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Molecule Parameter List for inact-GEF

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
inact-GEF participated asMoleculeSum total ofEnzymeSubstrate of an enzymeProduct of an enzymeSubstrate in ReactionProduct in Reaction
No. of occurrences1011011

Accession and Pathway Details
Accession NameAccession No.Accession TypePathway Link
  • Ajay_Bhalla_
    2007_PKM
  • 80Network
    Shared_Object_Ajay_Bhalla_2007_PKM PKC MAPK 
    Ras CaM PKM 
    This is a non-bistable model of ERKII signaling that also incorporates PKM synthesis triggered by Ca influx. It is a simplified variant of the model of Ajay SM, Bhalla US. Eur J Neurosci. 2004 Nov;20(10):2671-80.

    inact-GEF acting as a Molecule in  
    Ajay_Bhalla_2007_PKM Network
    NameAccession NamePathway NameInitial Conc.
    (uM)
    Volume
    (fL)
    Buffered
    inact-GEF
  • Ajay_Bhalla_
    2007_PKM

    Accession No. : 80
  • Ras
    Pathway No. : 372
    0.11.5No
    Assume that SoS is present only at 50 nM. Revised to 100 nM to get equil to experimentally known levels.

    inact-GEF acting as an Enzyme in  
    Ajay_Bhalla_2007_PKM Network
    Enzyme Molecule /
    Enzyme Activity
    Accession NamePathway NameKm (uM)kcat (s^-1)RatioEnzyme TypeReagents
    inact-GEF /
  • basal_GEF_
    activity
  • Ajay_Bhalla_
    2007_PKM

    Accession No. : 80
  • Ras
    Pathway No. : 372
    10.10140.024explicit E-S complexSubstrate
    GDP-Ras

    Product
    GTP-Ras

    inact-GEF acting as a Substrate for an Enzyme in  
    Ajay_Bhalla_2007_PKM Network
    Enzyme Molecule /
    Enzyme Activity
    Accession NamePathway NameKm (uM)kcat (s^-1)RatioEnzyme TypeReagents
    PKC-active  /
    PKC-act-GEF
  • Ajay_Bhalla_
    2007_PKM

    Accession No. : 80
  • Shared_Object_
    Ajay_Bhalla_
    2007_PKM

    Pathway No. : 369
  • 3.3333144explicit E-S complexSubstrate
    inact-GEF

    Product
    GEF*
    Rate consts from PKC-act-raf. This reaction activates GEF. It can lead to at least 2X stim of ras, and a 2X stim of MAPK over and above that obtained via direct phosph of c-raf. Note that it is a push-pull reaction, and there is also a contribution through the phosphorylation and inactivation of GAPs. The original PKC-act-raf rate consts are too fast. We lower K1 by 10 X

    inact-GEF acting as a Substrate in a reaction in  
    Ajay_Bhalla_2007_PKM 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-GEF
  • Ajay_Bhalla_
    2007_PKM

    Accession No. : 80
  • Ras
    Pathway No. : 372
    199.999
    (uM^-1 s^-1)
    1
    (s^-1)
    Kd(bf) = 0.005(uM)-Substrate
    CaM-Ca4
    inact-GEF

    Product
    CaM-GEF
    We have no numbers for this. It is probably between the two extremes represented by the CaMKII phosph states, and I have used guesses based on this. kf=1e-4 kb=1 The reaction is based on Farnsworth et al Nature 376 524-527 1995

    inact-GEF acting as a Product in a reaction in  
    Ajay_Bhalla_2007_PKM 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-GEF
  • Ajay_Bhalla_
    2007_PKM

    Accession No. : 80
  • Ras
    Pathway No. : 372
    1
    (s^-1)
    0
    (s^-1)
    --Substrate
    GEF*

    Product
    inact-GEF



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