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Molecule Parameter List for CaMKII-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

*CaMKII-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	2	0	2	1	1	1

Accession and Pathway Details

Accession Name	Accession No.	Accession Type	Pathway Link
CaMKII_noPKA_ model3	62	Network	Shared_Object_CaMKII_noPKA_model3, CaMKII, CaM, PP1, PP2B, PP1_PSD
This is the model of CaMKII bistability, model 3. It exhibits bistability in CaMKII activation due to autophosphorylation at the PSD and local saturation of PP1. This version of model 3 does not include the full PKA regulatory pathway, and instead has a predefined initial amount of active PKA.

CaMKII-CaM acting as a Molecule in CaMKII_noPKA_model3 Network

Name	Accession Name	Pathway Name	Initial Conc. (uM)	Volume (fL)	Buffered
CaMKII-CaM	CaMKII_noPKA_ model3 Accession No. : 62	CaMKII Pathway No. : 258	0	0.09	No

CaMKII-CaM acting as a Summed Molecule in CaMKII_noPKA_model3 Network

	Accession Nane	Pathway Name	Target	Input
1	CaMKII_noPKA_ model3 Accession No. : 62	CaMKII Pathway No. : 258	tot_CaM_CaMKII	CaMKII-CaM CaMKII-thr286*-C aM
2	CaMKII_noPKA_ model3 Accession No. : 62	Shared_Object_ CaMKII_noPKA_ model3 Pathway No. : 257	tot_CaMKII_cyt	CaMKII-CaM CaMKII-thr286-C aM CaMKII-thr286 CaMKII** CaMK-thr305 CaMKII basal_CaMKII_ cyt

CaMKII-CaM acting as a Substrate for an Enzyme in CaMKII_noPKA_model3 Network

	Enzyme Molecule / Enzyme Activity	Accession Name	Pathway Name	Km (uM)	kcat (s^-1)	Ratio	Enzyme Type	Reagents
1	tot_CaM_CaMKII / CaM_act_286	CaMKII_noPKA_ model3 Accession No. : 62	CaMKII Pathway No. : 258	226.998	0.5	4	explicit E-S complex	Substrate CaMKII-CaM Product CaMKII-thr286*-C aM
2	tot_autonomous_ CaMKII / auton_286	CaMKII_noPKA_ model3 Accession No. : 62	CaMKII Pathway No. : 258	349.987	0.5	4	explicit E-S complex	Substrate CaMKII-CaM Product CaMKII-thr286*-C aM

CaMKII-CaM acting as a Product of an Enzyme in CaMKII_noPKA_model3 Network

Enzyme Molecule / Enzyme Activity	Accession Name	Pathway Name	Km (uM)	kcat (s^-1)	Ratio	Enzyme Type	Reagents
PP1-active / Deph-thr286	CaMKII_noPKA_ model3 Accession No. : 62	Shared_Object_ CaMKII_noPKA_ model3 Pathway No. : 257	5.09905	2.5	4	explicit E-S complex	Substrate CaMKII-thr286-C aM Product* CaMKII-CaM

CaMKII-CaM acting as a Substrate in a reaction in CaMKII_noPKA_model3 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
transloc_1	CaMKII_noPKA_ model3 Accession No. : 62	Shared_Object_ CaMKII_noPKA_ model3 Pathway No. : 257	0 (#^-1 s^-1)	0 (s^-1)	Not applicable**	-	Substrate CaMKII-CaM NMDAR Product CaMKII-CaM-PSD
Rates to match curve in fig2 from Shen and Meyer, Science 284:162-166(1999), calculated for 6:1 alpha:beta CaMKII heterodimers

** This is a trasport reation between compartments of different volumes. Therefore Kd is not applicable. Please Note Kf, Kb units are in number of molecules instead of concentration

CaMKII-CaM acting as a Product in a reaction in CaMKII_noPKA_model3 Network

Name	Accession Name	Pathway Name	Kf	Kb	Kd	tau	Reagents
CaMKII-bind-CaM	CaMKII_noPKA_ model3 Accession No. : 62	CaMKII Pathway No. : 258	49.9997 (uM^-1 s^-1)	5 (s^-1)	Kd(bf) = 0.1(uM)	-	Substrate CaM-Ca4 CaMKII Product CaMKII-CaM
This is tricky. There is some cooperativity here arising from interactions between the subunits of the CAMKII holoenzyme. However, the stoichiometry is 1. Kb/Kf = 6e4 #/cell. Rate is fast (see Hanson et al Neuron 12 943-956 1994) so lets say kb = 10. This gives kf = 1.6667e-4 H&S AnnRev Biochem 92 give tau for dissoc as 0.2 sec at low Ca, 0.4 at high. Low Ca = 100 nM = physiol.

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