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Reaction List for pathway Shared_Object_mTOR_pathway (Pathway Number 1097) |
| 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 | activation | 1 (uM^-1 s^-1) | 0.9 (s^-1) | Kd(bf) = 0.9(uM) | - | 60S_R 43Scomplex | 80S_ribos_clx |
| 2 | basal_S6K | 0.01 (s^-1) | 0 (s^-1) | - | - | S6K | S6K_star |
| 3 | CaMKIII_bind_ CaM-Ca4 | 99 (uM^-1 s^-1) | 0.09 (s^-1) | Kd(bf) = 0.0009(uM) | - | CaM-Ca4 CaMKIII | CaMKIII_CaM-Ca4 |
| 4 | dephosp_CaMKIII | 0.07 (s^-1) | 0 (s^-1) | - | - | CaMKIII_star | CaMKIII |
| 5 | eIF4E-BP_disso | 1 (s^-1) | 0.1 (uM^-1 s^-1) | Kd(cb) = 0.1(uM) | - | 46 | 4E-BP_t37_46 eIF4E |
| 6 | eIF4F_clx | 30.0001 (uM^-1 s^-1) | 0.1 (s^-1) | Kd(bf) = 0.0033(uM) | - | eIF4G-A_clx eIF4E | eIF4F |
| 7 | eIF4F_mRNA_clx | 0.2 (uM^-1 s^-1) | 0.077 (s^-1) | Kd(bf) = 0.385(uM) | - | mRNA eIF4F | eIF4F-mRNA_clx |
| 8 | eIF4G_A_clx | 0.3 (uM^-1 s^-1) | 1 (s^-1) | Kd(bf) = 3.3333(uM) | - | eIF4A eIF4G | eIF4G-A_clx |
| 9 | elongation | 40.0002 (uM^-1 s^-1) | 10 (s^-1) | Kd(bf) = 0.25(uM) | - | eEF2 80S_ribos_clx | Translation_clx |
| 10 | GDP_to_GTP | 0.2 (s^-1) | 0 (s^-1) | - | - | Rheb-GDP | Rheb-GTP |
| 11 | labelling | 0 (s^-1) | 0 (s^-1) | - | - | AA | rad_AA |
| 12 | pep_elongation | 0.1 (s^-1) | 0.001 (s^-1) | Keq = 0.01(uM) | 9.901sec | peptide | protein |
| 13 | PI3K_bind_ Ras-GTP | 1.7999 (uM^-1 s^-1) | 5 (s^-1) | Kd(bf) = 2.7779(uM) | - | GTP-Ras PI3K | Ras-GTP_PI3K |
| 14 | protein_deg | 1 (s^-1) | 0 (s^-1) | - | - | protein | protein |
| 15 | rad_pep_ elongation | 0.1 (s^-1) | 0.001 (s^-1) | Keq = 0.01(uM) | 9.901sec | rad_peptide | rad_protein |
| 16 | rad_protein_deg | 1 (s^-1) | 0 (s^-1) | - | - | rad_protein | rad_deg_pro |
| 17 | Ras-act-craf | 9.9996 (uM^-1 s^-1) | 0.5 (s^-1) | Kd(bf) = 0.05(uM) | - | craf-1_star GTP-Ras | star-GTP-Ras |
| Assume the binding is fast and limited only by the amount of Ras_star 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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