Literature DB >> 11911710

A versatile structural domain analysis server using profile weight matrices.

Steffen Schmidt1, Peer Bork, Thomas Dandekar.   

Abstract

The WEB tool "AnDom" assigns to a given protein sequence all experimentally determined structural domains contained within it, including multidomain and large proteins. The server uses profile specific matrices from custom generated multiple sequence alignments of all known SCOP domains (SCOP version 1.50). Prediction time is short allowing numerous applications for structural genomics including investigation of complex eucaryotic protein families. The WWW server is at http://www.bork.embl-heidelberg.de/AnDom, and profiles can be downloaded at ftp.bork.embl-heidelberg.de/pub/users/ schmidt/AnDom.

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Year:  2002        PMID： 11911710     DOI： 10.1021/ci010374r

Source DB:  PubMed          Journal:  J Chem Inf Comput Sci        ISSN： 0095-2338


  7 in total

1.  A software tool-box for analysis of regulatory RNA elements.

Authors:  Peter Bengert; Thomas Dandekar
Journal:  Nucleic Acids Res       Date:  2003-07-01       Impact factor: 16.971

2.  Structural similarity to bridge sequence space: finding new families on the bridges.

Authors:  Parantu K Shah; Patrick Aloy; Peer Bork; Robert B Russell
Journal:  Protein Sci       Date:  2005-05       Impact factor: 6.725

3.  Selenium metabolism in Trypanosoma: characterization of selenoproteomes and identification of a Kinetoplastida-specific selenoprotein.

Authors:  Alexey V Lobanov; Stephan Gromer; Gustavo Salinas; Vadim N Gladyshev
Journal:  Nucleic Acids Res       Date:  2006-08-16       Impact factor: 16.971

4.  The drug-minded protein interaction database (DrumPID) for efficient target analysis and drug development.

Authors:  Meik Kunz; Chunguang Liang; Santosh Nilla; Alexander Cecil; Thomas Dandekar
Journal:  Database (Oxford)       Date:  2016-04-07       Impact factor: 3.451

5.  A Staphylococcus aureus Proteome Overview: Shared and Specific Proteins and Protein Complexes from Representative Strains of All Three Clades.

Authors:  Chunguang Liang; Dominik Schaack; Mugdha Srivastava; Shishir K Gupta; Edita Sarukhanyan; Anne Giese; Martin Pagels; Natalie Romanov; Jan Pané-Farré; Stephan Fuchs; Thomas Dandekar
Journal:  Proteomes       Date:  2016-02-19

6.  Integrative functional genomics decodes herpes simplex virus 1.

Authors:  Adam W Whisnant; Christopher S Jürges; Thomas Hennig; Emanuel Wyler; Bhupesh Prusty; Andrzej J Rutkowski; Anne L'hernault; Lara Djakovic; Margarete Göbel; Kristina Döring; Jennifer Menegatti; Robin Antrobus; Nicholas J Matheson; Florian W H Künzig; Guido Mastrobuoni; Chris Bielow; Stefan Kempa; Chunguang Liang; Thomas Dandekar; Ralf Zimmer; Markus Landthaler; Friedrich Grässer; Paul J Lehner; Caroline C Friedel; Florian Erhard; Lars Dölken
Journal:  Nat Commun       Date:  2020-04-27       Impact factor: 14.919

7.  Prediction and validation of host-pathogen interactions by a versatile inference approach using Aspergillus fumigatus as a case study.

Authors:  Johannes Balkenhol; Elena Bencurova; Shishir K Gupta; Hella Schmidt; Thorsten Heinekamp; Axel Brakhage; Aparna Pottikkadavath; Thomas Dandekar
Journal:  Comput Struct Biotechnol J       Date:  2022-08-05       Impact factor: 6.155
  7 in total

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