Proton-detected solid-state NMR detects the inter-nucleotide correlations and architecture of dimeric RNA in microcrystals

2017 ◽  
Vol 53 (96) ◽  
pp. 12886-12889 ◽  
Author(s):  
Yufei Yang ◽  
ShengQi Xiang ◽  
Xiaodan Liu ◽  
Xiaojing Pei ◽  
Pengzhi Wu ◽  
...  
Keyword(s):  
Solid State ◽  
Solid State Nmr ◽  
Base Pairs

A novel proton-detected solid-state NMR experiment detects the NH⋯N H-bonds within the Watson–Crick base pairs of RNA in crystals.

scholarly journals Identification of RNA base pairs and complete assignment of nucleobase resonances by proton-detected solid-state NMR spectroscopy at 100 kHz MAS

2021 ◽  
Author(s):  
Philipp Innig Aguion ◽  
John Kirkpatrick ◽  
Teresa Carlomagno ◽  
Alexander Marchanka
Keyword(s):  
Solid State ◽  
Solid State Nmr ◽  
Rna Structure ◽  
Rna Secondary Structure ◽  
Spin Systems ◽  
Base Pairs ◽  
Cellular Processes ◽  
Complete Assignment ◽  
Low Sensitivity ◽  
Rna Complexes

Knowledge of RNA structure, either in isolation or in complex, is fundamental to understand the mechanism of cellular processes. Solid-state NMR (ssNMR) is applicable to high molecular-weight complexes and does not require crystallization; thus, it is well-suited to study RNA as part of large multicomponent assemblies. Recently, we solved the first structures of both RNA and an RNA-protein complex by ssNMR using conventional 13C- and 15N-detection. This approach is limited by the severe overlap of the RNA peaks together with the low sensitivity of multidimensional experiments. Here, we overcome the limitations in sensitivity and resolution by using 1H-detection at fast MAS rates. We develop experiments that allow the identification of complete nucleobase spin-systems together with their site-specific base pair pattern using sub-milligram quantities of one uniformly labelled RNA sample. These experiments provide rapid access to RNA secondary structure by ssNMR in protein-RNA complexes of any size.

scholarly journals Identification of weak non-canonical base pairs around riboswitch-ligand recognition sites by solid-state NMR exchange spectroscopy

2021 ◽  
Author(s):  
Sha Zhao ◽  
Ziyang Wen ◽  
Xinming Li ◽  
Mengbing zou ◽  
Ge Yu ◽  
...  
Keyword(s):  
Solid State ◽  
Base Pair ◽  
Solid State Nmr ◽  
Chemical Exchange ◽  
Critical Role ◽  
Building Blocks ◽  
Weak Base ◽  
Base Pairs ◽  
Canonical Base ◽  
Exchange Spectroscopy

Abstract Base pairs are fundamental building blocks of RNA structures, and their stability and open-close equilibrium constitutes the dynamic picture. Weak base pairs, which feature the characteristics of low stability and rapid base pair opening, often play a critical role in RNA functions. However, site-specific identification of weak base pairs in RNA is challenging. Here, we report a solid-state NMR (SSNMR)-based two-dimensional proton-detected water–RNA exchange spectroscopy (WaterREXSY) to address this challenge. The approach uses the chemical exchange between hydrogen-bonded imino protons within the base pair and excited water molecules to polarize the imino protons for SSNMR observation. This process takes advantages that the imino protons within weak pairs undergo fast exchange rates with water, enabling a quick build-up and efficient detection. This method is used to characterize the weak pair in the riboA71–adenine complex (i.e., the 71nt-aptamer domain of the add adenine riboswitch from Vibrio vulnificus). We identify U47•U51, a weak non-canonical base pair that constitutes the U47•U51•(adenine-U74) base tetrad around the ligand-binding pocket. This result suggests that the breakage of U47•U51 may be the early stage in the process of ligand release.

Theoretical and experimental study of quadrupolar echoes for half integer spins in static solid-state NMR

2000 ◽  
Vol 98 (19) ◽  
pp. 1545-1551 ◽  
Author(s):  
Philippe R. Bodart, Jean-Paul Amoureux, Yves
Keyword(s):  
Experimental Study ◽  
Solid State ◽  
Solid State Nmr ◽  
Half Integer

Oriented bilayers of a proteolipid complex, Annexin V ? phospholipids, for solid state NMR analyses

1998 ◽  
Vol 95 (2) ◽  
pp. 474-479
Author(s):  
O. Saurel ◽  
P. Demange ◽  
A. Milon
Keyword(s):  
Solid State ◽  
Solid State Nmr ◽  
Annexin V

A useful tool for the elaboration of new solid-state NMR experiments: PULSAR

1995 ◽  
Vol 92 ◽  
pp. 1939-1942 ◽  
Author(s):  
JP Amoureux ◽  
C Fernandez ◽  
Y Dumazy
Keyword(s):  
Solid State ◽  
Solid State Nmr

Quantitative analysis by 13C solid-state NMR of eumelanins

1994 ◽  
Vol 91 ◽  
pp. 881-887 ◽  
Author(s):  
M Hervé ◽  
J Hirschinger ◽  
P Granger ◽  
P Gilard ◽  
N Goetz
Keyword(s):  
Quantitative Analysis ◽  
Solid State ◽  
Solid State Nmr
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