter: metaid_0000004
is part of: map00010
is described by: http://identifiers.org/pubmed/12829470
rule: metaid_0000027
parameter: metaid_0000013
parameter: metaid_0000007
reaction: metaid_0000026
created:
  W3 CDTF: Thu Aug 06 17:54:12 BST 2009
creator:
  ORG:
    orgname: EMBL-EBI
  n:
    given: Vijayalakshmi
    family: Chelliah
species: metaid_0000020
rule: metaid_0000040
volume units: metaid_0000004
parameter: metaid_0000015
species: metaid_0000021
parameter: metaid_0001010
parameter: metaid_0000038
is: MODEL9574422639
modified:
  W3 CDTF: Fri Jan 22 16:34:38 GMT 2010
species: metaid_0000047
parameter: metaid_0010005
substance units: metaid_0000028
is version of: GO:0006096
parameter: metaid_0001038
parameter: metaid_0000011
parameter: metaid_0000014
reaction: metaid_0000024
parameter: metaid_0000005
units def: metaid_0000030
parameter: metaid_0000008
parameter: metaid_0000151
creator:
  ORG:
    orgname: EMBL-EBI
  n:
    given: Lukas
    family: Endler
time units: metaid_0000029
parameter: metaid_0000036
parameter: metaid_0000049
parameter: metaid_0000050
rule: metaid_0100041
species: metaid_0000019
rule: metaid_0010027
parameter: metaid_0010007
creator:
  ORG:
    orgname: Royal Institute of Technology, Stockholm, Sweden.
  n:
    given: Paal O
    family: Westermark
reaction: metaid_0000052
units def: metaid_0000031
parameter: metaid_0000012
rule: metaid_0000139
parameter: metaid_0000003
units def: metaid_0000032
parameter: metaid_0000006
species: metaid_0000023
type: SBMLModel
units def: metaid_0000029
compartment: metaid_0000018
units def: metaid_0000028
is part of: REACT 1383
reaction: metaid_0000025
parameter: metaid_0000009

metaid_0000005
constant: true
units: dimensionless
value: 0.3
name: KeqGPI
type: Parameter

metaid_0000026
is version of: R01068
fast: false
type: Reaction
is: SBO:0000178
name: vfba
kinetic law: 636958
modifier: 636934
modifier: 636946
is version of: GO:0004332
is version of: http://identifiers.org/ec-code/4.1.2.13
product: 636922
reactant: 636910
reversible: true

636703
exponent: 1.0
scale: -3
multipler: 1.0
kind: MOLE
type: SBMLUnit

metaid_0000009
constant: true
units: metaid_0000030
value: 4.0
name: Spfk
type: Parameter

metaid_0000012
constant: true
units: dimensionless
value: 5.0
name: alpha
type: Parameter

636910
stoichiometry: 1.0
species: metaid_0000022
type: SpeciesReference

metaid_0000022
boundary condition: false
in compartment: metaid_0000018
type: Species
has only substance units: false
initial amount: NaN
is version of: CHEBI:16905
initial concentration: 6.3612E-4
name: fructose-1,6-biphosphate
is: SBO:0000247
constant: false
is version of: C00354

636874
stoichiometry: 1.0
species: metaid_0000022
type: SpeciesReference

metaid_0000034
constant: true
units: dimensionless
value: 60.0
name: min_to_sec
type: Parameter

metaid_0000048
has part: CHEBI:29052
is: SBO:0000247
constant: false
initial amount: NaN
name: DHAP-G3P pool
boundary condition: false
type: Species
initial concentration: 0.00262966
in compartment: metaid_0000018
has part: C00111
has part: CHEBI:16108
has only substance units: false
has part: C00118

metaid_0000038
constant: true
units: metaid_0000033
value: 25.0
name: Vfba_min
type: Parameter

metaid_0010005
constant: true
units: dimensionless
value: 0.045455
name: KeqTPI
type: Parameter

636679
exponent: 1.0
scale: -3
multipler: 1.0
kind: MOLE
type: SBMLUnit

636691
exponent: 1.0
scale: 0
multipler: 1.0
kind: SECOND
type: SBMLUnit

636752
exponent: 1.0
scale: -3
multipler: 1.0
kind: MOLE
type: SBMLUnit

metaid_0000025
reversible: true
kinetic law: 636898
product: 636874
is version of: http://identifiers.org/ec-code/2.7.1.11
type: Reaction
is: SBO:0000216
name: vpfk
is version of: GO:0003872
reactant: 636862
fast: false
modifier: 636886
is version of: R00756

636777
exponent: -1.0
scale: 0
multipler: 1.0
kind: LITRE
type: SBMLUnit

metaid_0000006
constant: false
units: metaid_0000032
value: NaN
name: Vpfk
type: Parameter

metaid_0000151
constant: false
value: NaN
name: sigma
type: Parameter

metaid_0000021
is: SBO:0000247
constant: false
is version of: C00085
initial concentration: NaN
is version of: CHEBI:15946
type: Species
has only substance units: false
initial amount: NaN
in compartment: metaid_0000018
name: fructose-6-phosphate
boundary condition: true

metaid_0000011
constant: true
units: metaid_0000030
value: 0.01
name: Xpfk
type: Parameter

metaid_0000030
unit: 636716
unit: 636703
name: mM
type: SBMLUnitsDef