APDB: a web server to evaluate the accuracy of sequence alignments using structural information

TitleAPDB: a web server to evaluate the accuracy of sequence alignments using structural information
Publication TypeJournal Article
Year of Publication2006
AuthorsArmougom F, Poirot O, Moretti S, Higgins DG, Bucher P, Keduas V, Notredame C
JournalBioinformatics
Volume22
Pagination2439-40
Date PublishedOct 1
Accession Number17032685
KeywordsAlgorithms, Amino Acid Sequence, Conserved Sequence, Internet, Molecular Sequence Data, Proteins/ chemistry, Sequence Alignment/ methods, Sequence Analysis, Protein/ methods, Sequence Homology, Amino Acid, Software, User-Computer Interface
Abstract

The APDB webserver uses structural information to evaluate the alignment of sequences with known structures. It returns a score correlated to the overall alignment accuracy as well as a local evaluation. Any sequence alignment can be analyzed with APDB provided it includes at least two proteins with known structures. Sequences without a known structure are simply ignored and do not contribute to the scoring procedure. AVAILABILITY: APDB is part of the T-Coffee suite of tools for alignment analysis, it is available on www.tcoffee.org. A stand-alone version of the package is also available as a freeware open source from the same address.