Advertisement

Hydrogen Bond Scalar Couplings — A New Tool In Biomolecular NMR

  • Stephan Grzesiek
  • Florence Cordier
  • Andrew J. Dingley
Part of the Biological Magnetic Resonance book series (BIMR, volume 20)

Abstract

This chapter gives a summary of the recent findings on electron-mediated scalar couplings across hydrogen bonds. The main emphasis is put on a discussion of the various types and sizes of such couplings which have been detected in biological macromolecules. Various experimental schemes for the detection of H-bond couplings are summarized and possible applications are suggested.

Keywords

Scalar Coupling Radio Frequency Pulse Proton Chemical Shift Imino Proton Selective Pulse 
These keywords were added by machine and not by the authors. This process is experimental and the keywords may be updated as the learning algorithm improves.

Preview

Unable to display preview. Download preview PDF.

Unable to display preview. Download preview PDF.

References

  1. Abragam, A., 1961, The Principles of Nuclear Magnetism, Clarendon Press, Oxford.Google Scholar
  2. Altman, L. J., Laungani, D., Gunnarsson, G., Wennerström, H., and Forsen, S., 1978, J. Am. Chem. Soc. 100: 8264–8266.Google Scholar
  3. Arnold, W. D., and Oldfield, E., 2000, J. Am. Chem. Soc. 122: 12835–12841Google Scholar
  4. Asakawa, N., Kuroki, S., Kuroso, H., Ando, I., Shoji, A., and Ozaki, T., 1992, J. Am. Chem. Soc. 114: 3261–3265.CrossRefGoogle Scholar
  5. Bagno, A., 2000, Chem. Bur. J. 6: 2925–2930.Google Scholar
  6. Baker, E. N., and Hubbard, R. E., 1984, Prog. Biophys. Molec. Biol. 44: 97–179.CrossRefGoogle Scholar
  7. Barfield, M., Dingley, A. J., Feigon, J., and Grzesiek, S., 2001, J. Am. Chem. Soc. 123:4014–4022.CrossRefPubMedGoogle Scholar
  8. Bax, A., Vuister, G. W., Grzesiek, S., Delaglio, F., Wang, A. C., Tschudin, R., and Zhu, G., 1994, Methods Enzymol. 239: 79–105.PubMedGoogle Scholar
  9. Becker, E. D., (1996), Hydrogen bonding. In Encyclopedia of Nuclear Magnetic Resonance (Grant, D. M., and Harris, R. K., eds.), Vol. 4, pp. 2409–2415. John Wiley, New York.Google Scholar
  10. Benedict, H., Shenderovich, I. G., Malkina, O. L., Malkin, V. G., Denisov, G. S., Golubev, N. S., and Limbach, H.-H., 2000, J. Am. Chem. Soc. 122: 1979–1988.CrossRefGoogle Scholar
  11. Blake, P. R., Lee, B., Summers, M. F., Adams, M. W., Park, J. B., Zhou, Z. H., and Bax, A., 1992a, J. Biomol. NMR. 2: 527–533.CrossRefPubMedGoogle Scholar
  12. Blake, P. R., Park, J.-B., Adams, M. W., and Summers, M. F., 1992b, J. Am. Chem. Soc. 114: 4931–4933.CrossRefGoogle Scholar
  13. Bowers, P. and Klevitt, R., 2000, J. Am. Chem. Soc. 122: 1030–1033.CrossRefGoogle Scholar
  14. Boyd, J., Mal, T. K., Soffe, N., and Campbell, I. D., 1997, J. Magn. Reson. 124: 61–71.CrossRefPubMedGoogle Scholar
  15. Case, D. A., 2000, Cutr. Opinion Struct. Biol. 10: 197–203.Google Scholar
  16. Collin, D., van Heijenoort, C., Boiziau, C., J.-J., T. and Guittet, E., 2000, Nucleic Acids Res. 28: 3386–3391.CrossRefPubMedGoogle Scholar
  17. Cordier, F., and Grzesiek, S., 1999, J. Am. Chem. Soc. 121: 1601–1602.CrossRefGoogle Scholar
  18. Cordier, F., Rogowski, M., Grzesiek, S., and Bax, A., 1999, J. Magn. Reson. 140: 510–512.CrossRefPubMedGoogle Scholar
  19. Cordier, F., Wang, C., Grzesiek, S. and Nicholson, L. K., 2000, J. Mol. Biol. 304: 497–505.CrossRefPubMedGoogle Scholar
