Conformational dynamics of partially denatured myoglobin studied by time-resolved electrospray mass spectrometry with online hydrogen-deuterium exchange

Biochemistry

Volumn 42, Issue 19, 2003, Pages 5896-5905

  Simmons, Douglas A ^a   Dunn, Stanley D ^a   Konermann, Lars ^a  

^a UNIVERSITY OF WESTERN ONTARIO   (Canada)

Author keywords

[No Author keywords available]

Indexed keywords

BINDING ENERGY; CONFORMATIONS; HEMOGLOBIN; ION EXCHANGE; MASS SPECTROMETRY;

CONFORMATIONAL DYNAMICS;

PROTEINS;

MYOGLOBIN;

ANALYTIC METHOD; ARTICLE; BINDING SITE; CONFORMATIONAL TRANSITION; HYDROGEN BOND; LABELING INDEX; MASS SPECTROMETRY; MONITORING; PRIORITY JOURNAL; PROTEIN BINDING; PROTEIN CONFORMATION; PROTEIN DENATURATION; PROTEIN FOLDING; PROTON TRANSPORT; SIGNAL TRANSDUCTION;

ANIMALS; BINDING SITES; COMPUTER SIMULATION; DEUTERIUM; HORSES; HYDROGEN; KINETICS; MODELS, MOLECULAR; MYOGLOBIN; PROTEIN CONFORMATION; PROTEIN DENATURATION; SPECTROMETRY, MASS, ELECTROSPRAY IONIZATION; ULTRACENTRIFUGATION;

EID: 0037614815     PISSN: 00062960     EISSN: None     Source Type: Journal    
DOI: 10.1021/bi034285e     Document Type: Article

References (100)

