Structural insights into the molecular mechanism of Escherichia coli SdiA, a quorum-sensing receptor

Acta Crystallographica Section D: Biological Crystallography

Volumn 70, Issue 3, 2014, Pages 694-707

  Kim, Truc ^a   Duong, Thao ^a   Wu, Chun Ai ^a   Choi, Jongkeun ^b   Lan, Nguyen ^a   Kang, Sung Wook ^a   Lokanath, Neratur K ^c   Shin, Dongwoo ^a   Hwang, Hye Yeon ^a   Kim, Kyeong Kyu ^a  

^a Sungkyunkwan University School of Medicine   (South Korea)

^b Chungwoon University   (South Korea)

^c UNIVERSITY OF MYSORE   (India)

Author keywords

Disulfide bonds; Oxidative stress; Quorum sensing; SdiA

Indexed keywords

DNA BINDING PROTEIN; ESCHERICHIA COLI PROTEIN; LIGAND; LIGASE; N ACYLHOMOSERINE LACTONE SYNTHASE; N-ACYLHOMOSERINE LACTONE SYNTHASE; SDIA PROTEIN, E COLI; TRANSACTIVATOR PROTEIN;

ARTICLE; CHEMISTRY; DISULFIDE BONDS; METABOLISM; OXIDATIVE STRESS; PROTEIN BINDING; QUORUM SENSING; SDIA; SIGNAL TRANSDUCTION; SPECIES DIFFERENCE; X RAY CRYSTALLOGRAPHY;

DISULFIDE BONDS; OXIDATIVE STRESS; QUORUM SENSING; SDIA;

CRYSTALLOGRAPHY, X-RAY; DNA-BINDING PROTEINS; ESCHERICHIA COLI PROTEINS; LIGANDS; LIGASES; PROTEIN BINDING; QUORUM SENSING; SIGNAL TRANSDUCTION; SPECIES SPECIFICITY; TRANS-ACTIVATORS;

EID: 84896781968     PISSN: 09074449     EISSN: 13990047     Source Type: Journal    
DOI: 10.1107/S1399004713032355     Document Type: Article

References (57)

