Solution structure of the chromomycin-DNA complex
- 24 January 1989
- journal article
- research article
- Published by American Chemical Society (ACS) in Biochemistry
- Vol. 28 (2), 751-762
- https://doi.org/10.1021/bi00428a051
Abstract
The structure of the chromomycin-DNA complex at the deoxyoctanucleotide duplex level has been determined from one- and two-dimensional proton NMR studies in Mg-containing aqueouds solution. The NMR results demonstrate that the antitumor agent binds as a symmetrical dimer to the self-complementary d[T-T-G-G-C-C-A-A] duplex with retention of the 2-fold symmetry in the complex. A set of intermolecular nuclear Overhauser enhancements (NOEs) establishes that two chromomycin molecules in the dimer share the minor groove at the G-G-C-G.cntdot.G-G-C-C segment in such a way that each hydrophilic edge of the chromophore is located next to the G-G.cntdot.C-C half-site and each C-D-E trisaccharide chain extends toward the 3''-direction of the octanucleotide duplex. In addition, the A-B disaccharide segment and the hydrophilic side chain of the antitumor agent are directed toward the phosphate backbone. The observed changes in nucleic acid NOEs and coupling patterns on complex formation establish a transition to a wider and shallower minor groove at the central G-G-C-C.cntdot.G-G-C-C segment required for accommodating the chromomycin dimer. The present demonstration that chromomycin binds as a dimer and switches the conformation of the DNA of the DNA at its G.cntdot.C-rich minor groove binding site provides new insights into antitumor agent design and the sequence specificity of antitumor agent-DNA recognition.This publication has 10 references indexed in Scilit:
- NMR studies of A.C mismatches in DNA dodecanucleotides at acidic pH. Wobble A(anti).C(anti) pair formation.Journal of Biological Chemistry, 1987
- A bifurcated hydrogen-bonded conformation in the d(A.T) base pairs of the DNA dodecamer d(CGCAAATTTGCG) and its complex with distamycin.Proceedings of the National Academy of Sciences, 1987
- NMR studies of the interaction of chromomycin A3 with small DNA duplexes IBiochemistry, 1987
- Proton NMR studies on the interaction between distamycin A and a symmetrical DNA dodecamerBiochemistry, 1986
- NMR studies of chromomycin A3 interaction with DNABiochemistry, 1985
- Binding of an antitumor drug to DNAJournal of Molecular Biology, 1985
- Assignment of the non-exchangeable proton resonances of d(C-G-C-G-A-A-T-T-C-G-C-G) using two-dimensional nuclear magnetic resonance methodsJournal of Molecular Biology, 1983
- Antibiotic-DNA interactions: intermolecular nuclear Overhauser effects in the netropsin-d(C-G-C-G-A-A-T-T-C-G-C-G) complex in solution.Proceedings of the National Academy of Sciences, 1982
- Molecular structure of an anticancer drug-DNA complex: daunomycin plus d(CpGpTpApCpG).Proceedings of the National Academy of Sciences of the United States of America, 1980
- Base Specificity in the Interaction of Polynucleotides with Antibiotic DrugsScience, 1965