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VIPERdb: a relational database for structural virology.

Craig M Shepherd1, Ian A Borelli, Gabriel Lander

  • 1Department of Molecular Biology, TPC-6 The Scripps Research Institute, 10550 North Torrey Pines Road, La Jolla, CA 92037, USA.

Nucleic Acids Research
|December 31, 2005
PubMed
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VIPERdb is a new database for icosahedral virus capsid structures. It offers structural bioinformatics tools for detailed analysis and comparison of viral capsid data.

Area of Science:

  • Structural biology
  • Virology
  • Bioinformatics

Background:

  • Icosahedral virus capsids are complex protein structures crucial for viral function.
  • A centralized, specialized database is needed for structural virology research.

Purpose of the Study:

  • To develop VIPERdb, a comprehensive database for icosahedral virus capsid structures.
  • To provide tools for detailed structural and energetic analyses of viral capsids.
  • To facilitate structural bioinformatics studies in virology.

Main Methods:

  • Implementation of a relational database using a macromolecular structure schema.
  • Data curation for uniformity and accessibility.
  • Development of user-friendly search, visualization, and educational tools.

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Main Results:

  • VIPERdb provides atomic-level access to structural and derived capsid data.
  • The database enables detailed comparison and analysis of capsid structures.
  • Integrated links to literature, sequence, and taxonomy databases enhance data utility.

Conclusions:

  • VIPERdb serves as a valuable resource for the structural virology community.
  • The database facilitates advanced structural bioinformatics research on virus capsids.
  • User-friendly tools promote extensive examination of viral capsid data.