ArticleNucleic acids research2011
SA-Mot: a web server for the identification of motifs of interest extracted from protein loops.
Article in Nucleic acids research, 2011. The graph could read no effect estimate from its abstract, so it casts no vote on the map. Cited by 6 papers.
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6 citing papers in PubMed.
- Exploring the potential of a structural alphabet-based tool for mining multiple target conformations and target flexibility insight.PloS one · 2017Article
- In Silico Characterization and Functional Validation of Cell Wall Modification Genes Imparting Waterlogging Tolerance in Maize.Bioinformatics and biology insights · 2017Article
- Using Local States To Drive the Sampling of Global Conformations in Proteins.Journal of chemical theory and computation · 2016Article
- BCSearch: fast structural fragment mining over large collections of protein structures.Nucleic acids research · 2015Article
- ArchDB 2014: structural classification of loops in proteins.Nucleic acids research · 2014Article
- ProBiS-2012: web server and web services for detection of structurally similar binding sites in proteins.Nucleic acids research · 2012Article
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5 authors.
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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.
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