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The ASTRAL Compendium in 2004.

John-Marc Chandonia1, Gary Hon, Nigel S Walker

  • 1Berkeley Structural Genomics Center, Physical Biosciences Division, Lawrence Berkeley National Laboratory, Berkeley, CA 94720, USA.

Nucleic Acids Research
|December 19, 2003
PubMed
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The ASTRAL Compendium enhances protein structure analysis with expanded databases and weekly updates. It now offers PDB-style coordinate files and improved search tools for structural biologists.

Area of Science:

  • Structural biology
  • Bioinformatics
  • Computational biology

Background:

  • The ASTRAL Compendium is a vital resource for analyzing protein structures using sequence data.
  • It is partially derived from the Structural Classification of Proteins (SCOP) database, offering sequences and resources for domain structure studies.

Purpose of the Study:

  • To detail the recent major transformations and expanded capabilities of the ASTRAL Compendium.
  • To highlight new features enhancing data accessibility and utility for structural biologists.

Main Methods:

  • Integration of weekly preliminary classifications of domains from new Protein Data Bank (PDB) structures.
  • Inclusion of PDB-style coordinate files for all SCOP domains.
  • Addition of sequences and subsets based on PDB chains.

Related Experiment Videos

  • Development of enhanced search tools for data retrieval.

    • Main Results:

    • The current ASTRAL release contains 54,745 domains, a threefold increase from its initial release.
    • ASTRAL now provides weekly updates, significantly increasing data freshness.
    • Availability of PDB-style coordinate files alongside sequences for all SCOP domains.
    • New search functionalities improve data retrieval for users and automated methods.

    Conclusions:

    • ASTRAL has undergone significant expansion and transformation, becoming a more comprehensive and dynamic resource.
    • Enhanced data formats, frequent updates, and improved search tools increase ASTRAL's utility for structural biology research.