Assignments of31P NMR Resonances in Oligodeoxyribonucleotides: Origin of Sequence-Specific Variations in the Deoxyribose Phosphate Backbone Conformation and the31P Chemical Shifts of Double-Helical Nucleic Acids

Biochemistry

Volumn 27, Issue 19, 1988, Pages 7223-7237

  Gorenstein, David G ^a   Schroeder, Stephen A ^a   Fu, Josepha M ^a   Metz, James T ^a   Roongta, Vikram ^a   Jones, Claude R ^a  

^a PURDUE UNIVERSITY   (United States)

Author keywords

[No Author keywords available]

Indexed keywords

DEOXYRIBONUCLEOTIDE; DEOXYRIBOSE; DNA; PHOSPHATE; PHOSPHORUS;

ARTICLE; COMPARATIVE STUDY; CONFORMATION; NUCLEAR MAGNETIC RESONANCE SPECTROSCOPY; NUCLEOTIDE SEQUENCE;

BASE SEQUENCE; COMPARATIVE STUDY; DEOXYRIBONUCLEOTIDES; DEOXYRIBOSE; DNA; MAGNETIC RESONANCE SPECTROSCOPY; NUCLEIC ACID CONFORMATION; PHOSPHATES; PHOSPHORUS RADIOISOTOPES; SUPPORT, NON-U.S. GOV'T; SUPPORT, U.S. GOV'T, NON-P.H.S.; SUPPORT, U.S. GOV'T, P.H.S.;

EID: 0024293254     PISSN: 00062960     EISSN: 15204995     Source Type: Journal    
DOI: 10.1021/bi00419a009     Document Type: Article

References (85)

