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Molecule Parameter List for AMPAR_bulk

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
AMPAR_bulk participated asMoleculeSum total ofEnzymeSubstrate of an enzymeProduct of an enzymeSubstrate in ReactionProduct in Reaction
No. of occurrences1000010

Accession and Pathway Details
Accession NameAccession No.Accession TypePathway Link
  • AMPAR_CaMKII_
    weak_coupling
  • 65Network
    Shared_Object_AMPAR_CaMKII_weak_coupling CaMKII CaM 
    PP1 PP2B PP1_PSD 
    AMPAR PKA AC 
    AMPAR_memb PP1_CaMKII_PSD CaMKII_PSD 
    This is a model of weak coupling between the AMPAR traffikcing bistability, and the CaMKII autophosphorylation bistability. In this model, there are three stable states: Both off, AMPAR on, or both on. The fourth possible state: CaMKII on but AMPAR off, is not truly stable, since over the course of hours the AMPAR also turns on.

    AMPAR_bulk acting as a Molecule in  
    AMPAR_CaMKII_weak_coupling Network
    NameAccession NamePathway NameInitial Conc.
    (uM)
    Volume
    (fL)
    Buffered
    AMPAR_bulk
  • AMPAR_CaMKII_
    weak_coupling

    Accession No. : 65
  • Shared_Object_
    AMPAR_CaMKII_
    weak_coupling

    Pathway No. : 281
  • 0.00935Yes

    AMPAR_bulk acting as a Substrate in a reaction in  
    AMPAR_CaMKII_weak_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
    turnover
  • AMPAR_CaMKII_
    weak_coupling

    Accession No. : 65
  • Shared_Object_
    AMPAR_CaMKII_
    weak_coupling

    Pathway No. : 281
  • 0.018
    (s^-1)
    1
    (s^-1)
    Not applicable**-Substrate
    AMPAR_bulk

    Product
    A_B
    Represents both synthesis and degradation of the receptor. The rate is set to be rather fast for now. The forward rate also includes scaling terms because the AMPAR_bulk is in the dendritic volume of 5e-18. This means that we need to lower Kf to account for the difference in volumes. Effectively Kf is 1/sec, but the scaled version becomes 9e-20/5e-18 = 0.018
    ** This is a trasport reation between compartments of different volumes. Therefore Kd is not applicable. Please Note Kf, Kb units are in number of molecules instead of concentration



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