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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
Ajay_Bhalla_ 2007_Bistable	79	Network	Shared_Object_Ajay_Bhalla_2007_Bistable,  PKC,  PLA2,   MAPK,  Ras,  CaM
This is a model of ERKII signaling which is bistable due to feedback. The feedback occurs through ERKII phosphorylation of phospholipase A2 (PLA2), leading to increased production of arachidonic acid (AA), which activates protein kinase C (PKC) which activates c-Raf which is upstream of ERKII. The model is a highly simplified variant of more detailed bistable models of MAPK signaling (Bhalla US, Iyengar R. Science. 1999 Jan 15;283(5400):381-7, Ajay SM, Bhalla US. Eur J Neurosci. 2004 Nov;20(10):2671-80)

PKC-cytosolic acting as a Molecule in  Ajay_Bhalla_2007_Bistable Network

Name	Accession Name	Pathway Name	Initial Conc. (uM)	Volume (fL)	Buffered
PKC-cytosolic	Ajay_Bhalla_ 2007_Bistable Accession No. : 79	PKC Pathway No. : 364	1	125.7	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  Ajay_Bhalla_2007_Bistable 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	Ajay_Bhalla_ 2007_Bistable Accession No. : 79	PKC Pathway No. : 364	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	Ajay_Bhalla_ 2007_Bistable Accession No. : 79	PKC Pathway No. : 364	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	Ajay_Bhalla_ 2007_Bistable Accession No. : 79	PKC Pathway No. : 364	0.0001 (uM^-1 s^-1)	0.1 (s^-1)	Kd(bf) = 833.3264(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	Ajay_Bhalla_ 2007_Bistable Accession No. : 79	PKC Pathway No. : 364	0.0006 (uM^-1 s^-1)	0.1 (s^-1)	Kd(bf) = 166.6656(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