1R41

Crystal structures of d(Gm5CGm5CGCGC) and d(GCGCGm5CGm5C): Effects of methylation on alternating DNA octamers

1R41 の概要

• エントリーDOI: 10.2210/pdb1r41/pdb
• 関連するPDBエントリー: 1R3Z
• 分子名称: 5'-D(*GP*CP*GP*CP*GP*(5CM)P*GP*(5CM))-3' (2 entities in total)
• 機能のキーワード: dna
• タンパク質・核酸の鎖数: 1
• 化学式量合計: 2456.65

構造登録者

Shi, K.,Pan, B.,Tippin, D.,Sundaralingam, M. (登録日: 2003-10-03, 公開日: 2003-12-23, 最終更新日: 2024-02-14)

主引用文献

Shi, K.,Pan, B.,Tippin, D.,Sundaralingam, M.
Structures of d(Gm5)CGm5CGCGC) and d(GCGCGm5CGm5C): effects of methylation on alternating DNA octamers.
Acta Crystallogr.,Sect.D, 60:61-65, 2004

PubMed Abstract: The crystal structures of two alternating octamers d(Gm(5)CGm(5)CGCGC) and d(GCGCGm(5)CGm(5)C) have been determined at 1.7 and 1.9 A resolution with R(work)/R(free) of 16.9/19.6% and 17.9/19.8%, respectively. The two octamers crystallized in the same tetragonal space group P4(3)2(1)2, with unit-cell parameters a = b = 43.0, c = 24.9 A and a = b = 43.1, c = 24.7 A, respectively. Both structures adopt the A-type double helix and the abutting crystal packing. Despite the different positions of the methylated cytosine in the sequence, the two octamers display essentially the same conformation. The close similarity of the two structures indicates that methylation at different positions in a DNA sequence does not affect the helical conformation of the alternating DNA octamer. Investigation of other related crystal structures implies that methylation of cytosine stabilizes the A-type conformation for alternating DNA sequences beginning with a 5'-purine but is beneficial to the Z-type conformation for alternating DNA sequences beginning with a 5'-pyrimidine.

PubMed: 14684893
DOI: 10.1107/S0907444903021899

実験手法

X-RAY DIFFRACTION (1.9 Å)