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Keywords:

  • protein–protein interaction;
  • protein docking;
  • protein–protein complexes;
  • homodimers;
  • blind prediction;
  • community-wide experiments

Abstract

Six protein–protein complexes and two homodimeric proteins involved in a variety of biological processes were offered as targets to CAPRI by crystallographers in Rounds 6–12. CAPRI predictor groups had to predict their structure by docking the free proteins, which they did with a degree of success that depended largely on the amplitude of the conformation changes. In one case at least, the prediction pointed to alternative possibilities of interactions in the crystal of a complex, showing that docking methods have value even when there is an experimental structure. Proteins 2007. © 2007 Wiley-Liss, Inc.