title: SA-Mot: a web server for the identification of motifs of interest extracted from protein loops.
abstract: The detection of functional motifs is an important step for the determination of protein functions. We present here a new web server SA-Mot (Structural Alphabet Motif) for the extraction and location of structural motifs of interest from protein loops. Contrary to other methods, SA-Mot does not focus only on functional motifs, but it extracts recurrent and conserved structural motifs involved in structural redundancy of loops. SA-Mot uses the structural word notion to extract all structural motifs from uni-dimensional sequences corresponding to loop structures. Then, SA-Mot provides a description of these structural motifs using statistics computed in the loop data set and in SCOP superfamily, sequence and structural parameters. SA-Mot results correspond to an interactive table listing all structural motifs extracted from a target structure and their associated descriptors. Using this information, the users can easily locate loop regions that are important for the protein folding and function. The SA-Mot web server is available at http://sa-mot.mti.univ-paris-diderot.fr.
authors.affiliation: INSERM, U973, Université Paris 7-Paris Diderot, UMR-S973, MTi F-75013 Paris, France. leslie.regad@univ-paris-diderot.fr
authors.forename: Leslie
authors.initials: L
authors.lastname: Regad
authors.forename: Adrien
authors.initials: A
authors.lastname: Saladin
authors.forename: Julien
authors.initials: J
authors.lastname: Maupetit
authors.forename: Colette
authors.initials: C
authors.lastname: Geneix
authors.forename: Anne-Claude
authors.initials: AC
authors.lastname: Camproux
mesh_terms: D020816:Amino Acid Motifs; D020407:Internet; D017510:Protein Folding; D020539:Sequence Analysis, Protein; D012984:Software