RNAMotifScan: automatic identification of RNA structural motifs using secondary structural alignment.

ABSTRACT: Recent studies have shown that RNA structural motifs play essential roles in RNA folding and interaction with other molecules. Computational identification and analysis of RNA structural motifs remains a challenging task. Existing motif identification methods based on 3D structure may not properly compare motifs with high structural variations. Other structural motif identification methods consider only nested canonical base-pairing structures and cannot be used to identify complex RNA structural motifs that often consist of various non-canonical base pairs due to uncommon hydrogen bond interactions. In this article, we present a novel RNA structural alignment method for RNA structural motif identification, RNAMotifScan, which takes into consideration the isosteric (both canonical and non-

SUBMITTER: Zhong C 

PROVIDER: S-EPMC2952876 | biostudies-literature | 2010 Oct

REPOSITORIES: biostudies-literature