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Molecule Parameter List for AA_pool

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

*AA_pool* participated as	Molecule	Sum total of	Enzyme	Substrate of an enzyme	Product of an enzyme	Substrate in Reaction	Product in Reaction
No. of occurrences	40	0	0	40	0	0	0

Accession and Pathway Details

Accession Name	Accession No.	Accession Type	Pathway Link
Ajay_Bhalla_ 2007_ReacDiff2	83	Network	Shared_Object_Ajay_Bhalla_2007_ReacDiff, PKC, MAPK, Ras, CaM, PKM, chain, kinetics, PKC, MAPK, Ras, CaM, PKM, kinetics[1], PKC, MAPK, Ras, kinetics[3], CaM, PKM, kinetics[2], PKC, MAPK, Ras, CaM, PKM, PKC, MAPK, Ras, CaM, PKM, kinetics[4], PKC, MAPK, Ras, CaM, PKM, kinetics[5], PKC, MAPK, Ras, CaM, PKM, kinetics[6], PKC, MAPK, Ras, CaM, PKM, kinetics[7], PKC, MAPK, Ras, CaM, PKM, kinetics[8], PKC, MAPK, Ras, CaM, PKM, kinetics[9], PKC, MAPK, Ras, CaM, PKM, kinetics[10], PKC, MAPK, Ras, CaM, PKM, kinetics[11], PKC, MAPK, Ras, CaM, PKM, kinetics[12], PKC, MAPK, Ras, CaM, PKM, kinetics[13], PKC, MAPK, Ras, CaM, PKM, kinetics[14], PKC, MAPK, Ras, CaM, PKM, kinetics[15], PKC, MAPK, Ras, CaM, PKM, kinetics[16], PKC, MAPK, Ras, CaM, PKM, kinetics[17], PKC, MAPK, Ras, CaM, PKM, kinetics[18], PKC, MAPK, Ras, CaM, PKM, kinetics[19], PKC, MAPK, Ras, CaM, PKM, kinetics[20], PKC, MAPK, Ras, CaM, PKM, kinetics[21], PKC, MAPK, Ras, CaM, PKM, kinetics[22], PKC, MAPK, Ras, CaM, PKM, kinetics[23], PKC, MAPK, Ras, CaM, PKM, kinetics[24], PKC, MAPK, Ras, CaM, PKM, kinetics[25], PKC, MAPK, Ras, CaM, PKM, kinetics[26], PKC, MAPK, Ras, CaM, PKM, kinetics[27], PKC, MAPK, Ras, CaM, PKM, kinetics[28], PKC, MAPK, Ras, CaM, PKM, kinetics[29], PKC, MAPK, Ras, CaM, PKM, kinetics[30], PKC, MAPK, Ras, CaM, PKM, kinetics[31], PKC, MAPK, Ras, CaM, PKM, kinetics[32], PKC, MAPK, Ras, CaM, PKM, kinetics[33], PKC, MAPK, Ras, CaM, PKM, kinetics[34], PKC, MAPK, Ras, CaM, PKM, kinetics[35], PKC, MAPK, Ras, CaM, PKM, kinetics[36], PKC, MAPK, Ras, CaM, PKM, kinetics[37], PKC, MAPK, Ras, CaM, PKM, kinetics[38], PKC, MAPK, Ras, CaM, PKM
This is a 40-compartment reaction-diffusion-transport version of the Ajay_Bhalla_2007_PKM model. The original single-compartment model is repeated 40 times. In addition, a subset (27 out of 42) molecules can diffuse between compartments. Diffusion is implemented as a reaction between corresponding molecules in neighboring compartments. For D = 1e-12 m^2/sec (i.e., 1 micron^2/sec ) the kf and kb of this reaction for these 10 micron compartments are both 0.01/sec In addition, we have a forward (dendrite to soma) transport term of 1 microns/sec. This converts to a rate of 0.1/sec, but applies only to the kf. So the total kf of the diffusion 'reaction' is 0.11 for D = 1 micron^2/sec, and kb is 0.01. If D=0.1 micron^2/sec then kf = 0.101 and kb = 0.001. In addition this model has all molecules buffered in the first and last compartments. This boundary conditions says that the molecules are not drained out of the first compartment, nor do they all pile up in the last one. The stimulus file pkm_mapk22_transp_endbuf_D1e-13_Fig4CD which was used for the model to replicate Figure 4C and 4D from the paper.

