Hierarchical Assembly of RNA Three-Dimensional Structures Based on Loop Templates.

ABSTRACT: The current RNA structure prediction methods cannot keep up the pace of the rapidly increasing number of sequences and the emerging new functions of RNAs. Template-based RNA three-dimensional structure prediction methods are restricted by the limited number of known RNA structures, and traditional motif-based search for the templates does not always lead to successful results. Here we report a new template search and assembly algorithm, the hierarchical loop template-assembly method (VfoldLA). The method searches for templates for single strand loop/junctions instead of the whole motifs, which often renders no available templates, or short fragments (several nucleotides), which requires a long computational time to assemble and refine. The VfoldLA method has the advantage of accounting for

SUBMITTER: Xu X 

PROVIDER: S-EPMC6996860 | biostudies-literature | 2018 May

REPOSITORIES: biostudies-literature