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Bioinformatics Advance Access originally published online on October 4, 2005
Bioinformatics 2005 21(23):4248-4254; doi:10.1093/bioinformatics/bti702
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© The Author 2005. Published by Oxford University Press. All rights reserved. For Permissions, please email: journals.permissions{at}oxfordjournals.org

Pcons5: combining consensus, structural evaluation and fold recognition scores

Björn Wallner * and Arne Elofsson

Stockholm Bioinformatics Center, Stockholm University SE-106 91 Stockholm, Sweden

*To whom correspondence should be addressed.

Motivation: The success of the consensus approach to the protein structure prediction problem has led to development of several different consensus methods. Most of them only rely on a structural comparison of a number of different models. However, there are other types of information that might be useful such as the score from the server and structural evaluation.

Results: Pcons5 is a new and improved version of the consensus predictor Pcons. Pcons5 integrates information from three different sources: the consensus analysis, structural evaluation and the score from the fold recognition servers. We show that Pcons5 is better than the previous version of Pcons and that it performs better than using only the consensus analysis. In addition, we also present a version of Pmodeller based on Pcons5, which performs significantly better than Pcons5.

Availability: Pcons5 is the first Pcons version available as a standalone program from http://www.sbc.su.se/~bjorn/Pcons5. It should be easy to implement in local meta-servers.

Contact: bjorn{at}sbc.su.se

Received on July 20, 2005; revised on September 5, 2005; accepted on October 1, 2005

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