Biochemical characterization of the transcriptional regulator BzdR from Azoarcus sp. CIB

Journal of Biological Chemistry

Volumn 285, Issue 46, 2010, Pages 35694-35705

  Durante Rodríguez, Gonzalo ^a,c   Valderrama, J Andrés ^a   Mancheño, José Miguel ^b   Rivas, Germán ^a   Alfonso, Carlos ^a   Arias Palomo, Ernesto ^a   Llorca, Oscar ^a   García, José Luis ^a   Díaz, Eduardo ^a   Carmona, Manuel ^a  

^a CENTRO DE INVESTIGACIONES BIOLÓGICAS   (Spain)

^b CSIC   (Spain)

^c CENTRO NACIONAL DE BIOTECNOLOGÍA   (Spain)

Author keywords

[No Author keywords available]

Indexed keywords

ANAEROBIC CATABOLISM; ANALYTICAL ULTRACENTRIFUGATION; BIOCHEMICAL CHARACTERIZATION; CONFORMATIONAL CHANGE; DNA BINDING; DNA BINDING DOMAIN; GEL RETARDATION; IN-VITRO; LINKER REGION; N-AND C-TERMINAL DOMAINS; OLIGOMERIC STATE; PROTEIN DIMERIZATION; STRUCTURAL RELATIONSHIP; THREE-DIMENSIONAL RECONSTRUCTION; TRANSCRIPTIONAL REGULATOR; ULTRACENTRIFUGATION EXPERIMENTS;

CENTRIFUGATION; CONFORMATIONS; DIMERIZATION; PROTEINS;

THREE DIMENSIONAL;

DNA; HOMODIMER; OLIGOMER; PROTEIN BZDR; PROTEIN BZDR4; PROTEIN BZDR5; REGULATOR PROTEIN; UNCLASSIFIED DRUG;

AMINO TERMINAL SEQUENCE; ARTICLE; AZOARCUS; CARBOXY TERMINAL SEQUENCE; CONFORMATIONAL TRANSITION; CONTROLLED STUDY; DIMERIZATION; IN VITRO STUDY; MUTANT; NONHUMAN; PRIORITY JOURNAL; PROMOTER REGION; PROTEIN DNA BINDING; PROTEIN DOMAIN; PROTEIN FUNCTION; PROTEIN STRUCTURE; TRANSCRIPTION REGULATION;

ACYL COENZYME A; AMINO ACID SEQUENCE; AZOARCUS; BACTERIAL PROTEINS; BINDING SITES; DNA, BACTERIAL; GENE EXPRESSION REGULATION, BACTERIAL; MICROSCOPY, ELECTRON; MODELS, MOLECULAR; MOLECULAR SEQUENCE DATA; MUTATION; PROMOTER REGIONS, GENETIC; PROTEIN BINDING; PROTEIN CONFORMATION; PROTEIN MULTIMERIZATION; TRANS-ACTIVATORS;

AZOARCUS SP. CIB;

EID: 78149269806     PISSN: 00219258     EISSN: 1083351X     Source Type: Journal    
DOI: 10.1074/jbc.M110.143503     Document Type: Article

References (64)

