Amino acid selective cross-saturation method for identification of proximal residue pairs in a protein-protein complex

Journal of the American Chemical Society

Volumn 130, Issue 36, 2008, Pages 12168-12176

  Igarashi, Shunsuke ^a   Osawa, Masanori ^a   Takeuchi, Koh ^a   Ozawa, Shin Ichiro ^a   Shimada, Ichio ^a,b  

^a UNIVERSITY OF TOKYO   (Japan)

^b NATIONAL INSTITUTE OF ADVANCED INDUSTRIAL SCIENCE AND TECHNOLOGY AIST   (Japan)

Author keywords

[No Author keywords available]

Indexed keywords

AMINO ACIDS; NUCLEAR MAGNETIC RESONANCE; ORGANIC ACIDS;

CROSS-SATURATION; PROTEIN-PROTEIN COMPLEXES;

AMINES;

ALANINE; AMINO ACID; ARGININE; HISTIDINE; HYDROLASE; ISOLEUCINE; LEUCINE; LYSINE; METHIONINE; PHENYLALANINE; PROLINE; PROTEIN DERIVATIVE; PROTON; TRYPTOPHAN; TYROSINE; UBIQUITIN;

ANALYTIC METHOD; ARTICLE; CHEMICAL LABELING; COMPLEX FORMATION; NUCLEAR MAGNETIC RESONANCE; PROTEIN ANALYSIS; PROTEIN EXPRESSION; PROTEIN PURIFICATION; PROTEIN STRUCTURE;

AMINO ACIDS; ENDOPEPTIDASES; MODELS, MOLECULAR; NUCLEAR MAGNETIC RESONANCE, BIOMOLECULAR; PROTONS; UBIQUITIN;

EID: 51749103084     PISSN: 00027863     EISSN: None     Source Type: Journal    
DOI: 10.1021/ja804062t     Document Type: Article

References (42)

