4QKA

c-di-AMP riboswitch from Thermoanaerobacter pseudethanolicus, iridium hexamine soak

4QKA の概要

• エントリーDOI: 10.2210/pdb4qka/pdb
• 関連するPDBエントリー: 4QK8 4QK9
• 分子名称: C-di-AMP riboswitch, (2R,3R,3aS,5R,7aR,9R,10R,10aS,12R,14aR)-2,9-bis(6-amino-9H-purin-9-yl)octahydro-2H,7H-difuro[3,2-d:3',2'-j][1,3,7,9,2,8 ]tetraoxadiphosphacyclododecine-3,5,10,12-tetrol 5,12-dioxide, MAGNESIUM ION, ... (7 entities in total)
• 機能のキーワード: c-di-amp riboswitch, rna
• タンパク質・核酸の鎖数: 1
• 化学式量合計: 42670.75

構造登録者

Gao, A.,Serganov, A. (登録日: 2014-06-05, 公開日: 2014-08-06, 最終更新日: 2024-02-28)

主引用文献

Gao, A.,Serganov, A.
Structural insights into recognition of c-di-AMP by the ydaO riboswitch.
Nat.Chem.Biol., 10:787-792, 2014

PubMed Abstract: Bacterial second messenger cyclic di-AMP (c-di-AMP) is implicated in signaling DNA damage and cell wall stress through interactions with several protein receptors and a widespread ydaO-type riboswitch. We report the crystal structures of c-di-AMP riboswitches from Thermoanaerobacter pseudethanolicus and Thermovirga lienii determined at ∼3.0-Å resolution. In both species, the RNA adopts an unforeseen 'square'-shaped pseudosymmetrical architecture that features two three-way junctions, a turn and a pseudoknot, positioned in the square corners. Uncharacteristically for riboswitches, the structure is stapled by two ligand molecules that span the interior of the structure and employ similar noncanonical interactions for RNA recognition. Mutations in either ligand-binding site negatively affect c-di-AMP binding, suggesting that the riboswitch-triggered genetic response requires contribution of both ligands. Our data provide what are to our knowledge the first insights into specific sensing of c-di-AMP and a molecular mechanism underlying the common c-di-AMP-dependent control of essential cellular processes in bacteria.

PubMed: 25086507
DOI: 10.1038/nchembio.1607

実験手法

X-RAY DIFFRACTION (3.2 Å)