Structure of GES-1 at atomic resolution: Insights into the evolution of carbapenamase activity in the class A extended-spectrum β-lactamases

Acta Crystallographica Section D: Biological Crystallography

Volumn 63, Issue 9, 2007, Pages 982-992

  Smith, Clyde A ^a   Caccamo, Marisa ^b   Kantardjieff, Katherine A ^c   Vakulenko, Sergei ^b  

^a SLAC NATIONAL ACCELERATOR LABORATORY   (United States)

^b UNIVERSITY OF NOTRE DAME   (United States)

^c CALIFORNIA STATE UNIVERSITY   (United States)

Author keywords

lactamase; Apoenzyme; Carbapenemase; Flexible docking; Imipenem

Indexed keywords

BETA LACTAMASE; CARBAPENEM DERIVATIVE; GES 1 BETA LACTAMASE; GES-1 BETA-LACTAMASE; UNCLASSIFIED DRUG;

AMINO ACID SEQUENCE; ARTICLE; BINDING SITE; CHEMICAL STRUCTURE; CHEMISTRY; CLASSIFICATION; CRYSTALLIZATION; ENZYMOLOGY; KLEBSIELLA PNEUMONIAE; METABOLISM; MOLECULAR GENETICS; PROTEIN TERTIARY STRUCTURE; SEQUENCE HOMOLOGY; X RAY CRYSTALLOGRAPHY;

AMINO ACID SEQUENCE; BETA-LACTAMASES; BINDING SITES; CARBAPENEMS; CRYSTALLIZATION; CRYSTALLOGRAPHY, X-RAY; KLEBSIELLA PNEUMONIAE; MODELS, MOLECULAR; MOLECULAR SEQUENCE DATA; PROTEIN STRUCTURE, TERTIARY; SEQUENCE HOMOLOGY, AMINO ACID;

KLEBSIELLA PNEUMONIAE;

EID: 34548336958     PISSN: 09074449     EISSN: 13990047     Source Type: Journal    
DOI: 10.1107/S0907444907036955     Document Type: Article

References (48)

