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dc.creatorFimereli, D. K.en
dc.creatorTsirigos, K. D.en
dc.creatorLitou, Z. I.en
dc.creatorLiakopoulos, T. D.en
dc.creatorBagos, P. G.en
dc.creatorHamodrakas, S. J.en
dc.date.accessioned2015-11-23T10:26:33Z
dc.date.available2015-11-23T10:26:33Z
dc.date.issued2012
dc.identifier10.1007/978-3-642-30448-4_36
dc.identifier.isbn9783642304477
dc.identifier.issn3029743
dc.identifier.urihttp://hdl.handle.net/11615/27467
dc.description.abstractGram-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 Hidden Markov Model (HMM) was developed for predicting the LPXTG and LPXTG-like cell-wall proteins of Gram-positive bacteria. The model is the first capable of predicting alternative (i.e. other than LPXTG-containing) substrates. Our analysis of 177 completely sequenced genomes identified 1456 cell-wall proteins, a number larger compared to the previously available methods. Among these, apart from the previously identified 1283 proteins carrying the LPXTG motif, we identified 39 newly identified proteins carrying NPXTG, 53 carrying LPXTA and 81 carrying the LAXTG motif. The tool is freely available for academic use at http://bioinformatics.biol.uoa.gr/ CW-PRED/ . © 2012 Springer-Verlag.en
dc.source.urihttp://www.scopus.com/inward/record.url?eid=2-s2.0-84861654099&partnerID=40&md5=dc87837ae83f592f92b94511476ca548
dc.subjectcell-wall proteinsen
dc.subjectGram-positive bacteriaen
dc.subjectHidden Markov Modelsen
dc.subjectLPXTG-like motifsen
dc.subjectproteome analysisen
dc.subjectsortase substratesen
dc.subjectCell wallsen
dc.subjectCovalent couplingsen
dc.subjectExtracellular proteinsen
dc.subjectGram-positive bacteriumen
dc.subjectPeptidoglycansen
dc.subjectSortaseen
dc.subjectSurface proteinsen
dc.subjectArtificial intelligenceen
dc.subjectBacteriaen
dc.subjectCellsen
dc.subjectCytologyen
dc.subjectProteinsen
dc.titleCW-PRED: A HMM-based method for the classification of cell wall-anchored proteins of Gram-positive bacteriaen
dc.typeotheren


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