DOQCS database

NCBS Home page

Accession List

Pathway List

Authorized Users

Help

News archives

Enter a Search String

Special character and space not allowed in the query term. Search string should be at least 2 characters long.

Molecule Parameter List for PP1-active_PSD

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-active_PSD* 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	32	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.

PP1-active_PSD acting as a Molecule in AMPAR_CaMKII_weak_coupling Network

Name	Accession Name	Pathway Name	Initial Conc. (uM)	Volume (fL)	Buffered
PP1-active_PSD	AMPAR_CaMKII_ weak_coupling Accession No. : 65	PP1_PSD Pathway No. : 286	4	0.01	No
Cohen et al Meth Enz 159 390-408 is main source of info conc = 1.8 uM in their study. Here we use about 2x this level because of high PSD levels of many proteins. In this model of weak coupling, this pool only acts on the AMPARs in the membrane, and not on CaMKII.

PP1-active_PSD acting as 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_PSD / PP1	AMPAR_CaMKII_ weak_coupling Accession No. : 65	PP1_PSD Pathway No. : 286	0.971451	0.17	4	explicit E-S complex	Substrate A845_B845 Product A_B845*
2	PP1-active_PSD / PP1[1]	AMPAR_CaMKII_ weak_coupling Accession No. : 65	PP1_PSD Pathway No. : 286	0.971451	0.17	4	explicit E-S complex	Substrate A845_B845 Product A845*_B
3	PP1-active_PSD / PP1[2]	AMPAR_CaMKII_ weak_coupling Accession No. : 65	PP1_PSD Pathway No. : 286	0.971451	0.17	4	explicit E-S complex	Substrate A845_B Product* A_B
4	PP1-active_PSD / PP1[3]	AMPAR_CaMKII_ weak_coupling Accession No. : 65	PP1_PSD Pathway No. : 286	0.971451	0.17	4	explicit E-S complex	Substrate A_B845* Product A_B
5	PP1-active_PSD / PP1[4]	AMPAR_CaMKII_ weak_coupling Accession No. : 65	PP1_PSD Pathway No. : 286	0.971451	0.17	4	explicit E-S complex	Substrate A831845_B845* Product A831_B845
6	PP1-active_PSD / PP1[5]	AMPAR_CaMKII_ weak_coupling Accession No. : 65	PP1_PSD Pathway No. : 286	0.971451	0.17	4	explicit E-S complex	Substrate A831845_B845* Product A831845_B
7	PP1-active_PSD / PP1[6]	AMPAR_CaMKII_ weak_coupling Accession No. : 65	PP1_PSD Pathway No. : 286	0.971451	0.17	4	explicit E-S complex	Substrate A831_B845 Product A831*_B
8	PP1-active_PSD / PP1[7]	AMPAR_CaMKII_ weak_coupling Accession No. : 65	PP1_PSD Pathway No. : 286	0.971451	0.17	4	explicit E-S complex	Substrate A831845_B Product A831*_B
9	PP1-active_PSD / PP1[8]	AMPAR_CaMKII_ weak_coupling Accession No. : 65	PP1_PSD Pathway No. : 286	2.00005	0.35	4	explicit E-S complex	Substrate A831845_B845* Product A845_B845
10	PP1-active_PSD / PP1[9]	AMPAR_CaMKII_ weak_coupling Accession No. : 65	PP1_PSD Pathway No. : 286	2.00005	0.35	4	explicit E-S complex	Substrate A831_B845 Product A_B845*
11	PP1-active_PSD / PP1[10]	AMPAR_CaMKII_ weak_coupling Accession No. : 65	PP1_PSD Pathway No. : 286	2.00005	0.35	4	explicit E-S complex	Substrate A831845_B Product A845*_B
12	PP1-active_PSD / PP1[11]	AMPAR_CaMKII_ weak_coupling Accession No. : 65	PP1_PSD Pathway No. : 286	2.00005	0.35	4	explicit E-S complex	Substrate A831_B Product* A_B
13	PP1-active_PSD / PP1[12]	AMPAR_CaMKII_ weak_coupling Accession No. : 65	PP1_PSD Pathway No. : 286	0.971451	0.17	4	explicit E-S complex	Substrate A845_B831845* Product A_B831845
14	PP1-active_PSD / PP1[13]	AMPAR_CaMKII_ weak_coupling Accession No. : 65	PP1_PSD Pathway No. : 286	0.971451	0.17	4	explicit E-S complex	Substrate A845_B831845* Product A845_B831
15	PP1-active_PSD / PP1[14]	AMPAR_CaMKII_ weak_coupling Accession No. : 65	PP1_PSD Pathway No. : 286	0.971451	0.17	4	explicit E-S complex	Substrate A_B831845 Product A_B831*
16	PP1-active_PSD / PP1[15]	AMPAR_CaMKII_ weak_coupling Accession No. : 65	PP1_PSD Pathway No. : 286	0.971451	0.17	4	explicit E-S complex	Substrate A845_B831 Product A_B831*
17	PP1-active_PSD / PP1[16]	AMPAR_CaMKII_ weak_coupling Accession No. : 65	PP1_PSD Pathway No. : 286	0.971451	0.17	4	explicit E-S complex	Substrate A835845_ B835845 Product A831_B831845*
18	PP1-active_PSD / PP1[17]	AMPAR_CaMKII_ weak_coupling Accession No. : 65	PP1_PSD Pathway No. : 286	0.971451	0.17	4	explicit E-S complex	Substrate A835845_ B835845 Product A831845_B831*
19	PP1-active_PSD / PP1[18]	AMPAR_CaMKII_ weak_coupling Accession No. : 65	PP1_PSD Pathway No. : 286	0.971451	0.17	4	explicit E-S complex	Substrate A831_B831845* Product A831_B831
20	PP1-active_PSD / PP1[19]	AMPAR_CaMKII_ weak_coupling Accession No. : 65	PP1_PSD Pathway No. : 286	0.971451	0.17	4	explicit E-S complex	Substrate A831845_B831* Product A831_B831
21	PP1-active_PSD / PP1[20]	AMPAR_CaMKII_ weak_coupling Accession No. : 65	PP1_PSD Pathway No. : 286	2.00005	0.35	4	explicit E-S complex	Substrate A_B831845 Product A_B845*
22	PP1-active_PSD / PP1[21]	AMPAR_CaMKII_ weak_coupling Accession No. : 65	PP1_PSD Pathway No. : 286	2.00005	0.35	4	explicit E-S complex	Substrate A845_B831845* Product A845_B845
23	PP1-active_PSD / PP1[22]	AMPAR_CaMKII_ weak_coupling Accession No. : 65	PP1_PSD Pathway No. : 286	2.00005	0.35	4	explicit E-S complex	Substrate A845_B831 Product A845*_B
24	PP1-active_PSD / PP1[23]	AMPAR_CaMKII_ weak_coupling Accession No. : 65	PP1_PSD Pathway No. : 286	2.00005	0.35	4	explicit E-S complex	Substrate A_B831* Product A_B
25	PP1-active_PSD / PP1[24]	AMPAR_CaMKII_ weak_coupling Accession No. : 65	PP1_PSD Pathway No. : 286	2.00005	0.35	4	explicit E-S complex	Substrate A835845_ B835845 Product A845_B831845*
26	PP1-active_PSD / PP1[25]	AMPAR_CaMKII_ weak_coupling Accession No. : 65	PP1_PSD Pathway No. : 286	2.00005	0.35	4	explicit E-S complex	Substrate A831_B831845* Product A_B831845
27	PP1-active_PSD / PP1[26]	AMPAR_CaMKII_ weak_coupling Accession No. : 65	PP1_PSD Pathway No. : 286	2.00005	0.35	4	explicit E-S complex	Substrate A831845_B831* Product A845_B831
28	PP1-active_PSD / PP1[27]	AMPAR_CaMKII_ weak_coupling Accession No. : 65	PP1_PSD Pathway No. : 286	2.00005	0.35	4	explicit E-S complex	Substrate A831_B831 Product A_B831*
29	PP1-active_PSD / PP1[28]	AMPAR_CaMKII_ weak_coupling Accession No. : 65	PP1_PSD Pathway No. : 286	2.00005	0.35	4	explicit E-S complex	Substrate A835845_ B835845 Product A831845_B845*
30	PP1-active_PSD / PP1[29]	AMPAR_CaMKII_ weak_coupling Accession No. : 65	PP1_PSD Pathway No. : 286	2.00005	0.35	4	explicit E-S complex	Substrate A831_B831845* Product A831_B845
31	PP1-active_PSD / PP1[30]	AMPAR_CaMKII_ weak_coupling Accession No. : 65	PP1_PSD Pathway No. : 286	2.00005	0.35	4	explicit E-S complex	Substrate A831845_B831* Product A831845_B
32	PP1-active_PSD / PP1[31]	AMPAR_CaMKII_ weak_coupling Accession No. : 65	PP1_PSD Pathway No. : 286	2.00005	0.35	4	explicit E-S complex	Substrate A831_B831 Product A831*_B

