Protein dynamics and the immunological evolution of molecular recognition

Proceedings of the National Academy of Sciences of the United States of America

Volumn 101, Issue 11, 2004, Pages 3803-3808

  Jimenez, Ralph ^b   Salazar, Georgina ^a   Yin, Jun ^a   Joo, Taiha ^c   Romesberg, Floyd E ^a  

^a SCRIPPS RESEARCH INSTITUTE   (United States)

^b UNIVERSITY OF COLORADO   (United States)

^c Pohang University of Science and Technology (POSTECH)   (South Korea)

Author keywords

[No Author keywords available]

Indexed keywords

ANTIBODY; FLUORESCEIN;

AMPLITUDE MODULATION; ARTICLE; BINDING AFFINITY; CATALYSIS; DRUG PROTEIN BINDING; ENZYME SUBSTRATE COMPLEX; EVOLUTION; HUMAN; IMMUNE RESPONSE; IMMUNOLOGY; LIGAND BINDING; MOLECULAR DYNAMICS; MOLECULAR RECOGNITION; NONHUMAN; PRIORITY JOURNAL; PROTEIN BINDING; PROTEIN FOLDING; PROTEIN PROTEIN INTERACTION; SOMATIC MUTATION; SPECTROSCOPY; STEADY STATE;

5' UNTRANSLATED REGIONS; AMINO ACID SEQUENCE; EVOLUTION, MOLECULAR; IMMUNOGLOBULIN FAB FRAGMENTS; KINETICS; MOLECULAR SEQUENCE DATA; PROTEIN BINDING; SPECTRUM ANALYSIS; THERMODYNAMICS;

EID: 1642321774     PISSN: 00278424     EISSN: None     Source Type: Journal    
DOI: 10.1073/pnas.0305745101     Document Type: Article

References (48)

