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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 asMoleculeSum total ofEnzymeSubstrate of an enzymeProduct of an enzymeSubstrate in ReactionProduct in Reaction
No. of occurrences1010001

Accession and Pathway Details
Accession NameAccession No.Accession TypePathway Link
  • AMPAR_CaMKII_
    strong_coupling
  • 64Network
    Shared_Object_AMPAR_CaMKII_strong_coupling CaMKII CaM 
    PP1 AMPAR_memb PP2B 
    PKA AC PP1_PSD 
    AMPAR 
    This is a model of tight coupling between the AMPAR trafficking bistability, and the CaMKII autophosphorylation bistability. In this model, the CaMKII activity is self sustaining only when AMPAR is turned on. Further, CaMKII turns on when AMPAR is turned on.

    CaM.PDE1 acting as a Molecule in  
    AMPAR_CaMKII_strong_coupling Network
    NameAccession NamePathway NameInitial Conc.
    (uM)
    Volume
    (fL)
    Buffered
    CaM.PDE1
  • AMPAR_CaMKII_
    strong_coupling

    Accession No. : 64
  • AC
    Pathway No. : 278
    00.09No
    Activity up 6x following Ca-CaM binding.

    CaM.PDE1 acting as an Enzyme in  
    AMPAR_CaMKII_strong_coupling Network
    Enzyme Molecule /
    Enzyme Activity
    Accession NamePathway NameKm (uM)kcat (s^-1)RatioEnzyme TypeReagents
    CaM.PDE1 /
    CaM.PDE1
  • AMPAR_CaMKII_
    strong_coupling

    Accession No. : 64
  • AC
    Pathway No. : 278
    39.6831104explicit E-S complexSubstrate
    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_CaMKII_strong_coupling 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
    CaM_bind_PDE1
  • AMPAR_CaMKII_
    strong_coupling

    Accession No. : 64
  • AC
    Pathway No. : 278
    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
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