PP1-active_PSD 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
Inact-PP1	AMPAR_CaMKII_ weak_coupling Accession No. : 65	Shared_Object_ AMPAR_CaMKII_ weak_coupling Pathway No. : 281	499.98 (uM^-1 s^-1)	0.1 (s^-1)	Kd(bf) = 0.0002(uM)	-	Substrate I1* PP1-active_PSD Product PP1-I1*
K inhib = 1nM from Cohen Ann Rev Bioch 1989, 4 nM from Foukes et al Assume 2 nM. kf /kb = 8.333e-4

PP1-active_PSD acting as a Product in a reaction in AMPAR_CaMKII_weak_coupling Network

Name	Accession Name	Pathway Name	Kf	Kb	Kd	tau	Reagents
dissoc-PP1-I1	AMPAR_CaMKII_ weak_coupling Accession No. : 65	PP1_PSD Pathway No. : 286	1 (s^-1)	0 (uM^-1 s^-1)	-	-	Substrate PP1-I1 Product I1 PP1-active_PSD
Let us assume that the equil in this case is very far over to the right. This is probably safe.

Database compilation and code copyright (C) 2022, Upinder S. Bhalla and NCBS/TIFR
This Copyright is applied to ensure that the contents of this database remain freely available. Please see FAQ for details.