1. Berman, H.; Henrick, K.; Nakamura, H. Nat. Struct. Biol. 2003, 10, 980.
2. Shimada, I. Methods Enzymol. 2005, 394, 483-506.
3. Takahashi, H.; Nakanishi, T.; Kami, K.; Arata, Y.; Shimada, I. Nat. Struct. Biol. 2000, 7, 220-3.
4. Waugh, D. S. J. Biomol. NMR 1996, 8, 184-92.
5. Lian, L. Y.; Middleton, D. A. Prog. Nucl. Magn. Reson. Spectrosc. 2001, 39, 171-190.
6. Matthews, H. R.; Matthews, K. S.; Opella, S. J. Biochim. Biophys. Acta 1977, 497, 1-13.
7. LeMaster, D. M. FEBS Lett. 1987, 223, 191-6.
8. Arrowsmith, C. H.; Pachter, R.; Altman, R. B.; Iyer, S. B.; Jardetzky, O. Biochemistry 1990, 29, 6332-41.
9. Wishart, D. S.; Sykes, B. D.; Richards, F. M. Biochim. Biophys. Acta 1993, 1164, 36-46.
10. Curley, R. W., Jr.; Panigot, M. J.; Hansen, A. P.; Fesik, S. W. J. Biomol. NMR 1994, 4, 335-40.
11. Tugarinov, V.; Kanelis, V.; Kay, L. E. Nat. Protoc. 2006, 1, 749-54.
12. Rajesh, S.; Nietlispach, D.; Nakayama, H.; Takio, K.; Laue, E. D.; Shibata, T.; Ito, Y. J. Biomol. NMR 2003, 27, 81-6.
13. Johnston, S. C.; Riddle, S. M.; Cohen, R. E.; Hill, C. P. EMBO J. 1999, 18, 3877-87.
14. Sakamoto, T.; Tanaka, T.; Ito, Y.; Rajesh, S.; Iwamoto-Sugai, M.; Kodera, Y.; Tsuchida, N.; Shibata, T.; Kohno, T. Biochemistry 1999, 38, 11634-42.
15. Dyson, H. J.; Holmgren, A.; Wright, P. E. Biochemistry 1989, 28, 7074-87.
16. Chandrasekhar, K.; Krause, G.; Holmgren, A.; Dyson, H. J. FEBS Lett. 1991, 284, 178-83.
17. Chandrasekhar, K.; Campbell, A. P.; Jeng, M. F.; Holmgren, A.; Dyson, H. J. J. Biomol. NMR 1994, 4, 411-32.
18. Takeuchi, K.; Ng, E.; Malia, T. J.; Wagner, G. J. Biomol. NMR 2007, 38, 89-98.
19. Koradi, R.; Billeter, M.; Wuthrich, K. J. Mol. Graphics 1996, 14, 29- 32.
20. LeMaster, D. M.; Richards, F. M. Biochemistry 1988, 27, 142-50.
21. Ozawa, K.; Headlam, M. J.; Schaeffer, P. M.; Henderson, B. R.; Dixon, N. E.; Otting, G. Eur. J. Biochem. 2004, 271, 4084-93.
22. Kigawa, T.; Muto, Y.; Yokoyama, S. J. Biomol. NMR 1995, 6, 129-34.
23. Yabuki, T.; Kigawa, T.; Dohmae, N.; Takio, K.; Terada, T.; Ito, Y.; Laue, E. D.; Cooper, J. A.; Kainosho, M.; Yokoyama, S. J. Biomol. NMR 1998, 11, 295-306.
24. Klammt, C.; Lohr, F.; Schafer, B.; Haase, W.; Dotsch, V.; Ruterjans, H.; Glaubitz, C.; Bernhard, F. Eur. J. Biochem. 2004, 271, 568-80.
25. Morita, E. H.; Shimizu, M.; Ogasawara, T.; Endo, Y.; Tanaka, R.; Kohno, T. J. Biomol. NMR 2004, 30, 37-45.
26. Shi, J.; Pelton, J. G.; Cho, H. S.; Wemmer, D. E. J. Biomol. NMR 2004, 28, 235-47.
27. Staunton, D.; Schlinkert, R.; Zanetti, G.; Colebrook, S. A.; Campbell, I. D. Magn. Reson. Chem. 2006, 44, S2-9.
28. Lohr, F.; Katsemi, V.; Hartleib, J.; Gunther, U.; Ruterjans, H. J. Biomol. NMR 2003, 25, 291-311.
29. Hajduk, P. J.; Mack, J. C.; Olejniczak, E. T.; Park, C.; Dandliker, P. J.; Beutel, B. A. J. Am. Chem. Soc. 2004, 126, 2390-8.
30. Mayer, M.; Meyer, B. Angew. Chem., Int. Ed. 1999, 38, 1784-8.
31. Gray, J. J. Curr. Opin. Struct. Biol. 2006, 16, 183-93.
32. Bonvin, A. M. Curr. Opin. Struct. Biol. 2006, 16, 194-200.
33. Zuiderweg, E. R. Biochemistry 2002, 41, 1-7.
34. Tang, C.; Clore, G. M. J. Biomol. NMR 2006, 36, 37-44.
35. Reese, M. L.; Dotsch, V. J. Am. Chem. Soc. 2003, 125, 14250-1.
36. Nakanishi, T.; Miyazawa, M.; Sakakura, M.; Terasawa, H.; Takahashi, H.; Shimada, I. J. Mol. Biol. 2002, 318, 245-9.
37. Takeuchi, K.; Yokogawa, M.; Matsuda, T.; Sugai, M.; Kawano, S.; Kohno, T.; Nakamura, H.; Takahashi, H.; Shimada, I. Structure 2003, 11, 1381-92.
38. Nishida, N.; Sumikawa, H.; Sakakura, M.; Shimba, N.; Takahashi, H.; Terasawa, H.; Suzuki, E. I.; Shimada, I. Nat. Struct. Biol. 2003, 10, 53-58.
39. Takeuchi, K.; Takahashi, H.; Sugai, M.; Iwai, H.; Kohno, T.; Sekimizu, K.; Natori, S.; Shimada, I. J. Biol. Chem. 2004, 279, 4981-7.
40. Yokogawa, M.; Takeuchi, K.; Shimada, I. J. Am. Chem. Soc. 2005, 127, 12021-7.
41. Ichikawa, O.; Osawa, M.; Nishida, N.; Goshima, N.; Nomura, N.; Shimada, I. EMBO J. 2007, 26, 4168-76.
42. Chen, H.; Zhou, H. X. Proteins 2005, 61, 21-35.