Prediction of RNA binding sites in proteins from amino acid sequence.

ABSTRACT: RNA-protein interactions are vitally important in a wide range of biological processes, including regulation of gene expression, protein synthesis, and replication and assembly of many viruses. We have developed a computational tool for predicting which amino acids of an RNA binding protein participate in RNA-protein interactions, using only the protein sequence as input. RNABindR was developed using machine learning on a validated nonredundant data set of interfaces from known RNA-protein complexes in the Protein Data Bank. It generates a classifier that captures primary sequence signals sufficient for predicting which amino acids in a given protein are located in the RNA-protein interface. In leave-one-out cross-validation experiments, RNABindR identifies interface residues with >85% ove

SUBMITTER: Terribilini M 

PROVIDER: S-EPMC1524891 | biostudies-literature | 2006 Aug

REPOSITORIES: biostudies-literature