3GO3

Interactions of an echinomycin-DNA complex with manganese(II) ions

3GO3 の概要

• エントリーDOI: 10.2210/pdb3go3/pdb
• 関連するPDBエントリー: 185D 193D 1PFE 1VS2 1XVK 1XVN 1XVR 2ADW 2DA8
• 関連するBIRD辞書のPRD_ID: PRD_000491
• 分子名称: 5'-D(*AP*CP*GP*TP*AP*CP*GP*T)-3', ECHINOMYCIN, MANGANESE (II) ION, ... (6 entities in total)
• 機能のキーワード: bisintercalator, hoogsteen basepair, depsipeptide, quinoxaline, thioacetal, antibiotic, antitumor, dna-antibiotic complex, dna/antibiotic
• 由来する生物種: STREPTOMYCES ECHINATUS
• タンパク質・核酸の鎖数: 4
• 化学式量合計: 7383.87

構造登録者

Pfoh, R.,Cuesta-Seijo, J.A.,Sheldrick, G.M. (登録日: 2009-03-18, 公開日: 2009-03-31, 最終更新日: 2025-03-26)

主引用文献

Pfoh, R.,Cuesta-Seijo, J.A.,Sheldrick, G.M.
Interaction of an Echinomycin-DNA Complex with Manganese Ion
Acta Crystallogr.,Sect.F, 65:660-, 2009

PubMed Abstract: The crystal structure of an echinomycin-d(ACGTACGT) duplex interacting with manganese(II) was solved by Mn-SAD using in-house data and refined to 1.1 A resolution against synchrotron data. This complex crystallizes in a different space group compared with related complexes and shows a different mode of base pairing next to the bis-intercalation site, suggesting that the energy difference between Hoogsteen and Watson-Crick pairing is rather small. The binding of manganese to N7 of guanine is only possible because of DNA unwinding induced by the echinomycin, which might help to explain the mode of action of the drug.

PubMed: 19574634
DOI: 10.1107/S1744309109019654

実験手法

X-RAY DIFFRACTION (1.1 Å)