AutoMotif server: prediction of single residue post-translational modifications in proteins.
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/
Plewczynski
Dariusz
D
BioInfoBank Institute, Limanowskiego 24A/16, 60-744 Poznan, Poland. darman@bioinfo.pl
Tkacz
Adrian
A
Wyrwicz
Lucjan Stanislaw
LS
Rychlewski
Leszek
L
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
D000596:Amino Acids; D011506:Proteins