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Reaction List for pathway MAPK (Pathway Number 35) | | Kd is calculated only for second order reactions, like nA+nB <->nC or nA<->nC+nD, where n is number and A,B,C,D are molecules, where as for first order reactions Keq is calculated. Kd for higher order reactions is not considered. |
| | Name | Kf | Kb | Kd | tau | Substrate | Product | | 1 |
Basal_
transcription | 0
(s^-1) | 0
(s^-1) | - | - | Nucleotides
| MKP1-RNA
| | | This is just a basal rate of MKP-1 transcription scaled to give reasonable basal levels of the MKP-1. | | 2 |
MKP-1**dephosph | 0.0001
(s^-1) | 0
(s^-1) | - | - | MKP-1**
| MKP-1-ser359*
| | | 24 Apr 2K, based on 12 Feb 2K: Scaled up 10x to kf=0.01, kb=0 13 Apr 2001. Slowing down to 0.0001 to match turnover rates. | | 3 |
MKP-1*dephosph | 0.0001
(s^-1) | 0
(s^-1) | - | - | MKP-1-ser359*
| MKP-1
| | | 24 Apr 2K: Based on 12 Feb 2K: Scaled up 10x so kf=0.01, kb=0 13 Apr 2001: MKP1* Goes down too fast, equil amount too small. Note that tau for turnover is 150 min. Doesn't make sense to have this tau be so much less. Go for 1e-4 | | 4 |
MKP1_synth | 0.002
(s^-1) | 0
(s^-1) | Not applicable** | - | MKP1-RNA
| MKP-1
| | | This is a 'black box' approximation to the process of translation. I assume that there is unity stoichiometry, that is, a single RNA gives a single protein. This is obviously wrong, but since the RNA level itself is just a ratio against baseline, the conversion factor is absorbed there. | | 5 |
translocation | 0.01
(#^-1 s^-1) | 0.005
(s^-1) | Not applicable** | - | MAPK*
MAPK*
| nuc_MAPK*
| | | A nuclear translocation step. This lumps in all sorts of processes into a single set of rates constrained by time courses. Furuno et al J Immunol 166:4416-4421 (2001): In within 6 min, out within 7. The outgoing path is dephosphorylated MAPK so this reac will be one-way. Kf=0.01, Kb=0.005. The reaction is 2nd order in MAPK*, to represent dimerization of transcription factors. | | 6 |
turnover_MKP1 | 0.0004
(s^-1) | 0
(s^-1) | - | - | MKP-1
| Ubiquitination
| | | Rate of turnover of non-phosph form of MKP1 is from Brondello et al Science 286:2514 1999. Tau is about 45 min. | | 7 |
turnover_MKP1* | 0.0001
(s^-1) | 0
(s^-1) | - | - | MKP-1-ser359*
| Ubiquitination
| | | Rate of turnover of phosph form of MKP1 is from Brondello et al Science 286:2514 1999. Tau is about 150 min though it is not a clean exponential falloff. | | 8 |
turnover_MKP1** | 0.0001
(s^-1) | 0
(s^-1) | - | - | MKP-1**
| Ubiquitination
| | | Rate of turnover of phosph form of MKP1 is from Brondello et al Science 286:2514 1999. Tau is about 150 min though it is not a clean exponential falloff. |
Pathway Details Molecule List Enzyme List Reaction List
| Database compilation and code copyright (C) 2022, Upinder S. Bhalla and NCBS/TIFR
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