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Bioinformatics Advance Access originally published online on April 19, 2005
Bioinformatics 2005 21(14):3179-3180; doi:10.1093/bioinformatics/bti450
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© The Author 2005. Published by Oxford University Press. All rights reserved. For Permissions, please email: journals.permissions{at}oupjournals.org

HCPM—program for hierarchical clustering of protein models

Dominik Gront * and Andrzej Kolinski

Faculty of Chemistry, Warsaw University Pasteura 1, 02-093 Warsaw, Poland

*To whom correspondence should be addressed.

Summary: HCPM is a tool for clustering protein structures from comparative modeling, ab initio structure prediction, etc. A hierarchical clustering algorithm is designed and tested, and a heuristic is provided for an optimal cluster selection. The method has been successfully tested during the CASP6 experiment.

Availability: HCPM program can be downloaded from http://www.biocomp.chem.uw.edu.pl/HCPM/

Contact: dgront{at}chem.uw.edu.pl

Received on February 4, 2005; revised on April 6, 2005; accepted on April 12, 2005

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