1. Gibson, J. S., and Harwood, C. (2002) Annu. Rev. Microbiol. 56, 345-369
2. Lovley, D. R. (2003) Nat. Rev. Microbiol. 1, 35-44
3. Carmona, M., Zamarro, M. T., Blázquez, B., Durante- Rodríguez, G., Juárez, J. F., Valderrama, J. A., Barragán, M. J., García, J. L., and Díaz, E. (2009) Microbiol. Mol. Biol. Rev. 73, 71-133
4. Harwood, C. S., Burchhardt, G., Herrmann, H., and Fuchs, G. (1999) FEMS Microbiol. Rev. 22, 439-458
5. López Barragán, M. J., Carmona, M., Zamarro, M. T., Thiele, B., Boll, M., Fuchs, G., García, J. L., and Díaz, E. (2004) J. Bacteriol. 186, 5762-5774
6. Durante-Rodríguez, G., Zamarro, M. T., García, J. L., Díaz, E., and Carmona, M. (2008) Microbiology 154, 306-316
7. Barragán, M. J., Blázquez, B., Zamarro, M. T., Mancheño, J. M., García, J. L., Díaz, E., and Carmona, M. (2005) J. Biol. Chem. 280, 10683-10694
8. Wintjens, R., and Rooman, M. (1996) J. Mol. Biol. 262, 294-313
9. Ptashne, M., Backman, K., Humayun, M. Z., Jefferey, A., Maurer, R., Meyer, B., and Sauer, R. T. (1976) Science 194, 156-161
10. Roberts, T. M., Shimatake, H., Brady, C., and Rosenberg, M. (1977) Nature 270, 274-275
11. Sauer, R. T., Yocum, R. R., Doolittle, R. F., Lewis, M., and Pabo, C. O. (1982) Nature 298, 447-451
12. Gaur, N. K., Oppenheim, J., and Smith, I. (1991) J. Bacteriol. 173, 678-686
13. McGeehan, J. E., Streeter, S. D., Papapanagiotou, Fox, G. C., and Kneale, G. G. (2005) J. Mol. Biol. 346, 689-701
14. Tao, T., Bourne, J. C., and Blumenthal, R. M. (1991) J. Bacteriol. 173, 1367-1375
15. Lewis, R. J., Brannigan, J. A., Offen, W. A., Smith, I., and Wilkinson, A. J. (1998) J. Mol. Biol. 283, 907-912
16. Koudelka, G. B. (1998) Nucleic Acids Res. 26, 669-675
17. Hoffman, E. C., Reyes, H., Chu, F. F., Sander, F., Conley, L. H., Brooks, B. A., and Hankinson, O. (1991) Science 252, 954-958
18. LeFevre, K. R., and Cordes, M. H. (2003) Proc. Natl. Acad. Sci. U.S.A. 100, 2345-2350
19. Cervin, M. A., Lewis, R. J., Brannigan, J. A., and Spiegelman, G. B. (1998) Nucleic Acids Res. 26, 3806-3812
20. Vogels, G. D., and Van der Drift, C. (1976) Bacteriol. Rev. 40, 403-468
21. Gan, J., Gu, Y., Li, Y., Yan, H., and Ji, X. (2006) Biochemistry 45, 8539-8545
22. Krell, T., Coggins, J. R., and Lapthorn, A. J. (1998) J. Mol. Biol. 278, 983-997
23. Saraste, M., Sibbald, P. R., and Wittinghofer, A. (1990) Trends Biochem. Sci. 15, 430-434
24. Gu, Y., Reshetnikova, L., Li, Y., Wu, Y., Yan, H., Singh, S., and Ji, X. (2002) J. Mol. Biol. 319, 779-789
25. Gescher, J., Zaar, A., Mohamed, M., Schägger, H., and Fuchs, G. (2002) J. Bacteriol. 184, 6301-6315
26. Sambrook, J., and Rusell, D. W. (2001) Molecular Cloning: A Laboratory Manual, 3rd Ed., Cold Spring Harbor Laboratory Press, Cold Spring Harbor, NY
27. Laemmli, U. K. (1970) Nature 227, 680-685
28. Altschul, S. F., Gish, W., Miller, W., Myers, E. W., and Lipman, D. J. (1990) J. Mol. Biol. 215, 403-410
29. Cole, C., Barber, J. D., and Barton, G. J. (2008) Nucleic Acids Res. 36, W197-W201
30. Schuck, P. (2000) Biophys. J. 78, 1606-1619
31. van Holde, K. E. (1985) Physical Biochemistry, 2nd Ed., Prentice-Hall, Englewood Cliffs, NJ
