Mass spectrometry- and lysine amidination-based protocol for thermodynamic analysis of protein folding and ligand binding interactions

Analytical Chemistry

Volumn 83, Issue 9, 2011, Pages 3555-3562

  Xu, Ying ^a   Falk, Irene N ^a   Hallen, Mark A ^a   Fitzgerald, Michael C ^a  

^a DUKE UNIVERSITY   (United States)

Author keywords

[No Author keywords available]

Indexed keywords

AMIDINATION; AMINE GROUPS; CHEMICAL DENATURANTS; COVALENT LABELING; CYTOCHROME C; DISSOCIATION CONSTANT; LIGAND BINDING; MALDI-TOF; PROTEIN MIXTURES; PROTEIN SAMPLES; PROTEIN-LIGAND COMPLEXES; PURIFIED PROTEIN; SHOTGUN PROTEOMICS; THERMO DYNAMIC ANALYSIS; THERMODYNAMIC MEASUREMENTS; UBIQUITIN; YEAST CELL;

AMINO ACIDS; BINDING ENERGY; CHEMICAL MODIFICATION; CHEMICAL STABILITY; DISSOCIATION; ENZYMES; LIGANDS; MASS SPECTROMETRY; MOLECULAR BIOLOGY; ORGANIC COMPOUNDS; PROTEIN FOLDING; PURIFICATION; THERMOANALYSIS; YEAST;

COMPLEXATION;

AMIDINE; LIGAND; LYSINE; PROTEIN;

AMINO ACID SEQUENCE; ANIMAL; ARTICLE; CATTLE; CHEMISTRY; LIQUID CHROMATOGRAPHY; MASS SPECTROMETRY; METABOLISM; METHODOLOGY; MOLECULAR GENETICS; PROTEIN BINDING; PROTEIN FOLDING; PROTEOMICS; THERMODYNAMICS;

AMIDINES; AMINO ACID SEQUENCE; ANIMALS; CATTLE; CHROMATOGRAPHY, LIQUID; LIGANDS; LYSINE; MASS SPECTROMETRY; MOLECULAR SEQUENCE DATA; PROTEIN BINDING; PROTEIN FOLDING; PROTEINS; PROTEOMICS; THERMODYNAMICS;

EID: 79955565663     PISSN: 00032700     EISSN: None     Source Type: Journal    
DOI: 10.1021/ac200211t     Document Type: Article

References (39)

