SH3PepInt is an alignment-free, fast and sophisticated graph kernel based tool to predict SH3-peptide interactions. Total 69 built-in models are available for SH3-peptide predictions. It does not need any pre-alignment of the peptides. It computes a window analysis on the query proteins and considers 15 amino acids length peptides. User can change the step size for the window analysis. Depending on the user requirement it uses Gene Ontology database for getting more reliable interactions.
SH3PepInt - SH3 Interactions
When using SH3PepInt please cite :
- Kousik Kundu, Martin Mann, Fabrizio Costa, and Rolf Backofen
MoDPepInt: An interactive webserver for prediction of modular domain-peptide interactions
Bioinformatics, 2014, in press.
- Kousik Kundu, Fabrizio Costa, and Rolf Backofen
A graph kernel approach for alignment-free domain-peptide interaction prediction with an application to human SH3 domains
Bioinformatics, 29(13), pp. i335-i343, 2013.
Results are computed with SH3PepInt version 1.0.0