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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	37	0	0	1	1

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.

PP1-active_PSD acting as a Molecule in AMPAR_traff_model0 Network

Name	Accession Name	Pathway Name	Initial Conc. (uM)	Volume (fL)	Buffered
PP1-active_PSD	AMPAR_traff_ model0 Accession No. : 59	PP1_PSD Pathway No. : 239	4	0.01	No
Cohen et al Meth Enz 159 390-408 is main source of info conc = 1.8 uM

PP1-active_PSD acting as 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	PP1-active_PSD / Deph-thr286	AMPAR_traff_ model0 Accession No. : 59	PP1_PSD Pathway No. : 239	1.99994	2.5	4	explicit E-S complex	Substrate CaMKII-thr286-Ca M-PSD Product CaMKII-CaM-PSD
2	PP1-active_PSD / Deph-thr286b	AMPAR_traff_ model0 Accession No. : 59	PP1_PSD Pathway No. : 239	1.99994	2.5	4	explicit E-S complex	Substrate CaMKII-thr286-PS D Product CaMKII-PSD
3	PP1-active_PSD / Deph-thr305	AMPAR_traff_ model0 Accession No. : 59	PP1_PSD Pathway No. : 239	5.09909	2.5	4	explicit E-S complex	Substrate CaMKII*-PSD Product** CaMKII-thr286-PS D
4	PP1-active_PSD / Deph-thr286c	AMPAR_traff_ model0 Accession No. : 59	PP1_PSD Pathway No. : 239	1.99994	2.5	4	explicit E-S complex	Substrate CaMKII*-PSD Product** CaMKII-thr305-PS D
5	PP1-active_PSD / PP1	AMPAR_traff_ model0 Accession No. : 59	PP1_PSD Pathway No. : 239	0.971451	0.17	4	explicit E-S complex	Substrate A845_B845 Product A_B845*
6	PP1-active_PSD / PP1[1]	AMPAR_traff_ model0 Accession No. : 59	PP1_PSD Pathway No. : 239	0.971451	0.17	4	explicit E-S complex	Substrate A845_B845 Product A845*_B
7	PP1-active_PSD / PP1[2]	AMPAR_traff_ model0 Accession No. : 59	PP1_PSD Pathway No. : 239	0.971451	0.17	4	explicit E-S complex	Substrate A845_B Product* A_B
8	PP1-active_PSD / PP1[3]	AMPAR_traff_ model0 Accession No. : 59	PP1_PSD Pathway No. : 239	0.971451	0.17	4	explicit E-S complex	Substrate A_B845* Product A_B
9	PP1-active_PSD / PP1[4]	AMPAR_traff_ model0 Accession No. : 59	PP1_PSD Pathway No. : 239	0.971451	0.17	4	explicit E-S complex	Substrate A831845_B845* Product A831_B845
10	PP1-active_PSD / PP1[5]	AMPAR_traff_ model0 Accession No. : 59	PP1_PSD Pathway No. : 239	0.971451	0.17	4	explicit E-S complex	Substrate A831845_B845* Product A831845_B
11	PP1-active_PSD / PP1[6]	AMPAR_traff_ model0 Accession No. : 59	PP1_PSD Pathway No. : 239	0.971451	0.17	4	explicit E-S complex	Substrate A831_B845 Product A831*_B
12	PP1-active_PSD / PP1[7]	AMPAR_traff_ model0 Accession No. : 59	PP1_PSD Pathway No. : 239	0.971451	0.17	4	explicit E-S complex	Substrate A831845_B Product A831*_B
13	PP1-active_PSD / PP1[8]	AMPAR_traff_ model0 Accession No. : 59	PP1_PSD Pathway No. : 239	2.00005	0.35	4	explicit E-S complex	Substrate A831845_B845* Product A845_B845
14	PP1-active_PSD / PP1[9]	AMPAR_traff_ model0 Accession No. : 59	PP1_PSD Pathway No. : 239	2.00005	0.35	4	explicit E-S complex	Substrate A831_B845 Product A_B845*
15	PP1-active_PSD / PP1[10]	AMPAR_traff_ model0 Accession No. : 59	PP1_PSD Pathway No. : 239	2.00005	0.35	4	explicit E-S complex	Substrate A831845_B Product A845*_B
16	PP1-active_PSD / PP1[11]	AMPAR_traff_ model0 Accession No. : 59	PP1_PSD Pathway No. : 239	2.00005	0.35	4	explicit E-S complex	Substrate A831_B Product* A_B
17	PP1-active_PSD / PP1[12]	AMPAR_traff_ model0 Accession No. : 59	PP1_PSD Pathway No. : 239	0.971451	0.17	4	explicit E-S complex	Substrate A845_B831845* Product A_B831845
18	PP1-active_PSD / PP1[13]	AMPAR_traff_ model0 Accession No. : 59	PP1_PSD Pathway No. : 239	0.971451	0.17	4	explicit E-S complex	Substrate A845_B831845* Product A845_B831
