Drug Binding by Branched DNA Molecules: Analysis by Chemical Footprinting of Intercalation into an Immobile Junction

Biochemistry

Volumn 29, Issue 2, 1990, Pages 570-578

  Guo, Qiu ^a   Lu, Min ^a   Seeman, N C ^a   Kallenbach, N R ^a  

^a NEW YORK UNIVERSITY   (United States)

Author keywords

[No Author keywords available]

Indexed keywords

BRANCHED DNA; UNCLASSIFIED DRUG;

ARTICLE; DNA FOOTPRINTING; DRUG DNA BINDING; PRIORITY JOURNAL;

BASE SEQUENCE; DACTINOMYCIN; DNA; EDETIC ACID; FERROUS COMPOUNDS; INTERCALATING AGENTS; IRON CHELATING AGENTS; MACROMOLECULAR SYSTEMS; MOLECULAR SEQUENCE DATA; MOLECULAR STRUCTURE; NUCLEIC ACID CONFORMATION; PHENANTHROLINES; PROPIDIUM; SUPPORT, U.S. GOV'T, P.H.S.;

EID: 0025056639     PISSN: 00062960     EISSN: 15204995     Source Type: Journal    
DOI: 10.1021/bi00454a034     Document Type: Article

References (52)

1. Becker, M. M., & Wang, J. C. (1984) Nature 309, 682–687.
2. Burger, R., Berkowitz, A. R., Peisach, J., & Horwitz, S. B. (1980) J. Biol. Chem. 255, 11832–11838.
3. Caruthers, M. H. (1982) in Chemical and Enzymatic Synthesis of Gene Fragments (Gassen, H. G., & Lang, A., Eds.) pp 71–79, Verlag Chemie, Weinheim.
4. Chen, J.-H., Churchill, M. E. A., Tullius, T. D., Kallenbach, N. R., & Seeman, N. C. (1988) Biochemistry 27, 6032–6038.
5. Churchill, M. E. A., Tullius, T. D., Kallenbach, N. R., & Seeman, N. C. (1988) Proc. Natl. Acad. Sci. U.S.A. 85, 4653–4656.
6. Cooper, J. P., & Hagerman, P. J. (1987) J. Mol. Biol. 198, 711–719.
7. Dervan, P. B. (1986) Science 232, 464–471.
8. Dieckmann, S., & Lilley, D. M. J. (1987) Nucleic Acids Res. 15, 5765–5774.
9. Duckett, D. R., Murchie, A. I. H., Diekmann, S., Von Kitzing, E., Kemper, B., & Lilley, D. M. J. (1988) Cell 55, 79–89.
10. Fishel, R. (1981) Ph.D. Thesis, University of California, Irvine.
11. Galas, D. J., & Schmitz, A. (1973) Nucleic Acids Res. 3, 3157–3170.
12. Gilbert, W., Maxam, A., & Mirzabekov, A. (1976) in Control of Ribosome Synthesis (Kjelgaard, N. O., & Maaloe, O., Eds.) pp 139–148, Munksgaard, Copenhagen.
13. Goldberg, I. H., Rabinowitz, M., & Reich, E. (1962) Proc. Natl. Acad. Sci. U.S.A. 48, 2094–2101.
14. Goyne, T., & Sigman, D. S. (1987) J. Am. Chem. Soc. 109, 2846–2848.
15. Graham, D. R., & Sigman, D. S. (1984) Inorg. Chem. 23, 4188–4191.
16. Guo, Q., Seeman, N. C., & Kallenbach, N. R. (1989) Biochemistry 28, 2355–2359.
17. Hertzberg, R. P., & Dervan, P. B. (1982) J. Am. Chem. Soc. 104, 313–315.
18. Hertzberg, R. P., & Dervan, P. B. (1984) Biochemistry 23, 3934–3945.
19. Kallenbach, N. R., Ma, R.-I., & Seeman, N. C. (1983) Nature 305, 829–831.
20. Kuwabara, M., Yoon, C., Goyne, T., Thederahn, T., & Sigman, D. (1986) Biochemistry 25, 7401–7408.
