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  4. The yeast C/D box snoRNA U14 adopts a "weak" K-turn like conformation recognized by the Snu13 core protein in solution
 
research article

The yeast C/D box snoRNA U14 adopts a "weak" K-turn like conformation recognized by the Snu13 core protein in solution

Chagot, Marie-Eve
•
Quinternet, Marc
•
Rothe, Benjamin  
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September 1, 2019
Biochimie

Non-coding RNAs associate with proteins to form ribonucleoproteins (RNPs), such as ribosome, box C/D snoRNPs, H/ACA snoRNPs, ribonuclease P, telomerase and spliceosome to ensure cell viability. The assembly of these RNA-protein complexes relies on the ability of the RNA to adopt the correct bound conformation. K-turn motifs represent ubiquitous binding platform for proteins found in several cellular environment. This structural motif has an internal three-nucleotide bulge flanked on its 3' side by a G.A/A.G tandem pairs followed by one or two non-Watson-Crick pairs, and on its 5' side by a classical RNA helix. This peculiar arrangement induces a strong curvature of the phosphodiester backbone, which makes it conducive to multiple tertiary interactions. SNU13/Snu13p (Human/Yeast) binds specifically the U14 C/D box snoRNA K-turn sequence motif. This event is the prerequisite to promote the assembly of the RNP, which contains NOP58/Nop58 and NOP56/Nop56 core proteins and the 2'-O-methyl-transferase, Fibrillarin/Noplp. The U14 small nucleolar RNA is a conserved non-coding RNA found in yeast and vertebrates required for the pre-rRNA maturation and ribose methylation. Here, we report the solution structure of the free U14 snoRNA K-turn motif (kt-U14) as determined by Nuclear Magnetic Resonance. We demonstrate that a major fraction of free kt-U14 adopts a pre-folded conformation similar to protein bound K-turn, even in the absence of divalent ions. In contrast to the kt-U4 or tyrS RNA, kt-U14 displays a sharp bent in the phosphodiester backbone. The U.U and G.A tandem base pairs are formed through weak hydrogen bonds. Finally, we show that the structure of kt-U14 is stabilized upon Snu13p binding. The structure of the free U14 RNA is the first reference example for the canonical motifs of the C/D box snoRNA family. (C) 2019 Elsevier B.V. and Societe Francaise de Biochimie et Biologie Moleculaire (SFBBM). All rights reserved.

  • Details
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Type
research article
DOI
10.1016/j.biochi.2019.03.014
Web of Science ID

WOS:000480414000009

Author(s)
Chagot, Marie-Eve
Quinternet, Marc
Rothe, Benjamin  
Charpentier, Bruno
Coutant, Jerome
Manival, Xavier
Lebars, Isabelle
Date Issued

2019-09-01

Publisher

ELSEVIER FRANCE-EDITIONS SCIENTIFIQUES MEDICALES ELSEVIER

Published in
Biochimie
Volume

164

Start page

70

End page

82

Subjects

Biochemistry & Molecular Biology

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snorna u14

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k-turn

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snu13 protein

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nmr

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small nucleolar rna

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triple-resonance experiment

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pre-ribosomal-rna

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structural features

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dipolar couplings

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nmr-spectroscopy

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15.5k protein

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messenger-rna

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base-pairs

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b/c motif

Editorial or Peer reviewed

REVIEWED

Written at

EPFL

EPFL units
UPCDA  
Available on Infoscience
August 25, 2019
Use this identifier to reference this record
https://infoscience.epfl.ch/handle/20.500.14299/160634
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