Solution structure of an intramolecular DNA triplex containing an N7- glycosylated guanine which mimics a protonated cytosine

Biochemistry

Volumn 36, Issue 9, 1997, Pages 2659-2668

  Koshlap, Karl M ^a   Schultze, Peter ^a   Brunar, Helmut ^b   Dervan, Peter B ^b   Feigon, Juli ^a  

^a UNIVERSITY OF CALIFORNIA   (United States)

^b California Institute of Technology ^*  (United States)

Author keywords

[No Author keywords available]

Indexed keywords

CYTOSINE; DNA; GLYCOSYLATED PROTEIN; GUANINE DERIVATIVE;

ARTICLE; DNA CONFORMATION; GLYCOSYLATION; HYDROGEN BOND; MOLECULAR DYNAMICS; NUCLEAR MAGNETIC RESONANCE SPECTROSCOPY; PRIORITY JOURNAL; PROTEIN STABILITY;

BASE COMPOSITION; CYTOSINE; DNA; GLYCOSYLATION; GUANINE; MAGNETIC RESONANCE SPECTROSCOPY; MOLECULAR SEQUENCE DATA; NUCLEIC ACID CONFORMATION; NUCLEIC ACID HETERODUPLEXES; PROTONS; SOLUTIONS; SPECTROPHOTOMETRY, ULTRAVIOLET;

EID: 0031037836     PISSN: 00062960     EISSN: None     Source Type: Journal    
DOI: 10.1021/bi962438a     Document Type: Article

References (85)

