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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 | |||||||||||||||||||||||||||||||||||||||||||||||||||||||||||||||||||||||||||||||||||||||||
| inact-GEF 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 | 1 | 0 | 0 | 1 |
Accession and Pathway Details |
| Accession Name | Accession No. | Accession Type | Pathway Link |
| 3d_fold_model | 8 | Network | Shared_Object_3d_fold_model, PKC, MAPK, PLA2, Ras |
| 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, Ram PT, Iyengar R. Science. 2002 Aug 9;297(5583):1018-23. | |||
inact-GEF acting as a Molecule in 3d_fold_model Network
| Name | Accession Name | Pathway Name | Initial Conc. (uM) | Volume (fL) | Buffered | |
| inact-GEF | 3d_fold_model Accession No. : 8 | Ras Pathway No. : 58 | 0.1 | 1000 | 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 a Substrate for 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 | 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 | |||||||
inact-GEF acting as a Product 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 |