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Reaction List for pathway MAPK (Pathway Number 35) in Accession mkp1_feedback_effects (Accession Number 4) |
Entries are grouped according to Pathway Number and they are alternately color coded using  and  color.
Further ordering can be done to the table header.   indicates that ordering is done according to ascending or descending order.Keq is calculated only for first order reactions. Kd is calculated only for second order reactions. [nA+nB <->nC or nA<->nC+nD, where n is number and A,B,C,D are molecules] |
| Reaction Name | Pathway Name / Pathway No. | Kf | Kb | Kd | tau | Reagents | |
| 1 | turnover_MKP1 | MAPK Pathway No. 35 | 0.0004 (s^-1) | 0 (s^-1) | - | - | Substrate: MKP-1 Products: Ubiquitination | Rate of turnover of non-phosph form of MKP1 is from Brondello et al Science 286:2514 1999. Tau is about 45 min. |
| 2 | turnover_MKP1** | MAPK Pathway No. 35 | 0.0001 (s^-1) | 0 (s^-1) | - | - | Substrate: MKP-1** Products: 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. |
| 3 | turnover_MKP1* | MAPK Pathway No. 35 | 0.0001 (s^-1) | 0 (s^-1) | - | - | Substrate: MKP-1-ser359* Products: 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. |
| 4 | MKP-1*dephosph | MAPK Pathway No. 35 | 0.0001 (s^-1) | 0 (s^-1) | - | - | Substrate: MKP-1-ser359* Products: 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 |
| 5 | MKP-1**dephosph | MAPK Pathway No. 35 | 0.0001 (s^-1) | 0 (s^-1) | - | - | Substrate: MKP-1** Products: 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. |
| 6 | translocation | MAPK Pathway No. 35 | 0.01 (#^-1 s^-1) | 0.005 (s^-1) | Not applicable** | - | Substrate: MAPK* MAPK* Products: 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. |
| 7 | MKP1_synth | MAPK Pathway No. 35 | 0.002 (s^-1) | 0 (s^-1) | Not applicable** | - | Substrate: MKP1-RNA Products: 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. |
| 8 | transcription | MAPK Pathway No. 35 | 0 (s^-1) | 0 (s^-1) | - | - | Substrate: Nucleotides Products: MKP1-RNA | This is just a basal rate of MKP-1 transcription scaled to give reasonable basal levels of the MKP-1. |