  20. Cornilescu, G., Hu, J.-S., and Bax, A., 1999a, J. Am. Chem. Soc. 121: 2949–2950.Google Scholar
  21. Cornilescu, G., Ramirez, B. E., Frank, M. K., Clore, G. M., Gronenborn, A. M., and Bax, A., 1999b, J. Am. Chem. Soc. 121: 6275–6279.Google Scholar
  22. Crabtree, R., Siegbahn, P., Eisenstein, O., Rheingold, A., and Koetzle, T., 1996, Acc. Chem. Res. 29: 348–354.CrossRefGoogle Scholar
  23. Dannenberg, J. J., Haskamp, L., and Masunov, A., 1999, J. Phys. Chem. A 103: 7083–7086.CrossRefGoogle Scholar
  24. Del Bene, J. E., 2000, J. Am. Chem. Soc. 122: 3560–3561.Google Scholar
  25. Del Bene, J. E., and Bartlett, R. J., 2000, J. Am. Chem. Soc. 122: 10480–10481.Google Scholar
  26. Del Bene, J. E., and Jordan, M. J. T., 2000, J. Am. Chem. Soc. 122: 4794–4797.Google Scholar
  27. Del Bene, J. E., Perera, S. A., Bartlett, R. J., Alkorta, I., and Elguero, J., 2000, J. Phys. Chem. A 104: 7165–7166.Google Scholar
  28. Delaglio, F., Grzesiek, S., Vuister, G. W., Zhu, G., Pfeifer, J. and Bax, A., 1995, J. Biomol. NMR. 6: 277–293.CrossRefPubMedGoogle Scholar
  29. Dingley, A., and Grzesiek, S., 1998, J. Am. Chem. Soc. 120: 8293–8297.CrossRefGoogle Scholar
  30. Dingley, A., Masse, J., Feigon, F., and Grzesiek, S., 2000, J. Biomol. NMR. 16:279–289.CrossRefPubMedGoogle Scholar
  31. Dingley, A. J., Masse, J. E., Peterson, R. D., Barfield, M., Feigon, J., and Grzesiek, S., 1999, J. Am. Chem. Soc. 121: 6019–6027.CrossRefGoogle Scholar
  32. Dunger, A., Limbach, H.-H., and Weisz, K., 2000, J. Am. Chem. Soc. 122: 10109–10114.CrossRefGoogle Scholar
  33. Fersht, A., 1985, Enzyme Structure and Mechanism. Second Edition edit, W. H. Freeman, New York.Google Scholar
  34. Ghanty, T. K., Staroverov, V. N., Koren, P. R., and Davidson, E. R., 2000, J. Am. Chem. Soc. 122: 1210–1214.CrossRefGoogle Scholar
  35. Golubev, N. S., Shenderovich, I. G., Smirnov, S. N., Denisov, G. S., and Limbach, H.-H., 1999, Chem. Eur. J. 5: 492–497.CrossRefGoogle Scholar
  36. Grzesiek, S., and Bax, A., 1993, J. Am. Chem. Soc. 115: 12593–12594.Google Scholar
  37. Gunnarsson, G., Wennerström, H., Ega, W., and Forsen, S., 1976, Chem. Phys. Lett. 38: 96–99.CrossRefGoogle Scholar
  38. Hennig, M., and Geierstanger, B., 1999, J. Am. Chem. Soc. 121: 5123–5126.CrossRefGoogle Scholar
  39. Hennig, M., and Williamson, J., 2000, Nucleic Acids Res. 28: 1585–1593.CrossRefPubMedGoogle Scholar
  40. Hu, J., Facelli, J., Alderman, D., Pugmire, R., and Grant, D., 1998, J. Am. Chem. Soc. 120: 9863–9869.Google Scholar
  41. Huggins, M., 1919, Thesis, University of California.Google Scholar
  42. Hvidt, A., and Nielsen, S., 1966, Adv. Prot. Chem. 21: 287–385.Google Scholar
  43. Ippel, J. H., Wijmenga, S. S., de Jong, R., Heus, H. A., Hilbers, C. W., de Vroom, E., van der Marcel, G. A. and van Boom, J. H., 1996, Magn. Reson. Chem. 34: S156–S176.CrossRefGoogle Scholar
  44. Jaravine, V. A., Alexandrescu, A. T., and Grzesiek, S., 2001, Protein Sci. 10: 943–50.CrossRefPubMedGoogle Scholar
  45. Jeffrey, G. A., and Saenger, W., 1991, Hydrogen Bonding in Biological Structures, Springer, New York.Google Scholar
  46. Juranic, N., Ilich, P. K., and Macura, S., 1995, J. Am. Chem. Soc. 117: 405–10.CrossRefGoogle Scholar
  47. Juranic, N., Likic, V. A., Prendergast, F. G., and Macura, S., 1996, J. Am. Chem. Soc. 118: 7859–7860.CrossRefGoogle Scholar
