Amino acid residue doublet propensity in the protein-RNA interface and its application to RNA interface prediction.

ABSTRACT: Protein-RNA interactions play essential roles in a number of regulatory mechanisms for gene expression such as RNA splicing, transport, translation and post-transcriptional control. As the number of available protein-RNA complex 3D structures has increased, it is now possible to statistically examine protein-RNA interactions based on 3D structures. We performed computational analyses of 86 representative protein-RNA complexes retrieved from the Protein Data Bank. Interface residue propensity, a measure of the relative importance of different amino acid residues in the RNA interface, was calculated for each amino acid residue type (residue singlet interface propensity). In addition to the residue singlet propensity, we introduce a new residue-based propensity, which gives a measure of resid

SUBMITTER: Kim OT 

PROVIDER: S-EPMC1761430 | biostudies-literature | 2006

REPOSITORIES: biostudies-literature