NMR evidence for helix geometry modifications by a G-U wobble base pair in the acceptor arm of E. coli tRNA Ala

Stefan Limmer; Bernd Reif; Günther Ott; Lubos Arnold; Mathias Sprinzl

doi:10.1016/0014-5793(96)00339-0

NMR evidence for helix geometry modifications by a G-U wobble base pair in the acceptor arm of E. coli tRNA ^Ala

Stefan Limmer, Bernd Reif, Günther Ott, Lubos Arnold, Mathias Sprinzl

Research output: Contribution to journal › Article › peer-review

44 Scopus citations

Abstract

A ribooligonucleotide duplex representing the acceptor stem of E. coli RNA^Ala with a G3-U70 wobble base pair, which is the main identity element for the recognition by the alanine-tRNA synthetase, has been characterized by 2D-NMR, as having two sequence variants with a regular Watson-Crick G3-C70 and an 13-U70 wobble pair, respectively. As compared to a regular A-RNA, the G-U base pair gives rise to variations of the local helix geometry which are reflected in distinct local chemical shift changes. Structural differences between the duplex possessing an 13-U70 base pair and the wild-type G3-U70 sequence have also been found. The nucleotides in the ubiquitous single-stranded NCCA terminus display a surprisingly high degree of stacking order, especially between A73, C74, and C75.

Original language	English
Pages (from-to)	15-20
Number of pages	6
Journal	FEBS Letters
Volume	385
Issue number	1-2
DOIs	https://doi.org/10.1016/0014-5793(96)00339-0
State	Published - 29 Apr 1996
Externally published	Yes

Keywords

Helix geometry
Identity element
NMR
RNA
Wobble base pair

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10.1016/0014-5793(96)00339-0

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title = "NMR evidence for helix geometry modifications by a G-U wobble base pair in the acceptor arm of E. coli tRNA Ala",

abstract = "A ribooligonucleotide duplex representing the acceptor stem of E. coli RNAAla with a G3-U70 wobble base pair, which is the main identity element for the recognition by the alanine-tRNA synthetase, has been characterized by 2D-NMR, as having two sequence variants with a regular Watson-Crick G3-C70 and an 13-U70 wobble pair, respectively. As compared to a regular A-RNA, the G-U base pair gives rise to variations of the local helix geometry which are reflected in distinct local chemical shift changes. Structural differences between the duplex possessing an 13-U70 base pair and the wild-type G3-U70 sequence have also been found. The nucleotides in the ubiquitous single-stranded NCCA terminus display a surprisingly high degree of stacking order, especially between A73, C74, and C75.",

keywords = "Helix geometry, Identity element, NMR, RNA, Wobble base pair",

author = "Stefan Limmer and Bernd Reif and G{\"u}nther Ott and Lubos Arnold and Mathias Sprinzl",

note = "Funding Information: Acknowledgements: We thank Drs. P. R&h and A. Ejchart (Bayr-euth) for kind support with their NMR equipment, and Drs. W.H. McClain (Madison, Wisconsin) and P. Bayer (Bayreuth) for discussions. This work was supported by the Deutsche Forschungsge-meinschaft, Sonderforschungsbereich 213 (Projekt D4).",

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doi = "10.1016/0014-5793(96)00339-0",

language = "English",

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T1 - NMR evidence for helix geometry modifications by a G-U wobble base pair in the acceptor arm of E. coli tRNA Ala

AU - Limmer, Stefan

AU - Reif, Bernd

AU - Ott, Günther

AU - Arnold, Lubos

AU - Sprinzl, Mathias

N1 - Funding Information: Acknowledgements: We thank Drs. P. R&h and A. Ejchart (Bayr-euth) for kind support with their NMR equipment, and Drs. W.H. McClain (Madison, Wisconsin) and P. Bayer (Bayreuth) for discussions. This work was supported by the Deutsche Forschungsge-meinschaft, Sonderforschungsbereich 213 (Projekt D4).

PY - 1996/4/29

Y1 - 1996/4/29

N2 - A ribooligonucleotide duplex representing the acceptor stem of E. coli RNAAla with a G3-U70 wobble base pair, which is the main identity element for the recognition by the alanine-tRNA synthetase, has been characterized by 2D-NMR, as having two sequence variants with a regular Watson-Crick G3-C70 and an 13-U70 wobble pair, respectively. As compared to a regular A-RNA, the G-U base pair gives rise to variations of the local helix geometry which are reflected in distinct local chemical shift changes. Structural differences between the duplex possessing an 13-U70 base pair and the wild-type G3-U70 sequence have also been found. The nucleotides in the ubiquitous single-stranded NCCA terminus display a surprisingly high degree of stacking order, especially between A73, C74, and C75.

AB - A ribooligonucleotide duplex representing the acceptor stem of E. coli RNAAla with a G3-U70 wobble base pair, which is the main identity element for the recognition by the alanine-tRNA synthetase, has been characterized by 2D-NMR, as having two sequence variants with a regular Watson-Crick G3-C70 and an 13-U70 wobble pair, respectively. As compared to a regular A-RNA, the G-U base pair gives rise to variations of the local helix geometry which are reflected in distinct local chemical shift changes. Structural differences between the duplex possessing an 13-U70 base pair and the wild-type G3-U70 sequence have also been found. The nucleotides in the ubiquitous single-stranded NCCA terminus display a surprisingly high degree of stacking order, especially between A73, C74, and C75.

KW - Helix geometry

KW - Identity element

KW - NMR

KW - RNA

KW - Wobble base pair

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AN - SCOPUS:0029886448

SN - 0014-5793

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JO - FEBS Letters

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IS - 1-2

ER -

NMR evidence for helix geometry modifications by a G-U wobble base pair in the acceptor arm of E. coli tRNA ^Ala

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Keywords

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