Molecular recognition of B-DNA by Hoechst 33258
Open Access
- 11 July 1985
- journal article
- research article
- Published by Oxford University Press (OUP) in Nucleic Acids Research
- Vol. 13 (13) , 4825-4835
- https://doi.org/10.1093/nar/13.13.4825
Abstract
The binding sites of Hoechst 33258, netropsin and distamycin on three DNA restriction fragments from plasmid pBR322 were compared by footprinting with methidiumpropyl EDTA·Fe(II) [ MPE·Fe(II)]. Hoechst, netropsin and distamycin share common binding sites that are five ± one bp in size and rich in A·T DNA base pairs. The five base pair protection patterns for Hoechst may result from a central three base pair recognition site bound by two bisbenzimidazole NHs forming a bridge on the floor of the minor groove between adjacent adenine N3 and thymine O2 atoms on opposite helix strands. Hydrophobic interaction of the flanking phenol and N-methylpiperazine rings would afford a steric blockade of one additional base pair on each side.Keywords
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