1. Anderson, J. E., Ptashne, M., & Harrison, S. C. (1985) Nature (London) 316, 596–600.
2. Anderson, J. E., Plashne, M., & Harrison, S. C. (1987) Nature (London) 326, 846–852.
3. Assa-Munt, N., & Kearns, D. R. (1984) Biochemistry 23, 791.
4. Broido, M. A., Zon, G., & James, T. L. (1984) Biochem. Biophys. Res. Commun. 119, 663–670.
5. Calladine, C. R. (1982) J. Mol. Biol. 161, 343–352.
6. Calladine, C. R., & Drew, H. R. (1984) J. Mol. Biol. 178, 773–782.
7. Cheng, D. M., Kan, L. S., Miller, P. S., Leutzinger, E. E., & Ts’o, P. O. P. (1982) Biopolymers 21, 697.
8. Cheng, D. M., Kan, L., & Ts’o, P. O. P. (1987) Phosphorus NMR in Biology (Burt, C. T., Ed.) pp 135–147, CRC, Boca Raton, FL.
9. Clore, G. M. Gronenborn, A. M., Brunger, A. T., & Karplus, M. (1985) J. Mol. Biol. 186, 435–455.
10. Connolly, B. A., & Eckstein, F. (1984) Biochemistry 23, 5523–5527.
11. Costello, A. J. R., Glonek, T., & Van Wazer, J. R. (1976) J. Inorg.Chem. Soc. 15, 972–974.
12. Dickerson, R. E. (1983) J. Mol. Biol. 166, 419–441.
13. Dickerson, R. E., & Drew, H. R. (1981) J. Mol. Biol. 149, 761–786.
14. Dickerson, R. E., & Drew, H. R. (1983) J. Mol. Biol. 149, 761–786.
15. Eckstein, F., & Jovin, T. M. (1983) Biochemistry 22, 4546–4550.
16. Feigon, J., Leupin, W., Denny, W. A., & Kearns, D. R. (1983a) Biochemistry 22, 5930–5942.
17. Feigon, J., Leupin, W., Denny, W. A., & Kearns, D. R. (1983b) Biochemistry 22, 5943–5951.
18. Fratini, A. V. Kopka, M. L., Drew, H. R., & Dickerson, R. E. (1982) J. Biol. Chem. 257, 14686–14707.
19. Frechet, D., Cheng, D. M. Kan, L. S., & Ts’o, P. O. P. (1983) Biochemistry 22, 5194–5200.
20. Fu, J. M., Schroeder, S. A., Jones, C. R., Santini, R., & Gorenstein, D. G. (1988) J. Magn. Reson. 77, 577–582.
21. Giessner-Prettre, C., Pullman, C., Borer, B., Kan, L. S., & Ts’o, P. O. P. (1976) Biopolymers 15, 2277.
22. Giessner-Prettre, C., Pullman, B., Ribas-Prado, F., Cheng, D. M., Iuorno, V., & Ts’o, P. O. P. (1984) Biopolymers 23, 377.
23. Goldfield, E. M., Luxon, B. A., Bowie, V., & Gorenstein, D. G. (1983) Biochemistry 22, 3336.
24. Gorenstein, D. G. (1978) Jerusalem Symposium, NMR in Molecular Biology (Pullman, B., Ed.) pp 1–15, D. Reidel, Dordrecht, The Netherlands.
25. Gorenstein, D. G. (1981) Annu. Rev. Biophys. Bioeng. 10, 355.
26. Gorenstein, D. G. (1983) Prog. Nucl. Magn. Reson. Spectrosc. 161, 1–98.
27. Gorenstein, D. G. (1984) Phosphorus-31 NMR: Principles and Applications (Gorenstein, D. G., Ed.) Academic, New York.
28. Gorenstein, D. G. (1987) Chem. Rev. 87, 1047–1077.
29. Gorenstein, D. G., & Kar, D. (1975) Biochem. Biophys. Res. Commun. 65, 1073–1080.
30. Gorenstein, D. G., & Findlay, J. B. (1976) Biochem. Biophys. Res. Commun. 72, 640.
31. Gorenstein, D. G., & Kar, D. (1977) J. Am. Chem. Soc. 99, 672–677.
32. Gorenstein, D. G., & Goldfield, E. M. (1984) Phosphorus-31 NMR: Principles and Applications (Gorenstein, D. G., Ed.) Academic. New York.
33. Gorenstein, D. G., Findlay, J. B., Momii, R. K., Luxon, B. A., & Kar, D. (1976) Biochemistry 15, 3796–3803.
34. Gorenstein, D. G., Luxon, B. A., & Findlay, J. B. (1977) Biochim. Biophys. Acta 475, 184–190.
35. Gorenstein, D. G., Schroeder, S., Miyasaki, M., Fu, J., Jones, C., Roongta, V., & Abuaf, P. (1987) Phosphorus Sulfur 30, 567–570.
36. Gorenstein, D. G., Schroeder, S. A., Miyasaki, M., Fu, J. M., Roongta, V., Abuaf, P., Chang, A., & Yang, J. C. (1987) Biophosphates and Their Analogues—Synthesis, Structure, Metabolism and Activity (Bruzik, K. S., & Stec, W. J., Eds.) pp 487–502, Elsevier, Amsterdam.
37. Hare, D. R., Wemmer, D. E., Chou, S. H., Drobny, G., & Reid. B. (1983) J. Mol. Biol. 171, 319.
38. Hare, D., Shapiro, L., & Patel, D. J. (1986) Biochemistry 25, 7456–7464.
39. Hochschild, A., & Ptashne, M. (1986) Cell (Cambridge, Mass.) 44, 681.
40. James, T. L. (1984) Phosphorus-31 NMR: Principles and Applications (Gorenstein, D. G., Ed.) pp 349–400, Academic, New York.
