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Molecule Parameter List for CaM_dash_Ca4 | 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_Ca4 acting as a Molecule in mRNA synthesis Network
| Name | Accession Name | Pathway Name | Initial Conc.
(uM) | Volume
(fL) | Buffered | | CaM_dash_Ca4 | mRNA synthesis
Accession No. : 94 | kinetics
Pathway No. : 1112 | 0 | 1000 | No | | |
CaM_dash_Ca4 acting as a Product of an Enzyme in mRNA synthesis Network
CaM_dash_Ca4 acting as a Substrate 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 | | 1 | CaM_dash_bind_
dash_AC1 | mRNA synthesis
Accession No. : 94 | kinetics
Pathway No. : 1112 | 49.9998
(uM^-1 s^-1) | 1
(s^-1) | Kd(bf) = 0.02(uM) | - | Substrate
AC1
CaM_dash_Ca4
Product
AC1_dash_CaM
| | | | | 2 | CaM_bind_PDE1 | mRNA synthesis
Accession No. : 94 | kinetics
Pathway No. : 1112 | 720
(uM^-1 s^-1) | 5
(s^-1) | Kd(bf) = 0.0069(uM) | - | Substrate
CaM_dash_Ca4
PDE1
Product
CaM.PDE1
| | | | | 3 | 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 | | 4 | CaMCa4_dash_
bind_dash_CaNAB | mRNA synthesis
Accession No. : 94 | kinetics
Pathway No. : 1112 | 600
(uM^-1 s^-1) | 1
(s^-1) | Kd(bf) = 0.0017(uM) | - | Substrate
CaM_dash_Ca4
CaNAB_dash_Ca4
Product
CaMCa4_dash_
CaNAB
| | | | | 5 | CaMKIVcomplx | mRNA synthesis
Accession No. : 94 | kinetics
Pathway No. : 1112 | 0.0133
(uM^-1 s^-1) | 0.01
(s^-1) | Kd(bf) = 0.7508(uM) | - | Substrate
CaMKIVc
CaM_dash_Ca4
Product
CaMKIV_CaM_Ca_c
| | | Kd from PMID: 9705275 | | 6 | CaMKKcomplx | mRNA synthesis
Accession No. : 94 | kinetics
Pathway No. : 1112 | 4.05
(uM^-1 s^-1) | 0.02
(s^-1) | Kd(bf) = 0.0049(uM) | - | Substrate
CaMKK_c
CaM_dash_Ca4
Product
CaMKK_CaM_Ca_c
| | | Kd from PMID: 9705275 |
CaM_dash_Ca4 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_Ca3_
dash_bind_dash_
Ca | mRNA synthesis
Accession No. : 94 | kinetics
Pathway No. : 1112 | 0.465
(uM^-1 s^-1) | 10
(s^-1) | Kd(bf) = 21.5051(uM) | - | Substrate
Ca
CaM_dash_Ca3
Product
CaM_dash_Ca4
| | Use K3 = 21.5 uM here from Stemmer and Klee table 3. kb/kf =21.5 * 6e5 so kf = 7.75e-7, kb = 10 |
| Database compilation and code copyright (C) 2022, Upinder S. Bhalla and NCBS/TIFR
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