Low-temperature crystallographic analyses of the binding of Hoechst 33258 to the double-helical DNA dodecamer C-G-C-G-A-A-T-T-C-G-C-G.Quintana, J.R., Lipanov, A.A., Dickerson, R.E.
(1991) Biochemistry 30: 10294-10306
- PubMed: 1718416
- DOI: 10.1021/bi00106a030
- Primary Citation of Related Structures:
1D46, 1D45, 1D44, 1D43
- PubMed Abstract:
- The Molecular Structure of the Complex of Hoechst 33258 and the DNA Dodecamer d(CGCGAATTCGCG)
Teng, M., Usman, N., Frederick, C.A., Wang, A.H.-J.
(1988) Nucleic Acids Res 16: 2671
- Binding of Hoechst 33258 to the Minor Groove of B-DNA
Pjura, P.E., Grzeskowiak, K., Dickerson, R.E.
(1987) J Mol Biol 196: 257
- Isohelical Analysis of DNA Groove-Binding Drugs
Goodsell, D., Dickerson, R.E.
(1986) J Med Chem 29: 727
The crystal structure of the complex of Hoechst 33258 and the DNA dodecamer C-G-C-G-A-A-T-T-C-G-C-G has been solved from X-ray data collected at three different low temperatures (0, -25, and -100 degrees C). Such temperatures have permitted collection of higher resolution data (2 ...
The crystal structure of the complex of Hoechst 33258 and the DNA dodecamer C-G-C-G-A-A-T-T-C-G-C-G has been solved from X-ray data collected at three different low temperatures (0, -25, and -100 degrees C). Such temperatures have permitted collection of higher resolution data (2.0, 1.9, and 2.0 A, respectively) than with previous X-ray studies of the same complex. In all three cases, the drug is located in the narrow central A-A-T-T region of the minor groove. Data analyses at -25 and -100 degrees C (each with a 1:1 drug/DNA ratio in the crystallizing solution) suggest a unique orientation for the drug. In contrast, two orientations of the drug were found equally possible at 0 degrees C with a 2:1 drug/DNA ratio in solution. Dihedral angles between the rings of Hoechst 33258 appear to change in a temperature-dependent manner. The drug/DNA complex is stabilized by single or bifurcated hydrogen bonds between the two N-H hydrogen-bond donors in the benzimidazole rings of Hoechst and adenine N3 and thymine O2 acceptors in the minor groove. A general preference for AT regions is conferred by electrostatic potential and by narrowing of the walls of the groove. Local point-by-point AT specificity follows from close van der Waals contacts between ring hydrogen atoms in Hoechst 33258 and the C2 hydrogens of adenines. Replacement of one benzimidazole ring by purine in a longer chain analogue of Hoechst 33258 could make that particular site GC tolerant in the manner observed at imidazole substitution for pyrrole in lexitropsins.
Department of Chemistry and Biochemistry, University of California, Los Angeles 90024-1570.