5BJP

Crystal structure of the Corn RNA aptamer in complex with DFHO, iridium hexammine soak

5BJP の概要

• エントリーDOI: 10.2210/pdb5bjp/pdb
• 分子名称: RNA (36-MER), IRIDIUM ION, POTASSIUM ION, ... (7 entities in total)
• 機能のキーワード: aptamer, fluorogenic 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: 24536.98

構造登録者

Warner, K.D.,Song, W.,Filonov, G.S.,Jaffrey, S.R.,Ferre-D'Amare, A.R. (登録日: 2016-08-21, 公開日: 2017-09-27, 最終更新日: 2024-03-06)

主引用文献

Warner, K.D.,Sjekloca, L.,Song, W.,Filonov, G.S.,Jaffrey, S.R.,Ferre-D'Amare, A.R.
A homodimer interface without base pairs in an RNA mimic of red fluorescent protein.
Nat. Chem. Biol., 13:1195-1201, 2017

PubMed Abstract: Corn, a 28-nucleotide RNA, increases yellow fluorescence of its cognate ligand 3,5-difluoro-4-hydroxybenzylidene-imidazolinone-2-oxime (DFHO) by >400-fold. Corn was selected in vitro to overcome limitations of other fluorogenic RNAs, particularly rapid photobleaching. We now report the Corn-DFHO co-crystal structure, discovering that the functional species is a quasisymmetric homodimer. Unusually, the dimer interface, in which six unpaired adenosines break overall two-fold symmetry, lacks any intermolecular base pairs. The homodimer encapsulates one DFHO at its interprotomer interface, sandwiching it with a G-quadruplex from each protomer. Corn and the green-fluorescent Spinach RNA are structurally unrelated. Their convergent use of G-quadruplexes underscores the usefulness of this motif for RNA-induced small-molecule fluorescence. The asymmetric dimer interface of Corn could provide a basis for the development of mutants that only fluoresce as heterodimers. Such variants would be analogous to Split GFP, and may be useful for analyzing RNA co-expression or association, or for designing self-assembling RNA nanostructures.

PubMed: 28945234
DOI: 10.1038/nchembio.2475

実験手法

X-RAY DIFFRACTION (2.51 Å)