Classification of protein functional surfaces using structural characteristics.

ABSTRACT: Protein structure and function are closely related, especially in functional surfaces, which are local spatial regions that perform the biological functions. Also, protein structures tend to evolve more slowly than amino acid sequences. We have therefore developed a method to classify proteins using the structures of functional surfaces; we call it protein surface classification (PSC). PSC may reflect functional relationships among proteins and may detect evolutionary relationships among highly divergent sequences. We focused on the surfaces of ligand-bound regions because they represent well-defined structures. Specifically, we used structural attributes to measure similarities between binding surfaces and constructed a PSC library of ~2,000 binding surface types from the bound forms. Usi

SUBMITTER: Tseng YY 

PROVIDER: S-EPMC3268291 | biostudies-literature | 2012 Jan

REPOSITORIES: biostudies-literature