Selective protein-protein interactions driven by a phenylalanine interface

Journal of the American Chemical Society

Volumn 128, Issue 1, 2006, Pages 188-191

  Yoder, Nicholas C ^a   Kumar, Krishna ^a,b  

^a TUFTS UNIVERSITY   (United States)

^b TUFTS MEDICAL CENTER   (United States)

Author keywords

[No Author keywords available]

Indexed keywords

AMINO ACIDS; CYTOLOGY; INTERFACES (MATERIALS); MONOMERS; NITROGEN COMPOUNDS; SELF ASSEMBLY;

CELLULAR SIGNALING; COILED-COIL SEQUENCES; PHENYLALANINE INTERFACE; PROTEIN-PROTEIN INTERFACES;

PROTEINS;

AMINO ACID DERIVATIVE; MONOMER; PHENYLALANINE; PROTEIN;

ARTICLE; MATHEMATICAL ANALYSIS; MOLECULAR STABILITY; PEPTIDE SYNTHESIS; PROTEIN ASSEMBLY; PROTEIN PROTEIN INTERACTION; SEQUENCE ANALYSIS; SIGNAL TRANSDUCTION;

AMINO ACID SEQUENCE; CIRCULAR DICHROISM; MOLECULAR SEQUENCE DATA; PEPTIDES; PHENYLALANINE; PROTEIN CONFORMATION; SUBSTRATE SPECIFICITY; THERMODYNAMICS;

EID: 30744448188     PISSN: 00027863     EISSN: None     Source Type: Journal    
DOI: 10.1021/ja055494k     Document Type: Article

References (56)

