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PMID: 16845021 Published · ppublish English Journal Article Research Support, Non-U.S. Gov't

The MPI Bioinformatics Toolkit for protein sequence analysis.

Nucleic acids research ·Vol. 34 ·No. Web Server issue ·2006-07-01 ·Pages W335-9

Biegert A, Mayer C, Remmert M, Söding J, Lupas AN

Abstract

The MPI Bioinformatics Toolkit is an interactive web service which offers access to a great variety of public and in-house bioinformatics tools. They are grouped into different sections that support sequence searches, multiple alignment, secondary and tertiary structure prediction and classification. Several public tools are offered in customized versions that extend their functionality. For example, PSI-BLAST can be run against regularly updated standard databases, customized user databases or selectable sets of genomes. Another tool, Quick2D, integrates the results of various secondary structure, transmembrane and disorder prediction programs into one view. The Toolkit provides a friendly and intuitive user interface with an online help facility. As a key feature, various tools are interconnected so that the results of one tool can be forwarded to other tools. One could run PSI-BLAST, parse out a multiple alignment of selected hits and send the results to a cluster analysis tool. The Toolkit framework and the tools developed in-house will be packaged and freely available under the GNU Lesser General Public Licence (LGPL). The Toolkit can be accessed at http://toolkit.tuebingen.mpg.de.

MeSH Terms
Computational Biology/methods Internet Protein Conformation Proteins/classification Sequence Alignment Sequence Analysis, Protein/methods Software User-Computer Interface
Chemicals
Proteins
Authors & Affiliations
5 authors, click to expand affiliations / ORCID
Biegert Andreas
Department of protein Evolution, Max-Planck-Institute for Developmental Biology, Spemannstrasse 35, 72076 Tubingen, Germany. andreas.biegert@tuebingen.mpg.de
Mayer Christian
Remmert Michael
Söding Johannes
Lupas Andrei N
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Article Info
Journal
Nucleic acids research
Abbr.
Nucleic Acids Res
ISSN
1362-4962
DOI
10.1093/nar/gkl217
Email
andreas.biegert@tuebingen.mpg.de
Published
2006-07-01
Pages
W335-9
Language
English
Region
England
NLM ID
0411011
PMCID
PMC1538786
Subset
IM
External Links
PubMed source DOI: 10.1093/nar/gkl217 PMC Full Text View journal details
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