1. Foote, J. & Milstein, C. (1994) Proc. Natl. Acad. Sci. USA 91, 10370-10374.
2. Ma, B., Shatsky, M., Wolfson, H. J. & Nussinov, R. (2002) Protein Sci. 11, 184-197.
3. Bosshard, H. R. (2001) News Physiol. Sci. 16, 171-173.
4. Koshland, D. E. (1958) Proc. Natl. Acad. Sci. USA 44, 98-104.
5. Sunderberg, E. J. (2003) Adv. Protein Chem. 61, 119-160.
6. Berzofsky, J. A. (1985) Science 229, 932-940.
7. Pauling, L. (1946) Chem. Eng. News 24, 1375-1377.
8. Hagen, S. J., Hofrichter, J. & Eaton, W. A. (1997) J. Phys. Chem. B 101, 2352-2365.
9. Guigou, V., Guilbert, B., Moinier, D., Tonnelle, C., Boubli, L., Avrameas, S., Fougereau, M. & Fumoux, F. (1991) J. Immunol. 146, 1368-1374.
10. Garcia, K. C., Degano, M., Pease, L. R., Huang, M., Peterson, P. A., Teyton, L. & Wilson, I. A. (1998) Science 279, 1166-1172.
11. Boniface, J. J., Reich, Z., Lyons, D. S. & Davis, M. M. (1999) Proc. Natl. Acad. Sci. USA 96, 11446-11451.
12. Wilcox, B. E., Gao, G. F., Wyer, J. R., Ladbury, J. E., Bell, J. I., Jakobsen, B. K. & van der Merwe, P. A. (1999) Immunity 10, 357-365.
13. Mason, D. (1998) Immunol. Today 19, 395-404.
14. Ysern, X., Li, H. & Mariuzza, R. A. (1998) Nat. Struct. Biol. 5, 412-414.
15. Hare, B. J., Wyss, D. F., Osburne, M. S., Kern, P. S., Reinherz, E. L. & Wagner, G. (1999) Nat. Struct. Biol. 6, 574-581.
16. Holler, P. D., Chlewicki, L. K. & Kranz, D. M. (2003) Nature Immunol. 4, 55-62.
17. Steele, E. J. (1990) Somatic Hypermutation in V-Regions (CRC, Boca Raton, FL).
18. Comtesse, N., Heckel, D., Maldener, E., Glass, B. & Meese, E. (2000) Clin. Exp. Immunol. 121, 430-436.
19. Souroujon, M., White-Scharf, M. E., Andre-Schwartz, J., Gefter, M. L. & Schwartz, R. S. (1988) J. Immunol. 140, 4173-4179.
20. James, L. C., Roversi, P. & Tawfik, D. S. (2003) Science 299, 1362-1367.
21. Patten, P. A., Gray, N. S., Yang, P. L., Marks, C. B., Wedemayer, G. J., Boniface, J. J., Stevens, R. C. & Schultz, P. G. (1996) Science 271, 1086-1091.
22. Wedemayer, G. J., Patten, P. A., Wang, L. H., Schultz, P. G. & Stevens, R. C. (1997) Science 276, 1665-1669.
23. Joyce, G. F. (1997) Science 276, 1658-1659.
24. Hodgkin, P. D. (1998) Immunologist 6, 223-226.
25. Jegerlehner, A., Storni, T., Lipowsky, G., Schmid, M., Pumpens, P. & Bachmann, M. F. (2002) Eur. J. Immunol. 32, 3305-3314.
26. Baumgarth, N. (2000) Immunol. Rev. 176, 171-180.
27. Rini, J. M., Schulze-Gahmen, U. & Wilson, I. A. (1992) Science 255, 959-965.
28. Nezlin, R. (1998) The Immunoglobulins: Structure and Function (Academic, New York).
29. Manivel, V., Sahoo, N. C., Salunke, D. M. & Rao, K. V. S. (2000) Immunity 13, 611-620.
30. Sagawa, T., Oda, M., Ishimura, M., Furukawa, K. & Azuma, T. (2003) Mol. Immunol. 39, 801-808.
31. Jimenez, R., Case, D. A. & Romesberg, F. E. (2002) J. Phys. Chem. B 106, 1090-1103.
32. Jimenez, R., Salazar, G., Baldridge, K. K. & Romesberg, F. E. (2003) Proc. Natl. Acad. Sci. USA 100, 92-97.
33. Mukamel, S. (1995) Principles of Nonlinear Optical Spectroscopy (Oxford Univ. Press, New York).
34. Fleming, G. R. & Cho, M. (1996) Annu. Rev. Phys. Chem. 47, 109-134.
35. de Boeij, W. P., Pshenichnikov, M. S. & Wiersma, D. A. (1996) J. Phys. Chem. 100, 11806-11823.
36. Ulrich, H. D., Patten, P. A., Yang, P. L., Romesberg, F. E. & Schultz, P. G. (1995) Proc. Natl. Acad. Sci USA 92, 11907-11911.
37. Yin, J., Mundorff, E. C., Yang, P. L., Wendt, K. U., Hanway, D., Stevens, R. C. & Schultz, P. G. (2001) Biochemistry 40, 10764-10773.
38. Kranz, D. M., Herron, J. N. & Voss, E. W. (1982) J. Biol. Chem. 257, 6987-6995.
39. Reimers, J. R. (2001) J. Chem. Phys. 115, 9103-9109.
40. Klonis, N., Clayton, A. H. A., Voss, E. W., Jr., & Sawyer, W. H. (1998) Photochem. Photobiol. 67, 500-510.
41. Reichardt, C. (1990) Solvents and Solvent Effects in Organic Chemistry (VCH, Weinheim, Germany).
42. Foote, J. & Milstein, C. (1991) Nature 352, 530-532.
43. Liu, J., Liu, L. & Jemmerson, R. (2000) Mol. Immunol. 37, 95-105.
44. Whitlow, M., Howard, A. J., Wood, J. F., Voss, E. W., Jr., & Hardman, K. D. (1995) Protein Eng. 8, 749-761.
45. Kuhn, L. A. & Thorpe, M. F. (2001) in Protein Flexibility and Folding, ed. Kuhn, L. A. (Elsevier, New York).
46. Welch, G. R. (1986) The Fluctuating Enzyme (Wiley, New York).
47. Davis, A. M. & Teague, S. J. (1999) Angew. Chem. Int. Ed. 38, 736-749.
48. Carlson, H. A. (2002) Curr. Opin. Chem. Biol. 6, 447-452.