6PQ7

Structure of the iMango-III fluorescent aptamer at room temperature.

6PQ7 の概要

• エントリーDOI: 10.2210/pdb6pq7/pdb
• 関連するPDBエントリー: 6E8U
• 分子名称: RNA (37-MER), MAGNESIUM ION, ~{N}-[2-[2-[2-[2-[2-[2-[(1-methylquinolin-4-yl)methyl]-1,3-benzothiazol-3-yl]ethanoylamino]ethoxy]ethoxy]ethoxy]ethyl]pentanamide, ... (4 entities in total)
• 機能のキーワード: fluorescent, rna, aptamer, xfels
• 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: 12722.34

構造登録者

Trachman III, R.J.,Ferre-D'Amare, A.R. (登録日: 2019-07-08, 公開日: 2019-07-31, 最終更新日: 2023-10-11)

主引用文献

Trachman III, R.J.,Stagno, J.R.,Conrad, C.,Jones, C.P.,Fischer, P.,Meents, A.,Wang, Y.X.,Ferre-D'Amare, A.R.
Co-crystal structure of the iMango-III fluorescent RNA aptamer using an X-ray free-electron laser.
Acta Crystallogr.,Sect.F, 75:547-551, 2019

PubMed Abstract: Turn-on aptamers are in vitro-selected RNAs that bind to conditionally fluorescent small molecules and enhance their fluorescence. Upon binding TO1-biotin, the iMango-III aptamer achieves the largest fluorescence enhancement reported for turn-on aptamers (over 5000-fold). This aptamer was generated by structure-guided engineering and functional reselection of the parental aptamer Mango-III. Structures of both Mango-III and iMango-III have previously been determined by conventional cryocrystallography using synchrotron X-radiation. Using an X-ray free-electron laser (XFEL), the room-temperature iMango-III-TO1-biotin co-crystal structure has now been determined at 3.0 Å resolution. This structural model, which was refined against a data set of ∼1300 diffraction images (each from a single crystal), is largely consistent with the structures determined from single-crystal data sets collected at 100 K. This constitutes a technical benchmark on the way to XFEL pump-probe experiments on fluorescent RNA-small molecule complexes.

PubMed: 31397326
DOI: 10.1107/S2053230X19010136

実験手法

X-RAY DIFFRACTION (3 Å)