Changes of protein folding pathways by circular permutation: Overlapping nuclei promote global cooperativity

Journal of Biological Chemistry

Volumn 283, Issue 41, 2008, Pages 27904-27915

  Haglund, Ellinor ^a   Lindberg, Magnus O ^a   Oliveberg, Mikael ^a  

^a STOCKHOLM UNIVERSITY   (Sweden)

Author keywords

[No Author keywords available]

Indexed keywords

PROTEINS;

CIRCULAR PERMUTATIONS; CONFORMATIONAL CHANGES; COOPERATIVITY; DYNAMIC PROPERTIES; ENERGY LANDSCAPES; EXPERIMENTAL EVIDENCES; FOLDING NUCLEUSES; FOLDING PATHWAYS; FOLDING TRANSITIONS; QUANTITATIVE ANALYSES; RIBOSOMAL PROTEINS; SIDE CHAINS;

PROTEIN FOLDING;

PROTEIN S6;

ARTICLE; BOOTSTRAPPING; CONFORMATIONAL TRANSITION; CRYSTAL STRUCTURE; MUTATION; PRIORITY JOURNAL; PROTEIN ENGINEERING; PROTEIN EXPRESSION; PROTEIN FOLDING; PROTEIN PURIFICATION; PROTEIN SECONDARY STRUCTURE; PROTEIN STABILITY; PROTEIN STRUCTURE; WILD TYPE; ANIMAL; CHEMICAL STRUCTURE; CHEMISTRY; GENETICS; HUMAN;

ANIMALS; HUMANS; MODELS, MOLECULAR; MUTATION; PROTEIN FOLDING; PROTEIN STRUCTURE, SECONDARY; RIBOSOMAL PROTEIN S6;

EID: 55549098922     PISSN: 00219258     EISSN: 1083351X     Source Type: Journal    
DOI: 10.1074/jbc.M801776200     Document Type: Article

References (45)

