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Molecule Parameter List for R2C2-cAMP2

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

R2C2-cAMP2 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	0	0	0	0	1	1

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.

R2C2-cAMP2 acting as a Molecule in  AMPAR_CaMKII_weak_coupling Network

Name	Accession Name	Pathway Name	Initial Conc. (uM)	Volume (fL)	Buffered
R2C2-cAMP2	AMPAR_CaMKII_ weak_coupling Accession No. : 65	PKA Pathway No. : 288	0	0.09	No

R2C2-cAMP2 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
cAMP-bind-site-A 1	AMPAR_CaMKII_ weak_coupling Accession No. : 65	PKA Pathway No. : 288	75.0006 (uM^-1 s^-1)	110 (s^-1)	Kd(bf) = 1.4667(uM)	-	Substrate R2C2-cAMP2 cAMP Product R2C2-cAMP3

R2C2-cAMP2 acting as a Product 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
cAMP-bind-site-B 2	AMPAR_CaMKII_ weak_coupling Accession No. : 65	PKA Pathway No. : 288	54 (uM^-1 s^-1)	33 (s^-1)	Kd(bf) = 0.6111(uM)	-	Substrate R2C2-cAMP cAMP Product R2C2-cAMP2
For now let us set this to the same Km (1e-7M) as site B. This gives kf/kb = .7e-7M * 1e6 / (6e5^2) : 1/(6e5^2) = 2e-13:2.77e-12 Smith et al have better values. They say that this is cooperative, so the consts are now kf/kb =8.3e-4