21. Ma, R.-I., Kallenbach, N. R., Sheardy, R. D., Petrillo, M. L., & Seeman, N. C. (1986) Nucleic Acids Res. 14, 9745–9753.
22. Mandal, C., Engalander, S. W., & Kallenbach, N. R. (1980) Biochemistry 19, 5819–5825.
23. Marky, L. A., Kallenbach, N. R., McDonough, K. A., Seeman, N. C., & Breslauer, K. J. (1987) Biopolymers 26, 1621–1634.
24. Maxam, A. M., & Gilbert, W. (1977) Proc. Natl. Acad. Sci. U.S.A. 74, 560–564.
25. Mueller, J. E., Kemper, B., Cunningham, R. P., Kallenbach, N. R., & Seeman, N. C. (1988) Proc. Natl. Acad. Sci. U.S.A. 85, 9441–9445.
26. Muller, W., & Crothers, D. M. (1968) J. Mol. Biol. 35, 251–290.
27. Ogata, R. & Gilbert, W. (1977) Proc. Natl. Acad. Sci. U.S.A. 74, 4973–4976.
28. Petrillo, M. L., Newton, C. J., Cunningham, R. P., Ma, R.-I., Kallenbach, N. R. & Seeman, N. C. (1988) Biopolymers 27, 1337–1352.
29. Pope, L., & Sigman, D. S. (1984) Proc. Natl. Acad. Sci. U.S.A. 81, 3–7.
30. Schmitz, A., & Galas, D. J. (1979) Nucleic Acids Res. 6, 111–137.
31. Schultz, P. G., & Dervan, P. B. (1983) Proc. Natl. Acad. Sci. U.S.A. 80, 6834–6837.
32. Seeman, N. C. (1982) J. Theor. Biol. 99, 237–247.
33. Seeman, N. C. (1988) J. Biomol. Struct. Dyn. 5, 997–1004.
34. Seeman, N. C., & Kallenbach, N. R. (1983) Biophys. J. 44, 201–209.
35. Seeman, N. C., Maestre, M. F., Ma, R.-I., & Kallenbach, N. R. (1985) in The Molecular Basis of Cancer (Rein, R., Ed.) pp 99–108, Liss, New York.
36. Seeman, N. C., Chen, J. H., & Kallenbach, N. R. (1989) Electrophoresis 10, 345–354.
37. Siebenlist, U., Simpson, R. B., & Gilbert, W. (1980) Cell 20, 269–281.
38. Sigman, D. S. (1986) Acc. Chem. Res. 19, 180–186.
39. Spassky, A., & Sigman, D. S. (1985) Biochemistry 24, 8050–8056.
40. Tullius, T. D. (1987) Trends Biochem. Sci. 12, 297–300.
41. Tullius, T. D., & Dombroski, B. A. (1985) Science 230, 679–681.
42. Tullius, T. D., & Dombroski, B. A. (1986) Proc. Natl. Acad. Sci. U.S.A. 83, 5469–5473.
43. Van Dyke, M. W., & Dervan, P. B. (1983a) Nucleic Acids Res. 11, 5555–5567.
44. Van Dyke, M. W., & Dervan, P. B. (1983b) Cold Spring Harbor Symp. Quant. Biol. 47, 347–353.
45. Veal, J. M., & Rill, R. L. (1989a) Biochemistry 28, 3243–3250.
46. Veal, J. M., & Rill, R. L. (1989b) Biochemistry 28, 1822–1827.
47. Ward, B., Skorobogaty, A., & Dabrowiak, J. C. (1986) Biochemistry 25, 6875–6883.
48. Wemmer, D. E., Wand, A. J., Seeman, N. C., & Kallenbach, N. R. (1985) Biochemistry 24, 5745–5749.
49. White, S. A., & Draper, D. E. (1987) Nucleic Acids Res. 15, 4049–4064.
50. Williams, L. D., & Goldberg, I. H. (1988a) Biochemistry 27, 3004–3011.
51. Williams, L. D., & Goldberg, I. H. (1988b) Nucleic Acids Res. 16, 11607–11615.
52. Wilson, W. D., & Lopp, I. G. (1979) Biopolymers 18, 3025–3041.