Prediction of protein-protein interaction sites in sequences and 3D structures by random forests.

ABSTRACT: Identifying interaction sites in proteins provides important clues to the function of a protein and is becoming increasingly relevant in topics such as systems biology and drug discovery. Although there are numerous papers on the prediction of interaction sites using information derived from structure, there are only a few case reports on the prediction of interaction residues based solely on protein sequence. Here, a sliding window approach is combined with the Random Forests method to predict protein interaction sites using (i) a combination of sequence- and structure-derived parameters and (ii) sequence information alone. For sequence-based prediction we achieved a precision of 84% with a 26% recall and an F-measure of 40%. When combined with structural information, the prediction perfo

SUBMITTER: Sikic M 

PROVIDER: S-EPMC2621338 | biostudies-literature | 2009 Jan

REPOSITORIES: biostudies-literature