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Molecule Parameter List for CaNAB-Ca2

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
CaNAB-Ca2 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
  • AMPAR_traff_
    model1
  • 60Network
    Shared_Object_AMPAR_traff_model1 CaMKII CaM 
    PP1 PP2B PP1_PSD 
    PKA AC AMPAR 
    AMPAR_memb 
    This is the basic model of AMPAR trafficking bistability. It is based on Hayer and Bhalla, PLoS Comput. Biol. 2005. It includes the degradation and turnover of AMPARs. The CaMKII portion of the model is not bistable.

    CaNAB-Ca2 acting as a Molecule in  
    AMPAR_traff_model1 Network
    NameAccession NamePathway NameInitial Conc.
    (uM)
    Volume
    (fL)
    Buffered
    CaNAB-Ca2
  • AMPAR_traff_
    model1

    Accession No. : 60
  • PP2B
    Pathway No. : 248
    00.09No

    CaNAB-Ca2 acting as a Substrate in a reaction in  
    AMPAR_traff_model1 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
  • Ca-bind-CaNAB-Ca
    2
  • AMPAR_traff_
    model1

    Accession No. : 60
  • PP2B
    Pathway No. : 248
    3.6001
    (uM^-2 s^-1)
    1
    (s^-1)
    Kd(af) = 0.527(uM)-Substrate
    Ca
    Ca
    CaNAB-Ca2

    Product
    CaNAB-Ca4
    This process is probably much more complicated and involves CaM. However, as I can't find detailed info I am bundling this into a single step. Based on Steemer and Klee pg 6863, the Kact is 0.5 uM. kf/kb = 1/(0.5 * 6e5)^2 = 1.11e-11

    CaNAB-Ca2 acting as a Product in a reaction in  
    AMPAR_traff_model1 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
    Ca-bind-CaNAB
  • AMPAR_traff_
    model1

    Accession No. : 60
  • PP2B
    Pathway No. : 248
    10008
    (uM^-2 s^-1)
    1
    (s^-1)
    Kd(af) = 0.01(uM)-Substrate
    Ca
    Ca
    CaNAB

    Product
    CaNAB-Ca2
    going on the experience with CaM, we put the fast (high affinity) sites first. We only know (Stemmer and Klee) that the affinity is < 70 nM. Assuming 10 nM at first, we get kf = 2.78e-8, kb = 1. Try 20 nM. kf = 7e-9, kb = 1 



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