The high resolution crystal structure of a native thermostable serpin reveals the complex mechanism underpinning the stressed to relaxed transition

Journal of Biological Chemistry

Volumn 280, Issue 9, 2005, Pages 8435-8442

  Fulton, Kate F ^a   Buckle, Ashley M ^a,b   Cabrita, Lisa D ^a   Irving, James A ^a,b,c   Butcher, Rebecca E ^a,c   Smith, Ian ^a   Reeve, Shane ^a   Lesk, Arthur M ^a,b,d   Bottomley, Stephen P ^a   Rossjohn, Jamie ^a,c   Whisstock, James C ^a,b,c  

^a Department of Physiology School of Biomedical Sciences   (Australia)

^b Victorian Bioinformatics Consortium   (Australia)

^c MONASH UNIVERSITY   (Australia)

^d PENNSYLVANIA STATE UNIVERSITY   (United States)

Author keywords

[No Author keywords available]

Indexed keywords

BIOCHEMISTRY; CONFORMATIONS; CRYSTAL STRUCTURE; ELECTROSTATICS; ENZYMES; THERMODYNAMIC STABILITY;

C-TERMINAL TAIL; ELECTROSTATIC INTERACTIONS; SERPINS; THERMOBIFIDA FUSCA;

PROTEINS;

BACTERIAL PROTEIN; POLYMER; PROTEINASE; SERINE PROTEINASE INHIBITOR; THERMOPIN; UNCLASSIFIED DRUG;

ARTICLE; BETA SHEET; CARBOXY TERMINAL SEQUENCE; CONFORMATIONAL TRANSITION; CRYSTAL STRUCTURE; ELECTRICITY; HEAT SENSITIVITY; NONHUMAN; PRIORITY JOURNAL; PROKARYOTE; PROTEIN DEGRADATION; PROTEIN STABILITY; PROTEIN STRUCTURE; THERMOBIFIDA FUSCA; THERMODYNAMICS; THERMOPHILIC BACTERIUM; THERMOSTABILITY; X RAY CRYSTALLOGRAPHY;

BINDING SITES; CIRCULAR DICHROISM; CLONING, MOLECULAR; CRYSTALLOGRAPHY, X-RAY; HYDROGEN BONDING; KINETICS; MODELS, MOLECULAR; MUTAGENESIS, SITE-DIRECTED; PROTEIN BINDING; PROTEIN CONFORMATION; PROTEIN STRUCTURE, SECONDARY; PROTEIN STRUCTURE, TERTIARY; SERPINS; SPECTROPHOTOMETRY; STREPTOMYCETACEAE; TEMPERATURE; THERMODYNAMICS;

EID: 20044373225     PISSN: 00219258     EISSN: None     Source Type: Journal    
DOI: 10.1074/jbc.M410206200     Document Type: Article

References (65)

