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The RESID Database of protein structure modifications and the NRL-3D Sequence-Structure Database.

J S Garavelli1, Z Hou, N Pattabiraman

  • 1National Biomedical Research Foundation, Protein Information Resource, Washington, DC 20007, USA. jsgaravelli@earthlink.net

Nucleic Acids Research
|January 11, 2000
PubMed
Summary

The RESID and NRL-3D databases offer comprehensive protein modification and structure data. These resources provide valuable annotations, including chemical information, taxonomic ranges, and literature links for researchers studying protein structures and post-translational modifications.

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Area of Science:

  • Biochemistry
  • Structural Biology
  • Bioinformatics

Background:

  • Protein post-translational modifications (PTMs) are crucial for cellular function and are extensively studied.
  • Understanding protein structure is essential for deciphering biological mechanisms.
  • Existing databases often focus on specific aspects of protein information, necessitating integrated resources.

Purpose of the Study:

  • To introduce and describe the RESID and NRL-3D databases.
  • To highlight the comprehensive nature of the data within these resources.
  • To provide accessibility information for researchers.

Main Methods:

  • The RESID Database compiles annotations and structures for protein PTMs, including N-terminal, C-terminal, and cross-link modifications.

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  • The NRL-3D Sequence-Structure Database is derived from 3D protein structures in the Protein Data Bank.
  • Both databases include systematic names, CAS registry numbers, formulas, weights, enzyme activities, taxonomic data, keywords, and literature citations.

    • Main Results:

    • RESID provides detailed information on PTMs, encompassing chemical properties and biological context.
    • NRL-3D offers standardized data on protein sequences and structures, including experimental conditions.
    • Both databases are freely accessible online through the National Cancer Institute-Frederick Advanced Biomedical Computing Center and the National Biomedical Research Foundation Protein Information Resource.

    Conclusions:

    • The RESID and NRL-3D databases serve as valuable, integrated resources for protein research.
    • These databases facilitate the study of protein modifications and structures by providing comprehensive and accessible data.
    • Researchers can leverage these resources for in-depth analysis of protein function and mechanisms.