41. Jones, R. L., & Wilson, W. D. (1980) J. Am. Chem. Soc. 102, 7776–7778.
42. Kearns. D. R. (1984) Crit. Rev. Biochem. 15. 237–290.
43. Klug, A., Viswamitra, M. A., Kennard, O., Shakked, Z., & Steitz, T. A. (1979) J. Mol. Biol. 131, 669–680.
44. Kollman, P., Keepers, J. W., & Weiner, P. (1982) Biopolymers 21, 2345.
45. Kypr, J., Sklenar, V., & Vorlic-Kova, M. (1986) Biopolymers 25, 1803–1812.
46. Lai, K., Gorenstein, D. G., & Goldfield, E. M. (19883) Bull. Magn. Reson. 5, 253.
47. Lai, K., Shah, D. O., Derose, E., & Gorenstein, D. G. (1984) Biochem. Biophys. Res. Commun. 121, 1021.
48. Lefevre, J., Lane, A. N., & Jardetzky, O. (1987) Biochemistry 26, 5076–5090.
49. Lerner, D. B., & Kearns, D. R. (1980) J. Am. Chem. Soc. 102, 7612–7613.
50. Levitt, M. (1978) Proc. Natl. Acad. Sci. U. S. A. 75, 640–644.
51. Lomonossof, G. P., Butler, P. J. G., & Klug, A. (1981) J. Mol. Biol. 149, 745–760.
52. Martin, K., & Schleif, R. F. (1986) Proc. Natl. Acad. Sci. U. S. A. 83, 3654.
53. McClarin, J. A., Frederick, C. A., Wang, B. C., Greene, P., Boyer, H. W., Grable, J., & Rosenberg, J. M. (1986) Science (Washington, D. C.) 234, 1526–1541.
54. Nilges, M., Clore, G. M., Gronenborn, A. M., Brunger, A. T., Karplus, M., & Nilsson, L. (1987a) Biochemistry 26, 3718–3733.
55. Nilges, M., Clore, G. M., Gronenborn, A. M., Piel, N., & McLaughlin, L. W. (1987b) Biochemistry 26, 3734–3744.
56. Ott, J., & Eckstein, F. (1985a) Biochemistry 24, 2530–2535.
57. Ott, J., & Eckstein, F. (1985b) Nucleic Acids Res. 13, 6317–6330.
58. Patel, D. J. (1974a) Biochemistry 13, 2388–2395.
59. Patel, D. J. (1974b) Biochemistry 13, 2396–2402.
60. Patel, D. J. (1979) Acc. Chem. Res. 12, 118.
61. Patel, D. J., Pardi, A., & Itakura, K. (1982) Science (Washington, D. C.) 216, 581.
62. Patel, D. J., Kozlowski, S. A., & Bhatt, R. (1983) Proc. Natl. Acad. Sci. U. S. A. 80, 3908–3912.
63. Patel, D. J., Shapiro, L., & Hare, D. (1987) Biophys. Chem. 16, 423–454.
64. Petersheim, M., Mehdi, S., & Gerlt, J. A. (1984) J. Am. Chem. Soc. 106, 439–440.
65. Reinhardt, C. G., & Krugh, T. R. (1977) Biochemistry 16, 2890–2895.
66. Ribas-Prado, F., Giessner-Prettre, C., Pullman, B., & Daudey, J. P. (1979) J. Am. Chem. Soc. 101, 1737.
67. Richmond, T. J., Finch, J. T., Rushton, B., Rhodes, D., & Klug, A. (1985) Nature (London) 311, 532.
68. Riggs, A. D., Lin, S. Y., & Wells, R. D. (1972) Proc. Natl. Acad. Sci. U. S. A. 69, 761–764.
69. Rinkel, L. J., van der Marel, G. A., van Boom, J. H., & Altona, C. (1987) Eur. J. Biochem. 163, 275–286.
70. Saenger, W. (1984) Principles of Nucleic Acid Structure, Springer-Verlag, New York.
71. Scheek, R. M., Boelens, R., Russo, N., Van Boom, J. H., & Kaptein, R. (1984) Biochemistry 23, 1371–1376.
72. Scheffler, I. E., Elson, E. L., & Baldwin, R. L. (1968) J. Mol. Biol. 36, 291–304.
73. Schroeder, S., Jones, C., Fu, J., & Gorenstein, D. G. (1986) Bull. Magn. Reson. 8, 137–146.
74. Schroeder, S., Fu, J., Jones, C., & Gorenstein, D. G. (1987) Biochemistry 26, 3812–3821.
75. Seeman, N. C., Rosenberg, J. M., Suddath, F. L., Park Kim, J. J., & Rich, A. (1976) J. Mol. Biol. 104, 142–143.
76. Shah, D. O., Lai, K., & Gorenstein, D. G. (1984a) Biochemistry 23, 6717–6723.
77. Shah, D. O., Lai, K., & Gorenstein, D. G. (1984b) J. Am. Chem. Soc. 106, 4302.
78. Shindo, H., Simpson, R. T., & Cohen, J. S. (1979) J. Biol. Chem. 254, 8125.
79. Singh, U. C., Weiner, S. J., & Kollman, P. (1985) Proc. Natl. Acad. Sci. U. S. A. 82, 755.
80. Sklenar, V., & Bax, A. (1987) J. Am. Chem. Soc. 109, 7525.
81. Sklenar, V., Miyashiro, H., Zon, G., Miles, H. T., & Bax, A. (1986) FEBS Lett. 208, 94–98.
82. Sundaralingam, M. (1969) Biopolymers 7, 821–860.
83. Viswamitra, M. A., Kennard, O., Shakked, Z., Jones, D. G., Sheldrick, G. M., Salisbury, S., & Falvello, L. (1978) Nature (London) 273, 687–690.
84. Weiner, P. K., & Kollman, P. A. (1981) J. Comput. Chem. 2, 287.
85. Wemmer, D. E., & Reid, B. R. (1985) Ann. Rev. Phys. Chem. 36, 105–137.