Heteronuclear scalar couplings in the bases and sugar rings of nucleic acids: Their determination and application in assignment and conformational analysis

Magnetic Resonance in Chemistry

Volumn 34, Issue 13, 1996, Pages

  Ippel, J H ^a   Wijmenga, S S ^a,c   De Jong, R ^a   Heus, H A ^a   Hilbers, C W ^a   De Vroom, E ^b   Van Der Marel, G A ^b   Van Boom, J H ^b  

^a RADBOUD UNIVERSITY NIJMEGEN   (Netherlands)

^b LEIDEN UNIVERSITY   (Netherlands)

^c UMEÅ UNIVERSITY   (Sweden)

Author keywords

13C NMR; 15N NMR; 1H NMR; Chi angle; Conformational analysis; DNA; Heteronuclear coupling constants; Karplus equation; NMR; Nucleic acids; RNA

Indexed keywords

CONFORMATIONS; COUPLINGS; NUCLEAR MAGNETIC RESONANCE SPECTROSCOPY; NUCLEOTIDES;

13C NMR; 15N NMR; 1H NMR; CHI ANGLE; CONFORMATIONAL ANALYSIS; COUPLING CONSTANTS; HETERONUCLEAR; HETERONUCLEAR COUPLING; HETERONUCLEAR COUPLING CONSTANT; KARPLUS EQUATION;

NUCLEIC ACIDS;

EID: 0030376894     PISSN: 07491581     EISSN: None     Source Type: Journal    
DOI: 10.1002/(sici)1097-458x(199612)34:133.0.co;2-u     Document Type: Article

References (66)

