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Molecule Parameter List for CaM-Ca2

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-Ca2 participated asMoleculeSum total ofEnzymeSubstrate of an enzymeProduct of an enzymeSubstrate in ReactionProduct in Reaction
No. of occurrences1000011

Accession and Pathway Details
Accession NameAccession No.Accession TypePathway Link
CaMKIII90Network
Shared_Object_CaMKIII CaM 
CaMKIII is activated by Ca2+ and inactivated by S6K. Since CaMKIII inhibits eEF2, the net effect of Ca2+ on elongation is inhibitory and of S6K is excitatory

CaM-Ca2 acting as a Molecule in  
CaMKIII Network
NameAccession NamePathway NameInitial Conc.
(uM)
Volume
(fL)
Buffered
CaM-Ca2CaMKIII
Accession No. : 90
CaM
Pathway No. : 1094
01000No
This is the intermediate where the TR2 end (the high-affinity end) has bound the Ca but the TR1 end has not.

CaM-Ca2 acting as a Substrate in a reaction in  
CaMKIII 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.
NameAccession NamePathway NameKfKbKdtauReagents
CaM-Ca2-bind-CaCaMKIII
Accession No. : 90
CaM
Pathway No. : 1094
3.6001
(uM^-1 s^-1)
10
(s^-1)
Kd(bf) = 2.7777(uM)-Substrate
Ca
CaM-Ca2

Product
CaM-Ca3
K3 = 21.5, K4 = 2.8. Assuming that the K4 step happens first, we get kb/kf = 2.8 uM = 1.68e6 so kf =6e-6 assuming kb = 10

CaM-Ca2 acting as a Product in a reaction in  
CaMKIII 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.
NameAccession NamePathway NameKfKbKdtauReagents
CaM-Ca-bind-CaCaMKIII
Accession No. : 90
CaM
Pathway No. : 1094
8.4846
(uM^-1 s^-1)
8.4853
(s^-1)
Kd(bf) = 1.0001(uM)-Substrate
Ca
CaM-Ca

Product
CaM-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 !) 19 May 2006. Splitting the old CaM-TR2-bind-Ca reaction into two steps, each binding 1 Ca. This improves numerical stability and is conceptually better too. Overall rates are the same, so each kf and kb is the square root of the earlier ones. So kf = 1.125e-4, kb = 8.4853



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