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Molecule Parameter List for CaM-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 | |
| Accession Name | Accession No. | Accession Type | Pathway Link | Ajay_Bhalla_
2007_Bistable | 79 | Network |
Shared_Object_Ajay_Bhalla_2007_Bistable, PKC, PLA2,
MAPK, Ras, CaM | This is a model of ERKII signaling which is bistable due to feedback. The feedback occurs through ERKII phosphorylation of phospholipase A2 (PLA2), leading to increased production of arachidonic acid (AA), which activates protein kinase C (PKC) which activates c-Raf which is upstream of ERKII.
The model is a highly simplified variant of more detailed bistable models of MAPK signaling (Bhalla US, Iyengar R. Science. 1999 Jan 15;283(5400):381-7, Ajay SM, Bhalla US. Eur J Neurosci. 2004 Nov;20(10):2671-80) |
CaM-GEF acting as a Molecule in Ajay_Bhalla_2007_Bistable Network
| Name | Accession Name | Pathway Name | Initial Conc.
(uM) | Volume
(fL) | Buffered | | CaM-GEF | Ajay_Bhalla_
2007_Bistable
Accession No. : 79 | Ras
Pathway No. : 367 | 0 | 125.7 | No | | See Farnsworth et al Nature 376 524-527 1995 |
CaM-GEF acting as an Enzyme in Ajay_Bhalla_2007_Bistable Network
Enzyme Molecule /
Enzyme Activity | Accession Name | Pathway Name | Km (uM) | kcat (s^-1) | Ratio | Enzyme Type | Reagents | CaM-GEF /
CaM-GEF-act-ras
| Ajay_Bhalla_
2007_Bistable
Accession No. : 79 | Ras
Pathway No. : 367 | 0.505031 | 0.1 | 4 | explicit E-S complex | Substrate
GDP-Ras
Product
GTP-Ras
| | Kinetics same as GEF-bg_act-ras |
CaM-GEF acting as a Product in a reaction in Ajay_Bhalla_2007_Bistable 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_Bistable
Accession No. : 79 | Ras
Pathway No. : 367 | 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 28 Feb 2006: Increased affinity 36-fold to account for Ca input to MAPK cascade, possibly folding in other pathway inputs. 21 April 2006: Altered affinity to same level as pkm_mapk21.g model to prevent spontaneous turnon. Kf = 200, Kb = 1. |
| Database compilation and code copyright (C) 2022, Upinder S. Bhalla and NCBS/TIFR
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