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Expectations from structural genomics.

S E Brenner1, M Levitt

  • 1Department of Structural Biology, Stanford University, California 94305-5126, USA. brenner@compbio.berkeley.edu

Protein Science : a Publication of the Protein Society
|March 30, 2000
PubMed
Summary
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Structural genomics aims to determine protein structures. Many targets lack recognizable folds or homology detectable by sequence analysis alone, suggesting novel protein families.

Area of Science:

  • Structural biology
  • Genomics
  • Bioinformatics

Background:

  • Structural genomics projects aim to experimentally determine or model structures for all proteins in completed genomes.
  • A significant portion of these targets are proteins whose folds are not easily identifiable through simple sequence comparisons.

Purpose of the Study:

  • To predict the proportion of structural genomics targets that will represent novel protein folds.
  • To estimate the proportion of targets related to known structures but not detectable by sequence analysis.

Main Methods:

  • Analysis of protein classification data from the SCOP (Structural Classification of Proteins) database.
  • Statistical projection based on historical trends of protein fold discovery.

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Main Results:

  • Approximately 25% of early structural genomics targets are predicted to possess novel protein folds.
  • About 50% of the remaining targets are expected to be evolutionarily related to known proteins, despite undetectable sequence homology.

Conclusions:

  • A substantial fraction of structural genomics targets will likely represent new protein folds, expanding our understanding of protein architecture.
  • Many proteins related to known structures may require advanced methods beyond simple sequence comparison for homology detection, highlighting the importance of structural information.