Functional annotation by identification of local surface similarities: a novel tool for structural genomics.

ABSTRACT:

Background

Protein function is often dependent on subsets of solvent-exposed residues that may exist in a similar three-dimensional configuration in non homologous proteins thus having different order and/or spacing in the sequence. Hence, functional annotation by means of sequence or fold similarity is not adequate for such cases.

Results

We describe a method for the function-related annotation of protein structures by means of the detection of local structural similarity with a library of annotated functional sites. An automatic procedure was used to annotate the function of local surface regions. Next, we employed a sequence-independent algorithm to compare exhaustively these functional patches with a larger collection of protein surface cavities. After tuning and validat

SUBMITTER: Ferre F 

PROVIDER: S-EPMC1190158 | biostudies-literature | 2005 Aug

REPOSITORIES: biostudies-literature