1. Hughson, F. M., Wright, P. E., and Baldwin, R. L. (1990) Science 249, 1544-1548.
2. Bucciantini, M., Giannoni, E., Chiti, F., Baroni, F., Formigli, L., Zurdo, J., Taddei, N., Ramponi, G., Dobson, C. M., and Stefani, M. (2002) Nature 416, 507-511.
3. Hill, T. J., Lafitte, D., Wallace, J. I., Cooper, H. J., Tsvetkov, P. O., and Derrick, P. J. (2000) Biochemistry 39, 7284-7290.
4. Wright, P. E., and Dyson, H. J. (1999) J. Mol. Biol. 293, 321-331.
5. Dyson, H. J., and Wright, P. E. (1998) Nat. Struct. Biol. 5, 499-503.
6. Dyson, H. J., and Wright, P. E. (2002) Curr. Opin. Struct. Biol. 12, 54-60.
7. Dunker, A. K., and Obradovic, A. (2001) Nat. Biotechnol. 19, 805-806.
8. Brutscher, B., Brüschweiler, R., and Ernst, R. R. (1997) Biochemistry 36, 13043.
9. Barbar, E., Hare, M., Daragan, V., Barany, G., and Woodward, C. (1998) Biochemistry 37, 7822-7833.
10. Eliezer, D., Yao, J., Dyson, H. J., and Wright, P. E. (1998) Nat. Struct. Biol. 5, 148-155.
11. Tollinger, M., Skrynnikov, N. R., Mulder, F. A. A., Forman-Kay, J. D., and Kay, L. E. (2001) J. Am. Chem. Soc. 123, 11341-11352.
12. Mayo, S., and Baldwin, R. L. (1993) Science 262, 873-876.
13. Li, R., and Woodward, C. (1999) Protein Sci. 8, 1571-1590.
14. Englander, S. W., Sosnick, T. R., Englander, J. J., and Mayne, L. (1996) Curr. Opin. Struct. Biol. 6, 18-23.
15. Miller, D. W., and Dill, K. A. (1995) Protein Sci. 4, 1860-1873.
16. Bai, Y., Sosnick, T. R., Mayne, L., and Englander, S. W. (1995) Science 269, 192-197.
17. Parker, M. J., and Marqusee, S. (2001) J. Mol. Biol. 305, 593-602.
18. Xu, Y., Mayne, L., and Englander, S. W. (1998) Nat. Struct. Biol. 5, 774-778.
19. Engen, J. R., and Smith, D. L. (2001) Anal. Chem. 73, 256A-265A.
20. Englander, S. W., Mayne, L., and Rumbley, J. N. (2002) Biophys. Chem. 101-102, 57-65.
21. Maity, H., Lim, W. K., Rumbley, J. N., and Englander, S. W. (2003) Protein Sci. 12, 153-160.
22. Hvidt, A., and Nielsen, S. O. (1966) Adv. Protein Chem. 21, 287-386.
23. Bai, Y., Milne, J. S., Mayne, L., and Englander, S. W. (1993) Proteins: Struct., Funct., Genet. 17, 75-86.
24. Bieri, O., and Kiefhaber, T. (2001) J. Mol. Biol. 310, 919-935.
25. Kaltashov, I. A., and Eyles, S. J. (2002) Mass Spectrom. Rev. 21, 37-71.
26. Chowdhury, S. K., Katta, V., and Chait, B. T. (1990) J. Am. Chem. Soc. 112, 9012-9013.
27. Konermann, L., and Douglas, D. J. (1997) Biochemistry 36, 12296-12302.
28. Grandori, R. (2003) J. Mass. Spectrom. 38, 11-15.
29. Dobo, A., and Kaltashov, I. A. (2001) Anal. Chem. 73, 4763-4773.
30. Grandori, R. (2002) Protein Sci. 11, 453-458.
31. Loo, J. A. (2000) Int. J. Mass Spectrom. 200, 175-186.
32. Zhang, Z., Krutchinsky, A., Endicott, S., Realini, C., Rechsteiner, M., and Standing, K. G. (1999) Biochemistry 38, 5651-5658.
33. Rostom, A. A., Fucini, P., Benjamin, D. R., Juenemann, R., Nierhaus, K. H., Hartl, F. U., Dobson, C. M., and Robinson, C. V. (2000) Proc. Natl. Acad. Sci. U.S.A. 97, 5185-5190.
34. van Berkel, W. J. H., van den Heuvel, R. H. H., Versluis, C., and Heck, A. J. R. (2000) Protein Sci. 9, 435-439.
35. Daniel, J. M., Friess, S. D., Rajagopalan, S., Wendt, S., and Zenobi, R. (2002) Int. J. Mass Spectrom. 216, 1-27.
36. Feng, R., and Konishi, Y. (1993) J. Am. Soc. Mass Spectrom. 4, 638-645.
37. Vis, H., Heinemann, U., Dobson, C. M., and Robinson, C. V. (1998) J. Am. Chem. Soc. 120, 6427-6428.
38. Nemirovskiy, O. V., Ramanathan, R., and Gross, M. L. (1997) J. Am. Soc. Mass Spectrom. 8, 809-812.
39. Katta, V., and Chait, B. T. (1993) J. Am. Chem. Soc. 115, 6317-6321.
40. Wagner, D. S., and Anderegg, R. J, (1994) Anal. Chem. 66, 706-711.
41. Wang, F., and Tang, X. (1996) Biochemistry 35, 4069-4078.
42. Babu, K. R., and Douglas, D. J. (2000) Biochemistry 39, 14702-14710.
43. Smith, D. L., Deng, Y., and Zhang, Z. (1997) J. Mass Spectrom. 32, 135-146.
44. Eyles, S. J., Dresch, T., Gierasch, L. M., and Kaltashov, I. A. (1999) J. Mass Spectrom. 34, 1289-1295.
45. Eyles, S. J., Speir, J. P., Kruppa, G. H., Gierasch, L. M., and Kaltashov, I. A. (2000) J. Am. Chem. Soc. 122, 495-500.
46. Maier, C. S., Schimerlik, M. I., and Deinzer, M. L. (1999) Biochemistry 38, 1136-1143.
47. Kim, M.-Y., Maier, C. S., Reed, D. J., and Deinzer, M. L. (2002) Protein Sci. 11, 1320-1329.
48. Konermann, L., Collings, B. A., and Douglas, D. J. (1997) Biochemistry 36, 5554-5559.
49. Sogbein, O. O., Simmons, D. A., and Konermann, L. (2000) J. Am. Soc. Mass Spectrom. 11, 312-319.
