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High-throughput computational and experimental techniques in structural genomics.

Mark R Chance1, Andras Fiser, Andrej Sali

  • 1New York Structural Genomics Research Consortium, Albert Einstein College of Medicine, Bronx, New York 10461, USA. mrc@aecom.yu.edu

Genome Research
|October 19, 2004
PubMed
Summary
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Structural genomics aims to map all protein structures using experimental and computational methods. The New York Structural Genomics Research Consortium is advancing this goal, providing valuable structural data for biological research.

Area of Science:

  • Structural biology
  • Genomics
  • Bioinformatics

Background:

  • Structural genomics aims to determine the 3D structures of all proteins.
  • High-throughput structural studies are crucial for understanding protein function.
  • Genome sequencing and cloning resources enable large-scale structural biology efforts.

Purpose of the Study:

  • To report the progress of the New York Structural Genomics Research Consortium.
  • To outline the established pipeline for structural genomics.
  • To detail experimental and bioinformatics approaches for protein structural annotation.

Main Methods:

  • High-throughput protein purification and structure determination (crystallography).
  • Automated protein modeling using solved structures (comparative modeling).

Related Experiment Videos

  • Metallomics for high-throughput analysis of metal binding in proteins.

    • Main Results:

    • 493 proteins purified from >1077 expression vectors.
    • 95 crystal structures obtained, 81 deposited in the Protein Data Bank (PDB).
    • >40,000 structural models generated via comparative modeling.
    • 10%-15% of targets contain stoichiometric transition metals.

    Conclusions:

    • The structural genomics pipeline is effective for large-scale protein structure determination.
    • Metallomics identifies functionally important metal-binding proteins.
    • The global effort in structural genomics is progressing towards comprehensive protein structure information.