1P79

Crystal structure of a bulged RNA tetraplex: implications for a novel binding site in RNA tetraplex

1P79 の概要

• エントリーDOI: 10.2210/pdb1p79/pdb
• 分子名称: 5'-R(*UP*GP*UP*GP*GP*U)-3', POTASSIUM ION (3 entities in total)
• 機能のキーワード: rna, tetraplex, bulge
• タンパク質・核酸の鎖数: 1
• 化学式量合計: 2026.45

構造登録者

Pan, B.,Xiong, Y.,Shi, K.,Sundaralingam, M. (登録日: 2003-04-30, 公開日: 2003-11-04, 最終更新日: 2024-02-14)

主引用文献

Pan, B.,Xiong, Y.,Shi, K.,Sundaralingam, M.
Crystal Structure of a Bulged RNA Tetraplex at 1.1 A Resolution: Implications for a Novel Binding Site in RNA Tetraplex
STRUCTURE, 11:1423-1430, 2003

PubMed Abstract: Bulges are an important structural motif in RNA and can be used as recognition and interaction sites in RNA-protein interaction and RNA-RNA interaction. Here we report the first crystal structure of a bulged RNA tetraplex at 1.1 A resolution. The hexamer r(U)(BrdG)r(UGGU) forms a parallel tetraplex with the uridine sandwiched by guanines bulging out. The bulged uridine adopts the syn glycosidic conformation and its O2 and N3 atoms face outwards, serving as an effective recognition and interaction site. The bulge formation both widens the groove width and changes the groove hydrogen-bonding pattern on its 5' side. However, the bulge does not make any bends or kinks in the tetraplex structure. The present study demonstrates the dramatic difference between uridine and guanine in forming tetraplex structure. In addition, both G(syn) tetrad and G(anti) tetrad have been observed. They display the same base-pairing pattern and similar C1'-C1' distance but different hydrogen-bonding patterns in the groove.

PubMed: 14604532
DOI: 10.1016/j.str.2003.09.017

実験手法

X-RAY DIFFRACTION (1.1 Å)