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Name Notes Model

Molecule Parameter List for PP1_dash_active_c

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

PP1_dash_active_c 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
mRNA synthesis	94	Network	kinetics,  compartment_1,  compartment_2
The model consists of three major pathways: Calcium-calmodulin dependent protein kinase IV (CaMKIV), Mitogen-activated protein kinase (MAPK) and Protein Phosphatase 1 (PP1). Each of these converged on CREB activation. We also modeled further interactions with Transducer of regulated CREB activity 1 (TORC1) and the protein kinase A (PKA) pathway.

PP1_dash_active_c acting as a Molecule in  mRNA synthesis Network

Name	Accession Name	Pathway Name	Initial Conc. (uM)	Volume (fL)	Buffered
PP1_dash_active_c	mRNA synthesis Accession No. : 94	kinetics Pathway No. : 1112	1.8	1000	No
Cohen et al Meth Enz 159 390-408 is main source of info conc = 1.8 uM

PP1_dash_active_c acting as a Substrate in a reaction in  mRNA synthesis 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
Inact_dash_PP1	mRNA synthesis Accession No. : 94	kinetics Pathway No. : 1112	499.974 (uM^-1 s^-1)	0.1 (s^-1)	Kd(bf) = 0.0002(uM)	-	Substrate I1_star PP1_dash_ active_c Product PP1_dash_I1_ star
K inhib = 1nM from Cohen Ann Rev Bioch 1989, 4 nM from Foukes et al Assume 2 nM. kf /kb = 8.333e-4

PP1_dash_active_c acting as a Product in a reaction in  mRNA synthesis 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
dissoc_dash_ PP1_dash_I1	mRNA synthesis Accession No. : 94	kinetics Pathway No. : 1112	1 (s^-1)	0 (uM^-1 s^-1)	-	-	Substrate PP1_dash_I1 Product I1 PP1_dash_ active_c
Let us assume that the equil in this case is very far over to the right. This is probably safe.