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Exploring icosahedral virus structures with VIPER.

Padmaja Natarajan1, Gabriel C Lander, Craig M Shepherd

  • 1Department of Molecular Biology, The Scripps Research Institute, La Jolla, California 92037, USA.

Nature Reviews. Microbiology
|October 6, 2005
PubMed
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The Virus Particle Explorer (VIPER) database offers easy access to complex 3D virus structures. This resource aids researchers in understanding virus particle architecture and interactions.

Area of Science:

  • Structural Biology
  • Virology
  • Biophysics

Background:

  • Virus particles are large nucleoprotein complexes with intricate protein-protein and protein-nucleic-acid interactions.
  • Near-atomic resolution 3D structures of over 70 virus capsids are available, but accessing this data is challenging.
  • Existing structural data is difficult to navigate for researchers, even those in structural biology.

Purpose of the Study:

  • To introduce the Virus Particle Explorer (VIPER) database as a user-friendly resource for accessing 3D virus structure information.
  • To demonstrate the utility of VIPER for both research and educational purposes in virology.
  • To highlight the expansion of VIPER to include structures determined by cryo-electron microscopy (EM).

Main Methods:

  • Compilation of existing 3D virus capsid structures from crystallographic and cryo-electron microscopy (EM) data.

Related Experiment Videos

  • Development of a web-based catalogue (VIPER) for organizing and visualizing icosahedral virus particle structures.
  • Illustrative examples showcasing the application of VIPER for data exploration and analysis.

    • Main Results:

    • VIPER provides accessible, high-resolution structural information for a wide range of viruses.
    • The database integrates data from both X-ray crystallography and cryo-electron microscopy (EM).
    • VIPER facilitates the exploration of virus particle architecture and interactions.

    Conclusions:

    • VIPER is a valuable and powerful resource for virologists, microbiologists, and structural biologists.
    • The database simplifies access to complex virus structure data, aiding research and education.
    • VIPER enhances the understanding of virus structure-function relationships through accessible visualization tools.