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Related Experiment Videos

SCOP: a structural classification of proteins database.

L Lo Conte1, B Ailey, T J Hubbard

  • 1MRC Laboratory of Molecular Biology, Centre for Protein Engineering, Hills Road, Cambridge CB2 2QH, UK. loredana@mrc-lmb.cam.ac.uk

Nucleic Acids Research
|December 11, 1999
PubMed
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The Structural Classification of Proteins (SCOP) database classifies protein structures hierarchically, detailing evolutionary and geometric relationships. It aids in analyzing protein sequences and structures through associated libraries like ASTRAL.

Area of Science:

  • Biochemistry
  • Structural Biology
  • Bioinformatics

Background:

  • The Structural Classification of Proteins (SCOP) database offers a comprehensive resource for understanding protein structure relationships.
  • It categorizes proteins based on evolutionary and geometric similarities across hierarchical levels: family, superfamily, and fold.

Purpose of the Study:

  • To detail the hierarchical classification system within the SCOP database.
  • To highlight the unique distinction between evolutionary relationships and those derived from protein physics and chemistry.
  • To introduce the ASTRAL sequence libraries derived from SCOP for calibrating search algorithms and statistical analysis.

Main Methods:

  • Hierarchical classification of known protein structures into families, superfamilies, and folds.

Related Experiment Videos

  • Development of ASTRAL sequence libraries based on SCOP classifications.
  • Integration with PDB-ISL for homology searching using sequences of proteins with unknown structures.

    • Main Results:

    • SCOP provides a detailed, hierarchical classification of protein structures.
    • ASTRAL libraries facilitate sequence analysis and algorithm calibration.
    • Pairwise sequence comparison enables identification of homologous proteins with known structures for proteins of unknown structure.

    Conclusions:

    • The SCOP database is a valuable, freely accessible resource for structural biology and bioinformatics.
    • Its classification system and associated libraries (ASTRAL) are crucial for protein sequence and structure analysis.
    • SCOP aids in identifying evolutionary and structural relationships, advancing our understanding of protein science.