One-dimensional relaxation- and diffusion-edited NMR methods for screening compounds that bind to macromolecules

Journal of the American Chemical Society

Volumn 119, Issue 50, 1997, Pages 12257-12261

  Hajduk, Philip J ^a   Olejniczak, Edward T ^a   Fesik, Stephen W ^a  

^a ABBOTT LABORATORIES   (United States)

Author keywords

[No Author keywords available]

Indexed keywords

ANALYTIC METHOD; ARTICLE; MACROMOLECULE; MOLECULAR INTERACTION; NUCLEAR MAGNETIC RESONANCE; SCREENING;

EID: 0031576702     PISSN: 00027863     EISSN: None     Source Type: Journal    
DOI: 10.1021/ja9715962     Document Type: Article

References (35)

1. Otting, G. Curr. Opin. Struct. Biol. 1993, 3, 760-768.
2. (a) Görlach, M.; Wittekind, M.; Beckman, R. A.; Mueller, L.; Dreyfuss, G. EMBO J. 1992, 11, 3289-3295.
3. (b) Ramesh, V.; Frederick, R. O.; Syed, S. E. H.; Gibson, C. F.; Yang, J.-C.; Roberts, G. C. K. Eur. J. Biochem. 1994, 225, 601-608.
4. (a) Hensman, M.; Booker, G. W.; Panayotou, G.; Boyd, J.; Linacre, J.; Waterfield, M.; Campbell, I. Protein Sci. 1994, 3, 1020-1030.
5. (b) Emerson, S. D.; Madison, V. S.; Palermo, R. E.; Waugh, D. S.; Scheffler, J. E.; Tsao, K.-L., Kiefer, S. E.; Liu, S. P.; Fry, D. C. Biochemistry 1995, 34, 6911-6918.
6. (c) Swanson, R. V.; Lowry, D. F.; Matsumura, P.; McEvoy, M. M.; Simon, M. I.; Dahlquist, F. W. Nature Struct. Biol. 1995, 2, 906-910.
7. (a) Kallen, J.; Spitzfaden, C.; Zurini, M. G. M.; Wider, G.; Widmer, H.; Wüthrich, K.; Walkinshaw, M. D. Nature 1991, 353, 276-279.
8. (b) Zheng, J.; Cahill, S. M.; Lemmon, M. A.; Fushman, D.; Schlessinger, J.; Cowburn, D. J. Mol. Biol. 1996, 255, 14-21.
9. Shuker, S. B.; Hajduk, P. J.; Meadows, R. P.; Fesik, S. W. Science 1996, 274, 1531-1534.
10. Hajduk, P. J.; Sheppard, D. G.; Nettesheim, D. G., Olejniczak, E. T.; Shuker, S. B.; Meadows, R. P.; Steinman, D. H.; Carrera, G. M., Jr.; Marcotte, P. M.; Severin, J.; Walter, K.; Smith, H.; Gubbins, E.; Simmer, R.; Holzman, T. F.; Morgan, D. W.; Davidsen, S. K.; Summers, J. B.; Fesik, S. W. J. Am. Chem. Soc. 1997, 119, 5818-5827.
11. (a) Gibbs, S. J.; Johnson, C. S. J. Magn. Reson. 1991, 93, 395-402.
12. (b) Altieri, A. S.; Hinton, D. P.; Byrd, R. A. J. Am. Chem. Soc. 1995, 117, 7566-7567.
13. (a) Wemmer, D.; Williams, P. G. Meth. Enzymol. 1994, 239, 739-767.
14. (b) London, R. E. J. Magn. Reson. Ser. A 1993, 104, 190-196.
15. (c) Fejzo, J.; Lepre, C. A.; Peng, J. W.; Su, M. S.-S.; Thomson, J. A.; Moore, J. M. Protein Sci. 1996, 5, 1917-1921.
16. (d) Bertini, I.; Luchinat, C.; Pierattelli, R.; Vila, A. J. Eur. J. Biochem. 1992, 208, 607-615.
17. (e) Bertini, I.; Luchinat, C.; Pierattelli, R.; Vila, A. lnorg. Chem. 1992, 31, 3975-3979.
18. (f) Chen, A.; Wu, D.; Johnson, C. S., Jr. J. Phys. Chem. 1995, 99, 828-834.
19. (g) Lennon, A. J.; Scott, N. R.; Chapman, B. E.; Kuchel, P. W. Biophys. J. 1994, 67, 2096-2109.
20. (h) Liu, M.; Nicholson, J. K.; Lindon, J. C. Anal. Chem. 1996, 68, 3370-3376.
21. Rabenstein, D. L.; Nakashima, T.; Bigam, G. J. Magn. Reson. 1979, 34, 669-674.
22. (a) Larive, C. K.; Rabenstein, D. L. Magn. Reson. Chem. 1991, 29, 409-417.
23. (b) Rabenstein, D. L.; Isab, A. A. J. Magn. Reson. 1979, 36, 281-286.
24. Ponstingl, H.; Otting, G. J. Bio. NMR 1997, 9, 441-444.
25. Lin, M.; Shapiro, M. J.; Wareing, J. R. J. Am. Chem. Soc. 1997, 119, 5249-5250.
26. Liu, J.; Farmer, J. D., Jr.; Lane, S.; Friedman, J.; Weismann, I.; Schreiber, S. L. Cell 1991, 66, 807.
27. Meiboom, S.; Gill, D. Rev. Sci. Instrum. 1958, 29, 688.
28. Although the overall signal intensity of FKBP was reduced by greater than 99% in the relaxation-edited spectrum, a few residual peaks remained. Thus, a relaxation-edited spectrum of FKBP alone was subtracted from the relaxation-edited spectrum of the compounds in the presence of the protein.
29. Narrow Lorenztian line shapes (as expected for low molecular weight compounds) can often give rise to dispersion signals in difference spectra. For the compounds tested against FKBP, Gaussian apodization of the free induction decay essentially eliminated the dispersion signals in the difference spectra, resulting in clearly identifiable resonances for the active compound. However, as a result of the line broadening caused by the apodization, the spin-spin splittings for these compounds were not observed.
30. The spin-lock times and gradient strengths used in the examples presented here resulted in complete elimination of the bound ligand signals. Hence, only positive peaks appear in the final difference spectra at the chemical shifts of the uncomplexed ligand (Figures 2C and 4C). Incomplete reduction of the bound ligand signals will give rise to negative peaks in the difference spectrum at the chemical shifts of the ligand in the presence of the protein.
31. Beckett, R. P.; Davidson, A. H.; Drummond, A. H.; Huxley, P.; Whittaker, M. Drug Discovery Today 1996, 1, 16-26.
32. Acetohydroxamic acid and 2 bind to stromelysin in a cooperative fashion, with the hydroxamate chelating the catalytic zinc and 2 occupying the S1′ subsite (see ref 6). This illustrates the fact that these relaxation-and diffusion-edited methods can be used to detect ligand binding to macromolecules even in the presence of ligands which bind to other sites.
33. The low concentrations of protein used in the one-dimensional experiments significantly reduce potential chemical shift changes of the compounds which may occur in the presence of protein. This is important to minimize subtraction artifacts in the difference spectra.
34. 2O was the most robust approach for removal of the water signal.
35. Meadows, R. P.; Nettesheim, D. G.; Xu, R. X.; Olejniczak, E. T.; Petros, A. M.; Holzman, T. F.; Severin, J.; Gubbins, E.; Smith, H.; Fesik, S. W. Biochemistry 1993, 32, 754-765.