Evolutionary bridges to new protein folds: Design of C-terminal Cro protein chameleon sequences

Protein Engineering, Design and Selection

Volumn 24, Issue 9, 2011, Pages 765-771

  Anderson, William J ^a   Van Dorn, Laura O ^a   Ingram, Wendy M ^a   Cordes, Matthew H J ^a  

^a The University of Arizona   (United States)

Author keywords

chameleon sequence; NMR spectroscopy; protein design

Indexed keywords

AMINO ACID SEQUENCE; C-TERMINAL REGIONS; CHAMELEON SEQUENCE; CHEMICAL SHIFT ANALYSIS; CORRELATION SPECTRA; EVOLUTIONARY TRANSITIONS; N-TERMINALS; NATURALLY OCCURRING; PROTEIN DESIGN; PROTEIN FOLDS; PROTEIN STRUCTURES; SECONDARY STRUCTURES; SEQUENCE ALIGNMENTS; SINGLE SEQUENCES; SUBDOMAIN; WELL-ORDERED STRUCTURE;

CHEMICAL ANALYSIS; CONFORMATIONS; DICHROISM; NUCLEAR MAGNETIC RESONANCE SPECTROSCOPY; PROTEIN FOLDING; TRANSCRIPTION FACTORS;

DESIGN;

DNA BINDING PROTEIN; PROTEIN CRO; UNCLASSIFIED DRUG;

ARTICLE; CARBON NUCLEAR MAGNETIC RESONANCE; CARBOXY TERMINAL SEQUENCE; CIRCULAR DICHROISM; DENATURATION; DIMERIZATION; NUCLEAR MAGNETIC RESONANCE SPECTROSCOPY; PRIORITY JOURNAL; PROTEIN CONFORMATION; PROTEIN FOLDING; PROTON NUCLEAR MAGNETIC RESONANCE; THERMOSTABILITY;

AMINO ACID SEQUENCE; EVOLUTION, MOLECULAR; MODELS, MOLECULAR; MOLECULAR SEQUENCE DATA; NUCLEAR MAGNETIC RESONANCE, BIOMOLECULAR; PROTEIN CONFORMATION; PROTEIN ENGINEERING; PROTEIN FOLDING; REPRESSOR PROTEINS; SEQUENCE ALIGNMENT; VIRAL REGULATORY AND ACCESSORY PROTEINS;

EID: 80052326726     PISSN: 17410126     EISSN: 17410134     Source Type: Journal    
DOI: 10.1093/protein/gzr027     Document Type: Article

References (37)

