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Molecule Parameter List for BetaGamma

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

BetaGamma 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	0	0	0	2	2

Accession and Pathway Details

Accession Name	Accession No.	Accession Type	Pathway Link
Synaptic_ Network	16	Network	Shared_Object_Synaptic_Network,  PKC,  PLA2,   PLCbeta,  Gq,  MAPK,   Ras,  EGFR,  Sos,   PLC_g,  CaMKII,  CaM,   PP1,  PP2B,  PKA,   AC,  CaRegulation
This model is an annotated version of the synaptic signaling network. The primary reference is Bhalla US and Iyengar R. Science (1999) 283(5400):381-7 but several of the model pathways have been updated. Bhalla US Biophys J. 2002 Aug;83(2):740-52 Bhalla US J Comput Neurosci. 2002 Jul-Aug;13(1):49-62

BetaGamma acting as a Molecule in  Synaptic_Network Network

Name	Accession Name	Pathway Name	Initial Conc. (uM)	Volume (fL)	Buffered
BetaGamma	Synaptic_ Network Accession No. : 16	Shared_Object_ Synaptic_ Network Pathway No. : 70	0	1000	No
The betagamma subunits of Gq. This is an approximation to the possible combinations of betagamma subunits. Here they are all treated as a single pool.

BetaGamma acting as a Substrate in a reaction in  Synaptic_Network 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	Trimerize-G	Synaptic_ Network Accession No. : 16	Gq Pathway No. : 74	6 (uM^-1 s^-1)	0 (s^-1)	-	-	Substrate BetaGamma G*GDP Product G-GDP
	kf == kg3 = 1e-5 /cell/sec. As usual, there is no back-reaction kb = 0
2	bg-act-GEF	Synaptic_ Network Accession No. : 16	Ras Pathway No. : 76	6 (uM^-1 s^-1)	1 (s^-1)	Kd(bf) = 0.1667(uM)	-	Substrate BetaGamma inact-GEF Product GEF-Gprot-bg
	SoS/GEF is present at 50 nM ie 3e4/cell. BetaGamma maxes out at 9e4. Assume we have 1/3 of the GEF active when the BetaGamma is 1.5e4. so 1e4 * kb = 2e4 * 1.5e4 * kf, so kf/kb = 3e-5. The rate of this equil should be reasonably fast, say 1/sec

BetaGamma acting as a Product in a reaction in  Synaptic_Network 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	Basal-Act-G	Synaptic_ Network Accession No. : 16	Gq Pathway No. : 74	0.0001 (s^-1)	0 (uM^-1 s^-1)	-	-	Substrate G-GDP Product BetaGamma G*GTP
	This is the basal exchange of GTP for GDP. So slow as to be nearly negligible.
2	Activate-Gq	Synaptic_ Network Accession No. : 16	Gq Pathway No. : 74	0.01 (s^-1)	0 (uM^-2 s^-1)	-	-	Substrate Rec-Glu-Gq Product BetaGamma G*GTP Rec-Glu
	This reaction is the critical one for activation of Gq. It probably encapsulates multiple steps. In this approximation the receptor-ligand- Gprotein complex splits up into GTP.Galpha, rec.ligand complex, and Gbetagamma. There is a hidden step of exchange of GDP for GTP. The reaction does not take these into account since it is assumed that both GTP and GDP levels are tightly regulated by metabolic control. This is the kcat==k3 stage of the Rec-Glu ezymatic activation of Gq. From Berstein et al actiation is at .35 - 0.7/min From Fay et al Biochem 30 5066-5075 1991 kf = .01/sec From Nakamura et al J physiol Lond 474:1 35-41 1994 see time courses. Also (Berstein) 15-40% of gprot is in GTP-bound form on stim.