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Molecule Parameter List for CaM.PDE1 | 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 | AMPAR_CaMKII_
strong_coupling | 64 | Network |
Shared_Object_AMPAR_CaMKII_strong_coupling, CaMKII, CaM,
PP1, AMPAR_memb, PP2B,
PKA, AC, PP1_PSD,
AMPAR | | This is a model of tight coupling between the AMPAR trafficking bistability, and the CaMKII autophosphorylation bistability. In this model, the CaMKII activity is self sustaining only when AMPAR is turned on. Further, CaMKII turns on when AMPAR is turned on. |
CaM.PDE1 acting as a Molecule in AMPAR_CaMKII_strong_coupling Network
| Name | Accession Name | Pathway Name | Initial Conc.
(uM) | Volume
(fL) | Buffered | | CaM.PDE1 | AMPAR_CaMKII_
strong_coupling
Accession No. : 64 | AC
Pathway No. : 278 | 0 | 0.09 | No | | Activity up 6x following Ca-CaM binding. |
CaM.PDE1 acting as an Enzyme in AMPAR_CaMKII_strong_coupling Network
Enzyme Molecule /
Enzyme Activity | Accession Name | Pathway Name | Km (uM) | kcat (s^-1) | Ratio | Enzyme Type | Reagents | CaM.PDE1 /
CaM.PDE1
| AMPAR_CaMKII_
strong_coupling
Accession No. : 64 | AC
Pathway No. : 278 | 39.6831 | 10 | 4 | explicit E-S complex | Substrate
cAMP
Product
AMP
| | Max activity ~10umol/min/mg in presence of lots of CaM. Affinity is low, 40 uM. k3 = 10, k2 = 40, k1 = (50/40) / 6e5. |
CaM.PDE1 acting as a Product in a reaction in AMPAR_CaMKII_strong_coupling 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_PDE1 | AMPAR_CaMKII_
strong_coupling
Accession No. : 64 | AC
Pathway No. : 278 | 719.982
(uM^-1 s^-1) | 5
(s^-1) | Kd(bf) = 0.0069(uM) | - | Substrate
CaM-Ca4
PDE1
Product
CaM.PDE1
| | For olf epi PDE1, affinity is 7 nM. Assume same for brain. Reaction should be pretty fast. Assume kb = 5/sec. Then kf = 5 / (0.007 * 6e5) = 1.2e-3 |
| Database compilation and code copyright (C) 2022, Upinder S. Bhalla and NCBS/TIFR
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