1. (a) Gavin, A. C.; et al. Nature 2002, 415, 141-147.
2. (b) Drewes, G.; Bouwmeester, T. Curr. Opin. Cell Biol. 2003, 15, 199-205.
3. (c) Noirot, P.; Noirot-Gros, M. F. Curr. Opin. Microbiol. 2004, 7, 505-512.
4. (a) Arkin, M. R.; Wells, J. A. Nat. Rev. Drug Discovery 2004, 3, 301-317.
5. (b) Cochran, A. G. Chem. Biol. 2000, 7, R85-R94.
6. Newman, J. R. S.; Keating, A. E. Science 2003, 300, 2097-2101.
7. (a) Mason, J. M.; Arndt, K. M. ChemBioChem 2004, 5, 170-176.
8. (b) Oakley, M. G.; Hollenbeck, J. J. Curr. Opin. Struct. Biol. 2001, 11, 450-457.
9. (c) Lupas, A. Trends Biochem. Sci. 1996, 21, 375-382.
10. For examples, see: (a) Saghatelian, A.; Yokobayashi, Y.; Soltani, K.; Ghadiri, M. R. Nature 2001, 409, 797-801.
11. (b) Doerr, A. J.; McLendon, G. L. Inorg. Chem. 2004, 43, 7916-7925.
12. (c) De Crescenzo, G.; Pham, P. L.; Durocher, Y.; Chao, H.; O'Connor-McCourt, M. D. J. Biol. Chem. 2004, 279, 26013-26018.
13. Petka, W. A.; Harden, J. L.; McGrath, K. P.; Wirtz, D.; Tirrell, D. A. Science 1998, 281, 389-392.
14. (a) Ashkenasy, G.; Jagasia, R.; Yadav, M.; Ghadiri, M. R. Proc. Natl. Acad. Sci. U.S.A. 2004, 101, 10872-10877.
15. (b) Ashkenasy, G.; Ghadiri, M. R. J. Am. Chem. Soc. 2004, 126, 11140-11141.
16. (a) Ryadnov, M. G.; Woolfson, D. N. Nat. Mater. 2003, 2, 329-332.
17. (b) Stevens, M. M.; Flynn, N. T.; Wang, C.; Tirrell, D. A.; Langer, R. Adv. Mater. 2004, 16, 915-918.
18. Ideker, T.; Thorsson, V.; Ranish, J. A.; Christmas, R.; Buhler, J.; Eng, J. K.; Bumgarner, R.; Goodlett, D. R.; Aebersold, R.; Hood, L. Science 2001, 292, 929-934.
19. Dueber, J. E.; Yeh, B. J.; Chak, K.; Lim, W. A. Science 2003, 301, 1904-1908.
20. Neidigh, J. W.; Fesinmeyer, R. M.; Andersen, N. H. Nat. Struct. Biol. 2002, 9, 425-430.
21. Zhao, X.; Ghaffari, S.; Lodish, H.; Malashkevich, V. N.; Kim, P. S. Nat. Struct. Biol. 2002, 9, 117-120.
22. (a) Wagschal, K.; Tripet, B.; Lavigne, P.; Mant, C.; Hodges, R. S. Protein Sci. 1999, 8, 2312-2329.
23. (b) Tripet, B.; Wagschal, K.; Lavigne, P.; Mant, C. T.; Hodges, R. S. J. Mol. Biol. 2000, 300, 377-402.
24. Liu, J.; Yong, W.; Deng, Y. Q.; Kallenbach, N. R.; Lu, M. Proc. Natl. Acad. Sci. U.S.A. 2004, 101, 16156-16161.
25. Crick, F. H. C. Acta Crystallogr. 1953, 6, 689-697.
26. (a) Rowan, S. J.; Hamilton, D. G.; Brady, P. A.; Sanders, J. K. M. J. Am. Chem. Soc. 1997, 119, 2578-2579.
27. (b) Sanders, J. K. M. Philos. Trans. R. Soc. London, Ser. A 2004, 362, 1239-1245.
28. O'Shea, E. K.; Rutkowski, R.; Kim, P. S. Cell 1992, 68, 699-708.
29. O'Shea, E. K.; Lumb, K. J.; Kim, P. S. Curr. Biol. 1993, 3, 658-667.
30. (a) Schnarr, N. A.; Kennan, A. J. J. Am. Chem. Soc. 2002, 124, 9779-9783.
31. (b) Kiyokawa, T.; Kanaori, K.; Tajima, K.; Kawaguchi, M.; Mizuno, T.; Oku, J. I.; Tanaka, T. Chem.-Eur. J. 2004, 10, 3548-3554.
32. (a) Bilgiçer, B.; Xing, X.; Kumar, K. J. Am. Chem. Soc. 2001, 123, 11815-11816.
33. (b) Bilgiçer, B.; Kumar, K. Tetrahedron 2002, 58, 4105-4112.
34. Schnolzer, M.; Alewood, P.; Jones, A.; Alewood, D.; Kent, S. B. H. Int. J. Pept. Protein Res. 1992, 40, 180-193.
35. Gill, S. C.; Von Hippel, P. H. Anal. Biochem. 1989, 182, 319-326.
36. O'Shea, E. K.; Rutkowski, R.; Stafford, W. F.; Kim, P. S. Science 1989, 245, 646-648.
37. Gray, W. R. Protein Sci. 1993, 2, 1732-1748.
38. Lumb, K. J.; Kim, P. S. Biochemistry 1995, 34, 8642-8648.
39. Monera, O. D.; Kay, C. M.; Hodges, R. S. Biochemistry 1994, 33, 3862-3871.
40. O'Shea, E. K.; Klemm, J. D.; Kim, P. S.; Alber, T. Science 1991, 254, 539-544.
41. Keating, A. E.; Malashkevich, V. N.; Tidor, B.; Kim, P. S. Proc. Natl. Acad. Sci. U.S.A. 2001, 98, 14825-14830.
42. Wolf, E.; Kim, P. S.; Berger, B. Protein Sci. 1997, 6, 1179-1189. MultiCoil can be found on the World Wide Web at http://multicoil.les.mit.edu/ cgi-bin/multicoil.
43. Jelesarov, I.; Durr, E.; Thomas, R. M.; Bosshard, H. R. Biochemistry 1998, 37, 7539-7550.
44. Akey, D. L.; Malashkevich, V. N.; Kim, P. S. Biochemistry 2001, 40, 6352-6360.
45. (a) Baldwin, E.; Xu, J.; Hajiseyedjavadi, O.; Baase, W. A.; Matthews, B. W. J. Mol. Biol. 1996, 259, 542-559.
46. (b) Richards, F. M. Cell. Mol. Life Sci. 1997, 53, 790-802.
47. Cristian, L.; Lear, J. D.; Degrado, W. F. Protein Sci. 2003, 12, 1732-1740.
48. (a) Wendt, H.; Berger, C.; Baici, A.; Thomas, R. M.; Bosshard, H. R. Biochemistry 1995, 34, 4097-4107.
49. (b) Wendt, H.; Leder, L.; Harma, H.; Jelesarov, I.; Baici, A.; Bosshard, H. R. Biochemistry 1997, 36, 204-213.
50. Details of the thermodynamic cycle used to estimate the free energy of specificity are included in the Supporting Information.
51. (a) Bilgiçer, B.; Fichera, A.; Kumar, K. J. Am. Chem. Soc. 2001, 123, 4393-4399.
52. (b) Yoder, N. C.; Kumar, K. Chem. Soc. Rev. 2002, 31, 335-341.
53. (c) Bilgiçer, B.; Kumar, K. J. Chem. Educ. 2003, 80, 1275-1281.
54. (d) Bilgiçer, B.; Kumar, K. Proc. Natl. Acad. Sci. U.S.A. 2004, 101, 15324-15329.
55. (a) Tang, Y.; Ghirlanda, G.; Petka, W. A.; Nakajima, T.; DeGrado, W. F.; Tirrell, D. A. Angew. Chem., Int. Ed. 2001, 40, 1494-1496.
56. (b) Tang, Y.; Ghirlanda, G.; Vaidehi, N.; Kua, J.; Mainz, D. T.; Goddard, W. A.; DeGrado, W. F.; Tirrell, D. A. Biochemistry 2001, 40, 2790-2796.