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A statistical torsion angle potential improves the quality of NMR-based RNA structures

Friday, September 18, 2015 — Poster Session IV

12:00 p.m. – 1:30 p.m.
FAES Terrace
CIT
STRUCTBIO-2

Authors

  • GA Bermejo
  • GM Clore
  • CD Schwieters

Abstract

A growing consensus among structural biologists suggests that the backbone of RNA is rotameric, i.e, only a finite number of discrete backbone conformers are physically allowed. Upon surveying structures from the Protein Data Bank we found that NMR-based RNA structures contain, in general, a larger fraction of conformational outliers than high-resolution X-ray counterparts. Here, we develop a new statistical torsion angle potential for RNA by applying adaptive kernel density estimation on a database of high-resolution X-ray structures. When tested on a set of six RNA systems, we find that the statistical potential, implemented during molecular dynamics calculations, reduces the fraction of backbone conformational outliers and improves the agreement with cross-validated residual dipolar couplings.

Category: Structural Biology