1. Hamuro, Y.; Coales, S. J.; Southern, M. R.; Nemeth-Cawley, J. F.; Stranz, D. D.; Griffin, P. R. J. Biomol. Tech. 2003, 14, 171-182
2. Smith, D. L.; Deng, Y.; Zhang, Z. J. Mass Spectrom. 1997, 32, 135-146
3. Englander, J. J.; Del Mar, C.; Li, W.; Englander, S. W.; Kim, J. S.; Stranz, D. D.; Hamuro, Y.; Woods, V. L., Jr. Proc. Natl. Acad. Sci. U. S. A. 2003, 100, 7057-7062
4. McClintock, C.; Kertesz, V.; Hettich, R. L. Anal. Chem. 2008, 80, 3304-3317
5. Tong, X.; Wren, J. C.; Konermann, L. Anal. Chem. 2008, 80, 2222-2231
6. Xu, G.; Chance, M. R. Anal. Chem. 2005, 77, 4549-4555
7. Engen, J. R.; Smith, D. L. Methods Mol. Biol. 2000, 146, 95-112
8. Ghaemmaghami, S.; Fitzgerald, M. C.; Oas, T. G. Proc. Natl. Acad. Sci. U. S. A. 2000, 97, 8296-8301
9. West, G. M.; Tang, L.; Fitzgerald, M. C. Anal. Chem. 2008, 80, 4175-4185
10. West, G. M.; Tucker, C. L.; Xu, T.; Park, S. K.; Han, X.; Yates, J. R., 3rd; Fitzgerald, M. C. Proc. Natl. Acad. Sci. U. S. A. 2010, 107, 9078-9082
11. Powell, K. D.; Ghaemmaghami, S.; Wang, M. Z.; Ma, L. Y.; Oas, T. G.; Fitzgerald, M. C. J. Am. Chem. Soc. 2003, 125, 4398-4398
12. West, G. M.; Thompson, J. W.; Soderblom, E. J.; Dubois, L. G.; Dearmond, P. D.; Moseley, M. A.; Fitzgerald, M. C. Anal. Chem. 2010, 82, 5573-5581
13. Zhu, M. M.; Rempel, D. L.; Du, Z.; Gross, M. L. J. Am. Chem. Soc. 2003, 125, 5252-5253
14. Zhu, M. M.; Rempel, D. L.; Gross, M. L. J. Am. Soc. Mass Spectrom. 2004, 15, 388-397
15. Beardsley, R. L.; Running, W. E.; Reilly, J. P. J. Proteome Res. 2006, 5, 2935-2946
16. Janecki, D. J.; Beardsley, R. L.; Reilly, J. P. Anal. Chem. 2005, 77, 7274-7281
17. Liu, X.; Broshears, W. C.; Reilly, J. P. Anal. Biochem. 2007, 367, 13-19
18. Running, W. E.; Reilly, J. P. J. Proteome Res. 2009, 8, 1228-1246
19. Thumm, M.; Hoenes, J.; Pfleiderer, G. Biochimica Et Biophysica Acta 1987, 923, 263-267
20. Silinski, P.; Allingham, M. J.; Fitzgerald, M. C. Biochemistry 2001, 40, 4493-4502
21. Nozaki, Y. Methods Enzymol. 1972, 26 (PtC) 43-50
22. Powell, K. D.; Wales, T. E.; Fitzgerald, M. C. Protein Sci. 2002, 11, 841-851
23. Schellman, J. A. Biopolymers 1975, 14, 999-1018
24. Yang, Y.; Kuramitsu, S.; Nakae, Y.; Ikeda, K.; Hamaguchi, K. J. Biochem. 1976, 80, 425-434
25. Gopal, S.; Ahluwalia, J. C. Biophys. Chem. 1995, 54, 119-125
26. Bjurulf, C.; Wadso, I. Eur. J. Biochem. 1972, 31, 95-102
27. Dahlquist, F. W.; Raftery, M. A. Biochemistry 1968, 7, 3269-3276
28. Butler, L. G.; Rupley, J. A. J. Biol. Chem. 1967, 242, 1077-1078
29. Dahlquist, F. W.; Jao, L.; Raftery, M. Proc. Natl. Acad. Sci. U. S. A. 1966, 56, 26-30
30. Banerjee, S. K.; Rupley, J. A. J. Biol. Chem. 1973, 248, 2117-2124
31. Ikeda, K.; Hamaguchi, K. J. Biochem. 1969, 66, 513-520
32. Chipman, D. M.; Grisaro, V.; Sharon, N. J. Biol. Chem. 1967, 242, 4388-4394
33. Khorasanizadeh, S.; Peters, I. D.; Butt, T. R.; Roder, H. Biochemistry 1993, 32, 7054-7063
34. Ahmad, F.; Bigelow, C. C. J. Biol. Chem. 1982, 257, 12935-12938
35. Pace, C. N.; Alston, R. W.; Shaw, K. L. Protein Sci. 2000, 9, 1395-1398
36. Tang, L.; Hopper, E. D.; Tong, Y.; Sadowsky, J. D.; Peterson, K. J.; Gellman, S. H.; Fitzgerald, M. C. Anal. Chem. 2007, 79, 5869-5877
37. Tang, L.; Roulhac, P. L.; Fitzgerald, M. C. Anal. Chem. 2007, 79, 8728-8739
38. Inman, J. K.; Perham, R. N.; DuBois, G. C.; Appella, E. Methods Enzymol. 1983, 91, 559-569
39. Baud, F.; Karlin, S. Proc Natl. Acad. Sci. U. S. A. 1999, 96, 12494-12499