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BIOMD0000000030 - Markevich2004_MAPK_AllRandomElementary

 

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Reference Publication
Publication ID: 14744999
Markevich NI, Hoek JB, Kholodenko BN.
Signaling switches and bistability arising from multisite phosphorylation in protein kinase cascades.
J. Cell Biol. 2004 Feb; 164(3): 353-359
Department of Pathology, Anatomy, and Cell Biology, Thomas Jefferson University, 1020 Locust St., Philadelphia, PA 19107, USA.  [more]
Model
Original Model: BIOMD0000000030.xml.origin
Submitter: Nicolas Le Novère
Submission ID: MODEL6618676537
Submission Date: 13 Sep 2005 13:38:08 UTC
Last Modification Date: 15 May 2012 21:43:15 UTC
Creation Date: 26 May 2005 08:51:45 UTC
Encoders:  Nicolas Le Novère
set #1
bqbiol:occursIn Taxonomy Xenopus laevis
bqbiol:isVersionOf Gene Ontology MAPK cascade
Notes

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.

Model
Publication ID: 14744999 Submission Date: 13 Sep 2005 13:38:08 UTC Last Modification Date: 15 May 2012 21:43:15 UTC Creation Date: 26 May 2005 08:51:45 UTC
Mathematical expressions
Reactions
binding MAPKK on Tyr site of MAPK tyr phosphorylation of MAPK binding of MAPKK on MAPK-PY thr phosphorylation of MAPK
binding of MAPKK on Thr site of MAPK thr phosphorylation of MAPK binding MAPK-PT and MAPKK tyr phosphorylation of MAPK
binding of MKP on Tyr site of MAPK-PP dephosphorylation of Tyr on MAPKK-PP dissociation MAPK-PT and MKP binding of MKP on Thr site of MAPK-PT
dephosphorylation of MAPK-PT dissociation MAPK and MKP binding of MKP on the Tyr site of MAPK-PY dephosphorylation of MAPK-PY
Dissociation MAPK and MKP binding of MKP on Thr site of MAPK-PP dephosphorylation of Thr on MAPKK-PP dissociation MAPK-PY and MKP
Physical entities
Compartments Species
cell MAPK MAPK-PY MAPK-PT
MAPK-PP MAPKK MKP
MAPK-PY_MAPKK MAPK-PT_MAPKK MAPK_MAPKK_Y
MAPK_MAPKK_T MAPK-PP_MKP_T MAPK-PP_MKP_Y
MAPK-PY_MKP_Y MAPK-PY_MKP_T MAPK-PT_MKP_Y
MAPK-PT_MKP_T MAPK_MKP_T MAPK_MKP_Y
Global parameters
k1 k_1 k2 k3
k_3 k4 k5 k_5
k6 k7 k_7 k8
h1 h_1 h2 h3
h_3 h4 h_4 h5
h6 h_6 h7 h_7
h8 h9 h_9 h10
h_10 h11 h12 h_12
Reactions (20)
 
 binding MAPKK on Tyr site of MAPK [MAPK] + [MAPKK] ↔ [MAPK_MAPKK_Y];  
 
 tyr phosphorylation of MAPK [MAPK_MAPKK_Y] → [MAPK-PY] + [MAPKK];  
 
 binding of MAPKK on MAPK-PY [MAPK-PY] + [MAPKK] ↔ [MAPK-PY_MAPKK];  
 
 thr phosphorylation of MAPK [MAPK-PY_MAPKK] → [MAPK-PP] + [MAPKK];  
 
 binding of MAPKK on Thr site of MAPK [MAPK] + [MAPKK] ↔ [MAPK_MAPKK_T];  
 
 thr phosphorylation of MAPK [MAPK_MAPKK_T] → [MAPK-PT] + [MAPKK];  
 
 binding MAPK-PT and MAPKK [MAPK-PT] + [MAPKK] ↔ [MAPK-PT_MAPKK];  
 
 tyr phosphorylation of MAPK [MAPK-PT_MAPKK] → [MAPK-PP] + [MAPKK];  
 
 binding of MKP on Tyr site of MAPK-PP [MAPK-PP] + [MKP] ↔ [MAPK-PP_MKP_T];  
 
 dephosphorylation of Tyr on MAPKK-PP [MAPK-PP_MKP_T] → [MAPK-PT_MKP_Y];  
 
 dissociation MAPK-PT and MKP [MAPK-PT_MKP_Y] ↔ [MAPK-PT] + [MKP];  
 
