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Reaction List for pathway Shared_Object_Synaptic_Network (Pathway Number 70) |
| 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 | Ras-act-craf | 24 (uM^-1 s^-1) | 0.5 (s^-1) | Kd(bf) = 0.0208(uM) | - | craf-1* GTP-Ras | Raf-GTP-Ras* |
| Assume binding is fast and limited only by available Ras*. 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 about 1e-4, giving a Kf of 60 for Kb of 0.5 and a tau of approx 2 sec. Based on: Hallberg et al JBC 269:6 3913-3916 1994, 3% of cellular Raf is complexed with Ras. This step needed to memb-anchor and activate Raf: Leevers et al Nature 369 411-414. Also see Koide et al 1993 PNAS USA 90(18):8683-8686 | |||||||
| 2 | remove_glu | 500 (s^-1) | 1000 (s^-1) | Keq = 2(uM) | 0.001sec | Glu | synapse |
| This reaction doubles for arrival as well as removal of glu from the synapse. Assume tau for removal of glu is ~1 msec. We know that diffusion time for arrival of glu from presynaptic side is < 50 usec. Most of the actual synaptic delay has to do with binding to the receptors. | |||||||
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