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Molecule Parameter List for G-GDP

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
G-GDP participated asMoleculeSum total ofEnzymeSubstrate of an enzymeProduct of an enzymeSubstrate in ReactionProduct in Reaction
No. of occurrences1000031

Accession and Pathway Details
Accession NameAccession No.Accession TypePathway Link
  • MAPK_network_
    2003
  • 50Network
    Shared_Object_MAPK_network_2003 PKC PLA2 
    PLCbeta Gq MAPK 
    Ras EGFR Sos 
    PLC_g CaMKII CaM 
    PP1 PP2B PKA 
    AC 
    This is a network model of many pathways present at the neuronal synapse. The network has properties of temporal tuning as well as steady-state computational properties. In its default form the network is bistable.Bhalla US Biophys J. 2004 Aug;87(2):745-53

    G-GDP acting as a Molecule in  
    MAPK_network_2003 Network
    NameAccession NamePathway NameInitial Conc.
    (uM)
    Volume
    (fL)
    Buffered
    G-GDP
  • MAPK_network_
    2003

    Accession No. : 50
  • Gq
    Pathway No. : 210
    11000No
    From M&L, total Gprot = 1e5molecules/cell At equil, 92340 are here, 400 are in G*GTP, and another 600 are assoc with the PLC and 6475 are as G*GDP. This is OK. From Pang and Sternweis JBC 265:30 18707-12 1990 we get conc est 1.6 uM to 0.8 uM. A number of other factors are involved too.

    G-GDP acting as a Substrate in a reaction in  
    MAPK_network_2003 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
    1Basal-Act-G
  • MAPK_network_
    2003

    Accession No. : 50
  • Gq
    Pathway No. : 210
    0.0001
    (s^-1)
    0
    (uM^-1 s^-1)
    --Substrate
    G-GDP

    Product
    BetaGamma
    G*GTP
      kf = kg1 = 0.01/sec, kb = 0. This is the basal exchange of GTP for GDP.
    2Rec-Glu-bind-Gq
  • MAPK_network_
    2003

    Accession No. : 50
  • Gq
    Pathway No. : 210
    0.006
    (uM^-1 s^-1)
    0.0001
    (s^-1)
    Kd(bf) = 0.0167(uM)-Substrate
    G-GDP
    Rec-Glu

    Product
    Rec-Glu-Gq
      This is the k1-k2 equivalent for enzyme complex formation in the binding of Rec-Glu to Gq. See Fay et al Biochem 30 5066-5075 1991. kf = 5e-5 which is nearly the same as calculated by Fay et al. (4.67e-5) kb = .04 June 1996: Closer reading of Fay et al suggests that kb <= 0.0001, so kf = 1e-8 by detailed balance. This reaction appears to be neglible.
    3Rec-bind-Gq
  • MAPK_network_
    2003

    Accession No. : 50
  • Gq
    Pathway No. : 210
    0.6
    (uM^-1 s^-1)
    1
    (s^-1)
    Kd(bf) = 1.6667(uM)-Substrate
    G-GDP
    mGluR

    Product
    Rec-Gq
      Lets try out the same kinetics as the Rec-Glu-bind-Gq This is much too forward. We know that the steady-state amount of Rec-Gq should be 40% of the total amount of receptor. This is for a different receptor, still we can try to match the value. kf = 1e-6 and kb = 1 give 0.333:0.8 which is pretty close.

    G-GDP acting as a Product in a reaction in  
    MAPK_network_2003 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
    Trimerize-G
  • MAPK_network_
    2003

    Accession No. : 50
  • Gq
    Pathway No. : 210
    6
    (uM^-1 s^-1)
    0
    (s^-1)
    --Substrate
    BetaGamma
    G*GDP

    Product
    G-GDP
    kf == kg3 = 1e-5 /cell/sec. As usual, there is no back-reaction kb = 0



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