 binding of MKP on Thr site of MAPK-PT [MAPK-PT] + [MKP] ↔ [MAPK-PT_MKP_T];  
 
 dephosphorylation of MAPK-PT [MAPK-PT_MKP_T] → [MAPK_MKP_T];  
 
 dissociation MAPK and MKP [MAPK_MKP_T] ↔ [MAPK] + [MKP];  
 
 binding of MKP on the Tyr site of MAPK-PY [MAPK-PY] + [MKP] ↔ [MAPK-PY_MKP_Y];  
 
 dephosphorylation of MAPK-PY [MAPK-PY_MKP_Y] → [MAPK_MKP_Y];  
 
 Dissociation MAPK and MKP [MAPK_MKP_Y] ↔ [MAPK] + [MKP];  
 
 binding of MKP on Thr site of MAPK-PP [MAPK-PP] + [MKP] ↔ [MAPK-PP_MKP_Y];  
 
 dephosphorylation of Thr on MAPKK-PP [MAPK-PP_MKP_Y] → [MAPK-PY_MKP_T];  
 
 dissociation MAPK-PY and MKP [MAPK-PY_MKP_T] ↔ [MAPK-PY] + [MKP];  
 
 cell Spatial dimensions: 3.0  Compartment size: 1.0
 
 MAPK
Compartment: cell
Initial concentration: 800.0
 
 MAPK-PY
Compartment: cell
Initial concentration: 0.0
 
 MAPK-PT
Compartment: cell
Initial concentration: 0.0
 
 MAPK-PP
Compartment: cell
Initial concentration: 0.0
 
 MAPKK
Compartment: cell
Initial concentration: 180.0
 
 MKP
Compartment: cell
Initial concentration: 100.0
 
 MAPK-PY_MAPKK
Compartment: cell
Initial concentration: 0.0
 
 MAPK-PT_MAPKK
Compartment: cell
Initial concentration: 0.0
 
 MAPK_MAPKK_Y
Compartment: cell
Initial concentration: 0.0
 
 MAPK_MAPKK_T
Compartment: cell
Initial concentration: 0.0
 
 MAPK-PP_MKP_T
Compartment: cell
Initial concentration: 0.0
 
 MAPK-PP_MKP_Y
Compartment: cell
Initial concentration: 0.0
 
 MAPK-PY_MKP_Y
Compartment: cell
Initial concentration: 0.0
 
 MAPK-PY_MKP_T
Compartment: cell
Initial concentration: 0.0
 
 MAPK-PT_MKP_Y
Compartment: cell
Initial concentration: 0.0
 
 MAPK-PT_MKP_T
Compartment: cell
Initial concentration: 0.0
 
 MAPK_MKP_T
Compartment: cell
Initial concentration: 0.0
 
 MAPK_MKP_Y
Compartment: cell
Initial concentration: 0.0
 
Global Parameters (32)
 
   k1
Value: 0.02
Constant
 
   k_1
Value: 1.0
Constant
 
   k2
Value: 0.01
Constant
 
   k3
Value: 0.032
Constant
 
   k_3
Value: 1.0
Constant
 
   k4
Value: 15.0
Constant
 
   k5
Value: 0.02
Constant
 
   k_5
Value: 1.0
Constant
 
   k6
Value: 0.01
Constant
 
   k7
Value: 0.032
Constant
 
   k_7
Value: 1.0
Constant
 
   k8
Value: 15.0
Constant
 
   h1
Value: 0.045
Constant
 
   h_1
Value: 1.0
Constant
 
   h2
Value: 0.092
Constant
 
   h3
Value: 1.0
Constant
 
   h_3
Value: 0.01
Constant
 
   h4
Value: 0.01
Constant
 
   h_4
Value: 1.0
Constant
 
   h5
Value: 0.5
Constant
 
   h6
Value: 0.086
Constant
 
   h_6
Value: 0.0011
Constant
 
   h7
Value: 0.01
Constant
 
   h_7
Value: 1.0
Constant
 
   h8
Value: 0.47
Constant
 
   h9
Value: 0.14
Constant
 
   h_9
Value: 0.0018
Constant
 
   h10
Value: 0.045
Constant
 
   h_10
Value: 1.0
Constant
 
   h11
Value: 0.092
Constant
 
   h12
Value: 1.0
Constant
 
   h_12
Value: 0.01
Constant
 
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