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  A completely reimplemented MPI Bioinformatics Toolkit with a new HHpred server at its core.

Zimmermann, L., Stephens, A., Nam, S. Z., Rau, D., Kübler, J., Lozajic, M., et al. (2018). A completely reimplemented MPI Bioinformatics Toolkit with a new HHpred server at its core. Journal of Molecular Biology, 430(15), 2237-2243. doi:10.1016/j.jmb.2017.12.007.

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Item Permalink: http://hdl.handle.net/11858/00-001M-0000-002E-9927-0 Version Permalink: http://hdl.handle.net/21.11116/0000-0001-93D9-4
Genre: Journal Article

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2518336.pdf (Publisher version), 2MB
 
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 Creators:
Zimmermann, L., Author
Stephens, A., Author
Nam, S. Z., Author
Rau, D., Author
Kübler , J., Author
Lozajic, M., Author
Gabler, F., Author
Söding, J.1, Author              
Lupas, A. N., Author
Alva, V., Author
Affiliations:
1Research Group of Computational Biology, MPI for Biophysical Chemistry, Max Planck Society, ou_1933286              

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Free keywords: MPI Bioinformatics Toolkit; HHpred; HHblits; Structure prediction; Remote homology detection
 Abstract: The MPI Bioinformatics Toolkit (https://toolkit.tuebingen.mpg.de) is a free, one-stop web service for protein bioinformatic analysis. It currently offers 34 interconnected external and in-house tools, whose functionality covers sequence similarity searching, alignment construction, detection of sequence features, structure prediction, and sequence classification. This breadth has made the Toolkit an important resource for experimental biology and for teaching bioinformatic inquiry. Recently, we replaced the first version of the Toolkit, which was released in 2005 and had served around 2.5 million queries, with an entirely new version, focusing on improved features for the comprehensive analysis of proteins, as well as on promoting teaching. For instance, our popular remote homology detection server, HHpred, now allows pairwise comparison of two sequences or alignments and offers additional profile HMMs for several model organisms and domain databases. Here, we introduce the new version of our Toolkit and its application to the analysis of proteins.

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Language(s): eng - English
 Dates: 2017-12-162018-07-20
 Publication Status: Published in print
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 Rev. Method: Peer
 Identifiers: DOI: 10.1016/j.jmb.2017.12.007
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Title: Journal of Molecular Biology
Source Genre: Journal
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Pages: - Volume / Issue: 430 (15) Sequence Number: - Start / End Page: 2237 - 2243 Identifier: -