Structural and dynamic characterization of the heterodimeric and homodimeric complexes of distamycin and 1-methylimidazole-2-carboxamide-netropsin bound to the minor groove of DNA
NMR spectroscopy combined with molecular modeling was used to characterize a heterodimeric complex with Dst and 2-ImN bound in the minor groove of d(GCCTAACAAGG)•d(CCTTGTTAGGC) (1:1:1 2-ImN•Dst•DNA complex). The imidazole-pyrrole-pyrrole ligand 2-ImN spans 5'-GTTA-3' of the TAACA•TGTTA binding site with the imidazole nitrogen specifically recognizing the guanine amino group. The Dst ligand lies along the 5'-AACA-3' sequence and complements the 2-ImN ligand in the formation of the antiparallel side-by-side heterodimeric complex. Titrations of the same site with Dst or 2-ImN alone yield homodimeric complexes (2:1 ligand.DNA) of lower stability than the 1:1:1 2-ImN•Dst•DNA complex. Dst and 2-ImN binding to d(CGCAAACTGGC)•d(GCCAGTTTGCG) was also investigated. The 1:1:1 2-ImN•Dst•DNA complex is again the most stable complex with the AAACT•AGTTT site and is similar to the TAACA•TGTTA complex. No monomeric binding of either 2-ImN or Dst was observed to either site.
© 1994 American Chemical Society. Received October 20, 1993; Revised Manuscript Received December 14, 1993. Abstract published in Advance ACS Abstracts, February 15, 1994. We are grateful to the National Institutes of Health (GM-27681 to P.B.D. and GM-43129 to D.E.W.) and the National Foundation for Cancer Research for research support and for a National Institutes of Health Research Service Award to M.M. and to the US. Department of Energy (DE FG05-86ER75281) and the National Science Foundation (DMB 86-09305 and BBS 87-20134) for instrumentation grants.
Supplemental Material - bi00176a039_si_001.pdf