COMPASS server for homology detection: Improved statistical accuracy, speed and functionality

Ruslan I. Sadreyev, Ming Tang, Bong Hyun Kim, Nick V. Grishin

Research output: Contribution to journalArticlepeer-review

21 Scopus citations

Abstract

COMPASS is a profile-based method for the detection of remote sequence similarity and the prediction of protein structure. Here we describe a recently improved public web server of COMPASS, http://prodata.swmed.edu/ compass. The server features three major developments: (i) improved statistical accuracy; (ii) increased speed from parallel implementation; and (iii) new functional features facilitating structure prediction. These features include visualization tools that allow the user to quickly and effectively analyze specific local structural region predictions suggested by COMPASS alignments. As an application example, we describe the structural, evolutionary and functional analysis of a protein with unknown function that served as a target in the recent CASP8 (Critical Assessment of Techniques for Protein Structure Prediction round 8). URL: http://prodata.swmed.edu/compass.

Original languageEnglish (US)
Pages (from-to)W90-W94
JournalNucleic acids research
Volume37
Issue numberSUPPL. 2
DOIs
StatePublished - 2009

ASJC Scopus subject areas

  • Genetics

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