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Molecule Parameter List for CaMKII-thr286

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-thr286* 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	3	1	1	0

Accession and Pathway Details

Accession Name	Accession No.	Accession Type	Pathway Link
AMPAR_CaMKII_ weak_coupling	65	Network	Shared_Object_AMPAR_CaMKII_weak_coupling, CaMKII, CaM, PP1, PP2B, PP1_PSD, AMPAR, PKA, AC, AMPAR_memb, PP1_CaMKII_PSD, CaMKII_PSD
This is a model of weak coupling between the AMPAR traffikcing bistability, and the CaMKII autophosphorylation bistability. In this model, there are three stable states: Both off, AMPAR on, or both on. The fourth possible state: CaMKII on but AMPAR off, is not truly stable, since over the course of hours the AMPAR also turns on.

CaMKII-thr286 acting as a Molecule in AMPAR_CaMKII_weak_coupling Network

Name	Accession Name	Pathway Name	Initial Conc. (uM)	Volume (fL)	Buffered
CaMKII-thr286	AMPAR_CaMKII_ weak_coupling Accession No. : 65	CaMKII Pathway No. : 282	0	0.09	No
I am not sure if we need to endow this one with a lot of enzs. It is likely to be a short-lived intermediate, since it will be phosphorylated further as soon as the CAM falls off.

CaMKII-thr286 acting as a Summed Molecule in AMPAR_CaMKII_weak_coupling Network

	Accession Nane	Pathway Name	Target	Input
1	AMPAR_CaMKII_ weak_coupling Accession No. : 65	CaMKII Pathway No. : 282	tot_autonomous_CaMKII	CaMKII-thr286 CaMKII*** basal_CaMKII_ cyt
2	AMPAR_CaMKII_ weak_coupling Accession No. : 65	CaMKII Pathway No. : 282	tot_CaMKII_cyt	CaMKII-CaM CaMKII-thr286-C aM CaMKII-thr286* CaMKII*** CaMK-thr305 CaMKII basal_CaMKII_ cyt

CaMKII-thr286 acting as a Substrate for an Enzyme in AMPAR_CaMKII_weak_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_ weak_coupling Accession No. : 65	Shared_Object_ AMPAR_CaMKII_ weak_coupling Pathway No. : 281	5.09905	2.5	4	explicit E-S complex	Substrate CaMKII-thr286 Product CaMKII
2	tot_CaM_CaMKII / CaM_act_305	AMPAR_CaMKII_ weak_coupling Accession No. : 65	CaMKII Pathway No. : 282	226.998	6	4	explicit E-S complex	Substrate CaMKII-thr286 Product CaMKII***
	Rates from autocamtide phosphorylation, from Hanson and Schulman JBC 267:24 17216-17224 1992. Jan 1 1998: Speed up 12x to match fig 5.
3	tot_autonomous_ CaMKII / auton_305	AMPAR_CaMKII_ weak_coupling Accession No. : 65	CaMKII Pathway No. : 282	350	6	4	explicit E-S complex	Substrate CaMKII-thr286 Product CaMKII***
	See Hanson and Schulman again, for afterburst rates of phosph.

CaMKII-thr286 acting as a Product of an Enzyme in AMPAR_CaMKII_weak_coupling Network

Enzyme Molecule / Enzyme Activity	Accession Name	Pathway Name	Km (uM)	kcat (s^-1)	Ratio	Enzyme Type	Reagents
PP1-active / Deph-thr305	AMPAR_CaMKII_ weak_coupling Accession No. : 65	Shared_Object_ AMPAR_CaMKII_ weak_coupling Pathway No. : 281	5.09905	2.5	4	explicit E-S complex	Substrate CaMKII* Product** CaMKII-thr286

CaMKII-thr286 acting as a Substrate in a reaction in AMPAR_CaMKII_weak_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
CaMK-thr286-bind -CaM	AMPAR_CaMKII_ weak_coupling Accession No. : 65	CaMKII Pathway No. : 282	1000.19 (uM^-1 s^-1)	0.1 (s^-1)	Kd(bf) = 0.0001(uM)	-	Substrate CaM-Ca4 CaMKII-thr286 Product CaMKII-thr286*-C aM
Affinity is up 1000X. Time to release is about 20 sec, so the kb is OK at 0.1 This makes Kf around 1.6666e-3

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