2GQ4

Crystal structure of an RNA racemate

2GQ4 の概要

• エントリーDOI: 10.2210/pdb2gq4/pdb
• 関連するPDBエントリー: 2GQ5 2GQ6 2GQ7 2g32 2gpm
• 分子名称: RNA (5'-R(*(0C)P*(0U)P*(0G)P*(0G)P*(0G)P*(0C)P*(0G)P*(0G))-3'), RNA (5'-R(*(0C)P*(0C)P*(0G)P*(0C)P*(0C)P*(0U)P*(0G)P*(0G))-3'), CALCIUM ION, ... (5 entities in total)
• 機能のキーワード: deouble helix, racemate, rna
• タンパク質・核酸の鎖数: 4
• 化学式量合計: 10562.87

構造登録者

Rypniewski, W.,Vallazza, M.,Perbandt, M.,Klussmann, S.,Betzel, C.,Erdmann, V.A. (登録日: 2006-04-20, 公開日: 2006-06-27, 最終更新日: 2024-04-03)

主引用文献

Rypniewski, W.,Vallazza, M.,Perbandt, M.,Klussmann, S.,Delucas, L.J.,Betzel, C.,Erdmann, V.A.
The first crystal structure of an RNA racemate.
Acta Crystallogr.,Sect.D, 62:659-664, 2006

PubMed Abstract: The racemate of the RNA duplex r(CUGGGCGG).r(CCGCCUGG) from Thermus flavus 5S rRNA has been crystallized and examined by X-ray crystallography. The space group is P1(_) with approximate unit-cell parameters a = 26.5, b = 38.0, c = 45.4 Angstrom, alpha = 113.1, beta = 100.5, gamma = 93.3 degrees. The structure was solved by molecular replacement. There are four RNA duplexes in the unit cell. The crystal lattice consists of columns of RNA duplexes. The duplexes are stacked end-to-end and are stabilized by intermolecular base-stacking interactions. Within each column the L-duplexes and D-duplexes are stacked alternately. Every other duplex in each stack has two alternative conformations, approximately equally occupied, corresponding to molecules oriented in opposite directions. Neighbouring columns are related by the crystallographic centre of symmetry. The unit cell also contains approximately 250 ordered water molecules and six ordered calcium ions. A glycerol molecule is visible in the minor groove interacting with a guanosine residue.

PubMed: 16699193
DOI: 10.1107/S090744490601359X

実験手法

X-RAY DIFFRACTION (1.35 Å)