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Molecule Parameter List for cAMP-PDE | 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 | Synaptic_
Network | 16 | Network |
Shared_Object_Synaptic_Network, PKC, PLA2,
PLCbeta, Gq, MAPK,
Ras, EGFR, Sos,
PLC_g, CaMKII, CaM,
PP1, PP2B, PKA,
AC, CaRegulation | This model is an annotated version of the synaptic signaling network.
The primary reference is Bhalla US and Iyengar R. Science (1999) 283(5400):381-7 but several of the model pathways have been updated.
Bhalla US Biophys J. 2002 Aug;83(2):740-52
Bhalla US J Comput Neurosci. 2002 Jul-Aug;13(1):49-62 |
cAMP-PDE acting as a Molecule in Synaptic_Network Network
| Name | Accession Name | Pathway Name | Initial Conc.
(uM) | Volume
(fL) | Buffered | | cAMP-PDE | Synaptic_
Network
Accession No. : 16 | AC
Pathway No. : 85 | 0.45 | 1000 | No | | The levels of the PDE are not known at this time. However, enough kinetic info and info about steady-state levels of cAMP etc are around to make it possible to estimate this. |
cAMP-PDE acting as an Enzyme in Synaptic_Network Network
Enzyme Molecule /
Enzyme Activity | Accession Name | Pathway Name | Km (uM) | kcat (s^-1) | Ratio | Enzyme Type | Reagents | cAMP-PDE /
PDE
| Synaptic_
Network
Accession No. : 16 | AC
Pathway No. : 85 | 19.8413 | 10 | 4 | explicit E-S complex | Substrate
cAMP
Product
AMP
| | Best rates are from Conti et al Biochem 34 7979-7987 1995. Though these are for the Sertoli cell form, it looks like they carry nicely into alternatively spliced brain form. See Sette et al JBC 269:28 18271-18274 Borisy et al J Neurosci 12(3):915-923 also have estimates with a Km of 40 uM specifically for brain PDE. The Vmax is very low and it looks like the purification is not good. Combining this with data from the Conti paper and the Sette paper, it looks like a fair compromise is Km ~20 uM, Vmax est ~ 10 umol/min/mg or about 10/sec. |
cAMP-PDE acting as a Substrate for an Enzyme in Synaptic_Network Network
cAMP-PDE acting as a Product in a reaction in Synaptic_Network 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 | | dephosph-PDE | Synaptic_
Network
Accession No. : 16 | AC
Pathway No. : 85 | 0.1
(s^-1) | 0
(s^-1) | - | - | Substrate
cAMP-PDE*
Product
cAMP-PDE
| | The rates for this are poorly constrained. In adipocytes (probably a different PDE) the dephosphorylation is complete within 15 min, but there are no intermediate time points so it could be much faster. Identity of phosphatase is still unknown. |
| Database compilation and code copyright (C) 2022, Upinder S. Bhalla and NCBS/TIFR
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