Abstract
The binding between Distamycin 3 and the palindromic duplexes d(CGTTTAAACG)2 and d(CGTACGTACG)2 was investigated by two independent techniques: UV-Vis absorption in the Job's plot approach and Induced Circular Dichroism. Both decamers bind two molecules of peptide per duplex, with close overall affinities. This result indicates that a row of six A:T base pairs can accommodate two molecules of drug and that the minimal binding site of Distamycin 3 can consist of just two A:T base pairs.
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Selected References
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- AMES B. N., DUBIN D. T. The role of polyamines in the neutralization of bacteriophage deoxyribonucleic acid. J Biol Chem. 1960 Mar;235:769–775. [PubMed] [Google Scholar]
- Chandra P., Götz A., Wacker A., Verini M. A., Casazza A. M., Fioretti A., Arcamone F., Ghione M. Some structural requirements for the antibiotic action of distamycins II. Structural modification of the side chains in distamycin A molecule. FEBS Lett. 1972 Jan 1;19(4):327–330. doi: 10.1016/0014-5793(72)80072-3. [DOI] [PubMed] [Google Scholar]
- Coll M., Frederick C. A., Wang A. H., Rich A. A bifurcated hydrogen-bonded conformation in the d(A.T) base pairs of the DNA dodecamer d(CGCAAATTTGCG) and its complex with distamycin. Proc Natl Acad Sci U S A. 1987 Dec;84(23):8385–8389. doi: 10.1073/pnas.84.23.8385. [DOI] [PMC free article] [PubMed] [Google Scholar]
- Dervan P. B. Design of sequence-specific DNA-binding molecules. Science. 1986 Apr 25;232(4749):464–471. doi: 10.1126/science.2421408. [DOI] [PubMed] [Google Scholar]
- FELSENFELD G., RICH A. Studies on the formation of two- and three-stranded polyribonucleotides. Biochim Biophys Acta. 1957 Dec;26(3):457–468. doi: 10.1016/0006-3002(57)90091-4. [DOI] [PubMed] [Google Scholar]
- Fish E. L., Lane M. J., Vournakis J. N. Determination of equilibrium binding affinity of distamycin and netropsin to the synthetic deoxyoligonucleotide sequence d(GGTATACC)2 by quantitative DNase I footprinting. Biochemistry. 1988 Aug 9;27(16):6026–6032. doi: 10.1021/bi00416a030. [DOI] [PubMed] [Google Scholar]
- Forni A., Moretti I., Marconi G., Mongelli N., Samorí B. Linear dichroism studies of the complexes between CT-DNA and distamycins. Biopolymers. 1989 Dec;28(12):2177–2194. doi: 10.1002/bip.360281210. [DOI] [PubMed] [Google Scholar]
- Klevit R. E., Wemmer D. E., Reid B. R. 1H NMR studies on the interaction between distamycin A and a symmetrical DNA dodecamer. Biochemistry. 1986 Jun 3;25(11):3296–3303. doi: 10.1021/bi00359a032. [DOI] [PubMed] [Google Scholar]
- Kopka M. L., Yoon C., Goodsell D., Pjura P., Dickerson R. E. The molecular origin of DNA-drug specificity in netropsin and distamycin. Proc Natl Acad Sci U S A. 1985 Mar;82(5):1376–1380. doi: 10.1073/pnas.82.5.1376. [DOI] [PMC free article] [PubMed] [Google Scholar]
- Lee M., Chang D. K., Hartley J. A., Pon R. T., Krowicki K., Lown J. W. Structural and dynamic aspects of binding of a prototype lexitropsin to the decadeoxyribonucleotide d(CGCAATTGCG)2 deduced from high-resolution 1H NMR Studies. Biochemistry. 1988 Jan 12;27(1):445–455. doi: 10.1021/bi00401a066. [DOI] [PubMed] [Google Scholar]
- Lee M., Hartley J. A., Pon R. T., Krowicki K., Lown J. W. Sequence specific molecular recognition by a monocationic lexitropsin of the decadeoxyribonucleotide d-[CATGGCCATG]2: structural and dynamic aspects deduced from high field 1H-NMR studies. Nucleic Acids Res. 1988 Jan 25;16(2):665–684. doi: 10.1093/nar/16.2.665. [DOI] [PMC free article] [PubMed] [Google Scholar]
- Luck G., Zimmer C., Reinert K. E., Arcamone F. Specific interactions of distamycin A and its analogs with (A-T) rich and (G-C) rich duplex regions of DNA and deoxypolynucleotides. Nucleic Acids Res. 1977 Aug;4(8):2655–2670. doi: 10.1093/nar/4.8.2655. [DOI] [PMC free article] [PubMed] [Google Scholar]
- Marky L. A., Snyder J. G., Remeta D. P., Breslauer K. J. Thermodynamics of drug-DNA interactions. J Biomol Struct Dyn. 1983 Oct;1(2):487–507. doi: 10.1080/07391102.1983.10507457. [DOI] [PubMed] [Google Scholar]
- Pelton J. G., Wemmer D. E. Structural characterization of a 2:1 distamycin A.d(CGCAAATTGGC) complex by two-dimensional NMR. Proc Natl Acad Sci U S A. 1989 Aug;86(15):5723–5727. doi: 10.1073/pnas.86.15.5723. [DOI] [PMC free article] [PubMed] [Google Scholar]
- Rao K. E., Dasgupta D., Sasisekharan V. Interaction of synthetic analogues of distamycin and netropsin with nucleic acids. Does curvature of ligand play a role in distamycin-DNA interactions? Biochemistry. 1988 Apr 19;27(8):3018–3024. doi: 10.1021/bi00408a053. [DOI] [PubMed] [Google Scholar]
- Reinert K. E. Adenosine-thymidine cluster-specific elongation and stiffening of DNA induced by the oligopeptide antibiotic netropsin. J Mol Biol. 1972 Dec 30;72(3):593–607. doi: 10.1016/0022-2836(72)90178-7. [DOI] [PubMed] [Google Scholar]
- Zimmer C. Effects of the antibiotics netropsin and distamycin A on the structure and function of nucleic acids. Prog Nucleic Acid Res Mol Biol. 1975;15(0):285–318. doi: 10.1016/s0079-6603(08)60122-1. [DOI] [PubMed] [Google Scholar]
- Zimmer C., Luck G., Birch-Hirschfeld E., Weiss R., Arcamone F., Guschlbauer W. Chain length-dependent association of distamycin-type oligopeptides with A X T and G X C pairs in polydeoxynucleotide duplexes. Biochim Biophys Acta. 1983 Oct 13;741(1):15–22. doi: 10.1016/0167-4781(83)90004-0. [DOI] [PubMed] [Google Scholar]
- Zimmer C., Marck C., Schneider C., Guschlbauer W. Influence of nucleotide sequence on dA.dT-specific binding of Netropsin to double stranded DNA. Nucleic Acids Res. 1979 Jun 25;6(8):2831–2837. doi: 10.1093/nar/6.8.2831. [DOI] [PMC free article] [PubMed] [Google Scholar]
