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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_
2004_PKM_MKP3_
Tuning | 77 | Network |
Shared_Object_Ajay_Bhalla_2004_PKM_MKP3_Tuning, PKC, PLA2,
PLCbeta, Ras, Gq,
MAPK, EGFR, Sos,
PLC_g, CaMKII, CaM,
PP1, PP2B, PKA,
AC, MKP3, PKM | | This model is based on Ajay SM, Bhalla US. Eur J Neurosci. 2004 Nov;20(10):2671-80. This is the feedforward model with MPK3 from figure 8a. |
CaM-GEF acting as a Molecule in Ajay_Bhalla_2004_PKM_MKP3_Tuning Network
| Name | Accession Name | Pathway Name | Initial Conc.
(uM) | Volume
(fL) | Buffered | | CaM-GEF | Ajay_Bhalla_
2004_PKM_MKP3_
Tuning
Accession No. : 77 | Ras
Pathway No. : 333 | 0 | 1.5 | No | | See Farnsworth et al Nature 376 524-527 1995 |
CaM-GEF acting as an Enzyme in Ajay_Bhalla_2004_PKM_MKP3_Tuning 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_
2004_PKM_MKP3_
Tuning
Accession No. : 77 | Ras
Pathway No. : 333 | 0.505051 | 0.02 | 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_2004_PKM_MKP3_Tuning 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_
2004_PKM_MKP3_
Tuning
Accession No. : 77 | Ras
Pathway No. : 333 | 199.998
(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 2 Aug 2004 Raised Kf from 60 to 200 to achieve higher MAPK activation following Ca stimulus for PKM models. 3 Aug 2004. Lowered Kf to 100. |
| Database compilation and code copyright (C) 2022, Upinder S. Bhalla and NCBS/TIFR
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