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Molecule Parameter List for A845_B845

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

A845_B845 participated as	Molecule	Sum total of	Enzyme	Substrate of an enzyme	Product of an enzyme	Substrate in Reaction	Product in Reaction
No. of occurrences	2	3	0	8	6	2	1

Accession and Pathway Details

Accession Name	Accession No.	Accession Type	Pathway Link
AMPAR_traff_ model1	60	Network	Shared_Object_AMPAR_traff_model1, CaMKII, CaM, PP1, PP2B, PP1_PSD, PKA, AC, AMPAR, AMPAR_memb
This is the basic model of AMPAR trafficking bistability. It is based on Hayer and Bhalla, PLoS Comput. Biol. 2005. It includes the degradation and turnover of AMPARs. The CaMKII portion of the model is not bistable.

A845*_B845* acting as a Molecule in AMPAR_traff_model1 Network

Name	Accession Name	Pathway Name	Initial Conc. (uM)	Volume (fL)	Buffered
A845_B845	AMPAR_traff_ model1 Accession No. : 60	AMPAR Pathway No. : 252	0	0.09	No

A845_B845	AMPAR_traff_ model1 Accession No. : 60	AMPAR_memb Pathway No. : 253	0	0.01	No

A845*_B845* acting as a Summed Molecule in AMPAR_traff_model1 Network

	Accession Nane	Pathway Name	Target	Input
1	AMPAR_traff_ model1 Accession No. : 60	AMPAR Pathway No. : 252	I_845_PP	A835845_ B835845 A845_B831845* A831845_B845* A845_B845
2	AMPAR_traff_ model1 Accession No. : 60	AMPAR_memb Pathway No. : 253	Ser845-PP	A845_B845 A831845_B845* A845_B831845* A835845_ B835845
3	AMPAR_traff_ model1 Accession No. : 60	AMPAR_memb Pathway No. : 253	Ser831	A845_B845 A_B845* A845*_B A_B

A845*_B845* acting as a Substrate for an Enzyme in AMPAR_traff_model1 Network

	Enzyme Molecule / Enzyme Activity	Accession Name	Pathway Name	Km (uM)	kcat (s^-1)	Ratio	Enzyme Type	Reagents
1	actCaMKII-PSD / CaMKII	AMPAR_traff_ model1 Accession No. : 60	CaMKII Pathway No. : 245	90.0006	0.5	4	explicit E-S complex	Substrate A845_B845 Product A831845_B845*
2	actCaMKII-PSD / CaMKII[4]	AMPAR_traff_ model1 Accession No. : 60	CaMKII Pathway No. : 245	90.0006	0.5	4	explicit E-S complex	Substrate A845_B845 Product A845_B831845*
3	CaM_Ca_n-CaNAB / PP2B[25]	AMPAR_traff_ model1 Accession No. : 60	PP2B Pathway No. : 248	4.97061	2	4	explicit E-S complex	Substrate A845_B845 Product A_B845*
4	CaM_Ca_n-CaNAB / PP2B[29]	AMPAR_traff_ model1 Accession No. : 60	PP2B Pathway No. : 248	4.97061	2	4	explicit E-S complex	Substrate A845_B845 Product A845*_B
5	CaM_Ca_n-CaNAB / PP2B	AMPAR_traff_ model1 Accession No. : 60	PP2B Pathway No. : 248	4.97061	2	4	explicit E-S complex	Substrate A845_B845 Product A_B845*
6	CaM_Ca_n-CaNAB / PP2B[1]	AMPAR_traff_ model1 Accession No. : 60	PP2B Pathway No. : 248	4.97061	2	4	explicit E-S complex	Substrate A845_B845 Product A845*_B
7	PP1-active_PSD / PP1	AMPAR_traff_ model1 Accession No. : 60	PP1_PSD Pathway No. : 249	0.971451	0.17	4	explicit E-S complex	Substrate A845_B845 Product A_B845*
8	PP1-active_PSD / PP1[1]	AMPAR_traff_ model1 Accession No. : 60	PP1_PSD Pathway No. : 249	0.971451	0.17	4	explicit E-S complex	Substrate A845_B845 Product A845*_B

A845*_B845* acting as a Product of an Enzyme in AMPAR_traff_model1 Network

	Enzyme Molecule / Enzyme Activity	Accession Name	Pathway Name	Km (uM)	kcat (s^-1)	Ratio	Enzyme Type	Reagents
1	PKA-active / PKA[24]	AMPAR_traff_ model1 Accession No. : 60	PKA Pathway No. : 250	7.50021	6	4	explicit E-S complex	Substrate A_B845* Product A845_B845
2	PKA-active / PKA[28]	AMPAR_traff_ model1 Accession No. : 60	PKA Pathway No. : 250	7.50021	6	4	explicit E-S complex	Substrate A845_B Product* A845_B845
3	PKA-active / PKA	AMPAR_traff_ model1 Accession No. : 60	PKA Pathway No. : 250	7.50021	6	4	explicit E-S complex	Substrate A_B845* Product A845_B845
4	PKA-active / PKA[1]	AMPAR_traff_ model1 Accession No. : 60	PKA Pathway No. : 250	7.50021	6	4	explicit E-S complex	Substrate A845_B Product* A845_B845
5	PP1-active_PSD / PP1[8]	AMPAR_traff_ model1 Accession No. : 60	PP1_PSD Pathway No. : 249	2.00005	0.35	4	explicit E-S complex	Substrate A831845_B845* Product A845_B845
6	PP1-active_PSD / PP1[21]	AMPAR_traff_ model1 Accession No. : 60	PP1_PSD Pathway No. : 249	2.00005	0.35	4	explicit E-S complex	Substrate A845_B831845* Product A845_B845

A845*_B845* acting as a Substrate in a reaction in AMPAR_traff_model1 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
1	degrade__	AMPAR_traff_ model1 Accession No. : 60	AMPAR Pathway No. : 252	0 (s^-1)	0 (s^-1)	-	-	Substrate A845_B845 Product AMPAR_deg
2	exo_reg__	AMPAR_traff_ model1 Accession No. : 60	AMPAR Pathway No. : 252	0.0002 (#^-1 s^-1)	0.008 (s^-1)	Not applicable**	-	Substrate A845_B845 Anchor Product A845_B845
	Exo rates are scaled from earlier model versions to account for binding of anchor. We have about 200 molecules of anchor in the whole model. Here we select rates to give us a max of about 150 molecules of GluR at the synapse.

** This is a trasport reation between compartments of different volumes. Therefore Kd is not applicable. Please Note Kf, Kb units are in number of molecules instead of concentration

A845*_B845* acting as a Product in a reaction in AMPAR_traff_model1 Network

Name	Accession Name	Pathway Name	Kf	Kb	Kd	tau	Reagents
exo_reg__	AMPAR_traff_ model1 Accession No. : 60	AMPAR Pathway No. : 252	0.0002 (#^-1 s^-1)	0.008 (s^-1)	Not applicable**	-	Substrate A845_B845 Anchor Product A845_B845
Exo rates are scaled from earlier model versions to account for binding of anchor. We have about 200 molecules of anchor in the whole model. Here we select rates to give us a max of about 150 molecules of GluR at the synapse.

** This is a trasport reation between compartments of different volumes. Therefore Kd is not applicable. Please Note Kf, Kb units are in number of molecules instead of concentration

Database compilation and code copyright (C) 2022, Upinder S. Bhalla and NCBS/TIFR
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Molecule Parameter List for A845*_B845*

Molecule Parameter List for A845_B845