118D

CRYSTAL AND MOLECULAR STRUCTURE OF D(GTGCGCAC): INVESTIGATION OF THE EFFECTS OF BASE SEQUENCE ON THE CONFORMATION OF OCTAMER DUPLEXES

118D の概要

• エントリーDOI: 10.2210/pdb118d/pdb
• 分子名称: DNA (5'-D(*GP*TP*GP*CP*GP*CP*AP*C)-3') (2 entities in total)
• 機能のキーワード: a-dna, double helix, dna
• タンパク質・核酸の鎖数: 1
• 化学式量合計: 2427.61

構造登録者

Bingman, C.A.,Li, X.,Zon, G.,Sundaralingam, M. (登録日: 1993-02-11, 公開日: 1993-02-11, 最終更新日: 2023-03-22)

主引用文献

Bingman, C.A.,Li, X.,Zon, G.,Sundaralingam, M.
Crystal and molecular structure of d(GTGCGCAC): investigation of the effects of base sequence on the conformation of octamer duplexes.
Biochemistry, 31:12803-12812, 1992

PubMed Abstract: The structure of the self-complementary deoxyoctanucleotide d(GTGCGCAC), which crystallized as an A-type helix in the space group P4(3)2(1)2, with one strand in the crystallographic asymmetric unit has been determined and refined to a final R-value of 0.154 using 1.64-A diffraction data collected on an area detector. In contrast to the closely related sequence d(GTGTACAC)tet, there was no evidence for an ordered spermine molecule in the major groove of this octamer. Ordered water is found associated with almost all the exposed hydrogen bonding groups of the octamer. A pentagonal ring of water molecules is hydrogen bonded to O6 and N7 of G3 and the N4 and O6 of the C4.G13 base pair. A detailed comparison of the local helical parameters of d(GTGCGCAC) and d(GTGTACAC)tet is presented. The base sequence change at the center of the octamers affects several of the local helical parameters, via both intra- and interduplex interactions within the crystal.

PubMed: 1463751
DOI: 10.1021/bi00166a014

実験手法

X-RAY DIFFRACTION (1.64 Å)