Solution structure of DAPI selectively bound in the minor groove of a DNA T·T mismatch-containing site: NMR and molecular dynamics studies

Nucleic Acids Research

Volumn 26, Issue 20, 1998, Pages 4706-4713

  Trotta, Edoardo ^a   Paci, Maurizio ^b  

^a CNR   (Italy)

^b UNIVERSITY OF ROME TOR VERGATA   (Italy)

Author keywords

[No Author keywords available]

Indexed keywords

4',6 DIAMIDINO 2 PHENYLINDOLE; CARBONYL DERIVATIVE; INDOLE; OLIGOMER; THYMINE;

ARTICLE; COMPLEX FORMATION; CONFORMATIONAL TRANSITION; CONTROLLED STUDY; DNA BINDING; DNA CONFORMATION; DNA HELIX; DNA STRUCTURE; DRUG DNA BINDING; HYDROGEN BOND; MOLECULAR DYNAMICS; NUCLEAR MAGNETIC RESONANCE SPECTROSCOPY; PRIORITY JOURNAL; PROTON NUCLEAR MAGNETIC RESONANCE;

BASE PAIR MISMATCH; BASE PAIRING; BINDING SITES; COMPUTER SIMULATION; INDOLES; MAGNETIC RESONANCE SPECTROSCOPY; MODELS, MOLECULAR; NUCLEIC ACID CONFORMATION; OLIGODEOXYRIBONUCLEOTIDES; PROTONS;

EID: 0032531931     PISSN: 03051048     EISSN: None     Source Type: Journal    
DOI: 10.1093/nar/26.20.4706     Document Type: Article

References (40)

1. Storl, K., Storl, J., Zimmer, C.H. and Lown, J.W. (1993) FEBS Lett., 317, 157-162.
2. Palù, G., Valisena, S., Barcellona, M.L., Masotti, L. and Meloni, G.A. (1987) Biochem. Biophys. Res. Commun., 145, 40-45.
3. Parolin, C., Zanotti, G. and Palù, G. (1995) Biochem. Biophys. Res. Commun., 208, 332-338.
4. Welch, J.J., Rauscher, F.J. and Beerman, T.A. (1994) J. Biol. Chem., 269, 31051-31058.
5. Parolin, C., Montecucco, A., Chiarocchi, G., Pedrali-Noy, G., Valisena, S., Palumbo, M. and Palù, G. (1990) FEMS Microbiol. Lett., 68, 341-346.
6. Straney, D.C. and Crothers, D.M. (1987) Biochemistry, 26, 1987-1995.
7. Chiang, S.-Y., Welch, J., Rausher, F.J. and Beerman, T.A. (1994) Biochemistry, 33, 7033-7040.
8. Kapuscinski, J. (1995) Biotech. Histochem., 70, 220-233.
9. Wilson, W.D., Tanious, F.A., Barton, H.J., Jones, R.L., Fox, K., Wydra, R.L. and Strekowski, L. (1990) Biochemistry, 29, 8452-8461.
10. Wilson, W.D., Tanious, F.A., Barton, H.J., Wydra, R.L., Jones, R.L., Boykin, D.W. and Strekowski, L. (1990) Anticancer Drug Des., 5, 31-42.
11. Wilson, W.D., Tanious, F.A., Barton, H.J., Strekowski, L. and Boykin, D.W. (1989) J. Am. Chem. Soc., 111, 5008-5010.
12. Kubista, M., Åkerman, B. and Nordén, B. (1987) Biochemistry, 26, 4545-4553.
13. Manzini, G., Barcellona, M.L., Avitabile, M. and Quadrifoglio, M. (1983) Nucleic Acids Res., 11, 8861-8876.
14. Larsen, T.A., Goodsell, D.S., Cascio, D., Grzeskowiak, K. and Dickerson, R.E. (1989) J. Biomol. Struct. Dyn., 7, 477-491.
15. Loontiens, F.G., McLaughlin, L.W., Diekmann, S. and Clegg, R.M. (1991) Biochemistry, 30, 182-189.
16. Jansen, K., Nordén, B. and Kubista, M. (1993) J. Am. Chem. Soc., 115, 10527-10530.
17. Kim, S.K., Eriksson, S., Kubista, M. and Nordén, B. (1993) J. Am. Chem. Soc., 115, 3441-3447.
18. Sehlstedt, U., Kim, S.K. and Nordén, B. (1993) J. Am. Chem. Soc., 115, 12258-12263.
19. Mohan, S. and Yathindra, N. (1994) J. Biomol. Struct. Dyn., 11, 849-867.
20. Trotta, E., D'Ambrosio, E., Del Grosso, N., Ravagnan, G., Cirilli, M. and Paci, M. (1993) J. Biol. Chem., 268, 3944-3951.
21. Trotta, E., D'Ambrosio, E., Ravagnan, G. and Paci, M. (1995) Nucleic Acids Res., 23, 1333-1340.
22. Trotta, E., D'Ambrosio, E., Ravagnan, G. and Paci, M. (1996) J. Biol. Chem., 271, 27608-27614.
23. Eriksson, S., Kim, S.K., Kubista, M. and Nordén, B. (1993) Biochemistry, 32, 2987-2998.
24. Kapuscinski, J. and Szer, W. (1979) Nucleic Acids Res., 6, 3519-3534.
25. Tanious, F.A., Spychala, J., Kumar, A., Greene, K., Boykin, D.W. and Wilson, W.D. (1994) J. Biomol. Struct. Dyn., 11, 1063-1083.
26. Tanious, F.A., Veal, J.M., Buczak, H., Ratmeyer, L.S. and Wilson, W.D. (1992) Biochemistry, 31, 3103-3122.
27. Kastrup, R.V., Young, M.A. and Krugh, T.R. (1978) Biochemistry, 17, 4855-4865.
28. Kapuscinski, J. and Skoczylas, B. (1977) Anal. Biochem., 83, 252-257.
29. Edmondson, S.P. (1992) J. Magn. Reson., 98, 283-298.
30. Schmitz, U. and James, T.L. (1995) Methods Enzymol., 261, 3-44.
31. Lavery, R. and Sklenar, H. (1988) J. Biomol. Struct. Dyn., 6, 63-91.
32. Diekman, S. (1989) EMBO J., 8, 1-4.
33. Feigon, J., Sklenar, V., Wang, E., Gilbert, D.E., Macaya, R.F. and Schultze, P. (1992) Methods Enzymol., 211, 235-253.
34. Arnold, F.H., Wolk, S., Cruz, P. and Tinoco, I. (1987) Biochemistry, 26, 4068-4075.
35. Kouchakdjian, M., Li, B.F.L., Swann, P.F. and Patel, D.J. (1988) J. Mol. Biol., 202, 139-155.
36. Gervais, V., Cognet, J.A.H., Le Bret, M., Sowers, L.C. and Fazakerley, G.V. (1995) Eur. J. Biochem., 228, 279-290.
37. Tabernero, L., Bella, J. and Alemán, C. (1996) Nucleic Acids Res., 24, 3458-3466.
38. Kramer, B., Kramer, W. and Fritz, H.-J. (1984) Cell, 38, 879-887.
39. Gastier, J.M., Pulido, J.C., Sunden, S., Brody, T., Buetow, K.H., Murray, J.C., Weber, J.L., Hudson, T.J., Sheffield, V.C. and Duyk, G.M. (1995) Hum. Mol. Genet., 4, 1829-1836.
40. Ohshima, K., Kang, S., Larson, J.E. and Wells, R.D. (1996) J. Biol. Chem., 271, 16784-16791.