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BIOMD0000000005 - Tyson1991 - Cell Cycle 6 var

 

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Reference Publication
Publication ID: 1831270
Tyson JJ.
Modeling the cell division cycle: cdc2 and cyclin interactions.
Proc. Natl. Acad. Sci. U.S.A. 1991 Aug; 88(16): 7328-7332
Department of Biology, Virginia Polytechnic Institute and State University, Blacksburg 24061.  [more]
Model
Original Model: BIOMD0000000005.xml.origin
Submitter: Nicolas Le Novère
Submission ID: MODEL6614644188
Submission Date: 13 Sep 2005 20:31:08 UTC
Last Modification Date: 16 May 2013 22:40:43 UTC
Creation Date: 09 Feb 2005 02:28:27 UTC
Encoders:  Bruce Shapiro
   Vijayalakshmi Chelliah
set #1
bqbiol:hasVersion Reactome REACT_152
set #2
bqbiol:isVersionOf KEGG Pathway sce04111
Gene Ontology mitotic cell cycle
bqbiol:occursIn Taxonomy Opisthokonta
Notes
Tyson1991 - Cell Cycle 6 var

Mathematical model of the interactions of cdc2 and cyclin.

This model is described in the article:

Tyson JJ.
Proc. Natl. Acad. Sci. U.S.A. 1991; 88(16); 7328-32

Abstract:

The proteins cdc2 and cyclin form a heterodimer (maturation promoting factor) that controls the major events of the cell cycle. A mathematical model for the interactions of cdc2 and cyclin is constructed. Simulation and analysis of the model show that the control system can operate in three modes: as a steady state with high maturation promoting factor activity, as a spontaneous oscillator, or as an excitable switch. We associate the steady state with metaphase arrest in unfertilized eggs, the spontaneous oscillations with rapid division cycles in early embryos, and the excitable switch with growth-controlled division cycles typical of nonembryonic cells.

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.

Model
Publication ID: 1831270 Submission Date: 13 Sep 2005 20:31:08 UTC Last Modification Date: 16 May 2013 22:40:43 UTC Creation Date: 09 Feb 2005 02:28:27 UTC
Mathematical expressions
Reactions
cyclin_cdc2k dissociation cdc2k phosphorylation cdc2k dephosphorylation cyclin cdc2k-p association
deactivation of cdc2 kinase cyclin biosynthesis default degradation of cyclin cdc2 kinase triggered degration of cyclin
activation of cdc2 kinase      
Rules
Assignment Rule (variable: total_cyclin) Assignment Rule (variable: total_cdc2)    
Physical entities
Compartments Species
cell EmptySet cdc2k cdc2k-P
p-cyclin_cdc2 p-cyclin_cdc2-p cyclin
p-cyclin total_cyclin total_cdc2
Reactions (9)
 
 cyclin_cdc2k dissociation [p-cyclin_cdc2] → [cdc2k] + [p-cyclin];  
 
 cdc2k phosphorylation [cdc2k] → [cdc2k-P];  
 
 cdc2k dephosphorylation [cdc2k-P] → [cdc2k];  
 
 cyclin cdc2k-p association [cdc2k-P] + [cyclin] → [p-cyclin_cdc2-p];  
 
 deactivation of cdc2 kinase [p-cyclin_cdc2] → [p-cyclin_cdc2-p];  
 
 cyclin biosynthesis [EmptySet] → [cyclin];  
 
 default degradation of cyclin [cyclin] → [EmptySet];  
 
 cdc2 kinase triggered degration of cyclin [p-cyclin] → [EmptySet];  
 
 activation of cdc2 kinase [p-cyclin_cdc2-p] → [p-cyclin_cdc2];   {total_cdc2}
 
Rules (2)
 
 Assignment Rule (name: YT) total_cyclin = Y+YP+M+pM
 
 Assignment Rule (name: CT) total_cdc2 = C2+CP+M+pM
 
  Spatial dimensions: 3.0  Compartment size: 1.0
 
   EmptySet
Compartment: cell
Initial amount: 0.0
 
 cdc2k
Compartment: cell
Initial amount: 0.0
 
 cdc2k-P
Compartment: cell
Initial amount: 0.75
 
 p-cyclin_cdc2
Compartment: cell
Initial amount: 0.0
 
 p-cyclin_cdc2-p
Compartment: cell
Initial amount: 0.25
 
 cyclin
Compartment: cell
Initial amount: 0.0
 
 p-cyclin
Compartment: cell
Initial amount: 0.0
 
  total_cyclin
Compartment: cell
 
  total_cdc2
Compartment: cell
 
cyclin_cdc2k dissociation (1)
 
   k6
Value: 1.0
Constant
 
cdc2k phosphorylation (1)
 
   k8notP
Value: 1000000.0
Constant
 
cdc2k dephosphorylation (1)
 
   k9
Value: 1000.0
Constant
 
cyclin cdc2k-p association (1)
 
   k3
Value: 200.0
Constant
 
deactivation of cdc2 kinase (1)
 
   k5notP
Constant
 
cyclin biosynthesis (1)
 
   k1aa
Value: 0.015
Constant
 
default degradation of cyclin (1)
 
   k2
Constant
 
cdc2 kinase triggered degration of cyclin (1)
 
   k7
Value: 0.6
Constant
 
activation of cdc2 kinase (2)
 
   k4
Value: 180.0
Constant
 
   k4prime
Value: 0.018
Constant
 
Representative curation result(s)
Representative curation result(s) of BIOMD0000000005

Curator's comment: (updated: 08 Feb 2010 10:29:04 PST)

The model reproduces figure 3A of the reference publication. The model was integrated and simulated using Copasi v4.5 (Build 30).

Additional file(s)
  • Simulation experiment description:
    This SED-ML file allows you to reproduce the curation result (Fig 3a), for example,
    by loading it into SED-ML Web Tools (http://sysbioapps.dyndns.org/SED-ML_Web_Tools/).
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