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Molecule Parameter List for inact-GEF | 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 | |
inact-GEF acting as a Molecule in Ajay_Bhalla_2007_PKM Network
| Name | Accession Name | Pathway Name | Initial Conc.
(uM) | Volume
(fL) | Buffered | | inact-GEF | Ajay_Bhalla_
2007_PKM
Accession No. : 80 | Ras
Pathway No. : 372 | 0.1 | 1.5 | No | | Assume that SoS is present only at 50 nM. Revised to 100 nM to get equil to experimentally known levels. |
inact-GEF acting as an Enzyme in Ajay_Bhalla_2007_PKM Network
Enzyme Molecule /
Enzyme Activity | Accession Name | Pathway Name | Km (uM) | kcat (s^-1) | Ratio | Enzyme Type | Reagents | inact-GEF /
basal_GEF_
activity
| Ajay_Bhalla_
2007_PKM
Accession No. : 80 | Ras
Pathway No. : 372 | 10.1014 | 0.02 | 4 | explicit E-S complex | Substrate
GDP-Ras
Product
GTP-Ras
| | |
inact-GEF acting as a Substrate for an Enzyme in Ajay_Bhalla_2007_PKM Network
Enzyme Molecule /
Enzyme Activity | Accession Name | Pathway Name | Km (uM) | kcat (s^-1) | Ratio | Enzyme Type | Reagents | PKC-active /
PKC-act-GEF | Ajay_Bhalla_
2007_PKM
Accession No. : 80 | Shared_Object_
Ajay_Bhalla_
2007_PKM
Pathway No. : 369 | 3.33331 | 4 | 4 | explicit E-S complex | Substrate
inact-GEF
Product
GEF*
| | Rate consts from PKC-act-raf. This reaction activates GEF. It can lead to at least 2X stim of ras, and a 2X stim of MAPK over and above that obtained via direct phosph of c-raf. Note that it is a push-pull reaction, and there is also a contribution through the phosphorylation and inactivation of GAPs. The original PKC-act-raf rate consts are too fast. We lower K1 by 10 X |
inact-GEF acting as a Substrate in a reaction in Ajay_Bhalla_2007_PKM 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 | | CaM-bind-GEF | Ajay_Bhalla_
2007_PKM
Accession No. : 80 | Ras
Pathway No. : 372 | 199.999
(uM^-1 s^-1) | 1
(s^-1) | Kd(bf) = 0.005(uM) | - | Substrate
CaM-Ca4
inact-GEF
Product
CaM-GEF
| | We have no numbers for this. It is probably between the two extremes represented by the CaMKII phosph states, and I have used guesses based on this. kf=1e-4 kb=1 The reaction is based on Farnsworth et al Nature 376 524-527 1995 |
inact-GEF acting as a Product in a reaction in Ajay_Bhalla_2007_PKM 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 | | dephosph-GEF | Ajay_Bhalla_
2007_PKM
Accession No. : 80 | Ras
Pathway No. : 372 | 1
(s^-1) | 0
(s^-1) | - | - | Substrate
GEF*
Product
inact-GEF
|
| Database compilation and code copyright (C) 2022, Upinder S. Bhalla and NCBS/TIFR
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