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Reaction List for pathway Shared_Object_Ajay_Bhalla_2004_PKM_MKP3_Tuning (Pathway Number 329) |
| 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 | Ca_stoch | 100 (s^-1) | 100 (s^-1) | Keq = 1(uM) | 0.005sec | Ca_input | Ca |
| 2 | Ras-act-craf | 9.9999 (uM^-1 s^-1) | 0.5 (s^-1) | Kd(bf) = 0.05(uM) | - | craf-1* GTP-Ras | Raf*-GTP-Ras |
| Assume the binding is fast and limited only by the amount of Ras* available. So kf=kb/[craf-1] If kb is 1/sec, then kf = 1/0.2 uM = 1/(0.2 * 6e5) = 8.3e-6 Later: Raise it by 10 X to 4e-5 From Hallberg et al JBC 269:6 3913-3916 1994, 3% of cellular Raf is complexed with Ras. So we raise kb 4x to 4 This step needed to memb-anchor and activate Raf: Leevers et al Nature 369 411-414 May 16, 2003 Changed Ras and Raf to synaptic levels, an increase of about 2x for each. To maintain the percentage of complexed Raf, reduced the kf by 2.4 fold to 10. | |||||||
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