232D

THE HIGH RESOLUTION CRYSTAL STRUCTURE OF THE DNA DECAMER D(AGGCATGCCT)

232D の概要

• エントリーDOI: 10.2210/pdb232d/pdb
• 分子名称: DNA (5'-D(*AP*GP*GP*CP*AP*TP*GP*CP*CP*T)-3'), COBALT HEXAMMINE(III) (3 entities in total)
• 機能のキーワード: a-dna, double helix, flipped-out bases, dna
• タンパク質・核酸の鎖数: 1
• 化学式量合計: 3367.24

構造登録者

Nunn, C.M.,Neidle, S. (登録日: 1995-09-05, 公開日: 1996-03-22, 最終更新日: 2024-02-14)

主引用文献

Nunn, C.M.,Neidle, S.
The high resolution crystal structure of the DNA decamer d(AGGCATGCCT).
J.Mol.Biol., 256:340-351, 1996

PubMed Abstract: The crystal structure of the DNA decamer d(AGGCATGCCT) has been determined to a resolution of 1.3 A and R factor of 13.9%. The structure has a unique conformation with each of the decamer single strands forming base-pairing interactions with two symmetry-related strands. The central eight bases of the decamer form an A-DNA octamer duplex with one symmetry-related strand whilst the terminal 5'-A and T-3' bases are flipped out and away from the octamer helix axis to form base-pairing interactions with a second symmetry-related strand. These A.T base-pairs lie perpendicular to the crystallographic c axis and pack within the unit cell in conjunction with a symmetry-related A.T base-pair displaced by 3.4 A degrees along the c axis. A novel base triplet interaction of the type A*(G.C) is present in the structure with interaction from the major groove side of the terminal 5'-A base to the minor groove of the central A-DNA octamer. This structure reports the first example of cobalt hexammine binding to a right-handed DNA duplex. The crystallographic asymmetric unit contains two cobalt hexammine ligands with one site in the major groove coordinating via hydrogen bonds to the 5'-AGG bases, and the second site located between DNA molecules and interacting with the oxygen atoms of phosphate groups.

PubMed: 8594201
DOI: 10.1006/jmbi.1996.0090

実験手法

X-RAY DIFFRACTION (1.3 Å)