1. Rawlings, N. D., Tolle, D. P., and Barrett, A. J. (2004) Biochem. J. 378, 705-716
2. Irving, J. A., Pike, R. N., Lesk, A. M., and Whisstock, J. C. (2000) Genome Res. 10, 1845-1864
3. Irving, J. A., Spithill, T. W., Pike, R. N., Whisstock, J. C., and Smooker, P. M. (2003) J. Mol. Biol. 57, 1-15
4. Silverman, G. A., Bird, P. I., Carrell, R. W., Church, F. C., Coughlin, P. B., Gettins, P. G., Irving, J. A., Lomas, D. A., Luke, C. J., Moyer, R. W., Pemberton, P. A., Remold-O'Donnell, E., Salvesen, G. S., Travis, J., and Whisstock, J. C. (2001) J. Biol. Chem. 276, 33293-33296
5. Carrell, R. W., and Owen, M. C. (1985) Nature 317, 730-732
6. Cabrita, L. D., Dai, W., and Bottomley, S. P. (2004) Biochemistry 43, 9834-9839
7. Schechter, I., and Berger, A. (1967) Biochem. Biophys. Res. Commun. 27, 157-162
8. Stein, P., and Chothia, C. (1991) J. Mol. Biol. 221, 615-621
9. Whisstock, J. C., Skinner, R., Carrell, R. W., and Lesk, A. M. (2000) J. Mol. Biol. 296, 685-699
10. Whisstock, J. C., Pike, R. N., Jin, L., Skinner, R., Pei, X. Y., Carrell, R. W., and Lesk, A. M. (2000) J. Mol. Biol. 301, 1287-1305
11. Kaslik, G., Patthy, A., Balint, M., and Graf, L. (1995) FEBS Lett. 370, 179-183
12. Plotnick, M. I., Mayne, L., Schechter, N. M., and Rubin, H. (1996) Biochemistry 35, 7586-7590
13. Stratikos, E., and Gettins, P. G. (1999) Proc. Natl. Acad. Sci. U. S. A. 96, 4808-4813
14. Huntington, J. A., Read, R. J., and Carrell, R. W. (2000) Nature 407, 923-926
15. Li, W., Johnson, D. J., Esmon, C. T., and Huntington, J. A. (2004) Nat. Struct. Mol. Biol. 11, 857-862
16. Jin, L., Abrahams, J. P., Skinner, R., Petitou, M., Pike, R. N., and Carrell, R. W. (1997) Proc. Natl. Acad. Sci. U. S. A. 94, 14683-14688
17. Dementiev, A., Petitou, M., Herbert, J. M., and Gettins, P. G. (2004) Nat. Struct. Mol. Biol. 11, 863-867
18. Mast, A. E., Enghild, J. J., and Salvesen, G. (1992) Biochemistry 31, 2720-2728
19. Lomas, D. A., Evans, D. L., Finch, J. T., and Carrell, R. W. (1992) Nature 357, 605-607
20. James, E. L., Whisstock, J. C., Gore, M. G., and Bottomley, S. P. (1999) J. Biol. Chem. 274, 9482-9488
21. Yu, M. H., Lee, K. N., and Kim, J. (1995) Nat. Struct. Biol. 2, 363-367
22. Lomas, D. A., and Carrell, R. W. (2002) Nat. Rev. Genet. 3, 759-768
23. Chow, M. K., Lomas, D. A., and Bottomley, S. P. (2004) Curr. Med. Chem. 11, 491-499
24. Carrell, R. W., and Lomas, D. A. (2002) N. Engl. J. Med. 346, 45-53
25. Dafforn, T. R., Mahadeva, R., Elliott, P. R., Sivasothy, P., and Lomas, D. A. (1999) J. Biol. Chem. 274, 9548-9555
26. James, E. L., and Bottomley, S. P. (1998) Arch. Biochem. Biophys. 356, 296-300
27. Irving, J. A., Steenbakkers, P. J., Lesk, A. M., Op den Camp, H. J., Pike, R. N., and Whisstock, J. C. (2002) Mol. Biol. Evol. 19, 1881-1890
28. Irving, J. A., Cabrita, L. D., Rossjohn, J., Pike, R. N., Bottomley, S. P., and Whisstock, J. C. (2003) Structure (Camb.) 11, 387-397
29. Liu, B., Bartlam, M., Gao, R., Zhou, W., Pang, H., Liu, Y., Feng, Y., and Rao, Z. (2004) Biophys. J. 86, 420-427
30. Xiang, T., Liu, Q., Deacon, A. M., Koshy, M., Kriksunov, I. A., Lei, X. G., Hao, Q., and Thiel, D. J. (2004) J. Mol. Biol. 339, 437-445
31. Vogt, G., and Argos, P. (1997) Folding Des. 2, S40-S46