1. Albright, R.A. and Matthews, B.W. (1998) J Mol. Biol., 280, 137-151.
2. Alexander, P.A., He, Y., Chen, Y., Orban, J. and Bryan, P.N. (2007) Proc. Natl Acad. Sci. USA, 104, 11963-11968.
3. Alexander, P.A., He, Y., Chen, Y., Orban, J. and Bryan, P.N. (2009) Proc. Natl Acad. Sci. USA, 106, 21149-21154.
4. Ambroggio, X.I. and Kuhlman, B. (2006a) J. Am. Chem. Soc., 128, 1154-1161.
5. Ambroggio, X.I. and Kuhlman, B. (2006b) Curr. Opin. Struct. Biol., 16, 525-530.
6. Becktel, W.J. and Schellman, J.A. (1987) Biopolymers, 26, 1859-1877.
7. Berjanskii, M.V. and Wishart, D.S. (2007) Nucleic Acids Res., 35, W531-537.
8. Bryan, P.N. and Orban, J. (2010) Curr. Opin. Struct. Biol., 20, 482-488.
9. Cordes, M.H., Burton, R.E., Walsh, N.P., McKnight, C.J. and Sauer, R.T. (2000) Nat. Struct. Biol., 7, 1129-1132.
10. Dubrava, M.S., Ingram, W.M., Roberts, S.A., Weichsel, A., Montfort, W.R. and Cordes, M.H. (2008) Protein Sci., 17, 803-812.
11. Guo, J.T., Jaromczyk, J.W. and Xu, Y. (2007) Proteins, 67, 548-558.
12. Hill, R.B. and DeGrado, W.F. (2000) Structure, 8, 471-479.
13. Jones, D.T. (1999) J. Mol. Biol., 292, 195-202.
14. LeFevre, K.R. and Cordes, M.H. (2003) Proc. Natl Acad. Sci. USA, 100, 2345-2350.
15. Luo, X., Tang, Z., Xia, G., Wassmann, K., Matsumoto, T., Rizo, J. and Yu, H. (2004) Nat. Struct. Mol. Biol., 11, 338-345.
16. Meier, S. and Ozbek, S. (2007) Bioessays, 29, 1095-1104.
17. Meier, S., Jensen, P.R., David, C.N., Chapman, J., Holstein, T.W., Grzesiek, S. and Ozbek, S. (2007) Curr. Biol., 17, 173-178.
18. Meyerguz, L., Kleinberg, J. and Elber, R. (2007) Proc. Natl Acad. Sci. USA, 104, 11627-11632.
19. Mezei, M. (1998) Protein Eng., 11, 411-414.
20. Minor, D.L., Jr. and Kim, P.S. (1996) Nature, 380, 730-734.
21. Murzin, A.G. (2008) Science, 320, 1725-1726.
22. Myers, J.K., Pace, C.N. and Scholtz, J.M. (1995) Protein Sci., 4, 2138-2148.
23. Newlove, T., Konieczka, J.H. and Cordes, M.H. (2004) Structure, 12, 569-581.
24. Newlove, T., Atkinson, K.R., Van Dorn, L.O. and Cordes, M.H. (2006) Biochemistry, 45, 6379-6391.
25. Ohlendorf, D.H., Tronrud, D.E. and Matthews, B.W. (1998) J. Mol. Biol., 280, 129-136.
26. Pakula, A.A. and Sauer, R.T. (1990) Nature, 344, 363-364.
27. Roessler, C.G., Hall, B.M., Anderson, W.J., Ingram, W.M., Roberts, S.A., Montfort, W.R. and Cordes, M.H. (2008) Proc. Natl Acad. Sci. USA, 105, 2343-2348.
28. Schwarzinger, S., Kroon, G.J., Foss, T.R., Wright, P.E. and Dyson, H.J. (2000) J. Biomol. NMR, 18, 43-48.
29. Tidow, H., Lauber, T., Vitzithum, K., Sommerhoff, C.P., Rosch, P. and Marx, U.C. (2004) Biochemistry, 43, 11238-11247.
30. Tuinstra, R.L., Peterson, F.C., Kutlesa, S., Elgin, E.S., Kron, M.A. and Volkman, B.F. (2008) Proc. Natl Acad. Sci. USA, 105, 5057-5062.
31. Van Dorn, L.O., Newlove, T., Chang, S., Ingram, W.M. and Cordes, M.H. (2006) Biochemistry, 45, 10542-10553.
32. Vuister, G.W. and Bax, A. (1993) J. Am. Chem. Soc., 115, 7772-7777.
33. Wang, A. and Bolen, D.W. (1997) Biochemistry, 36, 9101-9108.
34. West, M.W. and Hecht, M.H. (1995) Protein Sci., 4, 2032-2039.
35. Wishart, D.S., Bigam, C.G., Yao, J., Abildgaard, F., Dyson, H.J., Oldfield, E., Markley, J.L. and Sykes, B.D. (1995) J. Biomol. NMR, 6, 135-140.
36. Yadid, I., Kirshenbaum, N., Sharon, M., Dym, O. and Tawfik, D.S. (2010) Proc. Natl Acad. Sci. USA, 107, 7287-7292.
37. Yoon, S., Welsh, W.J., Jung, H. and Yoo, Y.D. (2007) Comput. Biol. Chem., 31, 373-377.