Swellix: a computational tool to explore RNA conformational space.

ABSTRACT:

Background

The sequence of nucleotides in an RNA determines the possible base pairs for an RNA fold and thus also determines the overall shape and function of an RNA. The Swellix program presented here combines a helix abstraction with a combinatorial approach to the RNA folding problem in order to compute all possible non-pseudoknotted RNA structures for RNA sequences. The Swellix program builds on the Crumple program and can include experimental constraints on global RNA structures such as the minimum number and lengths of helices from crystallography, cryoelectron microscopy, or in vivo crosslinking and chemical probing methods.

Results

The conceptual advance in Swellix is to count helices and generate all possible combinations of helices rather than counting and combinin

SUBMITTER: Sloat N 

PROVIDER: S-EPMC5697422 | biostudies-literature | 2017 Nov

REPOSITORIES: biostudies-literature