URL: http://bioinformatics.biol.uoa.gr/CW-PRED/
Proper Citation: CW-PRED (RRID:SCR_006188)
Description: A web tool for the prediction of Cell Wall-Anchored Proteins in Gram+ Bacteria. Gram-positive bacteria have surface proteins that are often implicated in virulence. A group of extracellular proteins attached to the cell wall contains an LPXTG-like motif that is target for cleavage and covalent coupling to peptidoglycan by sortase enzymes. A new Hidden Markov Model (HMM), an extension to the HMM model from Litou et al., http://www.ncbi.nlm.nih.gov/pubmed/18464329, was developed for predicting the LPXTG and LPXTG-like cell-wall proteins of Gram-positive bacteria. An analysis of 177 completely sequenced genomes has been performed as well. We identified in total 1456 cell-wall proteins, from which 1283 have the LPXTG motif, 39 the NPXTG motif, 53 have the LPXTA and 81 the LAXTG motif.
Abbreviations: CW-PRED
Synonyms: CW-PRED: A HMM-based method for the classification of cell wall-anchored proteins of Gram-positive bacteria
Resource Type: analysis service resource, service resource, data analysis service, production service resource
Keywords: hidden markov model, gram-positive bacteria, protein, classification, cell-wall protein
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University of Athens Biophysics and Bioinformatics Laboratory |
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