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Molecule Parameter List for Rec-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-Gq acting as a Molecule in Synaptic_Network Network
| Name | Accession Name | Pathway Name | Initial Conc.
(uM) | Volume
(fL) | Buffered | | Rec-Gq | Synaptic_
Network
Accession No. : 16 | Gq
Pathway No. : 74 | 0 | 1000 | No | | Turns out that a large fraction of the the receptor binds to the G-protein even in the absence of ligand. This pool represents this step. Fraction of Rec-Gq is 44% of receptor, from Fay et al 1991 Biochem 30:5066-5075 Since this is not the same receptor, this value is a bit doubtful. Still, we adjust the rate consts in Rec-bind-Gq to match. |
Rec-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 | | 1 | 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 | | 2 | Antag-bind-Rec-G
q | Synaptic_
Network
Accession No. : 16 | Gq
Pathway No. : 74 | 60
(uM^-1 s^-1) | 0.01
(s^-1) | Kd(bf) = 0.0002(uM) | - | Substrate
Rec-Gq
mGluRAntag
Product
Blocked-rec-Gq
| | | The rate consts give a total binding affinity of under 0.2 nM, good for a strong antagonist. |
Rec-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 | | Rec-bind-Gq | Synaptic_
Network
Accession No. : 16 | Gq
Pathway No. : 74 | 0.6
(uM^-1 s^-1) | 1
(s^-1) | Kd(bf) = 1.6667(uM) | - | Substrate
G-GDP
mGluR
Product
Rec-Gq
| | From Berstein et al 1992 JBC 267(12):8081-8088 we know that 15-40% of Gq binds, GTP_gamma_S. Also about 20-30% of Gq is bound to GTP. To get to these values the receptor-Gq amount should be similar. These rates are designed to give that steady state with a fast tau of 1 sec. |
| Database compilation and code copyright (C) 2022, Upinder S. Bhalla and NCBS/TIFR
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