1. Ahmer, B. M. (2004). Mol. Microbiol. 52, 933-945.
2. Ahmer, B. M., van Reeuwijk, J., Timmers, C. D., Valentine, P. J. & Heffron, F. (1998). J. Bacteriol. 180, 1185-1193.
3. Antelmann, H. & Helmann, J. D. (2011). Antioxid. Redox Signal. 14, 1049-1063.
4. Bottomley, M. J., Muraglia, E., Bazzo, R. & Carf, A. (2007). J. Biol. Chem. 282, 13592-13600.
5. Brugarolas, P., Movahedzadeh, F., Wang, Y., Zhang, N., Bartek, I. L., Gao, Y. N., Voskuil, M. I., Franzblau, S. G. & He, C. (2012). J. Biol. Chem. 287, 37703-37712.
6. Brünger, A. T., Adams, P. D., Clore, G. M., DeLano, W. L., Gros, P., Grosse-Kunstleve, R. W., Jiang, J.-S., Kuszewski, J., Nilges, M., Pannu, N. S., Read, R. J., Rice, L. M., Simonson, T. &Warren, G. L. (1998). Acta Cryst. D54, 905-921.
7. Chai, Y. & Winans, S. C. (2005). J. Bacteriol. 187, 1219-1226.
8. Chen, G., Swem, L. R., Swem, D. L., Stauff, D. L., O'Loughlin, C. T., Jeffrey, P. D., Bassler, B. L. & Hughson, F. M. (2011). Mol. Cell, 42, 199-209.
9. Choi, H., Kim, S., Mukhopadhyay, P., Cho, S., Woo, J., Storz, G. & Ryu, S. E. (2001). Cell, 105, 103-113.
10. Fuqua, C., Winans, S. C. & Greenberg, E. P. (1996). Annu. Rev. Microbiol. 50, 727-751.
11. Galloway, W. R., Hodgkinson, J. T., Bowden, S. D., Welch, M. & Spring, D. R. (2011). Chem. Rev. 111, 28-67.
12. Galloway, W. R., Hodgkinson, J. T., Bowden, S., Welch, M. & Spring, D. R. (2012). Trends Microbiol. 20, 449-458.
13. Greenfield, N. J. (2007). Nature Protoc. 1, 2527-2535.
14. Hughes, D. T., Terekhova, D. A., Liou, L., Hovde, C. J., Sahl, J. W., Patankar, A. V., Gonzalez, J. E., Edrington, T. S., Rasko, D. A. & Sperandio, V. (2010). Proc. Natl Acad. Sci. USA, 107, 9831-9836.
15. Humphrey, W., Dalke, A. & Schulten, K. (1996). J. Mol. Graph. 14, 33-38.
16. Janssens, J. C., Metzger, K., Daniels, R., Ptacek, D., Verhoeven, T., Habel, L. W., Vanderleyden, J., De Vos, D. E. & De Keersmaecker, S. C. (2007). Appl. Environ. Microbiol. 73, 535-544.
17. Jones, T. A., Zou, J.-Y., Cowan, S. W. & Kjeldgaard, M. (1991). Acta Cryst. A47, 110-119.
18. Joyce, M. G., Levy, C., Gá bor, K., Pop, S. M., Biehl, B. D., Doukov, T. I., Ryter, J. M., Mazon, H., Smidt, H., van den Heuvel, R. H., Ragsdale, S. W., van der Oost, J. & Leys, D. (2006). J. Biol. Chem. 281, 28318-28325.
19. Kanamaru, K., Kanamaru, K., Tatsuno, I., Tobe, T. & Sasakawa, C. (2000). Mol. Microbiol. 38, 805-816.
20. Laskowski, R. A., MacArthur, M. W., Moss, D. S. & Thornton, J. M. (1993). J. Appl. Cryst. 26, 283-291.
21. Lee, J., Jayaraman, A. & Wood, T. K. (2007). BMC Microbiol. 7, 42.
22. Levy, C., Pike, K., Heyes, D. J., Joyce,M. G., Gabor, K., Smidt, H., van der Oost, J. & Leys, D. (2008). Mol. Microbiol. 70, 151-167.
23. Lintz, M. J., Oinuma, K., Wysoczynski, C. L., Greenberg, E. P. & Churchill, M. E. (2011). Proc. Natl Acad. Sci. USA, 108, 15763-15768.
24. Marketon, M. M., Gronquist, M. R., Eberhard, A. & Gonzá lez, J. E. (2002). J. Bacteriol. 184, 5686-5695.
25. Michael, B., Smith, J. N., Swift, S., Heffron, F. & Ahmer, B. M. (2001). J. Bacteriol. 183, 5733-5742.
26. Miller, M. B. & Bassler, B. L. (2001). Annu. Rev. Microbiol. 55, 165-199.
27. Murshudov, G. N., Skubá k, P., Lebedev, A. A., Pannu, N. S., Steiner, R. A., Nicholls, R. A., Winn, M. D., Long, F. & Vagin, A. A. (2011). Acta Cryst. D67, 355-367.