1. C. W. Hilbers and S. S. Wijmenga, in Encyclopedia of Nuclear Magnetic Resonance, edited by D. M. Grant and R. Harris, Vol. 5, pp. 3346-3359, J. Wiley, Chichester (1995).
2. C. Altona, in Encyclopedia of Nuclear Magnetic Resonance, (edited by D. M. Grant and R. Harris, Vol. 8, pp. 4909-4923. J. Wiley, Chichester (1995).
3. R. T. Batey, M. Inada, E. Kujawinski, J. D. Puglisi and J. R. Williamson, Nucleic Acids Res. 20, 4515-4523 (1992).
4. E. P. Nikonowicz, A. Sirr, P. Legault, F. M. Jucker, L. M. Baer and A. Pardi, Nucleic Acids Res. 20, 4507-4513 (1992).
5. H. A. Heus, S. S. Wijmenga, F. J. M. van de Ven and C. W. Hilbers, J. Am. Chem. Soc. 116, 4983-4984 (1994).
6. S. S. Wijmenga, H. A. Heus, F. J. M. van de Ven and C. W. Hilbers, in NMR of Biological Macromolecules, edited by C. I. Stassinopoulou, NATO ASI Series, Vol. 87, pp. 307-322, Springer, Berlin (1994).
7. S. S. Wijmenga, H. Hoppe, M. van der Graaf, H. A. Heus and C. W. Hilbers, J. Biomol. NMR 5, 82-86 (1995).
8. J. P. Marino, H. Schwalbe, C. Anklin, W. Bermel, D. M. Crothers and C. Griesinger, J. Am. Chem. Soc. 116, 6462-6473 (1994).
9. J. P. Marino, H. Schwalbe, C. Anklin, W. Bermel, D. M. Crothers and C. Griesinger, J. Biomol. NMR 5, 87-92 (1995).
10. B. T. Farmer, II, L. Mueller, E. P. Nikonowicz and A. Pardi, J. Am. Chem. Soc. 115, 11040-11041 (1993).
11. B. T. Farmer, II, L. Mueller, E. P. Nikonowicz and A. Pardi, J. Biomol. NMR 4, 129-133 (1994).
12. V. Sklenar, R. D. Peterson, M. R. Rejante and J. Feigon, J. Biomol. NMR 3, 721-727 (1993).
13. V. Sklenar, R. D. Peterson, M. R. Rejante and J. Feigon, J. Biomol. NMR 4, 117-122 (1994).
14. S. Tate, A. Ono and M. Kainosho, J. Am. Chem. Soc. 116, 5977-5978 (1994).
15. J. S. Simorre, G. R. Zimmerman, A. Pardi, B. T. Farmer, II, and L. Mueller, J. Biomol. NMR 6, 427-432 (1995).
16. J. P. Simorre, G. R. Zimmerman, L. Mueller and A. Pardi, J. Biomol. NMR 7, 153-156 (1996).
17. V. Sklenar, T. Dieckmann, S. E. Butcher and J Feigon, J. Biomol. NMR 7, 83-87 (1996).
18. P. Legault, B. T. Farmer II, L. Mueller and A. Pardi, J. Am. Chem. Soc. 116, 2203-2204 (1994).
19. J. P. Marino, J. H. Prestegard and D. M. Crothers, J. Am. Chem. Soc. 116, 2205-2206 (1994b).
20. M. J. P. van Dongen, S. S. Wijmenga and C. W. Hilbers, J. Biomol. NMR, J. Biomol. NMR 8, 207-212 (1996).
21. C. Altona, Recl. Trav. Chim. Pays-Bas 101, 413-433 (1982).
22. E. de Vroom, H. J. G. Broxterman, L. A. J. M. Sliedregt, G. A van der Marel and J. H. van Boom, Nucleic Acids Res. 16, 4607-4620 (1988).
23. U. Piantini, O. W. Sörensen and R. R. Ernst, J. Am. Chem. Soc. 104, 6800-6802 (1982).
24. C. Griesinger, G. Otting, K. Wüthrich and R. R. Ernst, J. Am. Chem. Soc. 110, 7870-7872 (1988).
25. P. Schmieder, M. Kurz and H. Kessler, J. Biomol. NMR 1, 403-420 (1991).
26. A. Bax, R. Freeman and S. P. Kempsell, J. Am. Chem. Soc. 102, 4849-4851 (1980).
27. G. Bodenhausen and D. J. Ruben, Chem. Phys. Lett. 69, 185-189 (1980).
28. G. Zhu, D. Live and A. Bax, J. Am. Chem. Soc. 116, 8370-8371 (1994).
29. A. Bax and D. G. Davies, J. Magn. Reson. 60, 207-213 (1985).
30. D. J. States, R. A. Haberkorn and D. J. Ruben, J. Magn. Reson. 48, 286-292 (1982).
31. D. Marion and K. Wüthrich, Biochem. Biophys. Res. Commun. 113, 967-974 (1983).
32. A. J. Shaka, P. B. Barker and R. Freeman, J. Magn. Reson. 64, 547-552 (1985).
