2KBD

5'-D(*CP*TP*GP*GP*GP*GP*AP*CP*TP*TP*TP*CP*CP*AP*GP*G)-3', 5'-D(*CP*CP*TP*GP*GP*AP*AP*AP*GP*TP*CP*CP*CP*CP*AP*G)-3'

2KBD の概要

• エントリーDOI: 10.2210/pdb2kbd/pdb
• 分子名称: DNA (5'-D(*CP*TP*GP*GP*GP*GP*AP*CP*TP*TP*TP*CP*CP*AP*GP*G)-3'), DNA (5'-D(*CP*CP*TP*GP*GP*AP*AP*AP*GP*TP*CP*CP*CP*CP*AP*G)-3') (2 entities in total)
• 機能のキーワード: dna structure, modelling, deoxyribonucleic acid, dna
• タンパク質・核酸の鎖数: 2
• 化学式量合計: 9798.36

構造登録者

Tisne, C.,Hantz, E.,Hartmann, B.,Delepierre, M. (登録日: 1998-12-07, 公開日: 1998-12-09, 最終更新日: 2023-12-27)

主引用文献

Tisne, C.,Hantz, E.,Hartmann, B.,Delepierre, M.
Solution structure of a non-palindromic 16 base-pair DNA related to the HIV-1 kappa B site: evidence for BI-BII equilibrium inducing a global dynamic curvature of the duplex.
J.Mol.Biol., 279:127-142, 1998

PubMed Abstract: 1H and 31P NMR spectroscopy have been used together with molecular modelling to determine the fine structure of a non-palindromic 16 bp DNA containing the NF-kappa B binding site. Much emphasis has been placed upon NMR optimization of both two-dimensional 31P NMR techniques to extract structural information defining the phosphodiester backbone conformation and selective homonuclear 2D COSY experiments to determine sugar conformations. NMR data show evidence for a dynamic behaviour of steps flanking the ten base-pairs of the NF-kappa B binding site. A BI-BII equilibrium at these steps is demonstrated and two models for each extreme conformation are proposed in agreement with NMR data. In the refined BII structures, the NF-kappa B binding site exhibits an intrinsic curvature towards the major groove that is magnified by the four flanking steps in the BII conformation. Furthermore, the base-pairs are translated into the major groove. Thus, we present a novel mode of dynamic intrinsic curvature compatible with the DNA curvature observed in the X-ray structure of the p50-DNA complex.

PubMed: 9636705
DOI: 10.1006/jmbi.1998.1757

実験手法

SOLUTION NMR