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BIOMD0000000069 - Fuss2006_MitoticActivation

 

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Reference Publication
Publication ID: 16873466
Fuss H, Dubitzky W, Downes S, Kurth MJ.
Bistable switching and excitable behaviour in the activation of Src at mitosis.
Bioinformatics 2006 Jul; 22(14): e158-65
University of Ulster, School of Biomedical Sciences, Cromore Road, Coleraine, BT52 1SA, Northern Ireland. fuss-h@ulster.ac.uk  [more]
Model
Original Model: BIOMD0000000069.origin
Submitter: Hendrik Fuß
Submission ID: MODEL7146478294
Submission Date: 14 Sep 2006 15:25:42 UTC
Last Modification Date: 08 Apr 2016 15:27:10 UTC
Creation Date: 14 Sep 2006 12:14:04 UTC
Encoders:  Nicolas Le Novère
   Hendrik Fuß
set #1
bqbiol:isVersionOf Reactome REACT_152
Gene Ontology mitotic cell cycle
set #2
bqbiol:hasTaxon Taxonomy Homo sapiens
Notes

The model was curated with XPP. The figure 3 was successfully reproduced.

Model
Publication ID: 16873466 Submission Date: 14 Sep 2006 15:25:42 UTC Last Modification Date: 08 Apr 2016 15:27:10 UTC Creation Date: 14 Sep 2006 12:14:04 UTC
Mathematical expressions
Reactions
v1 v2 v3 v4
CSK_translocation PTP_phosphorylation Cbp_phosphorylation  
Rules
Assignment Rule (variable: src_activity) Assignment Rule (variable: ptp_activity)    
Physical entities
Compartments Species
default srci srco srca
srcc Cbp_P_CSK CSK_cytoplasm
PTP PTP_pY789 Cbp
Cbp_P    
Global parameters
k1 k2 k3 k4
kPTP kCbp p1 p2
p3 src_background PTP_background kCSKon
kCSKoff rho_srca rho_srco rho_srcc
Kser acsk0 ptp_activity src_activity
Reactions (7)
 
 v1 [srci] ↔ [srco];   {Cbp_P_CSK}
 
 v2 [srco] ↔ [srca];  
 
 v3 [srca] ↔ [srcc];   {Cbp_P_CSK}
 
 v4 [srcc] → [srci];  
 
 CSK_translocation [CSK_cytoplasm] + [Cbp_P] ↔ [Cbp_P_CSK];  
 
 PTP_phosphorylation [PTP] ↔ [PTP_pY789];  
 
 Cbp_phosphorylation [Cbp] → [Cbp_P];  
 
Rules (2)
 
 Assignment Rule (name: src_activity) src_activity = rho_srco*srco+rho_srca*srca+src_background+rho_srcc*srcc
 
 Assignment Rule (name: ptp_activity) ptp_activity = PTP_background+Kser*PTP_pY789
 
  Spatial dimensions: 3.0  Compartment size: 1.0
 
 srci
Compartment: default
Initial concentration: 1.0
 
 srco
Compartment: default
Initial concentration: 0.0
 
 srca
Compartment: default
Initial concentration: 0.0
 
 srcc
Compartment: default
Initial concentration: 0.0
 
 Cbp_P_CSK
Compartment: default
Initial concentration: 0.0
 
 CSK_cytoplasm
Compartment: default
Initial concentration: 1.0
 
 PTP
Compartment: default
Initial concentration: 1.0
 
 PTP_pY789
Compartment: default
Initial concentration: 0.0
 
 Cbp
Compartment: default
Initial concentration: 1.0
 
 Cbp_P
Compartment: default
Initial concentration: 0.0
 
Global Parameters (20)
 
   k1
Value: 1.0
Constant
 
   k2
Value: 0.8
Constant
 
   k3
Value: 1.0
Constant
 
   k4
Value: 10.0
Constant
 
   kPTP
Value: 1.0
Constant
 
   kCbp
Value: 1.0
Constant
 
   p1
Value: 0.05
Constant
 
   p2
Value: 0.15
Constant
 
   p3
Value: 0.035
Constant
 
   src_background
Value: 1.0E-4
Constant
 
   PTP_background
Constant
 
   kCSKon
Value: 0.1
Constant
 
   kCSKoff
Value: 0.01
Constant
 
   rho_srca
Value: 1.0
Constant
 
   rho_srco
Constant
 
   rho_srcc
Value: 1.0
Constant
 
   Kser
Value: 1.0
Constant
 
   acsk0
Constant
 
   ptp_activity
Value: NaN
 
   src_activity
Value: NaN
 
Representative curation result(s)
Representative curation result(s) of BIOMD0000000069

Curator's comment: (updated: 02 Sep 2011 15:54:50 BST)

Bistability with respect to CSK activity. The simulation plot (obtained using Copasi v4.7 (Build 34)) reproduces figure 3 of the reference publication.

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