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Fluorescence dynamics of interactions between polyamide PyPyPyβDp and DNA

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Abstract

The photophysical properties of the polyamide PyPyPyβDp (PPP) were investigated by means of steady-state absorption and fluorescence spectroscopies, as well as time-resolved fluorescence spectroscopy. It was found that the excited-state properties of PPP are very sensitive to solvents. In TKMC buffer PPP exhibited weak fluorescence with a decay time constant of 16 ps, while with the decrease of the solvent polarity PPP showed the blue-shifted peak position, increased intensity and lengthened life-time for its fluorescence behavior. In the presence of calf thymus DNA, it was observed that the fluorescence intensity was enhanced and the fluorescence lifetime increased from 16 to 32 ps for PPP, which verified that PPP bound into the minor groove of DNA duplex.

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References

  1. Dervan, P. B., Molecular recognition of DNA by small molecules, Bioorganic & Medicinal Chemistry, 2001, 9: 2215–2235.

    Article  CAS  Google Scholar 

  2. Rucker, V. C., Foister, S., Melander, C., Dervan, P. B., Sequence specific fluorescence detection of double strand, J. Am. Chem. Soc., 2003, 125(5): 1195–1202.

    Article  CAS  Google Scholar 

  3. Zimmer, C., Wahnert, U., Nonintercalating DNA-binding ligands: Specificity of the interaction and their use as tools in biophysical, biochemical and biological investigation of the genetic material, Prog. Biophys. Mol. Biol., 1986, 47: 31–112.

    CAS  Google Scholar 

  4. Chiang, S. Y., Welch, J., Rauscher, F. J., Beerman, T. A., Effects of minor groove binding drugs on the interaction of TATA box binding protein and TFA with DNA., Biochemistry, 1994, 33: 7033–7040.

    CAS  Google Scholar 

  5. Kopka, M. L., Yoon, C., Goodsell, D., Pjura, P., Dickerson, R. E., The molecular origin of DNA-drug specificity in netropsin and distamycin, PNAS, 1985, 82: 1376–1380.

    CAS  Google Scholar 

  6. Pelton, J. K., Wemmer, D. E. Structural characterization of a 2:1 distamycin A/d(CGCAAATTGGC) complex by two-dimensional NMR, PNAS, 1989, 86: 5723–5727.

    CAS  Google Scholar 

  7. Lown, J. W., Krowicki, K., Bhat, U. G., Skorobogaty, A., Ward, B., Dabrowiak, J. C., Molecular recognition between oligopep-tides and nucleic acids: Novel imidazole-containing oligopeptides related to netropsin that exhibit altered DNA sequence specificity, Biochemistry, 1986, 25: 7408–7416.

    CAS  Google Scholar 

  8. Mrksich, M., Wade, M. S., Dwyer, T. J., Geierstanger, B. H., Wemmer, D. E., Dervan, P. B., Antiparallel side-by-side dimeric motif for sequence-specific recognition in the minor groove of DNA by the designed peptide 1-Methylimidazole-2-carboxamide netropsin, PNAS, 1992, 89: 7586–7590.

    CAS  Google Scholar 

  9. Wade, M. S., Mrksich, M., Dervan, P. B., Binding affinities of synthetic peptides, pyridine-2-carboxamidonetropsin and 1-methylimidazole-2-carboxamidonetropsin, that form 2:1 complexes in the minor groove of double-helical DNA, Biochemistry, 1993, 32: 11385–11389.

    Article  CAS  Google Scholar 

  10. Dervan, P. B., Burli, R. W., Sequence-specific DNA recognition by polyamides, Curr. Opin. Chem. Biol., 1999, 3: 688–693.

    Article  CAS  Google Scholar 

  11. Stockert, J. C., Castillo, P. D., Bella, J. L., DNA-induced distamycin A fluorescence, Histochemistry, 1990, 94: 45–47.

    Article  CAS  Google Scholar 

  12. Baliga, R., Crothers, D. M. et al., Kinetic consequences of covalent linkage of DNA binding polyamides, Biochemistry, 2001, 40: 3–8.

    Article  CAS  Google Scholar 

  13. Baliga, R., Crothers, D. M., On the kinetics of distamycin binding to its target sites on duplex DNA, PNAS, 2000, 97: 7815–7818.

    Article  Google Scholar 

  14. Baliga, R., Crothers, D. M., The kinetic basis for sequence discrimination by distamycin A, J. Am. Chem. Soc., 2000, 122: 11751–11752.

    Article  CAS  Google Scholar 

  15. Zhang, H., Wang, P., Wang, X., Feng, J., Xu, S., Ai, X., Zhang, X., Zhang, J., Mechanism of intramolecular charge transfer in DNA helix as probed by the use of the fluorescent 2-aminopurine, Science in China, Ser. B, 2004, 47(5): 367–372.

    CAS  Google Scholar 

  16. Tang, F., Wang, J., Liu, D., Li, J., Yuan, G., Systematical synthesis of distamycin analogues and their interaction with herring sperm DNA, J. Chin. Chem. Soc-Taip, 2002, 49: 1073–1077.

    CAS  Google Scholar 

  17. Chen, G. Z., Huang, Z. X., Xu, J. G. et al., The Fluorescence Analysis Method (in Chinese), Beijing: Science Press, 1990.

    Google Scholar 

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Correspondence to Ai Xicheng or Zhang Jianping.

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Zhang, H., Wang, J., Wu, Y. et al. Fluorescence dynamics of interactions between polyamide PyPyPyβDp and DNA. SCI CHINA SER B 49, 75–80 (2006). https://doi.org/10.1007/s11426-005-0025-6

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  • DOI: https://doi.org/10.1007/s11426-005-0025-6

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