This MAPK model is based on <a href = "http://www.ncbi.nlm.nih.gov/entrez/query.fcgi?cmd=Retrieve&db=pubmed&dopt=Abstract&list_uids=10712587">Boris N. Kholodenko Eur J Biochem. (2000) 267(6):1583-8</a> for data from Xenopus extracts. Wed Oct 18 16:03:43 2006 pathway Sridhar Hariharaputran, NCBS Boris N. Kholodenko Xenopus Oocyte extract Cytosol Hypothetical Mathematically equivalent Qualitative predictions From Kholodenko, 2000 Eur J Biochem 267 the Kd is 9 nM. We use a rather fast Kf of 1/sec/uM so that equilibrium is maintained. kf*MAPK_slash_MAPK_minus_PP*MAPK_slash_Ras_minus_MKKKK-kb*MAPK_slash_inactiveRas_minus_MKKK $\mathrm{kf}\mathrm{MAPK\_slash\_MAPK\_minus\_PP}\mathrm{MAPK\_slash\_Ras\_minus\_MKKKK}-\mathrm{kb}\mathrm{MAPK\_slash\_inactiveRas\_minus\_MKKK}$ Km is 8nM and Vmax is 0.25nM.s-1 from 2000. kcat*MAPK_slash_int1*MAPK_slash_MKKK_minus_P/(Km+MAPK_slash_MKKK_minus_P) $\frac{\mathrm{kcat}\mathrm{MAPK\_slash\_int1}\mathrm{MAPK\_slash\_MKKK\_minus\_P}}{\mathrm{Km}+\mathrm{MAPK\_slash\_MKKK\_minus\_P}}$ Km is 15 nM and Vmax is 0.025s-1 from 2000 kcat*MAPK_slash_MKKK_minus_P*MAPK_slash_MKK/(Km+MAPK_slash_MKK) $\frac{\mathrm{kcat}\mathrm{MAPK\_slash\_MKKK\_minus\_P}\mathrm{MAPK\_slash\_MKK}}{\mathrm{Km}+\mathrm{MAPK\_slash\_MKK}}$ Km is 15nM and Vmax is 0.025s-1 from 2000. kcat*MAPK_slash_MKKK_minus_P*MAPK_slash_MKK_minus_P/(Km+MAPK_slash_MKK_minus_P) $\frac{\mathrm{kcat}\mathrm{MAPK\_slash\_MKKK\_minus\_P}\mathrm{MAPK\_slash\_MKK\_minus\_P}}{\mathrm{Km}+\mathrm{MAPK\_slash\_MKK\_minus\_P}}$ The Km is 15nM and the Vmax is 0.75nM.s-1 from 2000. kcat*MAPK_slash_int3*MAPK_slash_MKK_minus_P/(Km+MAPK_slash_MKK_minus_P) $\frac{\mathrm{kcat}\mathrm{MAPK\_slash\_int3}\mathrm{MAPK\_slash\_MKK\_minus\_P}}{\mathrm{Km}+\mathrm{MAPK\_slash\_MKK\_minus\_P}}$ The Km is 15nM and Vmax is 0.5nM.s-1 from 2000 kcat*MAPK_slash_int5*MAPK_slash_MAPK_minus_P/(Km+MAPK_slash_MAPK_minus_P) $\frac{\mathrm{kcat}\mathrm{MAPK\_slash\_int5}\mathrm{MAPK\_slash\_MAPK\_minus\_P}}{\mathrm{Km}+\mathrm{MAPK\_slash\_MAPK\_minus\_P}}$ The Km is 15nM and Vmax is 0.75nM.s-1 from Kholodenko, 2000 kcat*MAPK_slash_int2*MAPK_slash_MKK_minus_PP/(Km+MAPK_slash_MKK_minus_PP) $\frac{\mathrm{kcat}\mathrm{MAPK\_slash\_int2}\mathrm{MAPK\_slash\_MKK\_minus\_PP}}{\mathrm{Km}+\mathrm{MAPK\_slash\_MKK\_minus\_PP}}$ The Km is 15nM and Vmax is 0.5nM.s-1 from 2000 kcat*MAPK_slash_int4*MAPK_slash_MAPK_minus_PP/(Km+MAPK_slash_MAPK_minus_PP) $\frac{\mathrm{kcat}\mathrm{MAPK\_slash\_int4}\mathrm{MAPK\_slash\_MAPK\_minus\_PP}}{\mathrm{Km}+\mathrm{MAPK\_slash\_MAPK\_minus\_PP}}$ The Km is 10nM and Vmax is 2.5nM sec^-1. We assume that there is 1 nM of the Ras-MKKKK. From Kholodenko, 2000. If the enzymes are not flagged as Available, then this Km should be set to 0.1 to oscillations. kcat*MAPK_slash_Ras_minus_MKKKK*MAPK_slash_MKKK/(Km+MAPK_slash_MKKK) $\frac{\mathrm{kcat}\mathrm{MAPK\_slash\_Ras\_minus\_MKKKK}\mathrm{MAPK\_slash\_MKKK}}{\mathrm{Km}+\mathrm{MAPK\_slash\_MKKK}}$ The Km is 15nM which is 0.015uM Vmax is 0.025s-1 from Kholodenko, 2000. kcat*MAPK_slash_MKK_minus_PP*MAPK_slash_MAPK/(Km+MAPK_slash_MAPK) $\frac{\mathrm{kcat}\mathrm{MAPK\_slash\_MKK\_minus\_PP}\mathrm{MAPK\_slash\_MAPK}}{\mathrm{Km}+\mathrm{MAPK\_slash\_MAPK}}$ The Km is 15nM which is 0.015uM and Vmax is 0.025s-1 from Kholodenko, 2000 kcat*MAPK_slash_MKK_minus_PP*MAPK_slash_MAPK_minus_P/(Km+MAPK_slash_MAPK_minus_P) $\frac{\mathrm{kcat}\mathrm{MAPK\_slash\_MKK\_minus\_PP}\mathrm{MAPK\_slash\_MAPK\_minus\_P}}{\mathrm{Km}+\mathrm{MAPK\_slash\_MAPK\_minus\_P}}$