Header

UZH-Logo

Maintenance Infos

Structure determination of noncanonical RNA motifs guided by $^1$H NMR chemical shifts


Sripakdeevong, Parin; Cevec, Mirko; Chang, Andrew T; Erat, Michèle C; Ziegeler, Melanie; Zhao, Qin; Fox, Georg E; Gao, Xiaolian; Kennedy, Scott D; Kierzek, Ryszard; Nikonowicz, Edward P; Schwalbe, Harald; Sigel, Roland K O; Turner, Douglas H; Das, Rhiju (2014). Structure determination of noncanonical RNA motifs guided by $^1$H NMR chemical shifts. Nature Methods, 11(4):413-416.

Abstract

Structured noncoding RNAs underlie fundamental cellular processes, but determining their three-dimensional structures remains challenging. We demonstrate that integrating $^1$H NMR chemical shift data with Rosetta de novo modeling can be used to consistently determine high-resolution RNA structures. On a benchmark set of 23 noncanonical RNA motifs, including 11 'blind' targets, chemical-shift Rosetta for RNA (CS-Rosetta-RNA) recovered experimental structures with high accuracy (0.6–2.0 Å all-heavy-atom r.m.s. deviation) in 18 cases.

Abstract

Structured noncoding RNAs underlie fundamental cellular processes, but determining their three-dimensional structures remains challenging. We demonstrate that integrating $^1$H NMR chemical shift data with Rosetta de novo modeling can be used to consistently determine high-resolution RNA structures. On a benchmark set of 23 noncanonical RNA motifs, including 11 'blind' targets, chemical-shift Rosetta for RNA (CS-Rosetta-RNA) recovered experimental structures with high accuracy (0.6–2.0 Å all-heavy-atom r.m.s. deviation) in 18 cases.

Statistics

Citations

Dimensions.ai Metrics
32 citations in Web of Science®
37 citations in Scopus®
56 citations in Microsoft Academic
Google Scholar™

Altmetrics

Additional indexing

Item Type:Journal Article, refereed, original work
Communities & Collections:07 Faculty of Science > Department of Chemistry
Dewey Decimal Classification:540 Chemistry
Language:English
Date:April 2014
Deposited On:20 Feb 2015 10:23
Last Modified:14 Feb 2018 23:01
Publisher:Nature Publishing Group
ISSN:1548-7091
OA Status:Closed
Publisher DOI:https://doi.org/10.1038/nmeth.2876

Download

Full text not available from this repository.
View at publisher

Get full-text in a library