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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

CaM.PDE1 participated as	Molecule	Sum total of	Enzyme	Substrate of an enzyme	Product of an enzyme	Substrate in Reaction	Product in Reaction
No. of occurrences	1	0	1	0	0	0	1

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

CaM.PDE1 acting as a Molecule in  Synaptic_Network Network

Name	Accession Name	Pathway Name	Initial Conc. (uM)	Volume (fL)	Buffered
CaM.PDE1	Synaptic_ Network Accession No. : 16	AC Pathway No. : 85	0	1000	No
PDE1 is the 66 KDa form which binds CaM. Borisy et al J Neurosci 12(3):915-923 report a 6x stimulation with calcium.

CaM.PDE1 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
CaM.PDE1 / CaM.PDE1	Synaptic_ Network Accession No. : 16	AC Pathway No. : 85	39.6825	10	4	explicit E-S complex	Substrate cAMP Product AMP
From Conti et al 1995 Biochem 34:7979-7987 the stimulated Vmax is ~10umol/min/mg in presence of lots of CaM. This works out to about 10/sec. Affinity is low, 40 uM.

CaM.PDE1 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
CaM_bind_PDE1	Synaptic_ Network Accession No. : 16	AC Pathway No. : 85	720 (uM^-1 s^-1)	5 (s^-1)	Kd(bf) = 0.0069(uM)	-	Substrate CaM-Ca4 PDE1 Product CaM.PDE1
Borisy et al J Neurosci 12(3):915-923 For olf epithelium PDE1, affinity is 7 nM CaM and about 2 uM Ca which is consistent with it binding Ca4.CaM at 7 nM. Assume same for brain. Reaction should be pretty fast. Assume kb = 5/sec.