5V3F

Co-crystal structure of the fluorogenic RNA Mango

5V3F の概要

• エントリーDOI: 10.2210/pdb5v3f/pdb
• 分子名称: RNA (31-MER), POTASSIUM ION, 4-{[(2S)-3-{2,16-dioxo-20-[(3aS,4S,6aR)-2-oxohexahydro-1H-thieno[3,4-d]imidazol-4-yl]-6,9,12-trioxa-3,15-diazaicosan-1-yl}-2,3-dihydro-1,3-benzothiazol-2-yl]methyl}-1-methylquinolin-1-ium, ... (5 entities in total)
• 機能のキーワード: quadruplex fluorescent rna, rna
• 由来する生物種: synthetic construct
• タンパク質・核酸の鎖数: 2
• 化学式量合計: 22428.93

構造登録者

Trachman, R.J.,Ferre-D'Amare, A.R. (登録日: 2017-03-07, 公開日: 2017-05-24, 最終更新日: 2024-03-06)

主引用文献

Trachman, R.J.,Demeshkina, N.A.,Lau, M.W.L.,Panchapakesan, S.S.S.,Jeng, S.C.Y.,Unrau, P.J.,Ferre-D'Amare, A.R.
Structural basis for high-affinity fluorophore binding and activation by RNA Mango.
Nat. Chem. Biol., 13:807-813, 2017

PubMed Abstract: Genetically encoded fluorescent protein tags have revolutionized proteome studies, whereas the lack of intrinsically fluorescent RNAs has hindered transcriptome exploration. Among several RNA-fluorophore complexes that potentially address this problem, RNA Mango has an exceptionally high affinity for its thiazole orange (TO)-derived fluorophore, TO1-Biotin (K ∼3 nM), and, in complex with related ligands, it is one of the most redshifted fluorescent macromolecular tags known. To elucidate how this small aptamer exhibits such properties, which make it well suited for studying low-copy cellular RNAs, we determined its 1.7-Å-resolution co-crystal structure. Unexpectedly, the entire ligand, including TO, biotin and the linker connecting them, abuts one of the near-planar faces of the three-tiered G-quadruplex. The two heterocycles of TO are held in place by two loop adenines and form a 45° angle with respect to each other. Minimizing this angle would increase quantum yield and further improve this tool for in vivo RNA visualization.

PubMed: 28553947
DOI: 10.1038/nchembio.2392

実験手法

X-RAY DIFFRACTION (1.7 Å)