title: APDB: a web server to evaluate the accuracy of sequence alignments using structural information.
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.
  
  
  BACKGROUND
  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.
authors.affiliation: CNRS UPR2589, Institute for Structural Biology and Microbiology (IBSM), Parc Scientifique de Luminy, 163 Avenue de Luminy, FR-13288, Marseille cedex 09, France.
authors.forename: Fabrice
authors.initials: F
authors.lastname: Armougom
authors.forename: Olivier
authors.initials: O
authors.lastname: Poirot
authors.forename: Sébastien
authors.initials: S
authors.lastname: Moretti
authors.forename: Desmond G
authors.initials: DG
authors.lastname: Higgins
authors.forename: Phillip
authors.initials: P
authors.lastname: Bucher
authors.forename: Vladimir
authors.initials: V
authors.lastname: Keduas
authors.forename: Cedric
authors.initials: C
authors.lastname: Notredame
mesh_terms: D000465:Algorithms; D000595:Amino Acid Sequence; D017124:Conserved Sequence; D020407:Internet; D008969:Molecular Sequence Data; D011506:Proteins / Q000737:chemistry*; D016415:Sequence Alignment / Q000379:methods*; D020539:Sequence Analysis, Protein / Q000379:methods*; D017386:Sequence Homology, Amino Acid; D012984:Software; D014584:User-Computer Interface
chemical_list: D011506:Proteins