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A Completely Reimplemented MPI Bioinformatics Toolkit with a New HHpred Server at its Core

MPS-Authors
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Zimmermann,  L
Department Protein Evolution, Max Planck Institute for Developmental Biology, Max Planck Society;
Protein Bioinformatics Group, Department Protein Evolution, Max Planck Institute for Developmental Biology, Max Planck Society;

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Stephens,  A
Department Protein Evolution, Max Planck Institute for Developmental Biology, Max Planck Society;
Protein Bioinformatics Group, Department Protein Evolution, Max Planck Institute for Developmental Biology, Max Planck Society;

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Nam,  S-Z
Department Protein Evolution, Max Planck Institute for Developmental Biology, Max Planck Society;
Protein Bioinformatics Group, Department Protein Evolution, Max Planck Institute for Developmental Biology, Max Planck Society;

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Rau,  D
Department Protein Evolution, Max Planck Institute for Developmental Biology, Max Planck Society;
Protein Bioinformatics Group, Department Protein Evolution, Max Planck Institute for Developmental Biology, Max Planck Society;

/persons/resource/persons232808

Kübler,  J
Department Protein Evolution, Max Planck Institute for Developmental Biology, Max Planck Society;

/persons/resource/persons273903

Lozajic,  M
Department Protein Evolution, Max Planck Institute for Developmental Biology, Max Planck Society;

/persons/resource/persons272383

Gabler,  F
Department Protein Evolution, Max Planck Institute for Developmental Biology, Max Planck Society;
Protein Bioinformatics Group, Department Protein Evolution, Max Planck Institute for Developmental Biology, Max Planck Society;

/persons/resource/persons78342

Lupas,  AN
Department Protein Evolution, Max Planck Institute for Developmental Biology, Max Planck Society;

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Alva,  V
Department Protein Evolution, Max Planck Institute for Developmental Biology, Max Planck Society;
Protein Bioinformatics Group, Department Protein Evolution, Max Planck Institute for Developmental Biology, Max Planck Society;

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Citation

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.


Cite as: https://hdl.handle.net/21.11116/0000-0003-C2D2-4
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.