3LWP

Structure of H/ACA RNP bound to a substrate RNA containing 5BrdU

3LWP の概要

• エントリーDOI: 10.2210/pdb3lwp/pdb
• 関連するPDBエントリー: 3LWO 3LWQ 3LWR 3LWV
• 分子名称: Probable tRNA pseudouridine synthase B, Ribosome biogenesis protein Nop10, Large ribosomal subunit protein eL8, ... (7 entities in total)
• 機能のキーワード: h/aca pseudouridine synthase, isomerase, trna processing, ribonucleoprotein, ribosome biogenesis, rrna processing, ribosomal protein, rna-binding, isomerase-rna binding protein-rna complex, isomerase/rna binding protein/rna
• 由来する生物種: Pyrococcus furiosus; 詳細
• タンパク質・核酸の鎖数: 5
• 化学式量合計: 82288.32

構造登録者

Zhou, J.,Liang, B.,Lv, C.,Yang, W.,Li, H. (登録日: 2010-02-24, 公開日: 2010-07-14, 最終更新日: 2024-11-20)

主引用文献

Zhou, J.,Lv, C.,Liang, B.,Chen, M.,Yang, W.,Li, H.
Glycosidic bond conformation preference plays a pivotal role in catalysis of RNA pseudouridylation: a combined simulation and structural study.
J.Mol.Biol., 401:690-695, 2010

PubMed Abstract: The most abundant chemical modification on RNA is isomerization of uridine (or pseudouridylation) catalyzed by pseudouridine synthases. The catalytic mechanism of this essential process remains largely speculative, partly due to lack of knowledge of the pre-reactive state that is important to the identification of reactive chemical moieties. In the present study, we showed, using orthogonal space random-walk free-energy simulation, that the pre-reactive states of uridine and its reactive derivative 5-fluorouridine, bound to a ribonucleoprotein particle pseudouridine synthase, strongly prefer the syn glycosidic bond conformation, while that of the nonreactive 5-bromouridine-containing substrate is largely populated in the anti conformation state. A high-resolution crystal structure of the 5-bromouridine-containing substrate bound to the ribonucleoprotein particle pseudouridine synthase and enzyme activity assay confirmed the anti nonreactive conformation and provided the molecular basis for its confinement. The observed preference for the syn pre-reactive state by the enzyme-bound uridine may help to distinguish among currently proposed mechanisms.

PubMed: 20615421
DOI: 10.1016/j.jmb.2010.06.061

実験手法

X-RAY DIFFRACTION (2.5 Å)