AA_pool acting as a Molecule in Ajay_Bhalla_2007_ReacDiff2 Network

Name	Accession Name	Pathway Name	Initial Conc. (uM)	Volume (fL)	Buffered
AA_pool	Ajay_Bhalla_ 2007_ReacDiff2 Accession No. : 83	PKM Pathway No. : 682	1	1.5	Yes
Amino acid pool for synthesis.
AA_pool	Ajay_Bhalla_ 2007_ReacDiff2 Accession No. : 83	PKM Pathway No. : 689	1	1.5	Yes
Amino acid pool for synthesis.
AA_pool	Ajay_Bhalla_ 2007_ReacDiff2 Accession No. : 83	PKM Pathway No. : 696	1	1.5	Yes
Amino acid pool for synthesis.
AA_pool	Ajay_Bhalla_ 2007_ReacDiff2 Accession No. : 83	PKM Pathway No. : 702	1	1.5	Yes
Amino acid pool for synthesis.
AA_pool	Ajay_Bhalla_ 2007_ReacDiff2 Accession No. : 83	PKM Pathway No. : 707	1	1.5	Yes
Amino acid pool for synthesis.
AA_pool	Ajay_Bhalla_ 2007_ReacDiff2 Accession No. : 83	PKM Pathway No. : 713	1	1.5	Yes
Amino acid pool for synthesis.
AA_pool	Ajay_Bhalla_ 2007_ReacDiff2 Accession No. : 83	PKM Pathway No. : 719	1	1.5	Yes
Amino acid pool for synthesis.
AA_pool	Ajay_Bhalla_ 2007_ReacDiff2 Accession No. : 83	PKM Pathway No. : 725	1	1.5	Yes
Amino acid pool for synthesis.
AA_pool	Ajay_Bhalla_ 2007_ReacDiff2 Accession No. : 83	PKM Pathway No. : 731	1	1.5	Yes
Amino acid pool for synthesis.
AA_pool	Ajay_Bhalla_ 2007_ReacDiff2 Accession No. : 83	PKM Pathway No. : 737	1	1.5	Yes
Amino acid pool for synthesis.
AA_pool	Ajay_Bhalla_ 2007_ReacDiff2 Accession No. : 83	PKM Pathway No. : 743	1	1.5	Yes
Amino acid pool for synthesis.
AA_pool	Ajay_Bhalla_ 2007_ReacDiff2 Accession No. : 83	PKM Pathway No. : 749	1	1.5	Yes
Amino acid pool for synthesis.
AA_pool	Ajay_Bhalla_ 2007_ReacDiff2 Accession No. : 83	PKM Pathway No. : 755	1	1.5	Yes
Amino acid pool for synthesis.
AA_pool	Ajay_Bhalla_ 2007_ReacDiff2 Accession No. : 83	PKM Pathway No. : 761	1	1.5	Yes
Amino acid pool for synthesis.
AA_pool	Ajay_Bhalla_ 2007_ReacDiff2 Accession No. : 83	PKM Pathway No. : 767	1	1.5	Yes
Amino acid pool for synthesis.
AA_pool	Ajay_Bhalla_ 2007_ReacDiff2 Accession No. : 83	PKM Pathway No. : 773	1	1.5	Yes
Amino acid pool for synthesis.
AA_pool	Ajay_Bhalla_ 2007_ReacDiff2 Accession No. : 83	PKM Pathway No. : 779	1	1.5	Yes
Amino acid pool for synthesis.
AA_pool	Ajay_Bhalla_ 2007_ReacDiff2 Accession No. : 83	PKM Pathway No. : 785	1	1.5	Yes
Amino acid pool for synthesis.
AA_pool	Ajay_Bhalla_ 2007_ReacDiff2 Accession No. : 83	PKM Pathway No. : 791	1	1.5	Yes
Amino acid pool for synthesis.
AA_pool	Ajay_Bhalla_ 2007_ReacDiff2 Accession No. : 83	PKM Pathway No. : 797	1	1.5	Yes
Amino acid pool for synthesis.
AA_pool	Ajay_Bhalla_ 2007_ReacDiff2 Accession No. : 83	PKM Pathway No. : 803	1	1.5	Yes
Amino acid pool for synthesis.
AA_pool	Ajay_Bhalla_ 2007_ReacDiff2 Accession No. : 83	PKM Pathway No. : 809	1	1.5	Yes
Amino acid pool for synthesis.
AA_pool	Ajay_Bhalla_ 2007_ReacDiff2 Accession No. : 83	PKM Pathway No. : 815	1	1.5	Yes
Amino acid pool for synthesis.
AA_pool	Ajay_Bhalla_ 2007_ReacDiff2 Accession No. : 83	PKM Pathway No. : 821	1	1.5	Yes
Amino acid pool for synthesis.
AA_pool	Ajay_Bhalla_ 2007_ReacDiff2 Accession No. : 83	PKM Pathway No. : 827	1	1.5	Yes
Amino acid pool for synthesis.
AA_pool	Ajay_Bhalla_ 2007_ReacDiff2 Accession No. : 83	PKM Pathway No. : 833	1	1.5	Yes
Amino acid pool for synthesis.
AA_pool	Ajay_Bhalla_ 2007_ReacDiff2 Accession No. : 83	PKM Pathway No. : 839	1	1.5	Yes
Amino acid pool for synthesis.
AA_pool	Ajay_Bhalla_ 2007_ReacDiff2 Accession No. : 83	PKM Pathway No. : 845	1	1.5	Yes
Amino acid pool for synthesis.
AA_pool	Ajay_Bhalla_ 2007_ReacDiff2 Accession No. : 83	PKM Pathway No. : 851	1	1.5	Yes
Amino acid pool for synthesis.
AA_pool	Ajay_Bhalla_ 2007_ReacDiff2 Accession No. : 83	PKM Pathway No. : 857	1	1.5	Yes
Amino acid pool for synthesis.
AA_pool	Ajay_Bhalla_ 2007_ReacDiff2 Accession No. : 83	PKM Pathway No. : 863	1	1.5	Yes
Amino acid pool for synthesis.
AA_pool	Ajay_Bhalla_ 2007_ReacDiff2 Accession No. : 83	PKM Pathway No. : 869	1	1.5	Yes
Amino acid pool for synthesis.
AA_pool	Ajay_Bhalla_ 2007_ReacDiff2 Accession No. : 83	PKM Pathway No. : 875	1	1.5	Yes
Amino acid pool for synthesis.
AA_pool	Ajay_Bhalla_ 2007_ReacDiff2 Accession No. : 83	PKM Pathway No. : 881	1	1.5	Yes
Amino acid pool for synthesis.
AA_pool	Ajay_Bhalla_ 2007_ReacDiff2 Accession No. : 83	PKM Pathway No. : 887	1	1.5	Yes
Amino acid pool for synthesis.
AA_pool	Ajay_Bhalla_ 2007_ReacDiff2 Accession No. : 83	PKM Pathway No. : 893	1	1.5	Yes
Amino acid pool for synthesis.
AA_pool	Ajay_Bhalla_ 2007_ReacDiff2 Accession No. : 83	PKM Pathway No. : 899	1	1.5	Yes
Amino acid pool for synthesis.
AA_pool	Ajay_Bhalla_ 2007_ReacDiff2 Accession No. : 83	PKM Pathway No. : 905	1	1.5	Yes
Amino acid pool for synthesis.
AA_pool	Ajay_Bhalla_ 2007_ReacDiff2 Accession No. : 83	PKM Pathway No. : 911	1	1.5	Yes
Amino acid pool for synthesis.
AA_pool	Ajay_Bhalla_ 2007_ReacDiff2 Accession No. : 83	PKM Pathway No. : 917	1	1.5	Yes
Amino acid pool for synthesis.

