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Molecule Parameter List for PKC-cytosolic

The statistics table lists the distribution of a molecule acting either as a substrate, product, enzyme or as a molecule within the network.
The text color of a molecule is highlighted by

color.

Statistics

*PKC-cytosolic* participated as	Molecule	Sum total of	Enzyme	Substrate of an enzyme	Product of an enzyme	Substrate in Reaction	Product in Reaction
No. of occurrences	1	0	0	0	0	4	0

Accession and Pathway Details

Accession Name	Accession No.	Accession Type	Pathway Link
MAPK_MKP1_ oscillation	9	Network	Shared_Object_MAPK_MKP1_oscillation, PKC, MAPK, PLA2, Ras
This model relates to figure 5 in Bhalla US, Iyengar R. Chaos (2001) 11(1):221-226. It includes the model used for figures 2-4 and also has MKP-1 induction by MAPK activity in the synapse. PP2A is set to 0.16 uM and MKP synthesis is varied from 5x to 40 x basal to get a range of interesting behaviours.

PKC-cytosolic acting as a Molecule in MAPK_MKP1_oscillation Network

Name	Accession Name	Pathway Name	Initial Conc. (uM)	Volume (fL)	Buffered
PKC-cytosolic	MAPK_MKP1_ oscillation Accession No. : 9	PKC Pathway No. : 60	1	1000	No
Marquez et al J. Immun 149,2560(92) est 1e6/cell for chromaffin cells We will use 1 uM as our initial concen

PKC-cytosolic acting as a Substrate in a reaction in MAPK_MKP1_oscillation Network

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 reaction are not consider.

	Name	Accession Name	Pathway Name	Kf	Kb	Kd	tau	Reagents
1	PKC-act-by-Ca	MAPK_MKP1_ oscillation Accession No. : 9	PKC Pathway No. : 60	0.6 (uM^-1 s^-1)	0.5 (s^-1)	Kd(bf) = 0.8333(uM)	-	Substrate Ca PKC-cytosolic Product PKC-Ca
	Need est of rate of assoc of Ca and PKC. Assume it is fast The original parameter-searched kf of 439.4 has been scaled by 1/6e8 to account for change of units to n. Kf now 8.16e-7, kb=.6085 Raised kf to 1e-6 to match Ca curve, kb to .5
2	PKC-basal-act	MAPK_MKP1_ oscillation Accession No. : 9	PKC Pathway No. : 60	1 (s^-1)	50 (s^-1)	Keq = 50(uM)	0.02sec	Substrate PKC-cytosolic Product PKC-basal*
	Initial basal levels were set by kf = 1, kb = 20. In model, though, the basal levels of PKC activity are higher.
3	PKC-act-by-AA	MAPK_MKP1_ oscillation Accession No. : 9	PKC Pathway No. : 60	0.0001 (uM^-1 s^-1)	0.1 (s^-1)	Kd(bf) = 833.3333(uM)	-	Substrate AA PKC-cytosolic Product PKC-AA*
	Raise kf from 1.667e-10 to 2e-10 to get better match to data.
4	PKC-n-DAG	MAPK_MKP1_ oscillation Accession No. : 9	PKC Pathway No. : 60	0.0006 (uM^-1 s^-1)	0.1 (s^-1)	Kd(bf) = 166.6667(uM)	-	Substrate DAG PKC-cytosolic Product PKC-DAG
	kf raised 10 X based on Shinomura et al PNAS 88 5149-5153 1991 closer analysis of Shinomura et al: kf now 1e-8 (was 1.66e-8). Further tweak. To get sufficient AA synergy, increase kf to 1.5e-8 26 June 1996: Corrected DAG levels: reduce kf by 15x from 1.5e-8 to 1e-9

Database compilation and code copyright (C) 2022, Upinder S. Bhalla and NCBS/TIFR
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