Simultaneous binding of minor groove binder and intercalator to dodecamer DNA: Importance of relative orientation of donor and acceptor in FRET

Journal of Physical Chemistry B

Volumn 111, Issue 19, 2007, Pages 5047-5052

  Banerjee, Debapriya ^a   Pal, Samir Kumar ^a  

^a S N BOSE NATIONAL CENTRE FOR BASIC SCIENCES   (India)

Author keywords

[No Author keywords available]

Indexed keywords

ANISOTROPY; DNA; ENERGY TRANSFER; FLUORESCENCE; INTERCALATION; MACROMOLECULES; MICELLES;

DODECAMER DNA; GROOVE BINDERS; POLARIZATION GATED ANISOTROPY; SODIUM DODECYL SULFATE (SDS);

BINDERS;

EID: 34249814048     PISSN: 15206106     EISSN: None     Source Type: Journal    
DOI: 10.1021/jp0715427     Document Type: Article

References (39)

1. Dervan, P. B. Bioorg. Med. Chem. 2001, 9, 2215-2235.
2. Cosa, G.; Focsaneanu, K.-S.; McLean, J, R. N.; McNamee, J. P.; Scaiano, J. C. Photochem. Photobiol. 2001, 73, 585-599.
3. Adhikary, A.; Buschmann, V.; Müller, C.; Sauer, M. Nucleic Acids Res. 2003, 31, 2178-2186.
4. Denham, D. A.; Suswillo, R. R.; Rogers, R.; McGreevy, P. B.; Andrew, B. J. J. Helminthol. 1976, 50, 243-250.
5. Sakore, T. D.; Jain, S. C.; Tsai, C. C.; Sobell, H. M. Proc. Natl. Acad. Sci. U.S.A. 1977, 74, 188-192.
6. Hashimoto, Y.; Shudo, K. Environ. Health Perspect. 1985, 62, 215-218.
7. Vega, M. C.; Saez, I. G.; Aymami, J.; Eritja, R.; Marel, G. A. V. D.; Boom, J. H. V.; Rich, A.; Coll, M. Eur. J. Biochem. 1994, 222, 721-726.
8. Trotta, E.; Paci, M. Nucleic Acids Res. 1998, 26, 4706-4713.
9. Fede, A.; Labhardt, A.; Bannwarth, W.; Leupin, W. Biochemistry 1991, 30, 11377-11388.
10. Tsuboi, M.; Benevides, J. M.; Thomas, G. J., Jr. Biophys. J. 2007, 92, 928-934.
11. Aleman, C.; Adhikary, A.; Zanuy, D.; Casanovas, J. J. Biomol. Struct. Dyn. 2002, 20, 301-310.
12. Murata, S.; Kusba, J.; Piszczek, G.; Gryczynski, I.; Lacowicz, J. R. Biopolymers 2000, 57, 306-315.
13. Langlois, R. G.; Jensen, R. H. J. Histochem. Cytochem. 1979, 27, 72-79.
14. Saito, M.; Kobayashi, M.; Iwabuchi, S.; Morita, Y.; Takamura, Y.; Tamiya, E. Biotechnology 2004, 136, 813-823.
15. Yuhzaki, K.; Hamaguchi, H. Proc. XIX Int. Conf. Raman Spec., Gold Coast, Queensland, Australia, 2004; pp 460-461.
16. Lee, B. W.; Moon, S. J.; Youn, M. R.; Kim, J. H.; Jang, H. G.; Kim, S. K. Biophys. J. 2003, 85, 3865-3871.
17. Millar, D. P.; Robbins, R. J.; Zewail, A. H. J. Chem. Phys. 1982, 76, 2080-2094.
18. Millar, D. P.; Robbins, R. J.; Zewail, A. H. Proc. Natl. Acad. Sci. U.S.A. 1980, 77, 5593-5597.
19. LePecq, J.-B.; Paoletti, C. J. Mol. Biol. 1967, 27, 87-106.
20. Hogan, M. E.; Jardetzky, O. Biochemistry 1980, 19, 2079-2085.
21. Sarkar, R.; Pal, S. K. Biopolymers 2006, 83, 675-686.
22. Loontiens, F. G.; Regenfuss, P.; Zechel, A.; Dumortier, L.; Clegg, R. M. Biochemistry 1990, 29, 9029-9039.
23. Jin, R.; Breslauer, K. J. Proc. Natl. Acad. Sci. U.S.A. 1988, 85, 8939-8942.
24. Minehan, T. O.; Gottwald, K.; Dervan, P. B. Helv. Chim. Acta 2000, 83, 2197-2213.
25. Lane, A. N.; Jenkins, T. C.; Frenkiel, T. A. Biochim. Biophys. Acta 1997, 1350, 205-220.
26. Stokke, T.; Sternberg, H. J. Histochem. Cytochem. 1985, 33, 333-338.
27. Pal, S. K.; Zhao, L.; Zewail, A. H. Proc. Natl. Acad. Sci. U.S.A. 2003, 100, 8113-8118.
28. Banerjee, D.; Pal, S. K. Chem. Phys. Lett. 2006, 432, 257-262.
29. Andreatta, D.; Perez Lustres, J. L.; Kovalenko, S. A.; Ernsting, N. P.; Murphy, C. J.; Coleman, R. S.; Berg, M. A. J. Am. Chem. Soc. 2005, 127, 7270-7271.
30. Brauns, E. B.; Madaras, M. L.; Coleman, R. S.; Murphy, C. J.; Berg, M. A. J. Am. Chem. Soc. 1999, 121, 11644-11649.
31. Lakowicz, J. R. Principles of fluorescence spectroscopy; Kluwer Academic/Plenum: New York, 1999.
32. O'Connor, D. V.; Philips, D. Time correlated single photon counting; Academic Press: London, 1984.
33. Cross, A. J.; Fleming, G. R. Biophys. J. 1984, 46, 45-56.
34. Shaw, A. K.; Pal, S. K. J. Photochem. Photobiol., B 2007, 86, 199-206.
35. Pjura, P. E.; Grzeskowiak, K.; Dickerson, R. E. J. Mol. Biol. 1987, 197, 257-271.
36. Tsodikov, O. V.; Saecker, R. M.; Melcher, S. E.; Levandoski, M. M.; Frank, D. E.; Capp, M. W.; Record, M. T., Jr. J. Mol. Biol. 1999, 294, 639-655.
37. Shaw, A. K.; Sarkar, R.; Pal, S. K. Chem. Phys. Lett. 2005, 408, 366-370.
38. Levitt, M. Proc. Natl. Acad. Sci. U.S.A. 1978, 75, 640-644.
39. Jakeway, S. C.; Krull, U. J. Can. J. Chem. 1999, 77, 2083-2087.