1. Arnott, S., & Seising, E. (1974) J. Mol. Biol. 88, 509-521.
2. Bax, A., & Davis, D. G. (1985) J. Magn. Reson. 65, 355-360.
3. Bax, A., Griffey, R. H., & Hawkins, B. L. (1983) J. Magn. Reson. 55, 301-315.
4. Beal, P. A., & Dervan, P. B. (1991) Science 251, 1360-1363.
5. Beaucage, S. L., & Iyer, R. P. (1993) Tetrahedron 49, 6123-6194.
6. Belotserkovskii, B. P., Veselkov, A. G., Filippov, S. A., Dobrynin, V. N., Mirkin, S. M., & Frank-Kamenetskii, M. D. (1990) Nucleic Acids Res. 18, 6621-6624.
7. Best, G. C., & Dervan, P. B. (1995) J. Am. Chem. Soc. 117, 1187-1193.
8. Bornet, O., & Lancelot, G. (1995) J. Biomol. Struct. Dyn. 12, 803-814.
9. Braunschweiler, L., & Ernst, R. R. (1983) J. Magn. Reson. 53, 521-528.
10. Broitman, S. L., Im, D. D., & Fresco, J. R. (1987) Proc. Natl. Acad. Sci. U.S.A. 84, 5120-5124.
11. Brünger, A. T. (1992) X-PLOR (Version 3.1) Manual, Yale University Press, New Haven and London.
12. Calladine, C. R. (1982) J. Mol. Biol. 161, 343-352.
13. Cooney, M., Czernuszewicz, G., Postel, E. H., Flint, S. J., & Hogan, M. E. (1988) Science 241, 456-459.
14. Davison, E. C., & Johnsson, K. (1993) Nucleosides Nucleotides 12, 237-243.
15. Dayn, A., Samadashwily, G. M., & Mirkin, S. M. (1992) Proc. Natl. Acad. Sci. U.S.A. 89, 11406-11410.
16. de Leeuw, F. A. A. M., & Altona, C. (1983) J. Comput. Chem. 4, 428-437.
17. de los Santos, C., Rosen, M., & Patel, D. (1989) Biochemistry 28, 7282-7289.
18. Feigon, J., Koshlap, K. M., & Smith, F. W. (1995) Methods Enzymol. 261, 225-255.
19. François, J.-C., Saison-Behmoaras, T., Barbier, C., Chassignol, M., Thuong, N. T., & Hélène, C. (1989) Proc. Natl. Acad. Sci. U.S.A. 86, 9702-9706.
20. Froehler, B. C., & Ricca, D. J. (1992) J. Am. Chem. Soc. 114, 8320-8322.
21. Froehler, B. C., Wadwani, S., Terhorst, T. J., & Gerrard, S. R. (1992) Tetrahedron Lett. 33, 5307-5310.
22. Giovannangeli, C., Rougee, M., Garestier, T., Thuong, N. T., & Hélène, C. (1992) Proc. Natl. Acad. Sci. U.S.A. 89, 8631-8635.
23. Greenberg, W. A., & Dervan, P. B. (1995) J. Am. Chem. Soc. 117, 5016-5022.
24. Griffin, L. C., & Dervan, P. B. (1989) Science 245, 967-971.
25. Hampel, K. J., Burkholder, G. D., & Lee, J. S. (1993) Biochemistry 32, 1072-1077.
26. Hélène, C., & Toulme, J. J. (1990) Biochim. Biophys. Acta 1049, 99-125.
27. Huang, C. Y., & Miller, P. S. (1993) J. Am. Chem. Soc. 115, 10456-10457.
28. Hunziker, J., Priestley, E. S., Brunar, H., & Dervan, P. B. (1995) J. Am. Chem. Soc. 117, 2661-2662.
29. Koh, J. S., & Dervan, P. B. (1992) J. Am. Chem. Soc. 114, 1470-1478.
30. Kohwi, Y., & Kohwi-Shigematsu, T. (1988) Proc. Natl. Acad. Sci. U.S.A. 85, 3781-3785.
31. Krawczyk, S. H., Milligan, J. F., Wadwani, S., Moulds, C., Froehler, B. C., & Matteucci, M. D. (1992) Proc. Natl. Acad. Sci. U.S.A. 89, 3761-3764.
32. Kumar, A., Ernst, R. R., & Wüthrich, K. (1980) Biochem. Biophys. Res. Commun. 95, 1-6.
33. Lavery, R., & Sklenar, H. (1988) J. Biomol. Struct. Dyn. 6, 63-91.
34. Lee, J. S., Woodsworth, M. L., Latimer, L. J., & Morgan, A. R. (1984) Nucleic Acids Res. 12, 6603-6614.
35. Lipsett, M. N. (1963) Biochem. Biophys. Res. Commun. 11, 224-228.
36. Lipsett, M. N. (1964) J. Biol. Chem. 239, 1256-1260.
37. Liquier, J., Coffinier, P., Firon, M., & Taillandier, E. (1991) J. Biomol. Struct. Dyn. 9, 437-445.
38. Liu, K., Miles, H. t., Parris, K. D., & Sasisekharan, V. (1994) Nat. Struct. Biol. 1, 11-12.
39. Lu, G. H., & Ferl, R. J. (1993) Int. J. Biochem. 25, 1529-1537.
40. Macaya, R. F., Gilbert, D. E., Malek, S., Sinsheimer, J., & Feigon, J. (1991) Science 254, 270-274.
41. Macaya, R. F., Schultze, P., & Feigon, J. (1992a) J. Am. Chem. Soc. 114, 781-783.
42. Macaya, R. F., Wang, E., Schultze, P., Sklenář, V., & Feigon, J. (1992b) J. Mol. Biol. 225, 755-773.
43. Macura, S., & Ernst, R. R. (1980) Mol. Phys. 41, 95-117.