28. Nasser, W. & Reverchon, S. (2007). Anal. Bioanal. Chem. 387, 381-390.
29. Nealson, K. H. & Hastings, J. W. (1979). Microbiol. Rev. 43, 496-518.
30. Newberry, K. J., Fuangthong, M., Panmanee, W., Mongkolsuk, S. & Brennan, R. G. (2007). Mol. Cell, 28, 652-664.
31. Otwinowski, Z. & Minor,W. (1997). Methods Enzymol. 276, 307-326.
32. Rahmati, S., Yang, S., Davidson, A. L. & Zechiedrich, E. L. (2002). Mol. Microbiol. 43, 677-685.
33. Rasmussen, T. B. & Givskov, M. (2006). Int. J. Med. Microbiol. 296, 149-161.
34. Ravichandiran, V., Shanmugam, K., Anupama, K., Thomas, S. & Princy, A. (2012). Eur. J. Med. Chem. 48, 200-205.
35. Sabag-Daigle, A., Soares, J. A., Smith, J. N., Elmasry, M. E. & Ahmer, B. M. (2012). Appl. Environ. Microbiol. 78, 5424-5431.
36. Sidote, D. J., Barbieri, C. M., Wu, T. & Stock, A. M. (2008). Structure, 16, 727-735.
37. Sitnikov, D. M., Schineller, J. B. & Baldwin, T. O. (1996). Proc. Natl Acad. Sci. USA, 93, 336-341.
38. Skilbeck, C. A., Pumbwe, L. & Wexler, H. M. (2009). Current Trends in Antibiotic Resistance in Infectious Diseases, edited by A. U. Khan, pp. 1-24. New Delhi: I. K. International Publishing House.
39. Smith, J. N., Dyszel, J. L., Soares, J. A., Ellermeier, C. D., Altier, C., Lawhon, S. D., Adams, L. G., Konjufca, V., Curtiss, R. III, Slauch, J. M. & Ahmer, B. M. (2008). PLoS One, 3, e2826.
40. Sperandio, V. (2010). Gut Microbes, 1, 432-435.
41. Sun, F., Liang, H., Kong, X., Xie, S., Cho, H., Deng, X., Ji, Q., Zhang, H., Alvarez, S., Hicks, L. M., Bae, T., Luo, C., Jiang, H. & He, C. (2012). Proc. Natl Acad. Sci. USA, 109, 9095-9100.
42. Suzuki, K., Wang, X., Weilbacher, T., Pernestig, A. K., Melefors, O., Georgellis, D., Babitzke, P. & Romeo, T. (2002). J. Bacteriol. 184, 5130-5140.
43. Terwilliger, T. C. (2000). Acta Cryst. D56, 965-972.
44. Terwilliger, T. C. (2003). Acta Cryst. D59, 38-44.
45. Terwilliger, T. C. & Berendzen, J. (1999). Acta Cryst. D55, 849-861.
46. Vagin, A. & Teplyakov, A. (2010). Acta Cryst. D66, 22-25.
47. Van Houdt, R., Aertsen, A., Moons, P., Vanoirbeek, K. & Michiels, C. W. (2006). FEMS Microbiol. Lett. 256, 83-89.
48. Vannini, A., Volpari, C., Gargioli, C., Muraglia, E., Cortese, R., De Francesco, R., Neddermann, P. & Marco, S. D. (2002). EMBO J. 21, 4393-4401.
49. Wang, X. D., de Boer, P. A. & Rothfield, L. I. (1991). EMBO J. 10, 3363-3372.
50. Wei, Y., Lee, J. M., Smulski, D. R. & LaRossa, R. A. (2001). J. Bacteriol. 183, 2265-2272.
51. Whitehead, N. A., Barnard, A. M., Slater, H., Simpson, N. J. & Salmond, G. P. (2001). FEMS Microbiol. Rev. 25, 365-404.
52. Wu, C., Lokanath, N. K., Kim, D. Y., Nguyen, L. D. N. & Kim, K. K. (2008). Acta Cryst. F64, 19-21.
53. Yamamoto, K., Yata, K., Fujita, N. & Ishihama, A. (2001). Mol. Microbiol. 41, 1187-1198.
54. Yao, Y., Martinez-Yamout, M. A., Dickerson, T. J., Brogan, A. P., Wright, P. E. & Dyson, H. J. (2006). J. Mol. Biol. 355, 262-273.
55. Zhang, R.-G., Pappas, K. M., Pappas, T., Brace, J. L., Miller, P. C., Oulmassov, T., Molyneaux, J. M., Anderson, J. C., Bashkin, J. K., Winans, S. C. & Joachimiak, A. (2002). Nature (London), 417, 971-974.
56. Zhu, J. & Winans, S. C. (1999). Proc. Natl Acad. Sci. USA, 96, 4832-4837.
57. Zhu, J. & Winans, S. C. (2001). Proc. Natl Acad. Sci. USA, 98, 1507-1512.