1L0R

NMR Solution Structure of Nogalamycin Intercalation Between Co-Axially Stacked Hairpins

1L0R の概要

• エントリーDOI: 10.2210/pdb1l0r/pdb
• 分子名称: 5'-D(*AP*CP*GP*AP*AP*GP*TP*GP*CP*GP*AP*AP*GP*C)-3', SODIUM ION, NOGALAMYCIN (PROTONATED FORM), ... (4 entities in total)
• 機能のキーワード: gaa loop, single strand break, drug-dna recognition, nogalamycin intercalation, dna
• タンパク質・核酸の鎖数: 1
• 化学式量合計: 5405.55

構造登録者

Williams, H.E.L.,Colgrave, M.L.,Searle, M.S. (登録日: 2002-02-12, 公開日: 2002-06-19, 最終更新日: 2024-05-22)

主引用文献

Williams, H.E.L.,Colgrave, M.L.,Searle, M.S.
Drug recognition of a DNA single strand break: nogalamycin intercalation between coaxially stacked hairpins.
Eur.J.Biochem., 269:1726-1733, 2002

PubMed Abstract: Two DNA hairpin motifs (5'-GCGAAGC-3' and 5'-ACGA AGT-3'), both stabilized by a 5'-GAA loop, have been used to design novel intramolecular double hairpin structures (5'-GCGAAGCACGAAGT-3' and 5'-ACGAAGTGCG AAGC-3') in which coaxial stacking of the two hairpin components generates a double-stranded stem region effectively with a single-strand break in the middle of the sequence at either the TG or CA step between unconnected 3' and 5' terminal bases. We have investigated by NMR the conformation and dynamics of the DNA at the strand break site. We show that mutual stacking significantly enhances the stability of each hairpin. Further, the anthracycline antibiotic nogalamycin binds cleanly to the 5'-TG (5'-CA) site formed by the mutually stacked hairpins despite the break in the sugar-phosphate backbone on one strand. The complex resembles the structure of nogalamycin-DNA complexes with the drug bound at 5'-TG sites in intact duplex sequences, with pi-stacking interactions probably the single dominant stabilizing interaction.

PubMed: 11895443
DOI: 10.1046/j.1432-1327.2002.02819.x

実験手法

SOLUTION NMR