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Molecule Parameter List for neurogranin_PSD

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
neurogranin_PSD participated asMoleculeSum total ofEnzymeSubstrate of an enzymeProduct of an enzymeSubstrate in ReactionProduct in Reaction
No. of occurrences1001111

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.

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

    Accession No. : 64
  • CaM
    Pathway No. : 273
    100.01No
    Also known as RC3 and p17 and BICKS. Conc in brain >> 2 uM from Martzen and Slemmon J neurosci 64 92-100 1995 but others say less without any #s. Conc in dend spines is much higher than overall, so it could be anywhere from 2 uM to 50. We will estimate 10 uM as a starting point. Gerendasy et al JBC 269:35 22420-22426 1994 have a skeleton model (no numbers) indicating CaM-Ca(n) binding ....

    neurogranin_PSD acting as a Substrate for an Enzyme in  
    AMPAR_CaMKII_strong_coupling Network
    Enzyme Molecule /
    Enzyme Activity
    Accession NamePathway NameKm (uM)kcat (s^-1)RatioEnzyme TypeReagents
    PKC-active  /

  • PKC-phosph-neuro
    granin_
    PSD
  • AMPAR_CaMKII_
    strong_coupling

    Accession No. : 64
  • Shared_Object_
    AMPAR_CaMKII_
    strong_coupling

    Pathway No. : 271
  • 28.62730.584.03448explicit E-S complexSubstrate
    neurogranin_PSD

    Product
  • neurogranin*_
    PSD

  • Rates from Huang et al ABB 305:2 570-580 1993

    neurogranin_PSD acting as a Product of an Enzyme in  
    AMPAR_CaMKII_strong_coupling Network
    Enzyme Molecule /
    Enzyme Activity
    Accession NamePathway NameKm (uM)kcat (s^-1)RatioEnzyme TypeReagents
    CaM_Ca_n-CaNAB  /
  • dephosph_
    neurogranin_PSD
  • AMPAR_CaMKII_
    strong_coupling

    Accession No. : 64
  • Shared_Object_
    AMPAR_CaMKII_
    strong_coupling

    Pathway No. : 271
  • 10.0120.673.98507explicit E-S complexSubstrate
  • neurogranin*_
    PSD


    Product
    neurogranin_PSD
  • From Seki et al ABB 316(2):673-679

    neurogranin_PSD acting as a Substrate 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

  • neurogranin-bind
    -CaM_
    PSD
  • AMPAR_CaMKII_
    strong_coupling

    Accession No. : 64
  • CaM
    Pathway No. : 273
    0.3
    (uM^-1 s^-1)
    1
    (s^-1)
    Kd(bf) = 3.3333(uM)-Substrate
    CaM-PSD
    neurogranin_PSD

    Product

  • neurogranin-CaM_
    PSD

  • Surprisingly, no direct info on rates from neurogranin at this time. These rates are based on GAP-43 binding studies. As GAP-43 and neurogranin share near identity in the CaM/PKC binding regions, and also similarity in phosph and dephosph rates, I am borrowing GAP-43 kinetic info. See Alexander et al JBC 262:13 6108-6113 1987

    neurogranin_PSD 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

  • dephosph-neurogr
    anin_
    PSD
  • AMPAR_CaMKII_
    strong_coupling

    Accession No. : 64
  • CaM
    Pathway No. : 273
    0.005
    (s^-1)
    0
    (s^-1)
    --Substrate
  • neurogranin*_
    PSD


    Product
    neurogranin_PSD
  • This is put in to keep the basal levels of neurogranin* experimentally reasonable. From various papers, specially Ramakers et al JBC 270:23 1995 13892-13898, it looks like the basal level of phosph is between 20 and 40%. I est around 25 % The kf of 0.005 gives around this level at basal PKC activity levels of 0.1 uM active PKC.



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