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BIOMD0000000029 - Markevich2004_MAPK_phosphoRandomMM

 

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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: BIOMD0000000029.origin
Submitter: Nicolas Le Novère
Submission ID: MODEL6618620128
Submission Date: 13 Sep 2005 13:37:12 UTC
Last Modification Date: 15 May 2012 21:42:56 UTC
Creation Date: 24 May 2005 10:57:06 UTC
Encoders:  Nicolas Le Novère
set #1
bqbiol:occursIn Taxonomy Xenopus laevis
set #2
bqbiol:isVersionOf Gene Ontology MAPK cascade
Notes

The model corresponds to the schema 3 of Markevich et al 2004, as described in the figure 2 and the supplementary table S3, and modelled using Michaelis-Menten like kinetics. Phosphorylations follow distributive random kinetics, while dephosphorylations follow an ordered mechanism.

This model originates from BioModels Database: A Database of Annotated Published Models. It is copyright (c) 2005-2007 The BioModels Team.
For more information see the terms of use .

Model
Publication ID: 14744999 Submission Date: 13 Sep 2005 13:37:12 UTC Last Modification Date: 15 May 2012 21:42:56 UTC Creation Date: 24 May 2005 10:57:06 UTC
Mathematical expressions
Reactions
phosphorylation of ERK on Tyr phosphorylation of ERK-PY on Thr phosphorylation of ERK on Thr phosphorylation of ERK-PT on Tyr
dephosphorylation of ERK-PP on Tyr dephosphorylation of ERK-PT dephosphorylation of ERK-PY  
Physical entities
Compartments Species
cell ERK ERK-PY ERK-PT
ERK-PP MEK MKP3
Global parameters
Km1 kcat1 Km2 kcat2
Km3 kcat3 Km4 kcat4
Km5 kcat5 Km6 kcat6
Km7 kcat7 Km8  
Reactions (7)
 
 phosphorylation of ERK on Tyr [ERK] → [ERK-PY];   {MEK} , {ERK-PT}
 
 phosphorylation of ERK-PY on Thr [ERK-PY] → [ERK-PP];   {MEK} , {ERK} , {ERK-PT}
 
 phosphorylation of ERK on Thr [ERK] → [ERK-PT];   {MEK} , {ERK-PY}
 
 phosphorylation of ERK-PT on Tyr [ERK-PT] → [ERK-PP];   {MEK} , {ERK} , {ERK-PY}
 
 dephosphorylation of ERK-PP on Tyr [ERK-PP] → [ERK-PT];   {MKP3} , {ERK-PY} , {ERK}
 
 dephosphorylation of ERK-PT [ERK-PT] → [ERK];   {MKP3} , {ERK-PP} , {ERK-PY}
 
 dephosphorylation of ERK-PY [ERK-PY] → [ERK];   {MKP3} , {ERK-PP} , {ERK-PT}
 
 cell Spatial dimensions: 3.0  Compartment size: 1.0
 
 ERK
Compartment: cell
Initial concentration: 800.0
 
 ERK-PY
Compartment: cell
Initial concentration: 0.0
 
 ERK-PT
Compartment: cell
Initial concentration: 0.0
 
 ERK-PP
Compartment: cell
Initial concentration: 0.0
 
 MEK
Compartment: cell
Initial concentration: 180.0
Constant
 
 MKP3
Compartment: cell
Initial concentration: 100.0
Constant
 
Global Parameters (15)
 
   Km1
Value: 410.0
Constant
 
   kcat1
Value: 1.08
Constant
 
   Km2
Value: 40.0
Constant
 
   kcat2
Value: 0.0070
Constant
 
   Km3
Value: 20.0
Constant
 
   kcat3
Value: 0.0080
Constant
 
   Km4
Value: 300.0
Constant
 
   kcat4
Value: 0.45
Constant
 
   Km5
Value: 22.0
Constant
 
   kcat5
Value: 0.084
Constant
 
   Km6
Value: 18.0
Constant
 
   kcat6
Value: 0.06
Constant
 
   Km7
Value: 34.0
Constant
 
   kcat7
Value: 0.108
Constant
 
   Km8
Value: 40.0
Constant
 
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