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

被引：0

作者：

Sripakdeevong, Parin ^{[1
]}

Cevec, Mirko ^{[2
]}

Chang, Andrew T. ^{[3
]}

Erat, Michele C. ^{[4
,5
]}

Ziegeler, Melanie ^{[2
]}

Zhao, Qin ^{[6
]}

Fox, George E. ^{[7
]}

Gao, Xiaolian ^{[7
]}

Kennedy, Scott D. ^{[8
]}

Kierzek, Ryszard ^{[9
]}

Nikonowicz, Edward P. ^{[3
]}

Schwalbe, Harald ^{[2
]}

Sigel, Roland K. O. ^{[5
]}

Turner, Douglas H. ^{[10
]}

Das, Rhiju ^{[1
,11
,12
]}

机构：

[1] Stanford Univ, Biophys Program, Stanford, CA 94305 USA

[2] Goethe Univ Frankfurt, Inst Organ Chem & Chem Biol, Ctr Biomol Magnet Resonance, D-60054 Frankfurt, Germany

[3] Rice Univ, Dept Biochem & Cell Biol, Houston, TX 77251 USA

[4] Univ Oxford, Dept Biochem, Oxford OX1 3QU, England

[5] Univ Zurich, Inst Inorgan Chem, CH-8057 Zurich, Switzerland

[6] Northwestern Univ, Feinberg Sch Med, Chicago, IL 60611 USA

[7] Univ Houston, Dept Biol & Biochem, Houston, TX USA

[8] Univ Rochester, Sch Med & Dent, Dept Biochem & Biophys, Rochester, NY USA

[9] Polish Acad Sci, Inst Bioorgan Chem, Poznan, Poland

[10] Univ Rochester, Dept Chem, Rochester, NY USA

[11] Stanford Univ, Dept Biochem, Stanford, CA 94305 USA

[12] Stanford Univ, Dept Phys, Stanford, CA 94305 USA

来源：

NATURE METHODS | 2014年 / 11卷 / 04期

基金：

瑞士国家科学基金会; 美国国家卫生研究院; 美国国家科学基金会;

关键词：

INTERNAL LOOP; STRUCTURE REFINEMENT; CRYSTAL-STRUCTURE; ESCHERICHIA-COLI; ATOMIC-ACCURACY; NMR STRUCTURE; DOMAIN-IV; CONFORMATION; REVEALS; ABSENCE;

D O I：

10.1038/NMETH.2876

中图分类号：

Q5 [生物化学];

学科分类号：

071010 ; 081704 ;

摘要：

Structured noncoding RNAs underlie fundamental cellular processes, but determining their three-dimensional structures remains challenging. We demonstrate that integrating H-1 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 angstrom all-heavy-atom r.m.s. deviation) in 18 cases.

引用

页码：413 / +

页数：6

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