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  The HHpred interactive server for protein homology detection and structure prediction.

Söding, J., Biegert, A., & Lupas, A. N. (2005). The HHpred interactive server for protein homology detection and structure prediction. Nucleic Acids Research (London), 33, W244-W248. doi:10.1093/nar/gki408.

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Item Permalink: http://hdl.handle.net/11858/00-001M-0000-0017-EB81-5 Version Permalink: http://hdl.handle.net/11858/00-001M-0000-0027-C5A2-3
Genre: Journal Article

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 Creators:
Söding, J.1, Author              
Biegert, A.2, Author
Lupas, A. N.2, Author
Affiliations:
1Research Group of Computational Biology, MPI for Biophysical Chemistry, Max Planck Society, ou_1933286              
2external, ou_persistent22              

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 Abstract: HHpred is a fast server for remote protein homology detection and structure prediction and is the first to implement pairwise comparison of profile hidden Markov models (HMMs). It allows to search a wide choice of databases, such as the PDB, SCOP, Pfam, SMART, COGs and CDD. It accepts a single query sequence or a multiple alignment as input. Within only a few minutes it returns the search results in a user-friendly format similar to that of PSI-BLAST. Search options include local or global alignment and scoring secondary structure similarity. HHpred can produce pairwise query-template alignments, multiple alignments of the query with a set of templates selected from the search results, as well as 3D structural models that are calculated by the MODELLER software from these alignments. A detailed help facility is available. As a demonstration, we analyze the sequence of SpoVT, a transcriptional regulator from Bacillus subtilis. HHpred can be accessed at http://protevo.eb.tuebingen.mpg.de/hhpred.

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Language(s): eng - English
 Dates: 2005
 Publication Status: Published in print
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 Rev. Type: Peer
 Identifiers: DOI: 10.1093/nar/gki408
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Title: Nucleic Acids Research (London)
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Source Genre: Journal
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Publ. Info: Oxford : Oxford University Press
Pages: - Volume / Issue: 33 Sequence Number: - Start / End Page: W244 - W248 Identifier: ISSN: 0305-1048
CoNE: https://pure.mpg.de/cone/journals/resource/110992357379342