AA_pool acting as a Substrate for an Enzyme in Ajay_Bhalla_2007_ReacDiff2 Network

	Enzyme Molecule / Enzyme Activity	Accession Name	Pathway Name	Km (uM)	kcat (s^-1)	Ratio	Enzyme Type	Reagents
1	PKM_synthesis / kenz	Ajay_Bhalla_ 2007_ReacDiff2 Accession No. : 83	PKM Pathway No. : 682	9.99978	0.05	4	explicit E-S complex	Substrate AA_pool Product PKM-zeta

2	PKM_synthesis / kenz	Ajay_Bhalla_ 2007_ReacDiff2 Accession No. : 83	PKM Pathway No. : 689	9.99978	0.05	4	explicit E-S complex	Substrate AA_pool Product PKM-zeta

3	PKM_synthesis / kenz	Ajay_Bhalla_ 2007_ReacDiff2 Accession No. : 83	PKM Pathway No. : 696	9.99978	0.05	4	explicit E-S complex	Substrate AA_pool Product PKM-zeta

4	PKM_synthesis / kenz	Ajay_Bhalla_ 2007_ReacDiff2 Accession No. : 83	PKM Pathway No. : 702	9.99978	0.05	4	explicit E-S complex	Substrate AA_pool Product PKM-zeta