  48. Kainosho, M. and Nakamura, A., 1969, Tetrahedron 25: 4071–4081.CrossRefGoogle Scholar
  49. Kettani, A., Basu, G., Gorin, A., Majumdar, A., Skripkin, E., and Patel, D. J., 2000a, J. Mol. Biol. 301: 129–146.CrossRefPubMedGoogle Scholar
  50. Kettani, A., Gorin, A., Majumdar, A., Hermann, T., Skripkin, E., Zhao, H., Jones, R., and Patel, D. J., 2000b, J. Mol. Biol. 297: 627–644.CrossRefPubMedGoogle Scholar
  51. Kim, C.-H., and Tinoco, I., 2000, Proc. Nat’l. Acad. Sci. USA. 97: 9396–9401.Google Scholar
  52. Kojima, C., Ono, A., and Kainosho, M., 2000, J. Biomol. NMR. 18: 269–77.CrossRefPubMedGoogle Scholar
  53. Kontaxis, G., Clore, G. M. and Bax, A., 2000, J. Magn. Reson. 143: 184–196.CrossRefPubMedGoogle Scholar
  54. Kuntz, I. D., Kosen, P. A., and Craig, E. C., 1991, J. Am. Chem. Soc. 113: 1406–1408.CrossRefGoogle Scholar
  55. Kwon, O., and Danishefsky, S., 1998, J. Am. Chem. Soc. 120: 1588–1599.CrossRefGoogle Scholar
  56. Latimer, W. M., and Rodebush, W. H., 1920, J. Am. Chem. Soc. 42: 1419–1433.CrossRefGoogle Scholar
  57. Li, H., Yamada, H., Akasaka, K., and Gronenborn, A. M., 2000, J. Biomol. NMR 18: 207–16.CrossRefPubMedGoogle Scholar
  58. Liu, A., Hu, W., Qamar, S., and Majumdar, A., 2000a, J. Biomol. NMR. 17: 55–61.PubMedGoogle Scholar
  59. Liu, A., Majumdar, A., Hu, W., Kettani, A., Skripkin, E., and Patel, D. J., 2000b, J. Am. Chem. Soc. 122: 3206–3210.Google Scholar
  60. Liu, A., Majumdar, A., Jiang, F., Chernichenko, N., Skripin, E., and Patel, D., 2000c, J. Am. Chem. Soc. 122:11226–11227.Google Scholar
  61. LiWang, A. C., and Bax, A., 1996, J. Am. Chem. Soc. 118: 12864–12865.CrossRefGoogle Scholar
  62. LiWang, A. C., and Bax, A., 1997, J. Magn. Reson. 127: 54–64.CrossRefPubMedGoogle Scholar
  63. Loh, S., and Markley, J., 1994, Biochemistry 33: 1029–1036.CrossRefPubMedGoogle Scholar
  64. Löhr, F., Mayhew, S. G., and Rüterjans, H., 2000, J. Am. Chem. Soc. 122: 9289–9295.Google Scholar
  65. Luy, B., and Marino, J., 2000, J. Am. Chem. Soc. 122: 8095–8096.CrossRefGoogle Scholar
  66. Majumdar, A., Kettani, A., and Skripkin, E., 1999a, J. Biomol. NMR 14: 67–70.CrossRefPubMedGoogle Scholar
  67. Majumdar, A., Kettani, A., Skripkin, E., and Patel, D. J., 1999b, J. Biomol. NMR 15: 207–11.CrossRefPubMedGoogle Scholar
  68. Markowski, V., Sullivan, G. R., and Roberts, J. D., 1977, J. Am. Chem. Soc. 99: 714–718.CrossRefPubMedGoogle Scholar
  69. McDermott, A., and Ridenour, C. I., (1996), In Encyclopedia of Nuclear Magnetic Resonance (Grant, D. M. and Harris, R. K., eds.), pp. 3820–3825.Google Scholar
  70. Meissner, A., and Sørensen, O. W., 2000a, J. Magn. Reson. 143: 431–434.PubMedGoogle Scholar
  71. Meissner, A., and Sørensen, O. W., 2000b, J. Magn. Reson. 143: 387–390.PubMedGoogle Scholar
  72. Mishima, M., Hatanaka, M., Yokoyama, S., Ikegami, T., Wälchli, M., Ito, Y. and Shirakawa, M., 2000, J. Am. Chem. Soc. 122: 5883–5884.CrossRefGoogle Scholar
  73. Niimura, N., 1999, Curr. Opin. Struct. Biol. 9: 602–8.CrossRefPubMedGoogle Scholar
  74. Pauling, L., 1960, The Nature of the Chemical Bond, Cornell University Press.Google Scholar
  75. Pecul, M., Leszczynski, J., and Sadlej, J., 2000, J. Phys. Chem. A 104: 8105–8113.CrossRefGoogle Scholar
  76. Perera, S., and Bartlett, R., 2000, J. Am. Chem. Soc. 122: 1231–1232.CrossRefGoogle Scholar
