Atomic accuracy in predicting and designing noncanonical RNA structure

TitleAtomic accuracy in predicting and designing noncanonical RNA structure
Publication TypeJournal Article
Year of Publication2010
AuthorsDas, R., Karanicolas J., & Baker D.
JournalNature methods
Volume7
Issue4
Pagination291-4
Date Published2010 Apr
ISSN1548-7105
KeywordsBase Sequence, Models, Chemical, Models, Genetic, Models, Molecular, Mutation, Nucleic Acid Conformation, Primary Publication, RNA, Signal Recognition Particle, Thermodynamics
Abstract

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.

Alternate JournalNat. Methods
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