33. H. Geen and R. Freeman, J. Magn. Reson. 93, 93-141 (1991).
34. J. van Wijk, B. D. Huckriede, J. H. Ippel and C. Altona, Methods Enzymol. 211, 286-306 (1992).
35. A. A. van Beuzekom, F. A. A. M. De Leeuw and C. Altona, Magn. Reson. Chem. 28, 68-74 (1990).
36. A. A. van Beuzekom, PhD Thesis, Leiden University (1989).
37. D. E. Dorman, & J. D. Roberts, Proc. Natl. Acad. Sci. USA 65, 19-26 (1970).
38. E. Breitmeier and W. Voelter, in C13 NMR Spectroscopy, High Resolution Methods and Applications in Organic Chemistry and Biochemistry, 3rd ed. VCH, Weinheim (1987).
39. V. Markowski, G. R. Sullivan and J. D. Roberts, J. Am. Chem. Soc. 99, 714-718 (1977).
40. P. Büchner, W. Maurer and H. Rüterjans, J. Magn. Reson. 29, 45-63 (1978).
41. C. D. Poulter and C. L. Livingston, Tetrahedron Lett., 755-758 (1979).
42. H. Schwalbe, J. P. Marino, G. C. King, R. Wechselberger, W. Bermel and C. Griesinger, J. Biomol. NMR 4, 631-644 (1994).
43. D. B. Davies, P. Rajani and H. Sadikot, J. Chem. Soc., Perkin Trans. 2 279-285 (1985).
44. R. L. Lipnick and J. P. Fissekis, J. Org. Chem. 44, 1627-1630 (1979).
45. R. R. Ernst, G. Bodenhausen and A. Wokaun, in Principles of Nuclear Magnetic Resonance in One and Two Dimensions, edited by R. B. Bernstein and R. Breslow, Clarendon Press, Oxford (1990).
46. C. Griesinger, O. W. Sörensen and R. R. Ernst, J. Am. Chem. Soc. 107, 6394-6396 (1985).
47. D. B. Davies, P. Rajani, M. MacCoss and S. S. Danyluk, Magn. Reson. Chem. 23, 72-77 (1985b)
48. R. U. Lemieux, T. L. Nagabhushan and B. Paul, Can. J. Chem., 50, 773-776 (1972).
49. P. Schmieder, J. H. Ippel, H. van den Elst, G. A. van der Marel, J. H. van Boom, C. Altona and H. Kessler, Nucleic Acids Res. 20, 4747-4751 (1992).
50. P. Schultz, R. F. Macaya and J. Feigon, J. Mol. Biol. 235, 1532-1547 (1994).
51. J. V. Hines, S. M. Landry and G. Varani and I. Tinoco, Jr, J. Am. Chem. Soc. 116, 5823-5831 (1994).
52. P. C. Kline and A. S. Serianni, J. Am. Chem. Soc. 112, 7373-7381 (1990).
53. M. M. W. Mooren, S. S. Wijmenga, G. A. van der Marel, J. H. van Boom and C. W. Hilbers, Nucleic Acids Res. 22, 2658-2666 (1994).
54. M. M. J. Blommers, C. A. G. Haasnoot, J. A. L. I. Walters, G. A. van der Marel, J. H. van Boom and C. W. Hilbers, Biochemistry 27, 8361-8369 (1988).
55. C. A. Frederick, M. Coll, G. A. van der Marel, J. H. van Boom and A. H.-J. Wang, Biochemistry 27, 8350-8361 (1988).
56. Y. Guan, Y.-G. Gao, Y.-C. Liaw, H. Robinson and A. H.-J. Wang, J. Biomol. Struct. Dyn. 11, 253-276 (1993).
57. H. P. M. de Leeuw, C. A. G. Haasnoot and C. Altona, Isr. J. Cem. 20, 108 (1980).
58. E. Henderson, C. C. Hardin, S. K. Wolk, I. Tinoco, Jr, and E. H. Blackburn, Cell 51, 899-908 (1987).
59. Y. Wang and D. J. Patel, Biochemistry 31, 8112-8119 (1992).
60. S. S. Wijmenga, K. Hallenga and C. W. Hilbers, J. Magn. Reson. 84, 634-642 (1989).
61. M. L. Huggins, J. Am. Chem. Soc. 75, 4123-4126 (1953).
62. T. Spoormaker and M. J. A. de Bie, Recl. Trav. Chim. Pays-Bas 98, 59-64 (1979).
63. T. Spoormaker, J. W. Zwikker and M. J. A. de Bie, Recl. Trav. Chim. Pays-Bas 98, 380-387 (1979).
64. K. Bock and C. Pedersen, Acta Chim. Scand., Ser. B 31, 354-358 (1977).
65. M. Remin and D. Shugar, Biochem. Biophys. Res. Commun. 48, 636-642 (1972).
66. D. B. Davies, M. MacCoss and S. S. Danyluk, J. Chem. Soc. Chem. Commun. 536-538 (1984).