SA-Search: a web tool for protein structure mining based on a Structural Alphabet
AUTOR(ES)
Guyon, Frédéric
FONTE
Oxford University Press
RESUMO
SA-Search is a web tool that can be used to mine for protein structures and extract structural similarities. It is based on a hidden Markov model derived Structural Alphabet (SA) that allows the compression of three-dimensional (3D) protein conformations into a one-dimensional (1D) representation using a limited number of prototype conformations. Using such a representation, classical methods developed for amino acid sequences can be employed. Currently, SA-Search permits the performance of fast 3D similarity searches such as the extraction of exact words using a suffix tree approach, and the search for fuzzy words viewed as a simple 1D sequence alignment problem. SA-Search is available at http://bioserv.rpbs.jussieu.fr/cgi-bin/SA-Search.
ACESSO AO ARTIGO
http://www.pubmedcentral.nih.gov/articlerender.fcgi?artid=441605Documentos Relacionados
- Java Protein dossier: a novel web-based data visualization tool for comprehensive analysis of protein structure.
- JavaProtein Dossier: a novel web-based data visualization tool for comprehensive analysis of protein structure
- ProMoST (Protein Modification Screening Tool): a web-based tool for mapping protein modifications on two-dimensional gels
- Gene projects: a genome web tool for ongoing mining and annotation applied to CitEST
- PROBEmer: a web-based software tool for selecting optimal DNA oligos