  77. Pervushin, K., Fernandez, C., Riek, R., Ono, A., Kainosho, M., and Wuthrich, K., 2000, J. Biomol. NMR. 16: 39–46.CrossRefPubMedGoogle Scholar
  78. Pervushin, K., Ono, A., Fernandez, C., Szyperski, T., Kainosho, M., and Wuethrich, K., 1998, Proc. Natl. Acad. Sci U.S.A. 95: 14147–14151.CrossRefPubMedGoogle Scholar
  79. Pervushin, K., Riek, R., Wider, G. and Wüthrich, K., 1997, Proc. Natl. Acad Sci U.S.A. 94: 12366–12371.CrossRefPubMedGoogle Scholar
  80. Petrakis, L., and Sederholm, C., 1961, J. Chem. Phys. 35: 1243–1248.Google Scholar
  81. Piotto, M., Saudek, V., and Sklenar, V., 1992, J. Biomol. NMR 2: 661–665.CrossRefPubMedGoogle Scholar
  82. Rüdisser, S., and Tinoco, I., 2000, J. Mol. Biol. 295: 1211–1223.CrossRefPubMedGoogle Scholar
  83. Salzmann, M., Pervushin, K., Wider, G., Senn, H., and Wuthrich, K., 1998, Proc. Natl. Acad. Sci. USA. 95: 13585–90.CrossRefPubMedGoogle Scholar
  84. Scheurer, C., and Brüschweiler, R., 1999, J. Am. Chem. Soc. 121: 8661–8662.Google Scholar
  85. Shenderovich, I. G., Smirnov, S. N., Denisov, G. S., Gindin, V. A., Golubev, N. S., Dunger, A., Reibke, R., Kirpekar, S., Malkina, O. L., and Limbach, H.-H., 1998, Ber. Bunsenges. Phys. Chem. 102: 422–428.Google Scholar
  86. Shoup, R. R., Miles, H. T., and Becker, E. D., 1966, Biochem. Biophys. Res. Commun. 23: 194–201.CrossRefPubMedGoogle Scholar
  87. Takahashi, A., Kuroki, S., Ando, I., Ozaki, T., and Shoji, A., 1998, J. Mol. Struct. 442: 195–199.CrossRefGoogle Scholar
  88. Tessari, M., Vis, H., Boelens, R., Kaptein, R., and Vuister, G. W., 1997, J. Am. Chem. Soc. 119: 8985–8990.CrossRefGoogle Scholar
  89. Tjandra, N., and Bax, A., 1997, J. Am. Chem. Soc. 119: 8076–8082.Google Scholar
  90. Vuister, G., Tessari, M., Karimi-Nejad, Y., and Whitehead, B., (1998), Modern Techniques in Protein NMR. In Biological Magnetic Resonance (Krishna, N. R., and Berliner, L. J, eds.), Vol. 16, pp. 195–257. Kluwer Academic.Google Scholar
  91. Wagner, G., 1983, Q. Rev. Biophys. 16: 1–57.PubMedGoogle Scholar
  92. Wagner, G., Pardi, A. and Wuthrich, K., 1983, J. Am. Chem. Soc. 105: 5948–9.CrossRefGoogle Scholar
  93. Wang, Y. X., Jacob, J., Cordier, F., Wingfield, P., Stahl, S. J., Lee-Huang, S., Torchia, D., Grzesiek, S., and Bax, A., 1999, J. Biomol. NMR 14: 181–184.CrossRefPubMedGoogle Scholar
  94. Wishart, D. S., Sykes, B. D., and Richards, F. M., 1991, J. Mol. Biol. 222: 311–333.CrossRefPubMedGoogle Scholar
  95. Wohnert, J., Dingley, A. J., Stoldt, M., Görlach, M., Grzesiek, S., and Brown, L. R., 1999, Nucleic Acids Res. 27: 3104–10.CrossRefPubMedGoogle Scholar
  96. Yan, X., Kong, X., Xia, Y., Sze, K. and Zhu, G., 2000, J. Magn. Reson. 147: 357–360.CrossRefPubMedGoogle Scholar
  97. Zhou, N. E., Zhu, B.-Y., Sykes, B. D., and Hodges, R. S., 1992, J. Am. Chem. Soc. 114: 4320–4326.Google Scholar

Copyright information

© Kluwer Academic Publishers 2002

Authors and Affiliations

  • Stephan Grzesiek
    • 1
  • Florence Cordier
    • 1
  • Andrew J. Dingley
    • 2
    • 3
  1. 1.Department of Structural Biology, BiozentrumUniversity of BaselBaselSwitzerland
  2. 2.Institute of Physical BiologyHeinrich-Heine-UniversitätDüsseldorfGermany
  3. 3.Institute of Structural Biology, IBI-2Forschungszentrum JülichJülichGermany

Personalised recommendations