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Bioinformatics. 2005 May 15;21(10):2525-7. Epub 2005 Feb 22.

AutoMotif server: prediction of single residue post-translational modifications in proteins.

Author information

1
BioInfoBank Institute, Limanowskiego 24A/16, 60-744 Poznan, Poland. darman@bioinfo.pl

Abstract

The AutoMotif Server allows for identification of post-translational modification (PTM) sites in proteins based only on local sequence information. The local sequence preferences of short segments around PTM residues are described here as linear functional motifs (LFMs). Sequence models for all types of PTMs are trained by support vector machine on short-sequence fragments of proteins in the current release of Swiss-Prot database (phosphorylation by various protein kinases, sulfation, acetylation, methylation, amidation, etc.). The accuracy of the identification is estimated using the standard leave-one-out procedure. The sensitivities for all types of short LFMs are in the range of 70%.

AVAILABILITY:

The AutoMotif Server is available free for academic use at http://automotif.bioinfo.pl/

PMID:
15728119
DOI:
10.1093/bioinformatics/bti333
[Indexed for MEDLINE]
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