Structures of the catalytic EAL domain of the Escherichia coli direct oxygen sensor

Acta Crystallographica Section D: Biological Crystallography

Volumn 69, Issue 6, 2013, Pages 1045-1053

  Tarnawski, Miroslaw ^a   Barends, Thomas R M ^a   Hartmann, Elisabeth ^a   Schlichting, Ilme ^a  

^a MAX PLANCK INSTITUTE FOR MEDICAL RESEARCH   (Germany)

Author keywords

cyclic di GMP; direct oxygen sensors; DosP; EAL domains; Escherichia coli; phosphodiesterases

Indexed keywords

BIS(3',5') CYCLIC DIGUANYLIC ACID; BIS(3',5')-CYCLIC DIGUANYLIC ACID; CYCLIC GMP; DRUG DERIVATIVE; ESCHERICHIA COLI PROTEIN; PHOSPHODIESTERASE;

ARTICLE; CHEMICAL STRUCTURE; CHEMISTRY; CYCLIC DI-GMP; DIRECT OXYGEN SENSORS; DOSP; EAL DOMAINS; ENZYME ACTIVE SITE; ESCHERICHIA COLI; METABOLISM; PHOSPHODIESTERASES; X RAY DIFFRACTION;

CYCLIC DI-GMP; DIRECT OXYGEN SENSORS; DOSP; EAL DOMAINS; ESCHERICHIA COLI; PHOSPHODIESTERASES;

CATALYTIC DOMAIN; CYCLIC GMP; ESCHERICHIA COLI; ESCHERICHIA COLI PROTEINS; MODELS, MOLECULAR; PHOSPHORIC DIESTER HYDROLASES; X-RAY DIFFRACTION;

BACTERIA (MICROORGANISMS); ESCHERICHIA COLI;

EID: 84878283046     PISSN: 09074449     EISSN: 13990047     Source Type: Journal    
DOI: 10.1107/S0907444913004423     Document Type: Article

References (35)

1. Adams, P. D. et al. (2010). Acta Cryst. D66, 213-221.
2. Barends, T. R., Hartmann, E., Griese, J. J., Beitlich, T., Kirienko, N. V., Ryjenkov, D. A., Reinstein, J., Shoeman, R. L., Gomelsky, M. & Schlichting, I. (2009). Nature (London), 459, 1015-1018.
3. Chen, M. W., Kotaka, M., Vonrhein, C., Bricogne, G., Rao, F., Chuah, M. L. C., Svergun, D., Schneider, G., Liang, Z.-X. & Lescar, J. (2012). J. Bacteriol. 194, 4837-4846.
4. Chin, K.-H., Kuo, W.-T., Yu, Y.-J., Liao, Y.-T., Yang, M.-T. & Chou, S.-H. (2012). Acta Cryst. D68, 1380-1392.
5. Christen, M., Christen, B., Folcher, M., Schauerte, A. & Jenal, U. (2005). J. Biol. Chem. 280, 30829-30837.
6. Delgado-Nixon, V. M., Gonzalez, G. & Gilles-Gonzalez, M. A. (2000). Biochemistry, 39, 2685-2691.
7. Di Tommaso, P., Moretti, S., Xenarios, I., Orobitg, M., Montanyola, A., Chang, J.-M., Taly, J.-F. & Notredame, C. (2011). Nucleic Acids Res. 39, W13-W17.
8. Emsley, P. & Cowtan, K. (2004). Acta Cryst. D60, 2126-2132.
9. Galperin, M. Y., Higdon, R. & Kolker, E. (2010). Mol. Biosyst. 6, 721-728.
10. Galperin, M. Y., Nikolskaya, A. N. & Koonin, E. V. (2001). FEMS Microbiol. Lett. 203, 11-21.
11. Gouet, P., Courcelle, E., Stuart, D. I. & Metoz, F. (1999). Bioinformatics, 15, 305-308.
12. Kabsch, W. (2010). Acta Cryst. D66, 125-132.
13. Krasteva, P. V., Giglio, K. M. & Sondermann, H. (2012). Protein Sci. 21, 929-948.
14. Krissinel, E. & Henrick, K. (2004). Acta Cryst. D60, 2256-2268.
15. Kurokawa, H., Lee, D.-S., Watanabe, M., Sagami, I., Mikami, B., Raman, C. S. & Shimizu, T. (2004). J. Biol. Chem. 279, 20186-20193.
16. Laskowski, R. A. (2009). Nucleic Acids Res. 37, D355-359.
17. Lechauve, C., Bouzhir-Sima, L., Yamashita, T., Marden, M. C., Vos, M. H., Liebl, U. & Kiger, L. (2009). J. Biol. Chem. 284, 36146-36159.
18. Letunic, I., Doerks, T. & Bork, P. (2012). Nucleic Acids Res. 40, D302-D305.
19. McCoy, A. J., Grosse-Kunstleve, R. W., Adams, P. D., Winn, M. D., Storoni, L. C. & Read, R. J. (2007). J. Appl. Cryst. 40, 658-674.
20. Minasov, G., Padavattan, S., Shuvalova, L., Brunzelle, J. S., Miller, D. J., Basle, A., Massa, C., Collart, F. R., Schirmer, T. & Anderson, W. F. (2009). J. Biol. Chem. 284, 13174-13184.
21. Murshudov, G. N., Skubák, 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.
22. Navarro, M. V., De, N., Bae, N., Wang, Q. & Sondermann, H. (2009). Structure, 17, 1104-1116.
23. Navarro, M. V., Newell, P. D., Krasteva, P. V., Chatterjee, D., Madden, D. R., O'Toole, G. A. & Sondermann, H. (2011). PLoS Biol. 9, e1000588.
24. Park, H., Suquet, C., Satterlee, J. D. & Kang, C. (2004). Biochemistry, 43, 2738-2746.
25. Rao, F., Qi, Y., Chong, H. S., Kotaka, M., Li, B., Li, J., Lescar, J., Tang, K. & Liang, Z.-X. (2009). J. Bacteriol. 191, 4722-4731.
26. Rao, F., Yang, Y., Qi, Y. & Liang, Z.-X. (2008). J. Bacteriol. 190, 3622-3631.
27. Römling, U. (2011). Environ. Microbiol. 14, 1817-1829.
28. Römling, U. & Amikam, D. (2006). Curr. Opin. Microbiol. 9, 218-228.
29. Ross, P., Weinhouse, H., Aloni, Y., Michaeli, D., Weinberger-Ohana, P., Mayer, R., Braun, S., de Vroom, E., van der Marel, G. A., van Boom, J. H. & Benziman, M. (1987). Nature (London), 325, 279-281.
30. Schirmer, T. & Jenal, U. (2009). Nature Rev. Microbiol. 7, 724-735.
31. Schmidt, A. J., Ryjenkov, D. A. & Gomelsky, M. (2005). J. Bacteriol. 187, 4774-4781.
32. Tanaka, A., Takahashi, H. & Shimizu, T. (2007). J. Biol. Chem. 282, 21301-21307.
33. Tchigvintsev, A., Xu, X., Singer, A., Chang, C., Brown, G., Proudfoot, M., Cui, H., Flick, R., Anderson, W. F., Joachimiak, A., Galperin, M. Y., Savchenko, A. & Yakunin, A. F. (2010). J. Mol. Biol. 402, 524-538.
34. Terwilliger, T. C. (2003). Acta Cryst. D59, 38-44.
35. Vonrhein, C., Blanc, E., Roversi, P. & Bricogne, G. (2007). Methods Mol. Biol. 364, 215-230.