Time-Resolved, Single-Molecule, Correlated Chemical Probing of RNA.
Journal
Journal of the American Chemical Society
ISSN: 1520-5126
Titre abrégé: J Am Chem Soc
Pays: United States
ID NLM: 7503056
Informations de publication
Date de publication:
04 11 2020
04 11 2020
Historique:
pubmed:
24
10
2020
medline:
15
4
2021
entrez:
23
10
2020
Statut:
ppublish
Résumé
Capturing the folding dynamics of large, functionally important RNAs has relied primarily on global measurements of structure or on per-nucleotide chemical probing. These approaches infer, but do not directly measure, through-space structural interactions. Here we introduce trimethyloxonium (TMO) as a chemical probe for RNA. TMO alkylates RNA at high levels in seconds, and thereby enables time-resolved, single-molecule, through-space probing of RNA folding using the RING-MaP correlated chemical probing framework. Time-resolved correlations in the RNase P RNA-a functional RNA with a complex structure stabilized by multiple noncanonical interactions-revealed that a long-range tertiary interaction guides native RNA folding for both secondary and tertiary structure. This unanticipated nonhierarchical folding mechanism was directly validated by examining the consequences of concise disruption of the through-space interaction. Single-molecule, time-resolved RNA structure probing with TMO is poised to reveal a wide range of dynamic RNA folding processes and principles of RNA folding.
Identifiants
pubmed: 33095984
doi: 10.1021/jacs.0c06221
pmc: PMC7917579
mid: NIHMS1671766
doi:
Substances chimiques
Onium Compounds
0
Sulfuric Acid Esters
0
RNA
63231-63-0
Ribonuclease P
EC 3.1.26.5
dimethyl sulfate
JW5CW40Z50
trimethyloxonium
RG47L030LR
Types de publication
Journal Article
Research Support, N.I.H., Extramural
Langues
eng
Sous-ensembles de citation
IM
Pagination
18735-18740Subventions
Organisme : NHLBI NIH HHS
ID : R01 HL111527
Pays : United States
Organisme : NIGMS NIH HHS
ID : R35 GM122532
Pays : United States
Références
RNA. 2011 Jun;17(6):1159-71
pubmed: 21531920
RNA. 2017 Jan;23(1):6-13
pubmed: 27803152
Annu Rev Biophys. 2010;39:61-77
pubmed: 20192764
Annu Rev Virol. 2019 Sep 29;6(1):93-117
pubmed: 31337286
Curr Opin Struct Biol. 2010 Jun;20(3):295-304
pubmed: 20447823
Proc Natl Acad Sci U S A. 2001 Apr 10;98(8):4355-60
pubmed: 11296284
Proc Natl Acad Sci U S A. 2019 Dec 3;116(49):24574-24582
pubmed: 31744869
Q Rev Biophys. 2016 Jan;49:e7
pubmed: 27266715
PLoS Biol. 2019 Sep 5;17(9):e3000393
pubmed: 31487286
Curr Opin Struct Biol. 2002 Oct;12(5):648-53
pubmed: 12464318
Proc Natl Acad Sci U S A. 1980 Aug;77(8):4679-82
pubmed: 6159633
Methods Enzymol. 2000;318:479-93
pubmed: 10890007
Biochemistry. 2018 Jul 3;57(26):3537-3539
pubmed: 29894169
Nat Protoc. 2015 Nov;10(11):1643-69
pubmed: 26426499
RNA. 2009 Feb;15(2):266-76
pubmed: 19095619
Proc Natl Acad Sci U S A. 2009 Sep 15;106(37):15622-7
pubmed: 19717440
Annu Rev Biophys Biomol Struct. 1997;26:113-37
pubmed: 9241415
Proc Natl Acad Sci U S A. 2018 Nov 6;115(45):11513-11518
pubmed: 30341219
Cold Spring Harb Perspect Biol. 2018 Oct 1;10(10):
pubmed: 30275276
Proc Natl Acad Sci U S A. 2014 Sep 23;111(38):13858-63
pubmed: 25205807