32. Laue, T. M., Shah, B. D., Ridgeway, T. M., and Pelletier, S. L. (1992) Analytical Ultracentrifugation in Biochemistry and Polymer Science, pp. 90-125, Royal Society of Chemistry, Cambridge, UK
33. Howlett, G. J., and Davidson, B. E. (2000) Methods Enzymol. 323, 231-254
34. Cole, J. L. (2004) Methods Enzymol. 384, 212-232
35. Rivas, G., Stafford, W., and Minton, A. P. (1999) Methods 19, 194-212
36. Hatters, D. M., Minton, A. P., and Howlett, G. J. (2002) J. Biol. Chem. 277, 7824-7830
37. Mindell, J. A., and Grigorieff, N. (2003) J. Struct. Biol. 142, 334-347
38. Heymann, J. B., and Belnap, D. M. (2007) J. Struct. Biol. 157, 3-18
39. Ludtke, S. J., Baldwin, P. R., and Chiu, W. (1999) J. Struct. Biol. 128, 82-97
40. Sorzano, C. O., Marabini, R., Velázquez-Muriel, J., Bilbao-Castro, J. R., Scheres, S. H., Carazo, J. M., and Pascual-Montano, A. (2004) J. Struct. Biol. 148, 194-204
41. Pettersen, E. F., Goddard, T. D., Huang, C. C., Couch, G. S., Greenblatt, D. M., Meng, E. C., and Ferrin, T. E. (2004) J. Comput. Chem. 25, 1605-1612
42. Wriggers, W., Milligan, R. A., and McCammon, J. A. (1999) J. Struct. Biol. 125, 185-195
43. Chacón, P., and Wriggers, W. (2002) J. Mol. Biol. 317, 375-384
44. Russell, A. D., and Hopwood, D. (1976) Prog. Med. Chem. 13, 271-301
45. Schujman, G. E., Guerin, M., Buschiazzo, A., Schaeffer, F., Llarrull, L. I., Reh, G., Vila, A. J., Alzari, P. M., and de Mendoza, D. (2006) EMBO J. 25, 4074-4083
46. Teodorescu, O., Galor, T., Pillardy, J., and Elber, R. (2004) Proteins 54, 41-48
47. Maxam, A. M., and Gilbert, W. (1980) Methods Enzymol. 65, 499-560
48. Carmona, M., and Magasanik, B. (1996) J. Mol. Biol. 261, 348-356
49. Kiley, P. J., and Reznikoff, W. S. (1991) J. Bacteriol. 173, 16-22
50. Vénien-Bryan, C., Schertler, G. F., Thouvenin, E., and Courty, S. (2000) J. Mol. Biol. 296, 863-871
51. Larquet, E., Schreiber, V., Boisset, N., and Richet, E. (2004) J. Mol. Biol. 343, 1159-1169
52. Lakowicz, J. R., Kierdaszuk, B., Callis, P., Malak, H., and Gryczynski, I. (1995) Biophys. Chem. 56, 263-271
53. Manso, I., Torres, B., Andreu, J. M., Menéndez, M., Rivas, G., Alfonso, C., Díaz, E., García, J. L., and Galán, B. (2009) J. Biol. Chem. 284, 21218-21228
54. Clark, T. J., Phillips, R. S., Bundy, B. M., Momany, C., and Neidle, E. L. (2004) J. Bacteriol. 186, 1200-1204
55. Tishkov, V. I., Galkin, A. G., and Egorov, A. M. (1991) Dokl. Akad. Nauk. SSSR 317, 745-748
56. Lamzin, V. S., Aleshin, A. E., Strokopytov, B. V., Yukhnevich, M. G., Popov, V. O., Harutyunyan, E. H., and Wilson, K. S. (1992) Eur. J. Biochem. 206, 441-452
57. Krissinel, E., and Henrick, K. (2007) J. Mol. Biol. 372, 774-797
58. Weiss, M. A., Pabo, C. O., Karplus, M., and Sauer, R. T. (1987) Biochemistry 26, 897-904
59. Burz, D. S., Beckett, D., Benson, N., and Ackers, G. K. (1994) Biochemistry 33, 8399-8405
60. Argos, P. (1990) J. Mol. Biol. 211, 943-958
61. Wootton, J. C., and Drummond, M. H. (1989) Protein Eng. 2, 535-543
62. Mattison, K., Oropeza, R., and Kenney, L. J. (2002) J. Biol. Chem. 277, 32714-32721
63. Ely, B., and Pittard, J. (1979) J. Bacteriol. 138, 933-943
64. Vonrhein, C., Schlauderer, G. J., and Schulz, G. E. (1995) Structure 3, 483-490