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Measurement of the -sheet-forming propensities of amino acids Daniel L. Minor Jr* & Peter S. Kim†
Howard Hughes Medical Institute, Whitehead Institute for Biomedical Research, Departments of *Chemistry and †Biology, Massachusetts Institute of Technology, Nine Cambridge Centre, Cambridge, Massachusetts 02142, USA
SEVERAL model systems have been used to evaluate the -helical propensities of different amino acids1–7. In contrast, experimental quantitation of -sheet preferences has been addressed in only one model system, a zinc-finger peptide8. Here we measure the relative propensity for -sheet formation of the twenty naturally occurring amino acids in a variant of the small, monomeric, -sheet-rich, IgG-binding domain from protein G. Amino-acid substitutions were made at a guest site on the solvent-exposed surface of the -sheet. Several criteria were used to establish that the mutations did not cause significant structural changes: binding to the Fc domain of IgG, calorimetric unfolding and NMR spectroscopy. Characterization of the thermal stabilities of these proteins leads to a thermodynamic scale for -sheet propensities that spans a range of 2 kcal mol-1 for the naturally occurring amino acids, excluding proline. The magnitude of the differences suggests that -sheet preferences can be important determinants of protein stability.
References
| 1. |
Scheraga, H. A. Pure appl. Chem. 50, 315−324 (1978) | ISI | ChemPort | |
| 2. |
Padmanabhan, S., Marqusee, S., Ridgeway, T., Laue, T. M. & Baldwin, R. L. Nature 344, 268−270 (1990). | Article | PubMed | ISI | ChemPort | |
| 3. |
O'Neil, K. T. & DeGrado, W. F. Science 250, 646−651 (1990). | PubMed | ISI | ChemPort | |
| 4. |
Lyu, P. C., Liff, M. I., Marky, L. A. & Kallenbach, N. R. Science 250, 669−673 (1990). | PubMed | ISI | ChemPort | |
| 5. |
Horovitz, A., Matthews, J. M. & Fersht, A. R. J. molec. Biol. 227, 560−568 (1992). | Article | PubMed | ISI | ChemPort | |
| 6. |
Blaber, M., Zhang, X. & Matthews, B. W. Science 260, 1637−1640 (1993). | PubMed | ISI | ChemPort | |
| 7. |
Wojcik, J., Altman, K. H. & Scheraga, H. A. Biopolymers 30, 121−134 (1990). | ISI | ChemPort | |
| 8. |
Kim, C. A. & Berg, J. M. Nature 362, 267−270 (1993). | Article | PubMed | ISI | ChemPort | |
| 9. |
Alexander, P., Fahnestock, S., Lee, T., Orban, J. & Bryan, P. Biochemistry 31, 3597−3603 (1992). | Article | PubMed | ISI | ChemPort | |
| 10. |
Gronenborn, A. M. et al. Science 253, 657−661 (1991). | PubMed | ISI | ChemPort | |
| 11. |
Chou, P. Y. & Fasman, G. D. Biochemistry 13, 211−222 (1973). |
| 12. |
Livingstone, J. R., Spolar, R. S. & Record, M. T. Jr Biochemistry 30, 4237−4244 (1991). | Article | PubMed | ISI | ChemPort | |
| 13. |
Chakrabartty, A., Kortemme, T. S., Padmanabhan, S. & Baldwin, R. L. Biochemistry 32, 5560−5565 (1993). | Article | PubMed | ISI | ChemPort | |
| 14. |
Vuilleumier, S., Sancho, J., Loewenthal, R. & Fersht, A. R. Biochemistry 32, 10303−10313 (1993). | Article | PubMed | ChemPort | |
| 15. |
Fahnestock, S. R., Alexander, P., Filpula, D. & Nagle, J. in Bacterial Immunoglobin-Binding Proteins (ed. Boyle, M. D. P.) (Academic, San Diego, 1990). |
| 16. |
Harlow, E. & Lane, D. Antibodies: A Laboratory Manual (Cold Spring Harbor Laboratory Press, New York, 1988). |
| 17. |
Priestle, J. P. J. appl. Crystallogr. 21, 572−576 (1988). | Article | ISI | |
| 18. |
Oas, T. G. & Kim, P. S. Nature 336, 42−48 (1988). | Article | PubMed | ISI | ChemPort | |
| 19. |
Fahnestock, S. R., Alexander, P., Nagle, J. & Filpula, D. J. Bact. 167, 870−880 (1986). | PubMed | ISI | ChemPort | |
| 20. |
Studier, F. W. & Moffat, B. A. J. molec. Biol. 189, 113−130 (1986). | Article | PubMed | ISI | ChemPort | |
| 21. |
Doering, D. S. Functional and Structural Studies of a Small f-Actin Binding Domain (Massachusetts Institute of Technology Press, Cambridge, 1992). |
| 22. |
Sambrook, J., Fritsch, E. F. & Maniatis, T. Molecular Cloning: A Laboratory Manual (Cold Spring Harbor Laboratory Press, New York, 1989). |
| 23. |
Kunkel, T. A., Roberts, J. D. & Zakour, R. A. Meth. Enzym. 154, 367−382 (1987). | Article | PubMed | ISI | ChemPort | |
| 24. |
Becktel, W. J. & Schellman, J. A. Biopolymers 26, 1859−1877 (1987). | Article | PubMed | ISI | ChemPort | |
| 25. |
Edelhoch, H. Biochemistry 6, 1948−1954 (1967). | Article | PubMed | ISI | ChemPort | |
| 26. |
Bodenhausen, G. & Ruben, D. J. Chem. Phys. Lett. 69, 185−189 (1980). | Article | ISI | ChemPort | |
| 27. |
DeMarco, A. J. magn. Reson. 26, 527−528 (1977). | ChemPort | |
| 28. |
Wüthrich, K. NMR of Proteins and Nucleic Acids (Wiley, New York, 1986). |
| 29. |
Mclntosh, L. P., Wand, A. J., Lowry, D. F., Redfield, A. G. & Dahlquist, F. W. Biochemistry 29, 6341−6362 (1990). | Article | PubMed | ISI | ChemPort | |
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