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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_traff_ model0 | 59 | Network | Shared_Object_AMPAR_traff_model0, CaMKII, CaM, PP1, PP2B, PP1_PSD, PKA, AC, AMPAR, AMPAR_memb | This is model 0 from Hayer and Bhalla, PLoS Comput Biol 2005. It has a bistable model of AMPAR traffick, plus a
non-bistable model of CaMKII. This differs from the reference model (model 1) in that model0 lacks degradation and turno
ver reactions for AMPAR. |
CaM.PDE1 acting as a Molecule in AMPAR_traff_model0 Network
Name | Accession Name | Pathway Name | Initial Conc. (uM) | Volume (fL) | Buffered | CaM.PDE1 | AMPAR_traff_ model0 Accession No. : 59 | AC Pathway No. : 241 | 0 | 0.09 | No | Activity up 6x following Ca-CaM binding. |
CaM.PDE1 acting as an Enzyme in AMPAR_traff_model0 Network
Enzyme Molecule / Enzyme Activity | Accession Name | Pathway Name | Km (uM) | kcat (s^-1) | Ratio | Enzyme Type | Reagents | CaM.PDE1 / CaM.PDE1
| AMPAR_traff_ model0 Accession No. : 59 | AC Pathway No. : 241 | 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_traff_model0 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_traff_ model0 Accession No. : 59 | AC Pathway No. : 241 | 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 This Copyright is applied to ensure that the contents of this database remain freely available. Please see FAQ for details. |
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