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BIOMD0000000076 - Cronwright2002_Glycerol_Synthesis

 

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Reference Publication
Publication ID: 12200299
Cronwright GR, Rohwer JM, Prior BA.
Metabolic control analysis of glycerol synthesis in Saccharomyces cerevisiae.
Appl. Environ. Microbiol. 2002 Sep; 68(9): 4448-4456
Department of Microbiology, Stellenbosch University, Matieland 7602, South Africa. garth.cronwright@tmb.lth.se  [more]
Model
Original Model: JWS logo
Submitter: Nicolas Le Novère
Submission ID: MODEL6624139162
Submission Date: 09 Nov 2006 23:47:20 UTC
Last Modification Date: 16 May 2012 10:18:47 UTC
Creation Date: 06 Nov 2006 02:32:33 UTC
Encoders:  Jacky L Snoep
   Harish Dharuri
set #1
bqbiol:hasTaxon Taxonomy Saccharomyces cerevisiae
set #2
bqbiol:isPartOf KEGG Pathway Glycerolipid metabolism - Saccharomyces cerevisiae (budding yeast)
set #3
bqbiol:is Gene Ontology glycerol biosynthetic process
Notes

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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

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Biomodels Curation The model reproduces the flux value of "Gpp p" (rate of Glycerol synthesis) as depicted in Fig 3 of the paper. The model reproduces the flux for early exponential phase , however it can be used to reproduce the values for other phases by plugging in appropriate values for maximal rates as given in Table 1 and metabolite concentrations as given in Table 2 of the paper. The model was succesfully reproduced using Jarnac.

Model
Publication ID: 12200299 Submission Date: 09 Nov 2006 23:47:20 UTC Last Modification Date: 16 May 2012 10:18:47 UTC Creation Date: 06 Nov 2006 02:32:33 UTC
Mathematical expressions
Reactions
Glycerol 3-phosphate dehydrogenase Glycerol 3-phosphatase    
Physical entities
Compartments Species
Cytoplasm Glycerol 3-phosphate Glycerol DHAP
Reactions (2)
 
 Glycerol 3-phosphate dehydrogenase [DHAP] ↔ [Glycerol 3-phosphate];  
 
 Glycerol 3-phosphatase [Glycerol 3-phosphate] ↔ [Glycerol];  
 
 Cytoplasm Spatial dimensions: 3.0  Compartment size: 1.0
 
 Glycerol 3-phosphate
Compartment: Cytoplasm
Initial concentration: 0.0
 
 Glycerol
Compartment: Cytoplasm
Initial concentration: 15.1
 
 DHAP
Compartment: Cytoplasm
Initial concentration: 0.59
 
Glycerol 3-phosphate dehydrogenase (14)
 
   Vf1
Value: 47.0   (Units: mM_per_minute)
Constant
 
   K1nadh
Value: 0.023   (Units: mM)
Constant
 
   K1dhap
Value: 0.54   (Units: mM)
Constant
 
   NADH
Value: 1.87   (Units: mM)
Constant
 
   NAD
Value: 1.45   (Units: mM)
Constant
 
   Keq1
Value: 10000.0   (Units: dimensionless)
Constant
 
   F16BP
Value: 6.01   (Units: mM)
Constant
 
   K1f16bp
Value: 4.8   (Units: mM)
Constant
 
   ATP
Value: 2.37   (Units: mM)
Constant
 
   K1atp
Value: 0.73   (Units: mM)
Constant
 
   ADP
Value: 2.17   (Units: mM)
Constant
 
   K1adp
Value: 2.0   (Units: mM)
Constant
 
   K1nad
Value: 0.93   (Units: mM)
Constant
 
   K1g3p
Value: 1.2   (Units: mM)
Constant
 
Glycerol 3-phosphatase (4)
 
   V2
Value: 53.0   (Units: mM_per_minute)
Constant
 
   K2g3p
Value: 3.5   (Units: mM)
Constant
 
   Phi
Value: 1.0   (Units: mM)
Constant
 
   K2phi
Value: 1.0   (Units: mM)
Constant
 
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