19	PP1-active_PSD / PP1[14]	AMPAR_traff_ model0 Accession No. : 59	PP1_PSD Pathway No. : 239	0.971451	0.17	4	explicit E-S complex	Substrate A_B831845 Product A_B831*
20	PP1-active_PSD / PP1[15]	AMPAR_traff_ model0 Accession No. : 59	PP1_PSD Pathway No. : 239	0.971451	0.17	4	explicit E-S complex	Substrate A845_B831 Product A_B831*
21	PP1-active_PSD / PP1[16]	AMPAR_traff_ model0 Accession No. : 59	PP1_PSD Pathway No. : 239	0.971451	0.17	4	explicit E-S complex	Substrate A835845_ B835845 Product A831_B831845*
22	PP1-active_PSD / PP1[17]	AMPAR_traff_ model0 Accession No. : 59	PP1_PSD Pathway No. : 239	0.971451	0.17	4	explicit E-S complex	Substrate A835845_ B835845 Product A831845_B831*
23	PP1-active_PSD / PP1[18]	AMPAR_traff_ model0 Accession No. : 59	PP1_PSD Pathway No. : 239	0.971451	0.17	4	explicit E-S complex	Substrate A831_B831845* Product A831_B831
24	PP1-active_PSD / PP1[19]	AMPAR_traff_ model0 Accession No. : 59	PP1_PSD Pathway No. : 239	0.971451	0.17	4	explicit E-S complex	Substrate A831845_B831* Product A831_B831
25	PP1-active_PSD / PP1[20]	AMPAR_traff_ model0 Accession No. : 59	PP1_PSD Pathway No. : 239	2.00005	0.35	4	explicit E-S complex	Substrate A_B831845 Product A_B845*
26	PP1-active_PSD / PP1[21]	AMPAR_traff_ model0 Accession No. : 59	PP1_PSD Pathway No. : 239	2.00005	0.35	4	explicit E-S complex	Substrate A845_B831845* Product A845_B845
27	PP1-active_PSD / PP1[22]	AMPAR_traff_ model0 Accession No. : 59	PP1_PSD Pathway No. : 239	2.00005	0.35	4	explicit E-S complex	Substrate A845_B831 Product A845*_B
28	PP1-active_PSD / PP1[23]	AMPAR_traff_ model0 Accession No. : 59	PP1_PSD Pathway No. : 239	2.00005	0.35	4	explicit E-S complex	Substrate A_B831* Product A_B
29	PP1-active_PSD / PP1[24]	AMPAR_traff_ model0 Accession No. : 59	PP1_PSD Pathway No. : 239	2.00005	0.35	4	explicit E-S complex	Substrate A835845_ B835845 Product A845_B831845*
30	PP1-active_PSD / PP1[25]	AMPAR_traff_ model0 Accession No. : 59	PP1_PSD Pathway No. : 239	2.00005	0.35	4	explicit E-S complex	Substrate A831_B831845* Product A_B831845
31	PP1-active_PSD / PP1[26]	AMPAR_traff_ model0 Accession No. : 59	PP1_PSD Pathway No. : 239	2.00005	0.35	4	explicit E-S complex	Substrate A831845_B831* Product A845_B831
32	PP1-active_PSD / PP1[27]	AMPAR_traff_ model0 Accession No. : 59	PP1_PSD Pathway No. : 239	2.00005	0.35	4	explicit E-S complex	Substrate A831_B831 Product A_B831*
33	PP1-active_PSD / PP1[28]	AMPAR_traff_ model0 Accession No. : 59	PP1_PSD Pathway No. : 239	2.00005	0.35	4	explicit E-S complex	Substrate A835845_ B835845 Product A831845_B845*
34	PP1-active_PSD / PP1[29]	AMPAR_traff_ model0 Accession No. : 59	PP1_PSD Pathway No. : 239	2.00005	0.35	4	explicit E-S complex	Substrate A831_B831845* Product A831_B845
35	PP1-active_PSD / PP1[30]	AMPAR_traff_ model0 Accession No. : 59	PP1_PSD Pathway No. : 239	2.00005	0.35	4	explicit E-S complex	Substrate A831845_B831* Product A831845_B
36	PP1-active_PSD / PP1[31]	AMPAR_traff_ model0 Accession No. : 59	PP1_PSD Pathway No. : 239	2.00005	0.35	4	explicit E-S complex	Substrate A831_B831 Product A831*_B
37	PP1-active_PSD / Deph-thr305a	AMPAR_traff_ model0 Accession No. : 59	PP1_PSD Pathway No. : 239	5.09909	2.5	4	explicit E-S complex	Substrate CaMKII-thr305-PS D Product CaMKII-PSD

PP1-active_PSD 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
Inact-PP1	AMPAR_traff_ model0 Accession No. : 59	PP1_PSD Pathway No. : 239	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_traff_model0 Network

Name	Accession Name	Pathway Name	Kf	Kb	Kd	tau	Reagents
dissoc-PP1-I1	AMPAR_traff_ model0 Accession No. : 59	PP1_PSD Pathway No. : 239	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
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