SimRNA: a coarse-grained method for RNA folding simulations and 3D structure prediction.

ABSTRACT: RNA molecules play fundamental roles in cellular processes. Their function and interactions with other biomolecules are dependent on the ability to form complex three-dimensional (3D) structures. However, experimental determination of RNA 3D structures is laborious and challenging, and therefore, the majority of known RNAs remain structurally uncharacterized. Here, we present SimRNA: a new method for computational RNA 3D structure prediction, which uses a coarse-grained representation, relies on the Monte Carlo method for sampling the conformational space, and employs a statistical potential to approximate the energy and identify conformations that correspond to biologically relevant structures. SimRNA can fold RNA molecules using only sequence information, and, on established test sequenc

SUBMITTER: Boniecki MJ 

PROVIDER: S-EPMC4838351 | biostudies-literature | 2016 Apr

REPOSITORIES: biostudies-literature