1. Oliveberg, M., and Wolynes, P. G. (2005) Q. Rev. Biophys. 38, 245-288
2. Chiti, F., Calamai, M., Taddei, N., Stefani, M., Ramponi, G., and Dobson, C. M. (2002) Proc. Natl. Acad. Sci. U. S. A. 99, Suppl. 4, 16419-16426
3. Sandelin, E., Nordlund, A., Andersen, P. M., Marklund, S. S., and Oliveberg, M. (2007) J. Biol. Chem. 282, 21230-21236
4. Otzen, D. E., Kristensen, O., and Oliveberg, M. (2000) Proc. Natl. Acad. Sci. U. S. A. 97, 9907-9912
5. Richardson, J. S., and Richardson, D. C. (2002) Proc. Natl. Acad. Sci. U. S. A. 99, 2754-2759
6. Thirumalai, D., Klimov, D. K., and Dima, R. I. (2003) Curr. Opin. Struct. Biol. 13, 146-159
7. Matysiak, S., and Clementi, C. (2006) J. Mol. Biol. 363, 297-308
8. Stoycheva, A. D., Brooks, C. L., III, and Onuchic, J. N. (2004) J. Mol. Biol. 340, 571-585
9. Silow, M., Tan, Y. J., Fersht, A. R., and Oliveberg, M. (1999) Biochemistry 38, 13006-13012
10. Yang, S., Cho, S. S., Levy, Y., Cheung, M. S., Levine, H., Wolynes, P. G., and Onuchic, J. N. (2004) Proc. Natl. Acad. Sci. U. S. A. 101, 13786-13791
11. Guo, Z., and Eisenberg, D. (2006) Proc. Natl. Acad. Sci. U. S. A. 103, 8042-8047
12. Bennett, M. J., Choe, S., and Eisenberg, D. (1994) Proc. Natl. Acad. Sci. U. S. A. 91, 3127-3131
13. Fandrich, M., Fletcher, M. A., and Dobson, C. M. (2001) Nature 410, 165-166
14. Lindberg, M., Tangrot, J., and Oliveberg, M. (2002) Nat. Struct. Biol. 9, 818-822
15. Dumoulin, M., Canet, D., Last, A. M., Pardon, E., Archer, D. B., Muyldermans, S., Wyns, L., Matagne, A., Robinson, C. V., Redfield, C., and Dobson, C. M. (2005) J. Mol. Biol. 346, 773-788
16. Nordlund, A., and Oliveberg, M. (2006) Proc. Natl. Acad. Sci. U. S. A. 103, 10218-10223
17. Plotkin, S. S., and Onuchic, J. N. (2000) Proc. Natl. Acad. Sci. U. S. A. 97, 6509-6514
18. Jackson, S. E. (1998) Fold. Des. 3, R81-R91
19. Lindberg, M. O., Haglund, E., Hubner, I. A., Shakhnovich, E. I., and Oliveberg, M. (2006) Proc. Natl. Acad. Sci. U. S. A. 103, 4083-4088
20. Lindberg, M. O., and Oliveberg, M. (2007) Curr. Opin. Struct. Biol. 17, 21-29
21. Zarrine-Afsar, A., Larson, S. M., and Davidson, A. R. (2005) Curr. Opin. Struct. Biol. 15, 42-49
22. Olofsson, M., Hansson, S., Hedberg, L., Logan, D. T., and Oliveberg, M. (2007) J. Mol. Biol. 365, 237-248
23. Lappalainen, I., Hurley, M. G., and Clarke, J. (2008) J. Mol. Biol. 375, 547-559
24. Matysiak, S., and Clementi, C. (2004) J. Mol. Biol. 343, 235-248
25. Wu, L., Zhang, J., Wang, J., Li, W. F., and Wang, W. (2007) Phys. Rev. E Stat. Nonlin. Soft Matter Phys. 75, 031914
26. Lindahl, M., Svensson, L. A., Liljas, A., Sedelnikova, S. E., Eliseikina, I. A., Fomenkova, N. P., Nevskaya, N., Nikonov, S. V., Garber, M. B., Muranova, T. A., Rykonova, A. I., and Amons, R. (1994) EMBO J. 13, 1249-1254
27. Lindberg, M. O., Tangrot, J., Otzen, D. E., Dolgikh, D. A., Finkelstein, A. V., and Oliveberg, M. (2001) J. Mol. Biol. 314, 891-900
28. Otzen, D. E., Kristensen, O., Proctor, M., and Oliveberg, M. (1999) Biochemistry 38, 6499-6511
29. Oliveberg, M. (1998) Acc. Chem. Res. 31, 765-772
30. Fersht, A. R. (1999) Structure and Mechanism in Protein Science: a Guide to Enzyme Catalysis and Protein Folding, W. H. Freeman and Co., New York
31. Miller, E. J., Fischer, K. F., and Marqusee, S. (2002) Proc. Natl. Acad. Sci. U. S. A. 99, 10359-10363
32. Plaxco, K. W., Simons, K. T., and Baker, D. (1998) J. Mol. Biol. 277, 985-994
33. Panchenko, A. R., Luthey-Schulten, Z., and Wolynes, P. G. (1996) Proc. Natl. Acad. Sci. U. S. A. 93, 2008-2013
34. Panchenko, A. R., Luthey-Schulten, Z., Cole, R., and Wolynes, P. G. (1997) J. Mol. Biol. 272, 95-105
35. Chavez, L. L., Gosavi, S., Jennings, P. A., and Onuchic, J. N. (2006) Proc. Natl. Acad. Sci. U. S. A. 103, 10254-10258
36. Ferreiro, D. U., Cho, S. S., Komives, E. A., and Wolynes, P. G. (2005) J. Mol. Biol. 354, 679-692
37. Werbeck, N. D., and Itzhaki, L. S. (2007) Proc. Natl. Acad. Sci. U. S. A. 104, 7863-7868
38. Lowe, A. R., and Itzhaki, L. S. (2007) Proc. Natl. Acad. Sci. U. S. A. 104, 2679-2684
39. Chen, J., Wang, J., and Wang, W. (2004) Proteins 57, 153-171
40. Weikl, T. R., and Dill, K. A. (2003) J. Mol. Biol. 332, 953-963
41. Weikl, T. R. (2008) Arch. Biochem. Biophys. 469, 67-75
42. Ferreiro, D. U., and Komives, E. A. (2007) Proc. Natl. Acad. Sci. U. S. A. 104, 7735-7736
43. Ferguson, N., Johnson, C. M., Macias, M., Oschkinat, H., and Fersht, A. (2001) Proc. Natl. Acad. Sci. U. S. A. 98, 13002-13007
44. Matthews, J. M., and Fersht, A. R. (1995) Biochemistry 34, 6805-6814
45. Otzen, D. E., and Oliveberg, M. (2002) J. Mol. Biol. 317, 613-627