1XVN

echinomycin (ACGTACGT)2 complex

1XVN の概要

• エントリーDOI: 10.2210/pdb1xvn/pdb
• 関連するPDBエントリー: 185D 193D 1PFE 1VS2 1XVK 1XVR 2ADW 2DA8 3GO3
• 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, MAGNESIUM ION, ... (5 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: 2
• 化学式量合計: 3608.24

構造登録者

Cuesta-Seijo, J.A.,Sheldrick, G.M. (登録日: 2004-10-28, 公開日: 2005-04-12, 最終更新日: 2012-12-12)

主引用文献

Cuesta-Seijo, J.A.,Sheldrick, G.M.
Structures of Complexes between Echinomycin and Duplex DNA.
Acta Crystallogr.,Sect.D, 61:442-, 2005

PubMed Abstract: The structure of the bis-intercalation complex of the depsipeptide antibiotic echinomycin with (CGTACG)2 has been redetermined at a higher resolution (1.4 A) and new high-resolution structures (1.1-1.5 A) are reported for the complexes of echinomycin with (GCGTACGC)2 (at both low and high ionic strengths) and (ACGTACGT)2. The structures show the expected Hoogsteen pairing for the base pairs flanking the intercalating chromophores on the outside and Watson-Crick pairing for both base pairs enclosed by the echinomycin. In the octamer complexes but not the hexamer complex, the echinomycin molecule, which would possess a molecular twofold axis were it not for the thioacetal bridge, shows twofold disorder. In all the structures the stacking of the base pairs and chromophores is extended by intermolecular stacking. The structures provide more precise details of the hydrogen bonding and other interactions between the bis-intercalating antibiotics and the duplex DNA than were previously available.

PubMed: 15805599
DOI: 10.1107/S090744490500137X

実験手法

X-RAY DIFFRACTION (1.5 Å)