R3D-BLAST2: an improved search tool for similar RNA 3D substructures.

ABSTRACT: BACKGROUND:RNA molecules have been known to play a variety of significant roles in cells. In principle, the functions of RNAs are largely determined by their three-dimensional (3D) structures. As more and more RNA 3D structures are available in the Protein Data Bank (PDB), a bioinformatics tool, which is able to rapidly and accurately search the PDB database for similar RNA 3D structures or substructures, is helpful to understand the structural and functional relationships of RNAs. RESULTS:Since its first release in 2011, R3D-BLAST has become a useful tool for searching the PDB database for similar RNA 3D structures and substructures. It was implemented by a structural-alphabet (SA)-based method, which utilizes an SA with 23 structural letters to encode RNA 3D structures into one-dimension

SUBMITTER: Yen CY 

PROVIDER: S-EPMC5751785 | biostudies-literature | 2017 Dec

REPOSITORIES: biostudies-literature