50. Simmons, D. A., and Konermann, L. (2002) Biochemistry 41, 1906-1914.
51. Lin, H., and Dass, C. (2001) Rapid Commun. Mass Spectrom. 15, 2341-2346.
52. Evans, S. V., and Brayer, G. D. (1990) J. Mol. Biol. 213, 885-897.
53. Jennings, P. A., and Wright, P. E. (1993) Science 262, 892-896.
54. Tsui, V., Garcia, C., Cavagnero, S., Siuzdak, G., Dyson, H. J., and Wright, P. E. (1999) Protein Sci. 8, 45-49.
55. Johnson, R. S., and Walsh, K. A. (1994) Protein Sci. 3, 2411 -2418.
56. Jamin, M., and Baldwin, R. L. (1996) Nat. Struct. Biol. 3, 613-618.
57. Feng, Z., Butler, M. C., Alam, S. L., and Loh, S. N. (2001) J. Mol. Biol. 314, 153-166.
58. Gilmanshin, R., Gulotta, M., Dyer, R. B., and Callender, R. H. (2001) Biochemistry 40, 5127-5136.
59. Nishimura, C., Dyson, H. J., and Wright, P. E. (2002) J. Mol. Biol. 322, 483-489.
60. Fishburn, A. L., Keeffe, J. R., Lissonouv, A. V., Peyton, D. H., and Anthony-Cahill, S. J. (2002) Biochemistry 41, 13318-13327.
61. Schwarzinger, S., Wright, P. E., and Dyson, H. J. (2002) Biochemistry 41, 12681-12686.
62. Lietzow, M. A., Jamin, M., Dyson, H. J., and Wright, P. E. (2002) J. Mol. Biol. 322, 655-662.
63. Frauenfelder, H., Sligar, S. G., and Wolynes, P. G. (1991) Science 254, 1598-1603.
64. Glasoe, P. K., and Long, F. A. (1960) J. Am. Chem. Soc. 64, 188-190.
65. Konermann, L., Rosell, F. I., Mauk, A. G., and Douglas, D. J. (1997) Biochemistry 36, 6448-6454.
66. Zechel, D. L., Konermann, L., Withers, S. G., and Douglas, D. J. (1998) Biochemistry 37, 7664-7669.
67. Konermann, L. (1999) J. Phys. Chem. A 103, 7210-7216.
68. Collings, B. A., and Douglas, D. J. (1996) J. Am. Chem. Soc. 118, 4488-4489.
69. Hunter, C. H., Mauk, A. G., and Douglas, D. J. (1997) Biochemistry. 36, 1018-1025.
70. Philo, J. S. (1996) Biophys. J. 72, 435-444.
71. Ralston, G. (1993) Introduction to Analytical Ultracentrifugation, Beckman Instruments, Inc., Fullerton, CA.
72. Cole, J. L., and Hansen, J. C. (1999) J. Biomol. Technol. 10, 163-176.
73. Lide, D. R. (2001) CRC Handbook of Chemistry and Physics, 82nd ed., CRC Press, London.
74. Hinz, H. J. (1986) Thermodynamic Data for Biochemistry and Biotechnology, Springer-Verlag, New York.
75. Katta, V., and Chait, B. T. (1991) J. Am. Chem. Soc. 113, 8534-8535.
76. Jamin, M., and Baldwin, R. L. (1998) J. Mol. Biol. 276, 491-504.
77. Fändrich, M., Fletcher, M. A., and Dobson, C. M. (2001) Nature 410, 165-166.
78. Eliezer, D., Chiba, K., Tsuruta, H., Doniach, S., Hodgson, K. O., and Kihara, H. (1993) Biophys. J. 65, 912-917.
79. Robinson, C. V., Chung, E. W., Kragelund, B. B., Knudsen, J., Aplin, R. T., Poulsen, F. M., and Dobson, C. M. (1996) J. Am. Chem. Soc. 118, 8646-8653.
80. Mauk, M. R., Mauk, A. G., Chen, Y.-L., and Douglas, D. J. (2002) J. Am. Soc. Mass Spectrom. 13, 59-71.
81. Hermans, J., J., Puett, D., and Acampora, G. (1969) Biochemistry 8, 22-30.
82. Clark, S. M., and Konermann, L. (2003) J. Am. Soc. Mass Spectrom. (submitted for publication).
83. Cech, N. B., and Enke, C. G. (2000) Anal. Chem. 72, 2717-2723.
84. March, R. E. (1997) J. Mass Spectrom. 32, 351-369.
85. Wuthrich, K. (1986) NMR of Proteins and Nucleic Acids, John Wiley and Sons, Toronto.
86. Miranker, A., Robinson, C. V., Radford, S. E., and Dobson, C. M. (1996) FASEB J. 10, 93-101.
87. La Mar, G. N., and Krishnamoorthi (1984) J. Am. Chem. Soc. 106, 6395-6401.
88. Aojula, H. S., Wilson, M. T., and Drake, A. (1986) Biochem. J. 237, 613-616.
89. Light, W. R., Rohlfs, R. J., Palmer, G., and Olson, J. (1987) J. Biol. Chem. 262, 46-52.
90. Chamberlain, A. K., Handel, T. M., and Marqusee, S. (1996) Nat. Struct. Biol. 3, 782-787.
91. Fuentes, E. J., and Wand, A. J. (1998) Biochemistry 37, 3687-3698.
92. Arrington, C. B., Teesch, L. M., and Robertson, A. D. (1999) J. Mol. Biol. 285, 1265-1275.
93. Bhuyan, A. K., and Udgaonkar, J. B. (1998) Proteins: Struct., Funct., Genet. 30, 295-308.
94. Barrick, D., and Baldwin, R. L. (1993) Biochemistry 32, 3790-3796.
95. Hargrove, M. S., Krzywda, S., Wilkinson, A., Dou, Y., Ikeda-Saito, M., and Olson, J. S. (1994) Biochemistry 33, 11767-11775.
96. Konermann, L., and Douglas, D. J. (1998) Rapid Commun. Mass Spectrom. 12, 435-442.
97. Woodward, C. (1993) Trends Biochem. Sci. 18, 359-360.
98. Fersht, A. (1999) Structure and Mechanism in Protein Science, W. H. Freeman, New York.
99. Kaltashov, I. A., and Eyles, S. J. (2002) J. Mass. Spectrom. 37, 557-565.
100. Döring, K., Surrey, S., Grunewald, S., John, E., and Jahnig, F. (2000) Protein Sci. 9, 2246-2250.