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A database for G proteins and their interaction with GPCRs.

Antigoni L Elefsinioti1, Pantelis G Bagos, Ioannis C Spyropoulos

  • 1Department of Cell Biology and Biophysics, Faculty of Biology, University of Athens, Athens 157 01, Greece. aelef_79@yahoo.gr

BMC Bioinformatics
|December 28, 2004
PubMed
Summary

A new database, gpDB, now provides comprehensive information on G proteins and their specific interactions with G protein-coupled receptors (GPCRs). This resource aids researchers studying these crucial cellular signaling pathways.

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Area of Science:

  • Biochemistry
  • Molecular Biology
  • Bioinformatics

Background:

  • G protein-coupled receptors (GPCRs) mediate cellular signals via interactions with G proteins, composed of alpha, beta, and gamma subunits.
  • The G protein alpha subunit is key for GPCR recognition.
  • Existing resources lack a dedicated database for G proteins and their specific receptor couplings.

Purpose of the Study:

  • To develop a comprehensive, publicly accessible relational database for G proteins and GPCRs.
  • To detail the coupling specificities between GPCRs and G protein alpha subunits.

Main Methods:

  • Created gpDB, a relational database integrating G protein and GPCR sequences and classifications.
  • Included 418 G protein monomers and 2782 GPCR sequences with cross-references.

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  • Developed a relational model to describe known GPCR-G protein alpha subunit coupling specificities.

    • Main Results:

    • gpDB contains detailed information on G protein monomers (Galpha, Gbeta, Ggamma) and GPCRs.
    • The database classifies GPCRs and G proteins hierarchically based on literature.
    • A unique relational model captures GPCR-G protein alpha subunit coupling specificity.

    Conclusions:

    • gpDB serves as a valuable resource for experimentalists and bioinformaticians studying G protein-GPCR interactions.
    • The database facilitates the development of predictive algorithms for G protein-GPCR signaling.
    • Accessible online for academic use.