title: AutoMotif server: prediction of single residue post-translational modifications in proteins.
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%.
  
  
  BACKGROUND
  The AutoMotif Server is available free for academic use at http://automotif.bioinfo.pl/
authors.affiliation: BioInfoBank Institute, Limanowskiego 24A/16, 60-744 Poznan, Poland. darman@bioinfo.pl
authors.forename: Dariusz
authors.initials: D
authors.lastname: Plewczynski
authors.forename: Adrian
authors.initials: A
authors.lastname: Tkacz
authors.forename: Lucjan Stanislaw
authors.initials: LS
authors.lastname: Wyrwicz
authors.forename: Leszek
authors.initials: L
authors.lastname: Rychlewski
mesh_terms: D000465:Algorithms; D020816:Amino Acid Motifs; D000596:Amino Acids / Q000032:analysis / Q000737:chemistry*; D001185:Artificial Intelligence; D020407:Internet; D011499:Protein Processing, Post-Translational / Q000502:physiology*; D011506:Proteins / Q000032:analysis / Q000737:chemistry* / Q000378:metabolism*; D016415:Sequence Alignment / Q000379:methods*; D020539:Sequence Analysis, Protein / Q000379:methods*; D012984:Software; D014584:User-Computer Interface
chemical_list: D000596:Amino Acids; D011506:Proteins