5	PKM_synthesis / kenz	Ajay_Bhalla_ 2007_ReacDiff2 Accession No. : 83	PKM Pathway No. : 707	9.99978	0.05	4	explicit E-S complex	Substrate AA_pool Product PKM-zeta

6	PKM_synthesis / kenz	Ajay_Bhalla_ 2007_ReacDiff2 Accession No. : 83	PKM Pathway No. : 713	9.99978	0.05	4	explicit E-S complex	Substrate AA_pool Product PKM-zeta

7	PKM_synthesis / kenz	Ajay_Bhalla_ 2007_ReacDiff2 Accession No. : 83	PKM Pathway No. : 719	9.99978	0.05	4	explicit E-S complex	Substrate AA_pool Product PKM-zeta

8	PKM_synthesis / kenz	Ajay_Bhalla_ 2007_ReacDiff2 Accession No. : 83	PKM Pathway No. : 725	9.99978	0.05	4	explicit E-S complex	Substrate AA_pool Product PKM-zeta

9	PKM_synthesis / kenz	Ajay_Bhalla_ 2007_ReacDiff2 Accession No. : 83	PKM Pathway No. : 731	9.99978	0.05	4	explicit E-S complex	Substrate AA_pool Product PKM-zeta

10	PKM_synthesis / kenz	Ajay_Bhalla_ 2007_ReacDiff2 Accession No. : 83	PKM Pathway No. : 737	9.99978	0.05	4	explicit E-S complex	Substrate AA_pool Product PKM-zeta

11	PKM_synthesis / kenz	Ajay_Bhalla_ 2007_ReacDiff2 Accession No. : 83	PKM Pathway No. : 743	9.99978	0.05	4	explicit E-S complex	Substrate AA_pool Product PKM-zeta

12	PKM_synthesis / kenz	Ajay_Bhalla_ 2007_ReacDiff2 Accession No. : 83	PKM Pathway No. : 749	9.99978	0.05	4	explicit E-S complex	Substrate AA_pool Product PKM-zeta

13	PKM_synthesis / kenz	Ajay_Bhalla_ 2007_ReacDiff2 Accession No. : 83	PKM Pathway No. : 755	9.99978	0.05	4	explicit E-S complex	Substrate AA_pool Product PKM-zeta

14	PKM_synthesis / kenz	Ajay_Bhalla_ 2007_ReacDiff2 Accession No. : 83	PKM Pathway No. : 761	9.99978	0.05	4	explicit E-S complex	Substrate AA_pool Product PKM-zeta

15	PKM_synthesis / kenz	Ajay_Bhalla_ 2007_ReacDiff2 Accession No. : 83	PKM Pathway No. : 767	9.99978	0.05	4	explicit E-S complex	Substrate AA_pool Product PKM-zeta

16	PKM_synthesis / kenz	Ajay_Bhalla_ 2007_ReacDiff2 Accession No. : 83	PKM Pathway No. : 773	9.99978	0.05	4	explicit E-S complex	Substrate AA_pool Product PKM-zeta

17	PKM_synthesis / kenz	Ajay_Bhalla_ 2007_ReacDiff2 Accession No. : 83	PKM Pathway No. : 779	9.99978	0.05	4	explicit E-S complex	Substrate AA_pool Product PKM-zeta

18	PKM_synthesis / kenz	Ajay_Bhalla_ 2007_ReacDiff2 Accession No. : 83	PKM Pathway No. : 785	9.99978	0.05	4	explicit E-S complex	Substrate AA_pool Product PKM-zeta

19	PKM_synthesis / kenz	Ajay_Bhalla_ 2007_ReacDiff2 Accession No. : 83	PKM Pathway No. : 791	9.99978	0.05	4	explicit E-S complex	Substrate AA_pool Product PKM-zeta

20	PKM_synthesis / kenz	Ajay_Bhalla_ 2007_ReacDiff2 Accession No. : 83	PKM Pathway No. : 797	9.99978	0.05	4	explicit E-S complex	Substrate AA_pool Product PKM-zeta

21	PKM_synthesis / kenz	Ajay_Bhalla_ 2007_ReacDiff2 Accession No. : 83	PKM Pathway No. : 803	9.99978	0.05	4	explicit E-S complex	Substrate AA_pool Product PKM-zeta

22	PKM_synthesis / kenz	Ajay_Bhalla_ 2007_ReacDiff2 Accession No. : 83	PKM Pathway No. : 809	9.99978	0.05	4	explicit E-S complex	Substrate AA_pool Product PKM-zeta

