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Kabat database and its applications: 30 years after the first variability plot.

G Johnson1, T T Wu

  • 1Department of Biochemistry, Northwestern University, Evanston, IL 60208, USA.

Nucleic Acids Research
|December 11, 1999
PubMed
Summary
This summary is machine-generated.

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The Kabat Database, established in 1970, identifies antibody complementarity determining regions (CDRs) using amino acid sequence variability. It now includes diverse immunological sequences, aiding structural and functional analysis.

Area of Science:

  • Immunology
  • Bioinformatics
  • Structural Biology

Background:

  • The Kabat Database originated in 1970 to map antibody combining sites from amino acid sequences.
  • Initial analysis of Bence Jones proteins revealed variability peaks defining complementarity determining regions (CDRs) in light chains.

Purpose of the Study:

  • To provide an overview of the Kabat Database and its applications.
  • To summarize the evolution and scope of the Kabat Database over 30 years.

Main Methods:

  • Alignment of human Bence Jones (light chain) and antibody heavy chain amino acid sequences.
  • Calculation of sequence variability at each position to identify CDRs.
  • Expansion of the database to include nucleotide sequences, T cell receptors (TCR), and MHC molecules.

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Main Results:

  • Identification of three CDRs in light chains (positions 24-34, 50-56, 89-97).
  • Determination of distinct CDR locations in heavy chains (positions 31-35B, 50-65, 95-102).
  • Significant growth of the Kabat Database to encompass a wide range of immunological sequences.

Conclusions:

  • The Kabat Database is a valuable resource for immunologists, providing structural and functional insights from protein sequences.
  • The database continues to expand, supporting research in immunology and related fields.
  • The Kabat Database is freely accessible online for research purposes.