Elastic network models capture the motions apparent within ensembles of RNA structures.

ABSTRACT: The role of structure and dynamics in mechanisms for RNA becomes increasingly important. Computational approaches using simple dynamics models have been successful at predicting the motions of proteins and are often applied to ribonucleo-protein complexes but have not been thoroughly tested for well-packed nucleic acid structures. In order to characterize a true set of motions, we investigate the apparent motions from 16 ensembles of experimentally determined RNA structures. These indicate a relatively limited set of motions that are captured by a small set of principal components (PCs). These limited motions closely resemble the motions computed from low frequency normal modes from elastic network models (ENMs), either at atomic or coarse-grained resolution. Various ENM model types, param

SUBMITTER: Zimmermann MT 

PROVIDER: S-EPMC4024634 | biostudies-literature | 2014 Jun

REPOSITORIES: biostudies-literature