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Accession Type:
Network

AMPAR_CaMKII_
weak_coupling

		Shared_Object_ AMPAR_CaMKII_ weak_coupling
		Molecule
		Enzyme
		Reaction

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Molecule List for pathway Shared_Object_AMPAR_CaMKII_weak_coupling (Pathway Number 281)

	Name	Initial Conc. (uM)	Volume (fL)	Buffered
1	AMPAR_bulk	0.0093	5	Yes

2	Anchor	27.3333	0.01	No

3	Ca	0.08	0.09	No

4	Ca-PSD	0.08	0.01	No

5	CaM-Ca3	0	0.09	No

6	CaM-Ca3-PSD	0	0.01	No

7	CaM-Ca4	0	0.09	No

8	CaM-Ca4-PSD	0	0.01	No

9	CaM-TR2-Ca2	0	0.09	No
	This is the intermediate where the TR2 end (the high-affinity end) has bound the Ca but the TR1 end has not.
10	CaM-TR2-Ca2-PSD	0	0.01	No
	This is the intermediate where the TR2 end (the high-affinity end) has bound the Ca but the TR1 end has not.
11	cAMP	0	0.09	No
	The conc of this has been a problem. Schaecter and Benowitz use 50 uM, but Shinomura et al have < 5. So I have altered the cAMP-dependent rates in the PKA model to reflect this.
12	Ca_control_cyt	0.08	0.09	Yes

13	Ca_control_PSD	0.08	0.01	Yes

14	I_845	0	0.09	No

15	I_845-P	0	0.09	No

16	I_845_PP	0	0.09	No

17	PKC-active	0.1	0.09	No

18	PKC-control	0.1	0.09	Yes

19	PP1-active	1.8	0.09	No
	Cohen et al Meth Enz 159 390-408 is main source of info conc = 1.8 uM
20	PP2A	0.1111	0.09	No

21	Ser831	0	0.01	No

22	Ser831-P	0	0.01	No

23	Ser831-PP	0	0.01	No

24	Ser845	0	0.01	No

25	Ser845-P	0	0.01	No

26	Ser845-PP	0	0.01	No

27	temp-PIP2	2.5	0.09	Yes
	This isn't explicitly present in the M&L model, but is obviously needed. I assume its conc is fixed at 1uM for now, which is a bit high. PLA2 is stim 7x by PIP2 @ 0.5 uM (Leslie and Channon BBA 1045:261(1990) Leslie and Channon say PIP2 is present at 0.1 - 0.2mol% range in membs, which comes to 50 nM. Ref is Majerus et al Cell 37 pp 701-703 1984 Lets use a lower level of 30 nM, same ref....
28	total_Int	0	0.09	No

29	tot_I_GluR12	0	0.09	No

30	tot_mem_GluR12	0	0.01	No

Summed Molecule List

	Target	Inputs
1	I_845	A831_B831 A_B831* A831*_B A_B
2	I_845-P	A831845_B831* A845_B831 A831845_B A845_B A831_B831845 A_B831845 A831_B845 A_B845*
3	I_845_PP	A835845_ B835845 A845_B831845* A831845_B845* A845_B845
4	Ser831	A845_B845 A_B845* A845*_B A_B
5	Ser831-P	A831845_B845* A845_B831845* A831_B845 A_B831845 A831845_B A845_B831 A831_B A_B831
6	Ser831-PP	A835845_ B835845 A831_B831845* A831845_B831* A831_B831
7	Ser845	A_B A831_B A_B831 A831_B831
8	Ser845-P	A845_B A831845_B A845_B831* A831845_B831* A_B845* A831_B845 A_B831845 A831_B831845*
9	Ser845-PP	A845_B845 A831845_B845* A845_B831845* A835845_ B835845
10	total_Int	tot_I_GluR12 GluR23_I
11	tot_I_GluR12	I_845 I_845-P I_845_PP
12	tot_mem_GluR12	Ser845 Ser845-P Ser845-PP

Pathway Details Molecule List Enzyme List Reaction List

Database compilation and code copyright (C) 2022, Upinder S. Bhalla and NCBS/TIFR
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