Better prediction of protein contact number using a support vector regression analysis of amino acid sequence.

ABSTRACT:

Background

Protein tertiary structure can be partly characterized via each amino acid's contact number measuring how residues are spatially arranged. The contact number of a residue in a folded protein is a measure of its exposure to the local environment, and is defined as the number of Cbeta atoms in other residues within a sphere around the Cbeta atom of the residue of interest. Contact number is partly conserved between protein folds and thus is useful for protein fold and structure prediction. In turn, each residue's contact number can be partially predicted from primary amino acid sequence, assisting tertiary fold analysis from sequence data. In this study, we provide a more accurate contact number prediction method from protein primary sequence.

Results

We predict con

SUBMITTER: Yuan Z 

PROVIDER: S-EPMC1277819 | biostudies-literature | 2005 Oct

REPOSITORIES: biostudies-literature