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Background

Protein phosphorylation is one of the leading mechanisms of regulation of the cells. Recently phosphorylation has been demonstrated to play an important role in Leishmania. The experimental identification of phosphorylation sites is a very time-consuming task. Moreover some sites cannot be identified experimentally because this Post Traslational Modification is intrinsically dynamic in its nature. The aim of this tool is to fill this gap providing a tool useful for all the community working on this class of parasites.


Overview

PhosTryp is a web tool specifically designed for the identification of phosphorylation sites in Trypanosomatids protein sequences. It performs predictions at serine and threonine residues. The method has been trained using phosphoproteomic data from Leishmania, Trypanosoma brucei and Trypanosoma cruzi. We have showed that the predictor can be successfully used in the task of predicting phosphorylation sites in organisms of the family Trypanosomatidae.


Method Details

The core of the method is a Support Vector Machine. The complete list of available features considered by the method are:

• the sequence of the peptide surrounding the site (+/-5 residues),
• the predictions of disorder and secondary structure,
• and a residue composition feature in a window of +/-2 residues around the site.