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Molecule Parameter List for degraded_PKM

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

*degraded_PKM* participated as	Molecule	Sum total of	Enzyme	Substrate of an enzyme	Product of an enzyme	Substrate in Reaction	Product in Reaction
No. of occurrences	25	0	0	0	0	0	25

Accession and Pathway Details

Accession Name	Accession No.	Accession Type	Pathway Link
Ajay_Bhalla_ 2007_ReacDiff1_ 1e-13	82	Network	Shared_Object_Ajay_Bhalla_2007_ReacDiff1_1e-13, PKC, MAPK, Ras, CaM, PKM, chain, kinetics, PKC, MAPK, Ras, CaM, PKM, kinetics[1], PKC, MAPK, Ras, CaM, PKM, kinetics[2], PKC, MAPK, Ras, CaM, PKM, kinetics[3], PKC, MAPK, Ras, CaM, PKM, kinetics[4], PKC, MAPK, Ras, CaM, PKM, kinetics[5], PKC, MAPK, Ras, kinetics[6], CaM, PKM, 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
This is a 25-compartment reaction-diffusion version of the Ajay_Bhalla_2007_PKM model. The original single-compartment model is repeated 25 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. For D = 1e-13 m^2/sec (i.e., 0.1 micron^2/sec ) the kf and kb are 0.001/sec. The stimulus file pkm_mapk22_diff_1e-13_Fig4B which was used for the model to replicate Figure 4B from the paper. pkm_mapk22_diff_1e-13_Fig4H replicate Figure 4H. pkm_mapk22_diff_1e-13_Fig4I replicate Figure 4I.

degraded_PKM acting as a Molecule in Ajay_Bhalla_2007_ReacDiff1_1e-13 Network

Name	Accession Name	Pathway Name	Initial Conc. (uM)	Volume (fL)	Buffered
degraded_PKM	Ajay_Bhalla_ 2007_ReacDiff1_ 1e-13 Accession No. : 82	PKM Pathway No. : 531	0	1.5	Yes
degraded_PKM	Ajay_Bhalla_ 2007_ReacDiff1_ 1e-13 Accession No. : 82	PKM Pathway No. : 538	0	1.5	Yes
degraded_PKM	Ajay_Bhalla_ 2007_ReacDiff1_ 1e-13 Accession No. : 82	PKM Pathway No. : 544	0	1.5	Yes
degraded_PKM	Ajay_Bhalla_ 2007_ReacDiff1_ 1e-13 Accession No. : 82	PKM Pathway No. : 550	0	1.5	Yes
degraded_PKM	Ajay_Bhalla_ 2007_ReacDiff1_ 1e-13 Accession No. : 82	PKM Pathway No. : 556	0	1.5	Yes
degraded_PKM	Ajay_Bhalla_ 2007_ReacDiff1_ 1e-13 Accession No. : 82	PKM Pathway No. : 562	0	1.5	Yes
degraded_PKM	Ajay_Bhalla_ 2007_ReacDiff1_ 1e-13 Accession No. : 82	PKM Pathway No. : 569	0	1.5	Yes
degraded_PKM	Ajay_Bhalla_ 2007_ReacDiff1_ 1e-13 Accession No. : 82	PKM Pathway No. : 574	0	1.5	Yes
degraded_PKM	Ajay_Bhalla_ 2007_ReacDiff1_ 1e-13 Accession No. : 82	PKM Pathway No. : 580	0	1.5	Yes
degraded_PKM	Ajay_Bhalla_ 2007_ReacDiff1_ 1e-13 Accession No. : 82	PKM Pathway No. : 586	0	1.5	Yes
degraded_PKM	Ajay_Bhalla_ 2007_ReacDiff1_ 1e-13 Accession No. : 82	PKM Pathway No. : 592	0	1.5	Yes
degraded_PKM	Ajay_Bhalla_ 2007_ReacDiff1_ 1e-13 Accession No. : 82	PKM Pathway No. : 598	0	1.5	Yes
degraded_PKM	Ajay_Bhalla_ 2007_ReacDiff1_ 1e-13 Accession No. : 82	PKM Pathway No. : 604	0	1.5	Yes
degraded_PKM	Ajay_Bhalla_ 2007_ReacDiff1_ 1e-13 Accession No. : 82	PKM Pathway No. : 610	0	1.5	Yes
degraded_PKM	Ajay_Bhalla_ 2007_ReacDiff1_ 1e-13 Accession No. : 82	PKM Pathway No. : 616	0	1.5	Yes
degraded_PKM	Ajay_Bhalla_ 2007_ReacDiff1_ 1e-13 Accession No. : 82	PKM Pathway No. : 622	0	1.5	Yes
degraded_PKM	Ajay_Bhalla_ 2007_ReacDiff1_ 1e-13 Accession No. : 82	PKM Pathway No. : 628	0	1.5	Yes
degraded_PKM	Ajay_Bhalla_ 2007_ReacDiff1_ 1e-13 Accession No. : 82	PKM Pathway No. : 634	0	1.5	Yes
degraded_PKM	Ajay_Bhalla_ 2007_ReacDiff1_ 1e-13 Accession No. : 82	PKM Pathway No. : 640	0	1.5	Yes
degraded_PKM	Ajay_Bhalla_ 2007_ReacDiff1_ 1e-13 Accession No. : 82	PKM Pathway No. : 646	0	1.5	Yes
degraded_PKM	Ajay_Bhalla_ 2007_ReacDiff1_ 1e-13 Accession No. : 82	PKM Pathway No. : 652	0	1.5	Yes
degraded_PKM	Ajay_Bhalla_ 2007_ReacDiff1_ 1e-13 Accession No. : 82	PKM Pathway No. : 658	0	1.5	Yes
degraded_PKM	Ajay_Bhalla_ 2007_ReacDiff1_ 1e-13 Accession No. : 82	PKM Pathway No. : 664	0	1.5	Yes
degraded_PKM	Ajay_Bhalla_ 2007_ReacDiff1_ 1e-13 Accession No. : 82	PKM Pathway No. : 670	0	1.5	Yes
degraded_PKM	Ajay_Bhalla_ 2007_ReacDiff1_ 1e-13 Accession No. : 82	PKM Pathway No. : 676	0	1.5	Yes

