5NXT

Wobble base paired RNA double helix

5NXT の概要

• エントリーDOI: 10.2210/pdb5nxt/pdb
• 分子名称: RNA (5'-R(*UP*GP*UP*UP*CP*UP*CP*UP*AP*CP*GP*AP*AP*GP*AP*AP*CP*A)-3') (2 entities in total)
• 機能のキーワード: double helix, wobble pairs, n1-adenine protonation, rna
• 由来する生物種: synthetic construct
• タンパク質・核酸の鎖数: 1
• 化学式量合計: 5717.45

構造登録者

Garg, A.,Heinemann, U. (登録日: 2017-05-10, 公開日: 2017-11-29, 最終更新日: 2024-01-17)

主引用文献

Garg, A.,Heinemann, U.
A novel form of RNA double helix based on G·U and C·A+ wobble base pairing.
RNA, 24:209-218, 2018

PubMed Abstract: Wobble base pairs are critical in various physiological functions and have been linked to local structural perturbations in double-helical structures of nucleic acids. We report a 1.38-Å resolution crystal structure of an antiparallel octadecamer RNA double helix in overall A conformation, which includes a unique, central stretch of six consecutive wobble base pairs (W helix) with two G·U and four rare C·A wobble pairs. Four adenines within the W helix are N1-protonated and wobble-base-paired with the opposing cytosine through two regular hydrogen bonds. Combined with the two G·U pairs, the C·A base pairs facilitate formation of a half turn of W-helical RNA flanked by six regular Watson-Crick base pairs in standard A conformation on either side. RNA melting experiments monitored by differential scanning calorimetry, UV and circular dichroism spectroscopy demonstrate that the RNA octadecamer undergoes a pH-induced structural transition which is consistent with the presence of a duplex with C·A base pairs at acidic pH. Our crystal structure provides a first glimpse of an RNA double helix based entirely on wobble base pairs with possible applications in RNA or DNA nanotechnology and pH biosensors.

PubMed: 29122970
DOI: 10.1261/rna.064048.117

実験手法

X-RAY DIFFRACTION (1.379 Å)