HHblits: lightning-fast iterative protein sequence searching by HMM-HMM alignment

作者：Remmert, Michael; Biegert, Andreas; Hauser, Andreas; Soeding, Johannes

来源：Nature Methods, 2012, 9(2): 173-175.

DOI：10.1038/NMETH.1818

• STRUCTURE PREDICTION
• SECONDARY STRUCTURE
• HOMOLOGY DETECTION
• DATABASE
• MODELS

Sequence-based protein function and structure prediction depends crucially on sequence-search sensitivity and accuracy of the resulting sequence alignments. We present an open-source, general-purpose tool that represents both query and database sequences by profile hidden Markov models (HMMs): 'HMM-HMM based lightning-fast iterative sequence search' (HHblits; http://toolkit.genzentrum.lmu.de/hhblits/). Compared to the sequence-search tool PSI-BLAST, HHblits is faster owing to its discretized-profile prefilter, has 50-100% higher sensitivity and generates more accurate alignments.

• 出版日期2012-2