degraded_PKM acting as a Product in a reaction in Ajay_Bhalla_2007_ReacDiff1_1e-13 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	PKM_degradation	Ajay_Bhalla_ 2007_ReacDiff1_ 1e-13 Accession No. : 82	PKM Pathway No. : 531	0.0005 (s^-1)	0 (s^-1)	-	-	Substrate PKM-zeta Product degraded_PKM
	Time-course of 2 hours.
2	PKM_degradation	Ajay_Bhalla_ 2007_ReacDiff1_ 1e-13 Accession No. : 82	PKM Pathway No. : 538	0.0005 (s^-1)	0 (s^-1)	-	-	Substrate PKM-zeta Product degraded_PKM
	Time-course of 2 hours.
3	PKM_degradation	Ajay_Bhalla_ 2007_ReacDiff1_ 1e-13 Accession No. : 82	PKM Pathway No. : 544	0.0005 (s^-1)	0 (s^-1)	-	-	Substrate PKM-zeta Product degraded_PKM
	Time-course of 2 hours.
4	PKM_degradation	Ajay_Bhalla_ 2007_ReacDiff1_ 1e-13 Accession No. : 82	PKM Pathway No. : 550	0.0005 (s^-1)	0 (s^-1)	-	-	Substrate PKM-zeta Product degraded_PKM
	Time-course of 2 hours.
5	PKM_degradation	Ajay_Bhalla_ 2007_ReacDiff1_ 1e-13 Accession No. : 82	PKM Pathway No. : 556	0.0005 (s^-1)	0 (s^-1)	-	-	Substrate PKM-zeta Product degraded_PKM
	Time-course of 2 hours.
6	PKM_degradation	Ajay_Bhalla_ 2007_ReacDiff1_ 1e-13 Accession No. : 82	PKM Pathway No. : 562	0.0005 (s^-1)	0 (s^-1)	-	-	Substrate PKM-zeta Product degraded_PKM
	Time-course of 2 hours.
7	PKM_degradation	Ajay_Bhalla_ 2007_ReacDiff1_ 1e-13 Accession No. : 82	PKM Pathway No. : 569	0.0005 (s^-1)	0 (s^-1)	-	-	Substrate PKM-zeta Product degraded_PKM
	Time-course of 2 hours.
8	PKM_degradation	Ajay_Bhalla_ 2007_ReacDiff1_ 1e-13 Accession No. : 82	PKM Pathway No. : 574	0.0005 (s^-1)	0 (s^-1)	-	-	Substrate PKM-zeta Product degraded_PKM
	Time-course of 2 hours.
9	PKM_degradation	Ajay_Bhalla_ 2007_ReacDiff1_ 1e-13 Accession No. : 82	PKM Pathway No. : 580	0.0005 (s^-1)	0 (s^-1)	-	-	Substrate PKM-zeta Product degraded_PKM
	Time-course of 2 hours.
10	PKM_degradation	Ajay_Bhalla_ 2007_ReacDiff1_ 1e-13 Accession No. : 82	PKM Pathway No. : 586	0.0005 (s^-1)	0 (s^-1)	-	-	Substrate PKM-zeta Product degraded_PKM
	Time-course of 2 hours.
11	PKM_degradation	Ajay_Bhalla_ 2007_ReacDiff1_ 1e-13 Accession No. : 82	PKM Pathway No. : 592	0.0005 (s^-1)	0 (s^-1)	-	-	Substrate PKM-zeta Product degraded_PKM
	Time-course of 2 hours.
12	PKM_degradation	Ajay_Bhalla_ 2007_ReacDiff1_ 1e-13 Accession No. : 82	PKM Pathway No. : 598	0.0005 (s^-1)	0 (s^-1)	-	-	Substrate PKM-zeta Product degraded_PKM
	Time-course of 2 hours.
