Atomic accuracy in predicting and designing noncanonical RNA structure

Nat Methods. 2010 Apr;7(4):291-4. doi: 10.1038/nmeth.1433. Epub 2010 Feb 28.


We present fragment assembly of RNA with full-atom refinement (FARFAR), a Rosetta framework for predicting and designing noncanonical motifs that define RNA tertiary structure. In a test set of thirty-two 6-20-nucleotide motifs, FARFAR recapitulated 50% of the experimental structures at near-atomic accuracy. Sequence redesign calculations recovered native bases at 65% of residues engaged in noncanonical interactions, and we experimentally validated mutations predicted to stabilize a signal recognition particle domain.

MeSH terms

  • Base Sequence / genetics*
  • Models, Chemical*
  • Models, Genetic
  • Models, Molecular
  • Mutation
  • Nucleic Acid Conformation*
  • RNA / chemistry*
  • RNA / genetics
  • Signal Recognition Particle
  • Thermodynamics


  • Signal Recognition Particle
  • RNA