44. Maher, L. J., III, Wold, B., & Dervan, P. B. (1989) Science 245, 725-730.
45. Marion, D., & Bax, A. (1988) J. Magn. Reson. 80, 528-533.
46. Marion, D., Ikura, M., Tschudin, R., & Bax, A. (1989) J. Magn. Reson. 85, 393-399.
47. Mergny, J.-L., Sun, J.-S., Rougée, M., Montenay-Garestier, T., Barcelo, F., Chomilier, J., & Hélène, C. (1991) Biochemistry 30, 9791-9798.
48. Michel, D., Chatelain, G., Herault, Y., & Brun, G. (1992) Nucleic Acids Res. 20, 439-443.
49. Miller, P. S., Bhan, P., Cushman, C. D., & Trapane, T. L. (1992) Biochemistry 31, 6788-6793.
50. Mirkin, S. M., Lyamichev, V. I., Drushlyak, K. N., Dobrynin, V. N., Filippov, S. A., & Frank-Kamenetskii, M. D. (1987) Nature 330, 495-491.
51. Moser, H. E., & Dervan, P. B. (1987) Science 238, 645-650.
52. Mueller, L. (1987) J. Magn. Reson. 72, 191-196.
53. Nagel, K. M., Holstad, S. G., & Isenberg, K. E. (1993) Pharmacotherapy 13, 177-188.
54. Neidig, K. P., Geyer, M., Gorier, A., Antz, C., Saffrich, R., Beneicke, W., & Kalbitzer, H. R. (1995) J. Biomol. NMR 6, 255-270.
55. Nilges, M., Clore, G. M., & Gronenborn, A. M. (1988) FEBS Lett. 229, 317-324.
56. Ono, A., Ts'o, P. O. P., & Kan, L.-s. K. (1991) J. Am. Chem. Soc. 113, 4032-4333.
57. Povsic, T. J., & Dervan, P. B. (1989) J. Am. Chem. Soc. 111, 3059-3061.
58. Prins, J., de Vries, E. G., & Mulder, N. H. (1993) Clin. Oncol. (R. Coll. Radiol.) 5, 245-252.
59. Quintana, J. R., Grzeskowiak, K., Yanagi, K., & Dickerson, R. E. (1992) J. Mol. Biol. 225, 379-395.
60. Radhakrishnan, I., & Patel, D. J. (1994a) J. Mol. Biol. 241, 600-619.
61. Radhakrishnan, I., & Patel, D. J. (1994b) Structure 2, 17-32.
62. Radhakrishnan, I., de los Santos, C., & Patel, D. J. (1991) J. Mol. Biol. 221, 1403-1418.
63. Rajagopal, P., & Feigon, J. (1989a) Biochemistry 28, 7859-7870.
64. Rajagopal, P., & Feigon, J. (1989b) Nature 339, 637-640.
65. Roberts, R. W., & Crothers, D. M. (1991) Proc. Natl. Acad. Sci. U.S.A. 88, 9397-9401.
66. Saenger, W. (1984) Principles of Nucleic Acid Structure, Springer-Verlag, New York.
67. Singleton, S. F., & Dervan, P. B. (1992) Biochemistry 31, 10995-11003.
68. Sklenář, V., & Bax, A. (1987) J. Magn. Reson. 75, 378-383.
69. Sklenář, V., & Feigon, J. (1990a) Nature 345, 836-838.
70. Sklenář, V., & Feigon, J. (1990b) J. Am. Chem. Soc. 112, 5644-5645.
71. States, D. J., Haberkorn, R. A., & Ruben, D. J. (1982) J. Magn. Reson. 48, 286-292.
72. Strobel, S. A., & Dervan, P. B. (1991) Nature 350, 172-174.
73. Strobel, S. A., Moser, H. E., & Dervan, P. B. (1988) J. Am. Chem. Soc. 110, 7927-7929.
74. Strobel, S. A., Doucette-Stamm, L. A., Riba, L., Housman, D. E., & Dervan, P. B. (1991) Science 254, 1639-1642.
75. Sun, J. S., & Hélène, C. (1993) Curr. Opin. Struct. Biol. 3, 345-356.
76. Sun, J. S., De Bizemont, T., Duval-Valentin, G., Montenay-Garestier, T., & Hélène, C. (1991) C. R. Acad. Sci., Ser. III 313, 585-590.
77. Thuong, N. T., & Hélène, C. (1993) Angew. Chem., Int. Ed. Engl. 32, 666-690.
78. Wang, E., Malek, S., & Feigon, J. (1992) Biochemistry 31, 4838-4846.
79. Wang, E., Koshlap, K. M., Gillespie, P., Dervan, P. B., & Feigon, J. (1996) J. Mol. Biol. 257, 1052-1069.
80. Wells, R. D., Collier, D. A., Hanvey, J. C., Shimizu, M., & Wohlrab, F. (1988) FASEB J. 2, 2939-2949.
81. Xiang, G. B., Soussou, W., & McLaughlin, L. W. (1994) J. Am. Chem. Soc. 116, 11155-11156.
82. Xodo, L. E., Manzini, G., Quadrifoglio, F., Van der Marel, G. A., & Van Boom, J. H. (1991) Nucleic Acids Res. 19, 5625-5631.
83. Yanagi, K., Privé, G. G., & Dickerson, R. E. (1991) J. Mol. Biol. 217, 201-214.
84. Yoon, K., Hobbs, C. A., Koch, J., Sardaro, M., Kutny, R., & Weis, A. L. (1992) Proc. Natl. Acad. Sci. U.S.A. 89, 3840-3844.
85. Young, S. L., Krawczyk, S. H., Matteucci, M. D., & Toole, J. J. (1991) Proc. Natl. Acad. Sci. U.S.A. 88, 10023-10026.