385D

FORMATION OF A NEW COMPOUND IN THE CRYSTAL STRUCTURE OF CYANOMORPHOLINODOXORUBICIN COMPLEXED WITH D(CGATCG)

385D の概要

• エントリーDOI: 10.2210/pdb385d/pdb
• 分子名称: DNA (5'-D(*CP*GP*AP*TP*CP*G)-3'), N-ETHYLHYDROXY-DOXORUBICIN (3 entities in total)
• 機能のキーワード: right handed dna, double helix, complexed with drug, dna
• タンパク質・核酸の鎖数: 1
• 化学式量合計: 2396.79

構造登録者

Ettorre, A.,Cirilli, M.,Ughetto, G. (登録日: 1998-03-05, 公開日: 1998-10-30, 最終更新日: 2024-02-21)

主引用文献

Ettorre, A.,Cirilli, M.,Ughetto, G.
Degradation of the morpholino ring in the crystal structure of cyanomorpholinodoxorubicin complexed with d(CGATCG).
Eur.J.Biochem., 258:350-354, 1998

PubMed Abstract: The cyanomorpholino analogue of antitumor anthracycline doxorubicin possesses an intense potency and differs from the parent compound in cross-resistance and other biological properties. The induction by cyanomorpholinodoxorubicin of both DNA cross-links and strand scission suggests an altered mode of action relative to doxorubicin with a different DNA-interacting capacity. We have co-crystallized 3'-(3-cyano-4-morpholinyl)-3'-desaminodoxorubicin (CMD) with the DNA hexamer d(CGATCG) and have determined the crystal structure at 0.16-nm resolution. The complex crystallizes in the space group P4(1)2(1)2 and is similar to the previously reported anthracycline/DNA structures, with the drug intercalated at the CpG step, forming hydrogen bonds with the guanine residue. The structure reveals that the morpholino moiety has undergone a major rearrangement with loss of the cyano group and opening of the morpholino ring. The compound actually bound to DNA in the complex resembles N-(2-hydroxyethyl)doxorubicin, which was previously identified as a hydrolysis product of CMD. No DNA alkylation has been observed. However, the structure shows that the active site of the morpholino ring, after dissociation of the cyano group, lies in the minor groove in proximity of the A/T base pair. This may indicate that a C/G base pair next to the intercalation site, with NH2 group in the minor groove, is required for DNA alkylation.

PubMed: 9874199
DOI: 10.1046/j.1432-1327.1998.2580350.x

実験手法

X-RAY DIFFRACTION (1.6 Å)