32. DeDecker, B. S., O'Brien, R., Fleming, P. J., Geiger, J. H., Jackson, S. P., and Sigler, P. B. (1996) J. Mol. Biol. 264, 1072-1084
33. Roth, L. G., Berns, D. S., and Chen, C. H. (1996) Biophys. Chem. 60, 89-97
34. Szilagyi, A., and Zavodszky, P. (1995) Protein Eng. 8, 779-789
35. Pace, C. N. (1986) Methods Enzymol. 131, 266-279
36. McPherson, A. (1982) The Preparation and Analysis of Protein Crystals, John Wiley & Sons, New York
37. Otwinowski, Z. (1997) Methods Enzymol. 276, 307-326
38. Potterton, E., Briggs, P., Turkenburg, M., and Dodson, E. (2003) Acta Crystallogr. Sect. D Biol. Crystallogr. 59, 1131-1137
39. Collaborative Computational Project 4 (1994) Acta Crystallogr. Sect. D Biol. Crystallogr, 50, 760-763
40. Brunger, A. T. (1992) Nature 355, 472-475
41. Navaza, J. (2001) Acta Crystallogr. Sect. D Biol. Crystallogr, 57, 1367-1372
42. Murshudov, G. N., Vagin, A. A., and Dodson, E. J. (1997) Acta Crystallogr. Sect. D Biol. Crystallogr. 53, 240-255
43. Jones, T. A., Zou, J. Y., Cowan, S. W., and Kjeldgaard, M. (1991) Acta Crystallogr. Sect, A 47, 110-119
44. Feng, Z., Chen, L., Maddula, H., Akcan, O., Oughtred, R., Herman, H. M., and Westbrook, J. (2004) Bioinformatics 20, 2153-2155
45. Rodriguez, R., Chinea, G., Lopez, N., Pons, T., and Vriend, G. (1998) Bioinformatics 14, 523-528
46. Kraulis, P. (1991) J. Appl. Crystallogr. 24, 946-950
47. Merrit, E. A., and Bacon, D. J. (1997) Methods Enzymol. 277, 505-524
48. Lesk, A. M., Levitt, M., and Chothia, C. (1986) Protein Eng. 1, 77-78
49. Pattabiraman, N., Ward, K. B., and Fleming, P. J. (1995) J. Mol. Recognit. 8, 334-344
50. Word, J. M., Lovell, S. C., LaBean, T. H., Taylor, H. C., Zalis, M. E., Presley, B. K., Richardson, J. S., and Richardson, D. C. (1999) J. Mol. Biol. 285, 1711-1733
51. Stein, P. E., and Carrell, R. W. (1995) Nat. Struct. Biol. 2, 96-113
52. Maignan, S., Guilloteau, J. P., Zhou-Liu, Q., Clement-Mella, C., and Mikol, V. (1998) J. Mol. Biol. 282, 359-368
53. Tete-Favier, F., Cobessi, D., Boschi-Muller, S., Azza, S., Branlant, G., and Aubry, A. (2000) Structure 8, 1167-1178
54. Junop, M. S., Modesti, M., Guarne, A., Ghirlando, R., Gellert, M., and Yang, W. (2000) EMBO J. 19, 5962-5970
55. Parfrey, H., Mahadeva, R., Ravenhill, N. A., Zhou, A., Dafforn, T. R., Foreman, R. C., and Lomas, D. A. (2003) J. Biol. Chem. 278, 33060-33066
56. Beauchamp, N. J., Pike, R. N., Daly, M., Butler, L., Makris, M., Dafforn, T. R., Zhou, A., Fitton, H. L., Preston, F. E., Peake, I. R., and Carrell, R. W. (1998) Blood 92, 2696-2706
57. Im, H., Ryu, M. J., and Yu, M. H. (2004) Protein Eng. Des. Sel. 17, 325-331
58. Seo, E. J., Im, H., Maeng, J. S., Kim, K. E., and Yu, M. H. (2000) J. Biol. Chem. 275, 16904-16909
59. Im, H., Seo, E. J., and Yu, M. H. (1999) J. Biol. Chem. 274, 11072-11077
60. Seo, E. J., Lee, C., and Yu, M. H. (2002) J. Biol. Chem. 277, 14216-14220
61. Serrano, L., Day, A. G., and Fersht, A. R. (1993) J. Mol. Biol. 233, 305-312
62. Schreiber, C., Buckle, A. M., and Fersht, A. R. (1994) Structure 2, 945-951
63. Nikolova, P. V., Henckel, J., Lane, D. P., and Fersht, A. R. (1998) Proc. Natl. Acad. Sci. U. S. A. 95, 14675-14680
64. Wang, Q., Buckle, A. M., and Fersht, A. R. (2000) J. Mol. Biol. 298, 917-926
65. Cabrita, L. D., and Bottomley, S. P. (2004) Eur. Biophys. J. 33, 83-88