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Molecule Parameter List for cAMP.R2C2

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
cAMP.R2C2 participated asMoleculeSum total ofEnzymeSubstrate of an enzymeProduct of an enzymeSubstrate in ReactionProduct in Reaction
No. of occurrences1000011

Accession and Pathway Details
Accession NameAccession No.Accession TypePathway Link
PKA_200347Network
Shared_Object_PKA_2003,  PKA,  AC,  
Gs 
This model consists of receptor-ligand interaction, G-protein activation, Adenylyl cyclase mediated formation of cAMP and activation of PKA in the neuron. Demonstration programs using this model described in Bhalla US. (2004) Biophys J. 87(2):733-44 to generate a dose-response curve using stochastic calculations are available here.

cAMP.R2C2 acting as a Molecule in  PKA_2003 Network
NameAccession NamePathway NameInitial Conc.
(uM)		Volume
(fL)		Buffered
cAMP.R2C2PKA_2003
Accession No. : 47		PKA
Pathway No. : 196		01000No
CoInit was .0624

cAMP.R2C2 acting as a Substrate in a reaction in  PKA_2003 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.
NameAccession NamePathway NameKfKbKdtauReagents
  • cAMP-bind-site-B
    2
    		• PKA_2003
    Accession No. : 47    		PKA
    Pathway No. : 196    		54
    (uM^-1 s^-1)    		33
    (s^-1)    		Kd(bf) = 0.6111(uM)-Substrate
    cAMP
    cAMP.R2C2

    Product
    cAMP2.R2C2
    For now let us set this to the same Km (1e-7M) as site B. This gives kf/kb = .7e-7M * 1e6 / (6e5^2) : 1/(6e5^2) = 2e-13:2.77e-12 Smith et al (1981 Mar) Proc Natl Acad Sci U S A 78(3) 1591-1595 have better values.
    They say that this is cooperative, so the consts are now kf/kb =8.3e-4

    cAMP.R2C2 acting as a Product in a reaction in      PKA_2003 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.
    NameAccession NamePathway NameKfKbKdtauReagents
  • cAMP-bind-site-B
    1
    		• PKA_2003
    Accession No. : 47    		PKA
    Pathway No. : 196    		54
    (uM^-1 s^-1)    		33
    (s^-1)    		Kd(bf) = 0.6111(uM)-Substrate
    R2C2
    cAMP

    Product
    cAMP.R2C2
    Hasler et al (1992 jun) FASEB J. 6(9):2735-41 say Kd =1e-7M for type II, 5.6e-8 M for type I.
    Take mean which comes to 2e-13 #/cell Smith et al (1981 Mar) Proc Natl Acad Sci U S A 78(3) 1591-1595 have better data.
    First kf/kb=2.1e7/M = 3.5e-5 (#/cell).Ogreid and Doskeland (1981 Jul 6) FEBS Lett 129(2) 287-292 have figs suggesting time course of complete assoc is < 1 min.


    Database compilation and code copyright (C) 2022, Upinder S. Bhalla and NCBS/TIFR
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