NCBS Home page
Accession List
Pathway List
Search
Authorized Users
Help
News archives

Enter a Search String

Special character and space not allowed in the query term. Search string should be at least 2 characters long.
Search in: Search for Match By

Molecule Parameter List for Nucleotides

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
Nucleotides participated asMoleculeSum total ofEnzymeSubstrate of an enzymeProduct of an enzymeSubstrate in ReactionProduct in Reaction
No. of occurrences1001010

Accession and Pathway Details
Accession NameAccession No.Accession TypePathway Link
  • mkp1_feedback_
    effects
  • 4Network
    Shared_Object_mkp1_feedback_effects Sos PKC 
    MAPK PLA2 Ras 
    PDGFR 
    This is a network involving the MAPK-PKC feedback loop with input from the PDGFR in the synapse. The distinctive feature of this model is that it includes MKP-1 induction by MAPK, and the consequent inhibitory regulation of MAPK and the feedback loop. Lots of interesting dynamics arise from this. This link provides supplementary material for the paper Bhalla US et al. Science (2002) 297(5583):1018-23. In the form of several example simulations and demos for the figures in the paper.

    Nucleotides acting as a Molecule in  
    mkp1_feedback_effects Network
    NameAccession NamePathway NameInitial Conc.
    (uM)
    Volume
    (fL)
    Buffered
    Nucleotides
  • mkp1_feedback_
    effects

    Accession No. : 4
  • MAPK
    Pathway No. : 35
    0.1200Yes
    Infinite supply assumed for formation of mRNA.

    Nucleotides acting as a Substrate for an Enzyme in  
    mkp1_feedback_effects Network
    Enzyme Molecule /
    Enzyme Activity
    Accession NamePathway NameKm (uM)kcat (s^-1)RatioEnzyme TypeReagents
    nuc_MAPK*  /
  • act_
    transcription
  • mkp1_feedback_
    effects

    Accession No. : 4
  • MAPK
    Pathway No. : 35
    4.000020.00084explicit E-S complexSubstrate
    Nucleotides

    Product
    MKP1-RNA
    This is a 'black box' representation of a lot of steps. Constraint provided by determining rate of formation of MKP-1.

    Nucleotides acting as a Substrate in a reaction in  
    mkp1_feedback_effects 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
  • Basal_
    transcription
  • mkp1_feedback_
    effects

    Accession No. : 4
  • MAPK
    Pathway No. : 35
    0
    (s^-1)
    0
    (s^-1)
    --Substrate
    Nucleotides

    Product
    MKP1-RNA
    This is just a basal rate of MKP-1 transcription scaled to give reasonable basal levels of the MKP-1.



    Database compilation and code copyright (C) 2022, Upinder S. Bhalla and NCBS/TIFR
    This Copyright is applied to ensure that the contents of this database remain freely available. Please see FAQ for details.