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Molecule Parameter List for CaM_dash_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 | | mRNA synthesis | 94 | Network |
kinetics, compartment_1, compartment_2 | | The model consists of three major pathways: Calcium-calmodulin dependent protein kinase IV (CaMKIV), Mitogen-activated protein kinase (MAPK) and Protein Phosphatase 1 (PP1). Each of these converged on CREB activation. We also modeled further interactions with Transducer of regulated CREB activity 1 (TORC1) and the protein kinase A (PKA) pathway. |
CaM_dash_GEF acting as a Molecule in mRNA synthesis Network
| Name | Accession Name | Pathway Name | Initial Conc.
(uM) | Volume
(fL) | Buffered | | CaM_dash_GEF | mRNA synthesis
Accession No. : 94 | kinetics
Pathway No. : 1112 | 0 | 1000 | No | | See Farnsworth et al Nature 376 524-527 1995 |
CaM_dash_GEF acting as an Enzyme in mRNA synthesis Network
Enzyme Molecule /
Enzyme Activity | Accession Name | Pathway Name | Km (uM) | kcat (s^-1) | Ratio | Enzyme Type | Reagents | CaM_dash_GEF /
CaM_dash_GEF_
dash_act_dash_
ras
| mRNA synthesis
Accession No. : 94 | kinetics
Pathway No. : 1112 | 0.5051 | 0.02 | 4 | explicit E-S complex | Substrate
GDP_dash_Ras
Product
GTP_dash_Ras
| | Kinetics same as GEF-bg_act-ras |
CaM_dash_GEF acting as a Product in a reaction in mRNA synthesis 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_dash_bind_
dash_GEF | mRNA synthesis
Accession No. : 94 | kinetics
Pathway No. : 1112 | 60
(uM^-1 s^-1) | 1
(s^-1) | Kd(bf) = 0.0167(uM) | - | Substrate
CaM_dash_Ca4
inact_dash_GEF
Product
CaM_dash_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 |
| Database compilation and code copyright (C) 2022, Upinder S. Bhalla and NCBS/TIFR
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