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Molecule Parameter List for MAPK*

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

MAPK* 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	4	2	1	1	0

Accession and Pathway Details

Accession Name	Accession No.	Accession Type	Pathway Link
MAPK_MKP1_ oscillation	9	Network	Shared_Object_MAPK_MKP1_oscillation, PKC, MAPK, PLA2, Ras
This model relates to figure 5 in Bhalla US, Iyengar R. Chaos (2001) 11(1):221-226. It includes the model used for figures 2-4 and also has MKP-1 induction by MAPK activity in the synapse. PP2A is set to 0.16 uM and MKP synthesis is varied from 5x to 40 x basal to get a range of interesting behaviours.

MAPK* acting as a Molecule in MAPK_MKP1_oscillation Network

Name	Accession Name	Pathway Name	Initial Conc. (uM)	Volume (fL)	Buffered
MAPK*	MAPK_MKP1_ oscillation Accession No. : 9	Shared_Object_ MAPK_MKP1_ oscillation Pathway No. : 59	0	1000	No
This version is phosphorylated on both the tyr and thr residues and is active: refs The rate consts are very hard to nail down. Combine Sanghera et al JBC 265(1) :52-57 with Nemenoff et al JBC 93 pp 1960 to get k3=10/sec = k2 (from Nemenoff Vmax) and k1 = (k2 + k3)/Km = 1.3e-6 Or: k3 = 10, k2 = 40, k1 = 3.25e-6

MAPK* acting as an Enzyme in MAPK_MKP1_oscillation Network

	Enzyme Molecule / Enzyme Activity	Accession Name	Pathway Name	Km (uM)	kcat (s^-1)	Ratio	Enzyme Type	Reagents
1	MAPK* / MAPK*-feedback	MAPK_MKP1_ oscillation Accession No. : 9	Shared_Object_ MAPK_MKP1_ oscillation Pathway No. : 59	25.641	10	4	explicit E-S complex	Substrate craf-1* Product craf-1**
	Ueki et al JBC 269(22):15756-15761 show the presence of this step, but not the rate consts, which are derived from Sanghera et al JBC 265(1):52-57, 1990, see the deriv in the MAPK notes.*
2	MAPK* / MAPK*	MAPK_MKP1_ oscillation Accession No. : 9	Shared_Object_ MAPK_MKP1_ oscillation Pathway No. : 59	25.641	20	4	explicit E-S complex	Substrate PLA2-cytosolic Product PLA2*
	Km = 25uM @ 50 uM ATP and 1mg/ml MBP (huge XS of substrate) Vmax = 4124 pmol/min/ml at a conc of 125 pmol/ml of enz, so: k3 = .5/sec (rate limiting) k1 = (k2 + k3)/Km = (.5 + 0)/(25*6e5) = 2e-8 (#/cell)^-1 #s from Sanghera et al JBC 265 pp 52 , 1990. From Nemenoff et al JBC 268(3):1960-1964 - using Sanghera's 1e-4 ratio of MAPK to protein, we get k3 = 7/sec from 1000 pmol/min/mg fig 5
3	MAPK* / MKP-1-phosph	MAPK_MKP1_ oscillation Accession No. : 9	Shared_Object_ MAPK_MKP1_ oscillation Pathway No. : 59	25.641	1	4	explicit E-S complex	Substrate MKP-1 Product MKP-1-ser359*
	3 Feb 2000. See Brondello et al Science 286:2514 1999. Rates assumed standard MAPK rates based on Sanghera et al JBC 265(1):53-57 1990. 24 Apr 2K, based on 12 Feb 2K: scaled by 0.1 to 3.25e-7,4,1
4	MAPK* / MKP-1-phosph2	MAPK_MKP1_ oscillation Accession No. : 9	Shared_Object_ MAPK_MKP1_ oscillation Pathway No. : 59	25.641	1	4	explicit E-S complex	Substrate MKP-1-ser359* Product MKP-1**
	3 Feb 2000. See Brondello et al Science 286:2514 1999. Rates assumed standard MAPK rates based on Sanghera et al JBC 265(1):53-57 1990. 24 Apr 2K, based on 12 Feb 2K: Scaled x0.1 to 3.25e-7,4,1

MAPK* acting as a Substrate for an Enzyme in MAPK_MKP1_oscillation Network

	Enzyme Molecule / Enzyme Activity	Accession Name	Pathway Name	Km (uM)	kcat (s^-1)	Ratio	Enzyme Type	Reagents
1	MKP-1** / MKP1*-thr-deph	MAPK_MKP1_ oscillation Accession No. : 9	MAPK Pathway No. : 61	0.0666667	1	4	Classical Michaelis-Menten V = Etot.S.Kcat/Km+S	Substrate MAPK* Product MAPK-tyr
	3 Feb 2000. Same rates as MKP1
2	MKP-1 / MKP1-thr-deph	MAPK_MKP1_ oscillation Accession No. : 9	Shared_Object_ MAPK_MKP1_ oscillation Pathway No. : 59	0.0666667	1	4	Classical Michaelis-Menten V = Etot.S.Kcat/Km+S	Substrate MAPK* Product MAPK-tyr
	See MKP1-tyr-deph

MAPK* acting as a Product of an Enzyme in MAPK_MKP1_oscillation Network

Enzyme Molecule / Enzyme Activity	Accession Name	Pathway Name	Km (uM)	kcat (s^-1)	Ratio	Enzyme Type	Reagents
MAPKK* / MAPKKthr	MAPK_MKP1_ oscillation Accession No. : 9	MAPK Pathway No. : 61	0.0462963	0.15	4	explicit E-S complex	Substrate MAPK-tyr Product MAPK*
Rate consts same as for MAPKKtyr.

MAPK* acting as a Substrate in a reaction in MAPK_MKP1_oscillation 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
translocation	MAPK_MKP1_ oscillation Accession No. : 9	MAPK Pathway No. : 61	0 (s^-1)	0.0001 (s^-1)	Keq = 5(uM)	-	Substrate MAPK* Product nuc_MAPK*
5 Feb 2000. A nuclear translocation step. The rates are set up so that not too much MAPK gets siphoned off. 24 Apr 2000. Based on 12 Feb model. Rates slowed down x 0.02 to kf=2e-5 kb=1e-4

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