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Molecule Parameter List for Rec-Glu-Gq | 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 |
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 |
Rec-Glu-Gq acting as a Molecule in Synaptic_Network Network
| Name | Accession Name | Pathway Name | Initial Conc.
(uM) | Volume
(fL) | Buffered | | Rec-Glu-Gq | Synaptic_
Network
Accession No. : 16 | Gq
Pathway No. : 74 | 0 | 1000 | No | | This is the ternary complex of receptor, ligand and G protein. |
Rec-Glu-Gq 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 | | 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. |
Rec-Glu-Gq 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 | Rec-Glu-bind-Gq | Synaptic_
Network
Accession No. : 16 | Gq
Pathway No. : 74 | 0.006
(uM^-1 s^-1) | 0.0001
(s^-1) | Kd(bf) = 0.0167(uM) | - | Substrate
G-GDP
Rec-Glu
Product
Rec-Glu-Gq
| | | This is the k1-k2 equivalent for enzyme complex formation in the binding of Rec-Glu to Gq. See Fay et al Biochem 30 5066-5075 1991. Closer reading of Fay et al suggests that kb <= 0.0001, so kf = 1e-8 by detailed balance. This reaction appears to be neglible. | | 2 | Glu-bind-Rec-Gq | Synaptic_
Network
Accession No. : 16 | Gq
Pathway No. : 74 | 16.8
(uM^-1 s^-1) | 0.1
(s^-1) | Kd(bf) = 0.006(uM) | - | Substrate
Glu
Rec-Gq
Product
Rec-Glu-Gq
| | | From Fay et al kb3 = kb = 1.06e-3 which is rather slow. k+1 = kf = 2.8e7 /M/sec= 4.67e-5/sec use 5e-5. However, the Kd from Martin et al may be more appropriate, as this is Glu not the system from Fay. kf = 2.8e-5, kb = 10 Let us compromise. since we have the Fay model, keep kf = k+1 = 2.8e-5. But kb (k-3) is .01 * k-1 from Fay. Scaling by .01, kb = .01 * 10 = 0.1 |
| Database compilation and code copyright (C) 2022, Upinder S. Bhalla and NCBS/TIFR
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