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Molecule Parameter List for 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 | |
GEF* acting as a Molecule in 3d_fold_model Network
| Name | Accession Name | Pathway Name | Initial Conc.
(uM) | Volume
(fL) | Buffered | | GEF* | 3d_fold_model
Accession No. : 8 | Ras
Pathway No. : 58 | 0 | 1000 | No | | phosphorylated and thereby activated form of GEF. See, e.g. Orita et al JBC 268:34 25542-25546 1993, Gulbins et al. It is not clear whether there is major specificity for tyr or ser/thr. |
GEF* acting as an Enzyme in 3d_fold_model Network
Enzyme Molecule /
Enzyme Activity | Accession Name | Pathway Name | Km (uM) | kcat (s^-1) | Ratio | Enzyme Type | Reagents | GEF* /
GEF*-act-ras
| 3d_fold_model
Accession No. : 8 | Ras
Pathway No. : 58 | 0.505051 | 0.02 | 4 | explicit E-S complex | Substrate
GDP-Ras
Product
GTP-Ras
| | Kinetics same as GEF-bg-act-ras |
GEF* acting as a Product of an Enzyme in 3d_fold_model Network
Enzyme Molecule /
Enzyme Activity | Accession Name | Pathway Name | Km (uM) | kcat (s^-1) | Ratio | Enzyme Type | Reagents | PKC-active /
PKC-act-GEF | 3d_fold_model
Accession No. : 8 | Shared_Object_
3d_fold_model
Pathway No. : 54 | 3.33333 | 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 |
GEF* acting as a Substrate in a reaction in 3d_fold_model 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 | 3d_fold_model
Accession No. : 8 | Ras
Pathway No. : 58 | 1
(s^-1) | 0
(s^-1) | - | - | Substrate
GEF*
Product
inact-GEF
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| Database compilation and code copyright (C) 2022, Upinder S. Bhalla and NCBS/TIFR
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