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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_traff_ model0	59	Network	Shared_Object_AMPAR_traff_model0,  CaMKII,  CaM,   PP1,  PP2B,  PP1_PSD,   PKA,  AC,  AMPAR,   AMPAR_memb
This is model 0 from Hayer and Bhalla, PLoS Comput Biol 2005. It has a bistable model of AMPAR traffick, plus a non-bistable model of CaMKII. This differs from the reference model (model 1) in that model0 lacks degradation and turno ver reactions for AMPAR.

CaMKII-thr286 acting as a Molecule in  AMPAR_traff_model0 Network

Name	Accession Name	Pathway Name	Initial Conc. (uM)	Volume (fL)	Buffered
CaMKII-thr286	AMPAR_traff_ model0 Accession No. : 59	CaMKII Pathway No. : 235	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_traff_model0 Network

	Accession Nane	Pathway Name	Target	Input
1	AMPAR_traff_ model0 Accession No. : 59	CaMKII Pathway No. : 235	tot_autonomous_CaMKII	CaMKII-thr286 CaMKII*** basal_CaMKII_ cyt
2	AMPAR_traff_ model0 Accession No. : 59	CaMKII Pathway No. : 235	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_traff_model0 Network

	Enzyme Molecule / Enzyme Activity	Accession Name	Pathway Name	Km (uM)	kcat (s^-1)	Ratio	Enzyme Type	Reagents
1	tot_CaM_CaMKII  / CaM_act_305	AMPAR_traff_ model0 Accession No. : 59	CaMKII Pathway No. : 235	113.601	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.
2	tot_autonomous_ CaMKII  / auton_305	AMPAR_traff_ model0 Accession No. : 59	CaMKII Pathway No. : 235	175	6	4	explicit E-S complex	Substrate CaMKII-thr286 Product CaMKII***
	See Hanson and Schulman again, for afterburst rates of phosph.
3	PP1-active  / Deph-thr286b	AMPAR_traff_ model0 Accession No. : 59	PP1 Pathway No. : 237	5.09905	2.5	4	explicit E-S complex	Substrate CaMKII-thr286 Product CaMKII

CaMKII-thr286 acting as a Product of an Enzyme in  AMPAR_traff_model0 Network

Enzyme Molecule / Enzyme Activity	Accession Name	Pathway Name	Km (uM)	kcat (s^-1)	Ratio	Enzyme Type	Reagents
PP1-active  / Deph-thr305	AMPAR_traff_ model0 Accession No. : 59	PP1 Pathway No. : 237	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_traff_model0 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_traff_ model0 Accession No. : 59	CaMKII Pathway No. : 235	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