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BIOMD0000000023 - Rohwer2001_Sucrose

 

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Reference Publication
Publication ID: 11513743
Rohwer JM, Botha FC.
Analysis of sucrose accumulation in the sugar cane culm on the basis of in vitro kinetic data.
Biochem. J. 2001 Sep; 358(Pt 2): 437-445
Department of Biochemistry, University of Stellenbosch, Private Bag X1, 7602 Matieland, South Africa. jr@maties.sun.ac.za  [more]
Model
Original Model: BIOMD0000000023.origin
Submitter: Nicolas Le Novère
Submission ID: MODEL6618063111
Submission Date: 13 Sep 2005 13:28:04 UTC
Last Modification Date: 20 May 2012 12:43:33 UTC
Creation Date: 03 May 2005 13:08:30 UTC
Encoders:  Jacky L Snoep
set #1
bqbiol:is KEGG Pathway Starch and sucrose metabolism
set #2
bqbiol:isVersionOf Gene Ontology sucrose biosynthetic process
bqbiol:occursIn Taxonomy Saccharum officinarum
Notes

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) 2005-2010 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.

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.

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Model
Publication ID: 11513743 Submission Date: 13 Sep 2005 13:28:04 UTC Last Modification Date: 20 May 2012 12:43:33 UTC Creation Date: 03 May 2005 13:08:30 UTC
Mathematical expressions
Reactions
v1 v2 v3 v4
v5 v6 v7 v8
v9 v10 v11  
Physical entities
Compartments Species
cell Fru Glc HexP
Suc6P Suc Sucvac
glycolysis phos UDP
ADP ATP Glcex
Fruex    
Reactions (11)
 
 v1 [Fruex] ↔ [Fru];  
 
 v2 [Glcex] ↔ [Glc];  
 
 v3 [ATP] + [Glc] ↔ [HexP] + [ADP];   {Fru}
 
 v4 [Fru] + [ATP] ↔ [HexP] + [ADP];   {Glc}
 
 v5 [Fru] + [ATP] ↔ [HexP] + [ADP];  
 
 v6 2.0 × [HexP] ↔ [UDP] + [Suc6P];   {phos}
 
 v7 [Suc6P] ↔ [Suc] + [phos];  
 
 v8 [HexP] + [Fru] ↔ [Suc] + [UDP];  
 
 v9 [Suc] ↔ [Fru] + [Glc];  
 
 v10 [HexP] ↔ [glycolysis];  
 
 v11 [Suc] ↔ [Sucvac];  
 
 cell Spatial dimensions: 3.0  Compartment size: 1.0
 
 Fru
Compartment: cell
Initial concentration: 1.0
 
 Glc
Compartment: cell
Initial concentration: 1.0
 
 HexP
Compartment: cell
Initial concentration: 1.0
 
 Suc6P
Compartment: cell
Initial concentration: 1.0
 
 Suc
Compartment: cell
Initial concentration: 1.0
 
 Sucvac
Compartment: cell
Initial concentration: 0.0
 
 glycolysis
Compartment: cell
Initial concentration: 0.0
 
 phos
Compartment: cell
Initial concentration: 5.1
 
 UDP
Compartment: cell
Initial concentration: 0.2
 
 ADP
Compartment: cell
Initial concentration: 0.2
 
 ATP
Compartment: cell
Initial concentration: 1.0
 
 Glcex
Compartment: cell
Initial concentration: 5.0
 
 Fruex
Compartment: cell
Initial concentration: 5.0
 
v1 (3)
 
   Vmax1
Value: 0.286
Constant
 
   Km1Fruex
Value: 0.2
Constant
 
   Ki1Fru
Value: 1.0
Constant
 
v2 (3)
 
   Vmax2
Value: 0.286
Constant
 
   Km2Glcex
Value: 0.2
Constant
 
   Ki2Glc
Value: 1.0
Constant
 
v3 (6)
 
   Vmax3
Value: 0.197
Constant
 
   Km3Glc
Value: 0.07
Constant
 
   Km3ATP
Value: 0.25
Constant
 
   Km4Fru
Value: 10.0
Constant
 
   Ki3G6P
Value: 0.1
Constant
 
   Ki4F6P
Value: 10.0
Constant
 
v4 (6)
 
   Vmax4
Value: 0.197
Constant
 
   Km4Fru
Value: 10.0
Constant
 
   Km4ATP
Value: 0.25
Constant
 
   Km3Glc
Value: 0.07
Constant
 
   Ki3G6P
Value: 0.1
Constant
 
   Ki4F6P
Value: 10.0
Constant
 
v5 (5)
 
   Vmax5
Value: 0.164
Constant
 
   Ki5Fru
Value: 12.0
Constant
 
   Km5Fru
Value: 0.1
Constant
 
   Km5ATP
Value: 0.085
Constant
 
   Ki5ADP
Value: 2.0
Constant
 
v6 (11)
 
   Vmax6f
Value: 0.379
Constant
 
   Keq6
Value: 10.0
Constant
 
   Ki6Suc6P
Value: 0.07
Constant
 
   Km6F6P
Value: 0.6
Constant
 
   Ki6Pi
Value: 3.0
Constant
 
   Ki6UDPGlc
Value: 1.4
Constant
 
   Km6UDPGlc
Value: 1.8
Constant
 
   Vmax6r
Value: 0.2
Constant
 
   Km6UDP
Value: 0.3
Constant
 
   Km6Suc6P
Value: 0.1
Constant
 
   Ki6F6P
Value: 0.4
Constant
 
v7 (2)
 
   Vmax7
Value: 0.5
Constant
 
   Km7Suc6P
Value: 0.1
Constant
 
v8 (10)
 
   Vmax8f
Value: 0.677
Constant
 
   Keq8
Value: 5.0
Constant
 
   Ki8Fru
Value: 4.0
Constant
 
   Km8Suc
Value: 50.0
Constant
 
   Ki8UDP
Value: 0.3
Constant
 
   Km8UDP
Value: 0.3
Constant
 
   Vmax8r
Value: 0.3
Constant
 
   Km8UDPGlc
Value: 0.3
Constant
 
   Km8Fru
Value: 4.0
Constant
 
   Ki8Suc
Value: 40.0
Constant
 
v9 (4)
 
   Vmax9
Value: 0.372
Constant
 
   Ki9Glc
Value: 15.0
Constant
 
   Km9Suc
Value: 10.0
Constant
 
   Ki9Fru
Value: 15.0
Constant
 
v10 (2)
 
   Vmax10
Value: 0.1
Constant
 
   Km10F6P
Value: 0.2
Constant
 
v11 (2)
 
   Vmax11
Value: 1.0
Constant
 
   Km11Suc
Value: 100.0
Constant
 
Representative curation result(s)
Representative curation result(s) of BIOMD0000000023

Curator's comment: (updated: 18 Jan 2010 12:55:48 GMT)

Dependence of the reaction flux J11 (v11 in the model) on the maximal velocities of Fructose uptake (Vmax1) and Hexokinase (Vmax3). As in the original article in fig. 3 A and B, Vmax1 was increased and Vmax3 decreased 5 fold. The calculations were performed using Copasi 4.5.

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