2DLJ

2'-Me-Se and Br Derivitation of A-DNA Octamer G(UMS)G(BRU)ACAC

2DLJ の概要

• エントリーDOI: 10.2210/pdb2dlj/pdb
• 関連するPDBエントリー: 1Z7I 2GPX
• 分子名称: 5'-D(*GP*(UMS)P*GP*(BRU)P*AP*CP*AP*C)-3' (2 entities in total)
• 機能のキーワード: 2'-methylseleno-uridine, se-dna, se-br-dna, selenium derivatization, dna
• タンパク質・核酸の鎖数: 1
• 化学式量合計: 2570.45

構造登録者

Jiang, J.,Huang, Z. (登録日: 2006-04-19, 公開日: 2006-05-23, 最終更新日: 2024-02-14)

主引用文献

Jiang, J.,Sheng, J.,Carrasco, N.,Huang, Z.
Selenium derivatization of nucleic acids for crystallography.
Nucleic Acids Res., 35:477-485, 2007

PubMed Abstract: The high-resolution structure of the DNA (5'-GTGTACA-C-3') with the selenium derivatization at the 2'-position of T2 was determined via MAD and SAD phasing. The selenium-derivatized structure (1.28 A resolution) with the 2'-Se modification in the minor groove is isomorphorous to the native structure (2.0 A). To directly compare with the conventional bromine derivatization, we incorporated bromine into the 5-postion of T4, determined the bromine-derivatized DNA structure at 1.5 A resolution, and found that the local backbone torsion angles and solvent hydration patterns were altered in the structure with the Br incorporation in the major groove. Furthermore, while the native and Br-derivatized DNAs needed over a week to form reasonable-size crystals, we observed that the Se-derivatized DNAs grew crystals overnight with high-diffraction quality, suggesting that the Se derivatization facilitated the crystal formation. In addition, the Se-derivatized DNA sequences crystallized under a broader range of buffer conditions, and generally had a faster crystal growth rate. Our experimental results indicate that the selenium derivatization of DNAs may facilitate the determination of nucleic acid X-ray crystal structures in phasing and high-quality crystal growth. In addition, our results suggest that the Se derivatization can be an alternative to the conventional Br derivatization.

PubMed: 17169989
DOI: 10.1093/nar/gkl1070

実験手法

X-RAY DIFFRACTION (1.5 Å)