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Related Experiment Videos

MMDB: Entrez's 3D-structure database.

Jie Chen1, John B Anderson, Carol DeWeese-Scott

  • 1National Center for Biotechnology Information, National Library of Medicine, National Institutes of Health, Bethesda, MD 20894, USA.

Nucleic Acids Research
|January 10, 2003
PubMed
Summary

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This summary is machine-generated.

Entrez's 3D-structure database enhances access to protein structural data and functional annotations. A new feature provides graphical summaries of biological information for 3D structures, aiding molecular biologists.

Area of Science:

  • Structural Biology
  • Bioinformatics
  • Molecular Biology

Background:

  • Most protein families now have known three-dimensional (3D) structures.
  • Identifying homologs with known structures is common when searching sequence databases.
  • Accessibility of structural information and functional annotation is crucial for molecular biologists.

Purpose of the Study:

  • To improve accessibility of 3D structure information and functional annotations for molecular biologists.
  • To introduce a new feature in Entrez's Molecular Modeling Database (MMDB) for graphical summaries of biological annotation.

Main Methods:

  • Utilizing Entrez's search engine with features like cross-database links (sequence-structure).
  • Leveraging pre-computed sequence and structure neighbors.

Related Experiment Videos

  • Employing structure and sequence/structure alignment visualization.
  • Developing graphical summaries based on automated comparative analysis of biological annotation.

    • Main Results:

    • Entrez's 3D-structure database offers integrated access to protein structure and sequence data.
    • New graphical summaries in the Molecular Modeling Database (MMDB) visually represent biological annotations.
    • These summaries are derived from automated comparative analyses, facilitating understanding of 3D structures.

    Conclusions:

    • The enhanced Entrez 3D-structure database, particularly MMDB, significantly improves the usability of structural and functional information.
    • Graphical summaries offer an intuitive way to access complex biological annotations for 3D protein structures.
    • This resource empowers molecular biologists with readily available, visualized structural and functional insights.