Integrating NMR and simulations reveals motions in the UUCG tetraloop.

ABSTRACT: We provide an atomic-level description of the structure and dynamics of the UUCG RNA stem-loop by combining molecular dynamics simulations with experimental data. The integration of simulations with exact nuclear Overhauser enhancements data allowed us to characterize two distinct states of this molecule. The most stable conformation corresponds to the consensus three-dimensional structure. The second state is characterized by the absence of the peculiar non-Watson-Crick interactions in the loop region. By using machine learning techniques we identify a set of experimental measurements that are most sensitive to the presence of non-native states. We find that although our MD ensemble, as well as the consensus UUCG tetraloop structures, are in good agreement with experiments, there are rema

SUBMITTER: Bottaro S 

PROVIDER: S-EPMC7293013 | biostudies-literature | 2020 Jun

REPOSITORIES: biostudies-literature