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Structure-based functional inference in structural genomics.

Sung-Hou Kim1, Dong Hae Shin, In-Geol Choi

  • 1Department of Chemistry, University of California, Berkeley, California 94720-5230, USA. SHKim@cchem.berkeley.edu

Journal of Structural and Functional Genomics
|December 3, 2003
PubMed
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Structural genomics uses 3D protein structures to uncover functions missed by sequence analysis. This approach aids in understanding protein roles and evolutionary links, especially for proteins with unknown functions.

Area of Science:

  • Structural biology
  • Genomics
  • Proteomics

Background:

  • Increasing protein sequences necessitate rapid functional inference methods.
  • Structural genomics aims to catalog all protein folds and infer functions from 3D structures.
  • High-throughput structure determination technologies are crucial for genomic-scale analysis.

Purpose of the Study:

  • To illustrate how 3D structural information complements sequence data for inferring protein functions.
  • To present examples of novel, testable functional inferences not predictable from sequence alone.
  • To highlight the role of structural genomics in discovering protein functions.

Main Methods:

  • Determination of protein structures using high-throughput technologies.
  • Integration of structural and sequence information for functional inference.

Related Experiment Videos

  • Focus on Mycoplasma proteins and homologues as targets by the Berkeley Structural Genomics Center (BSGC).

    • Main Results:

    • New 3D structures revealed unexpected functional insights and evolutionary relationships.
    • Structural information provided functional inferences for proteins lacking sequence-based predictions.
    • Examples demonstrated the power of 3D structures in deducing protein functions in five distinct cases.

    Conclusions:

    • Structural genomics is essential for deciphering the functions of novel proteins.
    • 3D structure determination is a powerful complement to sequence analysis for functional annotation.
    • Multi-institutional collaborations and technological advancements are key to achieving genomic-scale structural biology.