13	PKM_degradation	Ajay_Bhalla_ 2007_ReacDiff1_ 1e-13 Accession No. : 82	PKM Pathway No. : 604	0.0005 (s^-1)	0 (s^-1)	-	-	Substrate PKM-zeta Product degraded_PKM
	Time-course of 2 hours.
14	PKM_degradation	Ajay_Bhalla_ 2007_ReacDiff1_ 1e-13 Accession No. : 82	PKM Pathway No. : 610	0.0005 (s^-1)	0 (s^-1)	-	-	Substrate PKM-zeta Product degraded_PKM
	Time-course of 2 hours.
15	PKM_degradation	Ajay_Bhalla_ 2007_ReacDiff1_ 1e-13 Accession No. : 82	PKM Pathway No. : 616	0.0005 (s^-1)	0 (s^-1)	-	-	Substrate PKM-zeta Product degraded_PKM
	Time-course of 2 hours.
16	PKM_degradation	Ajay_Bhalla_ 2007_ReacDiff1_ 1e-13 Accession No. : 82	PKM Pathway No. : 622	0.0005 (s^-1)	0 (s^-1)	-	-	Substrate PKM-zeta Product degraded_PKM
	Time-course of 2 hours.
17	PKM_degradation	Ajay_Bhalla_ 2007_ReacDiff1_ 1e-13 Accession No. : 82	PKM Pathway No. : 628	0.0005 (s^-1)	0 (s^-1)	-	-	Substrate PKM-zeta Product degraded_PKM
	Time-course of 2 hours.
18	PKM_degradation	Ajay_Bhalla_ 2007_ReacDiff1_ 1e-13 Accession No. : 82	PKM Pathway No. : 634	0.0005 (s^-1)	0 (s^-1)	-	-	Substrate PKM-zeta Product degraded_PKM
	Time-course of 2 hours.
19	PKM_degradation	Ajay_Bhalla_ 2007_ReacDiff1_ 1e-13 Accession No. : 82	PKM Pathway No. : 640	0.0005 (s^-1)	0 (s^-1)	-	-	Substrate PKM-zeta Product degraded_PKM
	Time-course of 2 hours.
20	PKM_degradation	Ajay_Bhalla_ 2007_ReacDiff1_ 1e-13 Accession No. : 82	PKM Pathway No. : 646	0.0005 (s^-1)	0 (s^-1)	-	-	Substrate PKM-zeta Product degraded_PKM
	Time-course of 2 hours.
21	PKM_degradation	Ajay_Bhalla_ 2007_ReacDiff1_ 1e-13 Accession No. : 82	PKM Pathway No. : 652	0.0005 (s^-1)	0 (s^-1)	-	-	Substrate PKM-zeta Product degraded_PKM
	Time-course of 2 hours.
22	PKM_degradation	Ajay_Bhalla_ 2007_ReacDiff1_ 1e-13 Accession No. : 82	PKM Pathway No. : 658	0.0005 (s^-1)	0 (s^-1)	-	-	Substrate PKM-zeta Product degraded_PKM
	Time-course of 2 hours.
23	PKM_degradation	Ajay_Bhalla_ 2007_ReacDiff1_ 1e-13 Accession No. : 82	PKM Pathway No. : 664	0.0005 (s^-1)	0 (s^-1)	-	-	Substrate PKM-zeta Product degraded_PKM
	Time-course of 2 hours.
24	PKM_degradation	Ajay_Bhalla_ 2007_ReacDiff1_ 1e-13 Accession No. : 82	PKM Pathway No. : 670	0.0005 (s^-1)	0 (s^-1)	-	-	Substrate PKM-zeta Product degraded_PKM
	Time-course of 2 hours.
25	PKM_degradation	Ajay_Bhalla_ 2007_ReacDiff1_ 1e-13 Accession No. : 82	PKM Pathway No. : 676	0.0005 (s^-1)	0 (s^-1)	-	-	Substrate PKM-zeta Product degraded_PKM
	Time-course of 2 hours.

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