23	PKM_synthesis / kenz	Ajay_Bhalla_ 2007_ReacDiff2 Accession No. : 83	PKM Pathway No. : 815	9.99978	0.05	4	explicit E-S complex	Substrate AA_pool Product PKM-zeta

24	PKM_synthesis / kenz	Ajay_Bhalla_ 2007_ReacDiff2 Accession No. : 83	PKM Pathway No. : 821	9.99978	0.05	4	explicit E-S complex	Substrate AA_pool Product PKM-zeta

25	PKM_synthesis / kenz	Ajay_Bhalla_ 2007_ReacDiff2 Accession No. : 83	PKM Pathway No. : 827	9.99978	0.05	4	explicit E-S complex	Substrate AA_pool Product PKM-zeta

26	PKM_synthesis / kenz	Ajay_Bhalla_ 2007_ReacDiff2 Accession No. : 83	PKM Pathway No. : 833	9.99978	0.05	4	explicit E-S complex	Substrate AA_pool Product PKM-zeta

27	PKM_synthesis / kenz	Ajay_Bhalla_ 2007_ReacDiff2 Accession No. : 83	PKM Pathway No. : 839	9.99978	0.05	4	explicit E-S complex	Substrate AA_pool Product PKM-zeta

28	PKM_synthesis / kenz	Ajay_Bhalla_ 2007_ReacDiff2 Accession No. : 83	PKM Pathway No. : 845	9.99978	0.05	4	explicit E-S complex	Substrate AA_pool Product PKM-zeta

29	PKM_synthesis / kenz	Ajay_Bhalla_ 2007_ReacDiff2 Accession No. : 83	PKM Pathway No. : 851	9.99978	0.05	4	explicit E-S complex	Substrate AA_pool Product PKM-zeta

30	PKM_synthesis / kenz	Ajay_Bhalla_ 2007_ReacDiff2 Accession No. : 83	PKM Pathway No. : 857	9.99978	0.05	4	explicit E-S complex	Substrate AA_pool Product PKM-zeta

31	PKM_synthesis / kenz	Ajay_Bhalla_ 2007_ReacDiff2 Accession No. : 83	PKM Pathway No. : 863	9.99978	0.05	4	explicit E-S complex	Substrate AA_pool Product PKM-zeta

32	PKM_synthesis / kenz	Ajay_Bhalla_ 2007_ReacDiff2 Accession No. : 83	PKM Pathway No. : 869	9.99978	0.05	4	explicit E-S complex	Substrate AA_pool Product PKM-zeta

33	PKM_synthesis / kenz	Ajay_Bhalla_ 2007_ReacDiff2 Accession No. : 83	PKM Pathway No. : 875	9.99978	0.05	4	explicit E-S complex	Substrate AA_pool Product PKM-zeta

34	PKM_synthesis / kenz	Ajay_Bhalla_ 2007_ReacDiff2 Accession No. : 83	PKM Pathway No. : 881	9.99978	0.05	4	explicit E-S complex	Substrate AA_pool Product PKM-zeta

35	PKM_synthesis / kenz	Ajay_Bhalla_ 2007_ReacDiff2 Accession No. : 83	PKM Pathway No. : 887	9.99978	0.05	4	explicit E-S complex	Substrate AA_pool Product PKM-zeta

36	PKM_synthesis / kenz	Ajay_Bhalla_ 2007_ReacDiff2 Accession No. : 83	PKM Pathway No. : 893	9.99978	0.05	4	explicit E-S complex	Substrate AA_pool Product PKM-zeta

37	PKM_synthesis / kenz	Ajay_Bhalla_ 2007_ReacDiff2 Accession No. : 83	PKM Pathway No. : 899	9.99978	0.05	4	explicit E-S complex	Substrate AA_pool Product PKM-zeta

38	PKM_synthesis / kenz	Ajay_Bhalla_ 2007_ReacDiff2 Accession No. : 83	PKM Pathway No. : 905	9.99978	0.05	4	explicit E-S complex	Substrate AA_pool Product PKM-zeta

39	PKM_synthesis / kenz	Ajay_Bhalla_ 2007_ReacDiff2 Accession No. : 83	PKM Pathway No. : 911	9.99978	0.05	4	explicit E-S complex	Substrate AA_pool Product PKM-zeta

40	PKM_synthesis / kenz	Ajay_Bhalla_ 2007_ReacDiff2 Accession No. : 83	PKM Pathway No. : 917	9.99978	0.05	4	explicit E-S complex	Substrate AA_pool Product PKM-zeta

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