BIOMD0000000061
type: SBMLModel
units def: metaid_0000053
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species: metaid_0000014
species: metaid_0000028
reaction: metaid_0000035
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reaction: metaid_0000043
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reaction: metaid_0000041
species: metaid_0000017
species: metaid_0000020
compartment: metaid_0000060
species: metaid_0000009
species: metaid_0000027
is version of: GO:0006096
units def: metaid_0000059
creator:
  ORG:
    orgname: California Institute of Technology
  n:
    given: Harish
    family: Dharuri
species: metaid_0000011
reaction: metaid_0000036
is: sce00010
reaction: metaid_0000032
units def: metaid_0000057
species: metaid_0000006
species: metaid_0000018
reaction: metaid_0000042
reaction: metaid_0000031
is: MODEL6624167348
is homolog to: REACT 1383
reaction: metaid_0000052
reaction: metaid_0000047
reaction: metaid_0000051
species: metaid_0000016
is described by: http://identifiers.org/pubmed/11744196
species: metaid_0000008
species: metaid_0000021
species: metaid_0000026
volume units: metaid_0000323
area units: area
length unit: length
species: metaid_0000010
species: metaid_0000024
occurs in: http://identifiers.org/taxonomy/4932
name: Hynne2001_Glycolysis
reaction: metaid_0000038
curated: true
reaction: metaid_0000034
reaction: metaid_0000029
reaction: metaid_0000037
species: metaid_0000015
reaction: metaid_0000048
species: metaid_0000007
compartment: metaid_0000003
reaction: metaid_0000033
reaction: metaid_0000044
reaction: metaid_0000049
reaction: metaid_0000045
created:
  W3 CDTF: Wed Jul 12 08:49:31 BST 2006
units def: metaid_0000054
species: metaid_0000013
time units: metaid_0000054
species: metaid_0000005
species: metaid_0000023
modified:
  W3 CDTF: Mon Jun 03 15:20:37 BST 2013
creator:
  ORG:
    orgname: Stellenbosh University
  n:
    given: Jacky L
    family: Snoep
species: metaid_0000025
units def: metaid_0000058
notes: The model reproduces Fig 6 of the paper. The stoichiometry and rate of reactions involving uptake of metabolites from extracellular medium have been changed corresponding to Yvol (ratio of extracellular volume to cytosolic volume) mentioned in the publication. The extracellular and cytosolic compartments have been set to 1. Concentration of extracellular glucose, GlcX, is set to 6.7 according to the equation for cellular glucose uptake rate in Table 7 of the paper. The model was successfully tested on MathSBML and Jarnac . . . SBML level 2 code generated for the JWS Online project by Jacky Snoep using PySCeS Run this model online at http://jjj.biochem.sun.ac.za To cite JWS Online please refer to: Olivier, B.G. and Snoep, J.L. (2004) Web-based modelling using JWS Online , Bioinformatics, 20:2143-2144 . . . . . . 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 A., Courtot M., Donizelli M., Dharuri H., Li L., Sauro H., Schilstra M., Shapiro B., Snoep J.L., Hucka M. (2006) BioModels Database: A Free, Centralized Database of Curated, Published, Quantitative Kinetic Models of Biochemical and Cellular Systems Nucleic Acids Res., 34: D689-D691.

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value: 432.9

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stoichiometry: 1.0
species: metaid_0000006

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type: SpeciesReference
stoichiometry: 2.0
species: metaid_0000008

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is: C00020
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metaid_0000047
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reversible: true
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684108
type: LocalParameter
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value: 0.048

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species: metaid_0000026

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species: metaid_0000023

metaid_0000051
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is version of: GO:0006200
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reversible: true
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684113
type: LocalParameter
units: metaid_0000056
value: 3.2076

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metaid_0000016
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initial concentration: 0.04
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is: C00074

metaid_0000010
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constant: false
is: C00354
is: CHEBI:16905
boundary condition: false
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initial concentration: 4.64
initial amount: NaN
name: Fructose 1,6-bisphosphate
has only substance units: false

metaid_0000024
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initial concentration: 5.20358
boundary condition: false
is: CHEBI:17514
is: C00177
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constant: false
initial amount: NaN
in compartment: metaid_0000003

metaid_0000038
type: Reaction
fast: false
is homolog to: REACT 1911
is: R00200
reversible: true
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species: metaid_0000017

