289D

TARGETING THE MINOR GROOVE OF DNA: CRYSTAL STRUCTURES OF TWO COMPLEXES BETWEEN FURAN DERIVATIVES OF BERENIL AND THE DNA DODECAMER D(CGCGAATTCGCG)2

289D の概要

• エントリーDOI: 10.2210/pdb289d/pdb
• 分子名称: DNA (5'-R(*CP*GP*CP*GP*AP*AP*TP*TP*CP*GP*CP*G)-3'), 2,5-BIS{[4-(N-CYCLOPROPYLDIAMINOMETHYL)PHENYL]}FURAN (3 entities in total)
• 機能のキーワード: b-dna, double helix, complexed with drug, dna
• タンパク質・核酸の鎖数: 2
• 化学式量合計: 7715.29

構造登録者

Trent, J.O.,Clark, G.R.,Kumar, A.,Wilson, W.D.,Boykin, D.W.,Hall, J.E.,Tidwell, R.R.,Blagburn, B.L.,Neidle, S. (登録日: 1996-10-10, 公開日: 1996-12-17, 最終更新日: 2024-04-03)

主引用文献

Trent, J.O.,Clark, G.R.,Kumar, A.,Wilson, W.D.,Boykin, D.W.,Hall, J.E.,Tidwell, R.R.,Blagburn, B.L.,Neidle, S.
Targeting the minor groove of DNA: crystal structures of two complexes between furan derivatives of berenil and the DNA dodecamer d(CGCGAATTCGCG)2.
J.Med.Chem., 39:4554-4562, 1996

PubMed Abstract: Crystal structures are reported of complexes of two novel furan derivatives of berenil with alkyl benzamidine groups bound to the DNA sequence d(CGCGAATTCGCG)2. They have both been determined to 2.2 A resolution and refined to R factors of 16.9% and 18.6%. In both structures the alkyl substituents, cyclopropyl and isopropyl, are found to be orientated away from the floor of the minor groove. The drugs are located in the minor groove by two strong amidinium hydrogen bonds, to the O2 of the thymines situated at the 5' and 3' ends of the AT-rich region. The isopropyl-substituted derivative has a tight hydrogen-bonded water network in the minor groove at one amidine site, which alters the orientation of the isopropyl substituent. This compound has superior DNA-binding properties and activity against Pneumocystis carinii and Cryptosporidium parvum infections in vivo compared to the cyclopropyl derivative, which in turn is superior to the parent furan compound. We suggest that the nature and extent of the interactions of these compounds in the DNA minor groove play an important role in these activities, possibly in conjunction with a DNA-binding protein. The overall effect of these alkyl benzamidine substitutions is to increase the binding of the drugs to the minor groove.

PubMed: 8917643
DOI: 10.1021/jm9604484

実験手法

X-RAY DIFFRACTION (2.2 Å)