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Molecule Parameter List for Ca_intracell

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

Ca_intracell 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	1	0	1	0	1	0

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

Ca_intracell acting as a Molecule in  Synaptic_Network Network

Name	Accession Name	Pathway Name	Initial Conc. (uM)	Volume (fL)	Buffered
Ca_intracell	Synaptic_ Network Accession No. : 16	Shared_Object_ Synaptic_ Network Pathway No. : 70	0.08	1000	No
This is the pool representing intracellular calcium. Resting levels are around 80 nM, but this is subject to all sorts of influxes and pumps.

Ca_intracell acting as a Summed Molecule in  Synaptic_Network Network

Accession Name	Pathway Name	Target	Input
Synaptic_ Network Accession No. : 16	Shared_Object_ Synaptic_ Network Pathway No. : 70	Ca	Ca_stim Ca_intracell
This calcium pool is treated as being buffered to a steady 0.08 uM, which is the resting level.

Ca_intracell acting as a Substrate for an Enzyme in  Synaptic_Network Network

Enzyme Molecule / Enzyme Activity	Accession Name	Pathway Name	Km (uM)	kcat (s^-1)	Ratio	Enzyme Type	Reagents
CaEPump  / Ca-pump-out	Synaptic_ Network Accession No. : 16	CaRegulation Pathway No. : 86	0.2	72	4	explicit E-S complex	Substrate Ca_intracell Product Ca-ext
From McBurney and Neering TINS 10(4) 164-169 1987. We are using the high-affinity pump here, Their numbers exceed M&L so I am reducing the rates by 10X. Need to check. k1 = 3e-3, k2 = 288, k3 = 72, n = 1000. This comes to a Km of 0.2 for Ca, and a Vmax of 72.

Ca_intracell acting as a Substrate 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
Ca-bind-to-Trans p	Synaptic_ Network Accession No. : 16	CaRegulation Pathway No. : 86	3600 (uM^-2 s^-1)	144 (s^-1)	Kd(bf) = 0.04(uM)	-	Substrate CaTransp Ca_intracell Ca_intracell Product CaTransp-2Ca
Rates from Lauffenberger and Linderman 1993 Receptors pg 200. Kd = KCa2 = 0.2 uM.