3GCA

The structural basis for recognition of the preQ0 metabolite by an unusually small riboswitch aptamer domain

3GCA の概要

• エントリーDOI: 10.2210/pdb3gca/pdb
• 分子名称: PreQ1 riboswitch, 2-AMINO-4-OXO-4,7-DIHYDRO-3H-PYRROLO[2,3-D]PYRIMIDINE-5-CARBONITRILE, SULFATE ION (3 entities in total)
• 機能のキーワード: preq1, preq0, riboswitch, rna, ribosomal binding site, amptamer, metabolite
• タンパク質・核酸の鎖数: 1
• 化学式量合計: 10966.69

構造登録者

Spitale, R.C.,Wedekind, J.E. (登録日: 2009-02-21, 公開日: 2009-03-03, 最終更新日: 2024-02-21)

主引用文献

Spitale, R.C.,Torelli, A.T.,Krucinska, J.,Bandarian, V.,Wedekind, J.E.
The Structural Basis for Recognition of the PreQ0 Metabolite by an Unusually Small Riboswitch Aptamer Domain.
J.Biol.Chem., 284:11012-11016, 2009

PubMed Abstract: Riboswitches are RNA elements that control gene expression through metabolite binding. The preQ(1) riboswitch exhibits the smallest known ligand-binding domain and is of interest for its economical organization and high affinity interactions with guanine-derived metabolites required to confer tRNA wobbling. Here we present the crystal structure of a preQ(1) aptamer domain in complex with its precursor metabolite preQ(0). The structure is highly compact with a core that features a stem capped by a well organized decaloop. The metabolite is recognized within a deep pocket via Watson-Crick pairing with C15. Additional hydrogen bonds are made to invariant bases U6 and A29. The ligand-bound state confers continuous helical stacking throughout the core fold, thus providing a platform to promote Watson-Crick base pairing between C9 of the decaloop and the first base of the ribosome-binding site, G33. The structure offers insight into the mode of ribosome-binding site sequestration by a minimal RNA fold stabilized by metabolite binding and has implications for understanding the molecular basis by which bacterial genes are regulated.

PubMed: 19261617
DOI: 10.1074/jbc.C900024200

実験手法

X-RAY DIFFRACTION (2.75 Å)