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units: metaid_0000059
value: 0.17

684084
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units: metaid_0000059
value: 0.2

684082
type: LocalParameter
units: metaid_0000055
value: 343.096

metaid_0000034
type: Reaction
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name: Aldolase

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type: SpeciesReference
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species: metaid_0000010

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species: metaid_0000011

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value: 10.0

684060
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value: 4.0

684058
type: LocalParameter
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value: 5.0

684057
type: LocalParameter
units: metaid_0000059
value: 0.081

684056
type: LocalParameter
units: metaid_0000059
value: 2.0

684054
type: LocalParameter
units: metaid_0000059
value: 0.3

684053
type: LocalParameter
units: metaid_0000055
value: 2207.82

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type: SpeciesReference
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species: metaid_0000012

metaid_0000029
type: Reaction
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reversible: true
name: Glucose Mixed flow to extracellular medium

684028
type: LocalParameter
units: metaid_0000056
value: 0.048

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type: SpeciesReference
stoichiometry: 1.0
species: metaid_0000004

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stoichiometry: 1.0
species: metaid_0000028

metaid_0000037
type: Reaction
reversible: true
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has part: http://identifiers.org/ec-code/2.7.2.3
is homolog to: REACT 1771
fast: false
has part: http://identifiers.org/ec-code/4.2.1.11
has part: R00658
has part: R01512

684080
type: LocalParameter
units: metaid_0000057
value: 1528.62

684078
type: LocalParameter
units: metaid_0000057
value: 443866.0

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type: SpeciesReference
stoichiometry: 1.0
species: metaid_0000006

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type: SpeciesReference
stoichiometry: 1.0
species: metaid_0000008

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type: SpeciesReference
stoichiometry: 1.0
species: metaid_0000016

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type: SpeciesReference
stoichiometry: 1.0
species: metaid_0000014

metaid_0000048
type: Reaction
fast: false
reversible: true
name: Cyanide-Acetaldehyde flow

684109
type: LocalParameter
units: metaid_0000057
value: 0.00283828

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type: SpeciesReference
stoichiometry: 1.0
species: metaid_0000026

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type: SpeciesReference
stoichiometry: 1.0
species: metaid_0000023

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type: SpeciesReference
stoichiometry: 1.0
species: metaid_0000024

metaid_0000033
type: Reaction
fast: false
name: Phosphofructokinase
reversible: true
is: http://identifiers.org/ec-code/2.7.1.11
is: R00756
is homolog to: REACT 1840

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type: SpeciesReference
stoichiometry: 1.0
species: metaid_0000010

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type: SpeciesReference
stoichiometry: 1.0
species: metaid_0000006

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type: SpeciesReference
stoichiometry: 1.0
species: metaid_0000008

684052
type: LocalParameter
units: dimensionless
value: 0.15

684051
type: LocalParameter
units: metaid_0000058
value: 0.021

metaid_0000058
type: SBMLUnitsDef
name: mM squared

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

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type: SBMLUnit
exponent: 2.0
scale: -3
multipler: 1.0
kind: MOLE

684050
type: LocalParameter
units: metaid_0000055
value: 45.4327

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type: SpeciesReference
stoichiometry: 1.0
species: metaid_0000009

metaid_0000044
type: Reaction
is version of: GO:0015850
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reversible: true
name: Glycerol out

684101
type: LocalParameter
units: dimensionless
value: 59.0

684100
type: LocalParameter
units: metaid_0000056
value: 1.9

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type: SpeciesReference
stoichiometry: 1.0
species: metaid_0000022

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type: SpeciesReference
stoichiometry: 59.0
species: metaid_0000021

metaid_0000049
type: Reaction
fast: false
reversible: true
name: Cyanide flow

684110
type: LocalParameter
units: metaid_0000056
value: 0.048

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type: SpeciesReference
stoichiometry: 1.0
species: metaid_0000024

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type: SpeciesReference
stoichiometry: 1.0
species: metaid_0000027

metaid_0000045
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reversible: true
name: Glycerol flow

684102
type: LocalParameter
units: metaid_0000056
value: 0.048

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type: SpeciesReference
stoichiometry: 1.0
species: metaid_0000026

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type: SpeciesReference
stoichiometry: 1.0
species: metaid_0000022

metaid_0000054
type: SBMLUnitsDef
name: minute

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