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Molecule Parameter List for CaM

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

*CaM* 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	1	2	0

Accession and Pathway Details

Accession Name	Accession No.	Accession Type	Pathway Link
CaMKII_2003	49	Network	Shared_Object_CaMKII_2003, CaMKII, CaM, PP1, PP2B
Model of regulation of CaMKII by Calcium, including parallel excitatory input from CaM and inhibitory input from PP1 as regulated by Calcineurin and PKA. Cell type: neuronal. Bhalla US. Biophys J. 2004 Aug;87(2):733-44.

CaM acting as a Molecule in CaMKII_2003 Network

Name	Accession Name	Pathway Name	Initial Conc. (uM)	Volume (fL)	Buffered
CaM	CaMKII_2003 Accession No. : 49	CaM Pathway No. : 203	20	1000	No
There is a LOT of this in the cell: upto 1% of total protein mass. (Alberts et al) Say 25 uM. Meyer et al Science 256 1199-1202 1992 refer to studies saying it is comparable to CaMK levels.

CaM acting as a Product of an Enzyme in CaMKII_2003 Network

Enzyme Molecule / Enzyme Activity	Accession Name	Pathway Name	Km (uM)	kcat (s^-1)	Ratio	Enzyme Type	Reagents
PKC-active / PKC-phosph-ng-Ca M	CaMKII_2003 Accession No. : 49	Shared_Object_ CaMKII_2003 Pathway No. : 201	28.5948	0.35	4	explicit E-S complex	Substrate neurogranin-CaM Product CaM neurogranin*
Rates are 60% those of PKC-phosph-neurogranin. See Huang et al ABB 305:2 570-580 1993

CaM acting as a Substrate in a reaction in CaMKII_2003 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	CaM-TR2-bind-Ca	CaMKII_2003 Accession No. : 49	CaM Pathway No. : 203	72 (uM^-2 s^-1)	72 (s^-1)	Kd(af) = 1(uM)	-	Substrate Ca Ca CaM Product CaM-TR2-Ca2
	Lets use the fast rate consts here. Since the rates are so different, I am not sure whether the order is relevant. These correspond to the TR2C fragment. We use the Martin et al rates here, plus the Drabicowski binding consts. All are scaled by 3X to cell temp. kf = 2e-10 kb = 72 Stemmer & Klee: K1=.9, K2=1.1. Assume 1.0uM for both. kb/kf=3.6e11. If kb=72, kf = 2e-10 (Exactly the same !)....
2	neurogranin-bind -CaM	CaMKII_2003 Accession No. : 49	CaM Pathway No. : 203	0.3 (uM^-1 s^-1)	1 (s^-1)	Kd(bf) = 3.3333(uM)	-	Substrate CaM neurogranin Product neurogranin-CaM
	Surprisingly, no direct info on rates from neurogranin at this time. These rates are based on GAP-43 binding studies. As GAP-43 and neurogranin share near identity in the CaM/PKC binding regions, and also similarity in phosph and dephosph rates, I am borrowing GAP-43 kinetic info. See Alexander et al JBC 262:13 6108-6113 1987

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