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Molecule Parameter List for PKC-Ca

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-Ca 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	3	1

Accession and Pathway Details

Accession Name	Accession No.	Accession Type	Pathway Link
Osc_Ca_ IP3metabolism	24	Network	MIPP,  CaMKII,  CaM,   PKC,  IP3-3K,  Gq,   PLCbeta,  134_dephos,  145_dephos,   IP4-system,  IHP-system,  1345_dephos,   CaRegulation,  Othmer-Tang-model
This network models an oscillatory calcium response to GPCR mediated PLCbeta activation, alongwith detailed InsP3 metabolism in the neuron. It differs from the NonOsc_Ca_IP3metabolism network in the CaRegulation module and in InsP3 receptor kinetics. Details of InsP3 receptor kinetics have been adapted from the Othmer-Tang model for oscillatory Ca dynamics. Mishra J, Bhalla US. Biophys J. 2002 Sep;83(3):1298-316.

PKC-Ca acting as a Molecule in  Osc_Ca_IP3metabolism Network

Name	Accession Name	Pathway Name	Initial Conc. (uM)	Volume (fL)	Buffered
PKC-Ca	Osc_Ca_ IP3metabolism Accession No. : 24	PKC Pathway No. : 123	0	1000	No
This intermediate is strongly indicated by the synergistic activation of PKC by combinations of DAG and Ca, as well as AA and Ca. PKC by definition also has a direct Ca-activation, to which this also contributes.

PKC-Ca acting as a Substrate in a reaction in  Osc_Ca_IP3metabolism 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-DAG	Osc_Ca_ IP3metabolism Accession No. : 24	PKC Pathway No. : 123	0.008 (uM^-1 s^-1)	8.6348 (s^-1)	Kd(bf) = 1079.377(uM)	-	Substrate DAG PKC-Ca Product PKC-Ca-DAG
	Ca.PKC interaction with DAG is modeled by this reaction. Kf based on Shinomura et al PNAS 88 5149-5153 1991 and Schaechter and Benowitz 1993 J Neurosci 13(10):4361 and uses the constraining procedure referred to in the general notes for PKC.
2	PKC-Ca-to-memb	Osc_Ca_ IP3metabolism Accession No. : 24	PKC Pathway No. : 123	1.2705 (s^-1)	3.5026 (s^-1)	Keq = 2.7569(uM)	0.21sec	Substrate PKC-Ca Product PKC-Ca-memb*
	Membrane translocation is a standard step in PKC activation. It also turns out to be necessary to replicate the curves from Schaechter and Benowitz 1993 J Neurosci 13(10):4361 and Shonomura et al 1991 PNAS 88:5149-5153. These rates are constrained by matching the curves in the above papers and by fixing a rather fast (sub-second) tau for PKC activation.
3	PKC-act-by-Ca-AA	Osc_Ca_ IP3metabolism Accession No. : 24	PKC Pathway No. : 123	0.0012 (uM^-1 s^-1)	0.1 (s^-1)	Kd(bf) = 83.3333(uM)	-	Substrate AA PKC-Ca Product PKC-Ca-AA*
	Ca-dependent AA activation of PKC. Note that this step combines the AA activation and also the membrane translocation. From Schaechter and Benowitz 1993 J Neurosci 13(10):4361

PKC-Ca acting as a Product in a reaction in  Osc_Ca_IP3metabolism 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
PKC-act-by-Ca	Osc_Ca_ IP3metabolism Accession No. : 24	PKC Pathway No. : 123	0.6 (uM^-1 s^-1)	0.5 (s^-1)	Kd(bf) = 0.8333(uM)	-	Substrate Ca PKC-cytosolic Product PKC-Ca
This Kd is a straightforward result from the Schaechter and Benowitz 1993 J Neurosci 13(10):4361 curves. The time-course is based on the known rapid activation of PKC and also the fact that Ca association with proteins is typically quite fast. My guess is that this tau of 2 sec is quite conservative and the actualy rate may be much faster. The parameter is quite insensitive for most stimuli.