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Molecule Parameter List for CaMKII

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 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	1	1	0	2	1	1

Accession and Pathway Details

Accession Name	Accession No.	Accession Type	Pathway Link
AMPAR_CaMKII_ strong_coupling	64	Network	Shared_Object_AMPAR_CaMKII_strong_coupling,  CaMKII,  CaM,   PP1,  AMPAR_memb,  PP2B,   PKA,  AC,  PP1_PSD,   AMPAR
This is a model of tight coupling between the AMPAR trafficking bistability, and the CaMKII autophosphorylation bistability. In this model, the CaMKII activity is self sustaining only when AMPAR is turned on. Further, CaMKII turns on when AMPAR is turned on.

CaMKII acting as a Molecule in  AMPAR_CaMKII_strong_coupling Network

Name	Accession Name	Pathway Name	Initial Conc. (uM)	Volume (fL)	Buffered
CaMKII	AMPAR_CaMKII_ strong_coupling Accession No. : 64	CaMKII Pathway No. : 272	20	0.09	No
Huge conc of CaMKII. In PSD it is 20-40% of protein, so we assume it is around 2.5% of protein in spine as a whole. This level is so high it is unlikely to matter much if we are off a bit. This comes to about 70 uM.

CaMKII acting as a Summed Molecule in  AMPAR_CaMKII_strong_coupling Network

Accession Name	Pathway Name	Target	Input
AMPAR_CaMKII_ strong_coupling Accession No. : 64	Shared_Object_ AMPAR_CaMKII_ strong_coupling Pathway No. : 271	tot_CaMKII_cyt	CaMKII-CaM CaMKII-thr286*-C aM CaMKII-thr286 CaMKII*** CaMK-thr305 CaMKII basal_CaMKII_ cyt

CaMKII acting as an Enzyme in  AMPAR_CaMKII_strong_coupling Network

Enzyme Molecule / Enzyme Activity	Accession Name	Pathway Name	Km (uM)	kcat (s^-1)	Ratio	Enzyme Type	Reagents
actCaMKII-PSD / CaMKII	AMPAR_CaMKII_ strong_coupling Accession No. : 64	Shared_Object_ AMPAR_CaMKII_ strong_coupling Pathway No. : 271	90.0006	0.5	4	explicit E-S complex	Substrate A845*_B845* Product A831*845*_B845*

CaMKII acting as a Product of an Enzyme in  AMPAR_CaMKII_strong_coupling Network

	Enzyme Molecule / Enzyme Activity	Accession Name	Pathway Name	Km (uM)	kcat (s^-1)	Ratio	Enzyme Type	Reagents
1	PP1-active  / Deph-thr286b	AMPAR_CaMKII_ strong_coupling Accession No. : 64	Shared_Object_ AMPAR_CaMKII_ strong_coupling Pathway No. : 271	5.09905	2.5	4	explicit E-S complex	Substrate CaMKII-thr286 Product CaMKII
2	PP1-active  / Deph-thr305a	AMPAR_CaMKII_ strong_coupling Accession No. : 64	Shared_Object_ AMPAR_CaMKII_ strong_coupling Pathway No. : 271	5.09905	2.5	4	explicit E-S complex	Substrate CaMK-thr305 Product CaMKII

CaMKII acting as a Substrate in a reaction in  AMPAR_CaMKII_strong_coupling 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
CaMKII-bind-CaM	AMPAR_CaMKII_ strong_coupling Accession No. : 64	CaMKII Pathway No. : 272	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.

CaMKII acting as a Product in a reaction in  AMPAR_CaMKII_strong_coupling 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
back_1	AMPAR_CaMKII_ strong_coupling Accession No. : 64	Shared_Object_ AMPAR_CaMKII_ strong_coupling Pathway No. : 271	0.3 (s^-1)	0 (#^-1 s^-1)	Not applicable**	-	Substrate CaMKII-PSD Product CaMKII NMDAR
Rates set by the translocation experiments of Shen and Meyer, Science 1999.

** 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