Automated prediction of protein function and detection of functional sites from structure.

ABSTRACT: Current structural genomics projects are yielding structures for proteins whose functions are unknown. Accordingly, there is a pressing requirement for computational methods for function prediction. Here we present PHUNCTIONER, an automatic method for structure-based function prediction using automatically extracted functional sites (residues associated to functions). The method relates proteins with the same function through structural alignments and extracts 3D profiles of conserved residues. Functional features to train the method are extracted from the Gene Ontology (GO) database. The method extracts these features from the entire GO hierarchy and hence is applicable across the whole range of function specificity. 3D profiles associated with 121 GO annotations were extracted. We tested

SUBMITTER: Pazos F 

PROVIDER: S-EPMC522026 | biostudies-literature | 2004 Oct

REPOSITORIES: biostudies-literature