Abstract
Fluorescence titration measurements and NMR spectroscopy have identified a single molecule of Hoechst 33258 bound within the long A-tract of the dodecamer duplex d(GCAAAATTTTGC)2: despite the possibility of multiple binding sites, and the apparent requirement from previous studies for the drug N-methylpiperazine ring to bind close to GC base pairs at the end of an A-tract (leading to an off-set asymmetric complex with this sequence), we identify a binding site that spans the central AAATTT sequence with the planar aromatic rings of the drug binding in the narrowest part of the minor groove.
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