1. Ambler, R. P., Coulson, A. F.W., Frere, J.M., Ghuysen, J. M., Joris, B., Forsman, M., Levesque, R. C., Tiraby, G. & Waley, S. G. (1991). Biochem. J. 276, 269-270.
2. Bae, I. K., Lee, Y. N., Jeong, S. H., Hong, S. G., Lee, J. H., Lee, S. H., Kim, H. J. & Youn, H. (2007). Diag. Microbiol. Infect. Dis. doi:10.1016/j.diagmicrobio.2007.02.013.
3. Bartlett, J. G. (2003). Pocket Book of Infectious Disease Therapy. Baltimore: Lippincott Williams & Wilkins.
4. Chen, C. C. & Herzberg, O. (1992). J. Mol. Biol. 224, 1103-1113.
5. Chen, C. C. & Herzberg, O. (2001). Biochemistry, 40, 2351-2358.
6. Chen, Y., Delmas, J., Sirot, J., Shoichet, B. & Bonnet, R. (2005). J. Mol. Biol. 348, 349-362.
7. Collaborative Computational Project, Number 4 (1994). Acta Cryst. D50, 760-763.
8. DeLano, W. L. (2002). The PyMOL Molecular Graphics System. http://www.pymol.org.
9. Emsley, P. & Cowtan, K. (2004). Acta Cryst. D60, 2126-2132.
10. Giakkoupi, P., Tzouvelekis, L. S., Tsakris, A., Loukova, V., Sofianou, D. & Tzelepi, E. (2000). Antimicrob. Agents Chemother. 44, 2247-2253.
11. Jacoby, G. & Bush, K. (2007). Amino-Acid Sequences for TEM, SHV and OXA Extended-Spectrum and Inhibitor-Resistant β-Lactamases. http://www.lahey.org/studies/webt.asp.
12. Jelsch, C., Mourey, L., Masson, J. M. & Samama, J. P. (1993). Proteins, 16, 364-383.
13. Kabsch, W. (1993). J. Appl. Cryst. 26, 795-800.
14. Ke, W., Bethel, C. R., Thomson, J. M., Bonomo, R. A. & van den Akker, F. (2007). Biochemistry, 46, 5732-5740.
15. Knox, J. R. (1995). Antimicrob. Agents Chemother. 39, 2593-2601.
16. Knox, J. R. & Moews, P. C. (1991). J. Mol. Biol. 220, 435-455.
17. Krissinel, E. & Henrick, K. (2004). Acta Cryst. D60, 2256-2268.
18. Lee, S. H. & Jeong, S. H. (2005). Antimicrob. Agents Chemother. 49, 2148-2150.
19. Livermore, D. M. & Woodford, N. (2006). Trends Microbiol. 14, 413-420.
20. Matthews, B. W. (1968). J. Mol. Biol. 33, 491-497.
21. Maveyraud, L., Mourey, L., Kotra, L. P., Pedelacq, J. D., Guillet, V., Mobashery, S. & Samama, J. P. (1998). J. Am. Chem. Soc. 120, 9748-9752.
22. Mavroidi, A., Tzelepi, E., Tsakris, A., Miriagou, V., Sofianou, D. & Tzouvelekis, L. S. (2001). J. Antimicrob. Chemother. 48, 627-630.
23. Merritt, E. A. (1999). Acta Cryst. D55, 1109-1117.
24. Minasov, G., Wang, X. & Shoichet, B. K. (2002). J. Am. Chem. Soc. 124, 5333-5340.
25. Murray, J.W., Garman, E. F. & Ravelli, R. B. G. (2004). J. Appl. Cryst. 37, 513-522.
26. Murshudov, G. N., Vagin, A. A., Lebedev, A., Wilson, K. S. & Dodson, E. J. (1999). Acta Cryst. D55, 247-255.
27. Nukaga, M., Abe, T., Venkatesan, A. M., Mansour, T. S., Bonomo, R. A. & Knox, J. R. (2003). Biochemistry, 42, 13152-13159.
28. Nukaga, M., Mayama, K., Crichlow, G. V. & Knox, J. R. (2002). J. Mol. Biol. 317, 109-117.
29. Nukaga, M., Mayama, K., Hujer, A. M., Bonomo, R. A. & Knox, J. R. (2003). J. Mol. Biol. 328, 289-301.
30. Otwinowski, Z. & Minor, W. (1997). Methods Enzymol. 276, 307-326.
31. Owen, R. L., Rudiño-Piñera, E. & Garman, E. F. (2006). Proc. Natl Acad. Sci. USA, 103, 4912-4917.
32. Park, S., Morley, K. L., Horsman, G. P., Holmquist, M., Hult, K. & Kazlauskas, R. J. (2005). Chem. Biol. 12, 45-54.
33. Poirel, L., Brinas, L., Fortineau, N. & Nordmann, P. (2005). Antimicrobial Agents Chemother. 49, 3593-3597.
34. Poirel, L., Le Thomas, I., Naas, T., Karim, A. & Nordmann, P. (2000). Antimicrob. Agents Chemother. 44, 622-632.
35. Poirel, L., Weldhagen, G. F., Naas, T., De Champs, C., Dove, M. G. & Nordmann, P. (2001). Antimicrob. Agents Chemother. 45, 2598-2603.
36. Poole, K. (2004). Cell. Mol. Life Sci. 61, 2200-2223.
37. Schapira, M., Abagyan, R. & Totrov, M. (2003). J. Med. Chem. 46, 3045-3059.
38. Schapira, M., Raaka, B. M., Das, S., Fan, L., Totrov, M., Zhou, Z., Wilson, S. R., Abagyan, R. & Samuels, H. H. (2003). Proc. Natl Acad. Sci. USA, 100, 7354-7359.
39. Sheldrick, G. M. & Schneider, T. R. (1997). Methods Enzymol. 227, 319-343.
40. Siu, L. K. (2002). J. Microbiol. Immunol. Infect. 35, 1-11.
41. Sougakoff, W., L'Hermite, G., Pernot, L., Naas, T., Guillet, V., Nordmann, P., Jarlier, V. & Delettré, J. (2002). Acta Cryst. D58, 267-274.
42. Strynadka, N. C. J., Adachi, H., Jensen, S. E., Johns, K., Sielecki, A., Betzel, C., Sutoh, K. & James, M. N. G. (1992). Nature (London), 359, 700-705.
43. Swaren, P., Maveyraud, L., Raquet, X., Cabantous, S., Duez, C., Pedelacq, J. D., Mariotte-Boyer, S., Mourey, L., Labia, R., Nicolas-Chanoine, M. H., Nordmann, P., Frere, J.M. & Samama, J. P. (1998). J. Biol. Chem. 273, 26714-26721.
44. Tranier, S., Bouthors, A. T., Maveyraud, L., Guillet, V., Sougakoff, W. & Samama, J. P. (2000). J. Biol. Chem. 275, 28075-28082.
45. Vourli, S., Giakkoupi, P., Miriagou, V., Tzelepi, E., Vatopoulos, A. C. & Tzouvelekis, L. S. (2004). FEMS Microbiol. Lett. 234, 209-213.
46. Wachino, J., Doi, Y., Yamane, K., Shibata, N., Yagi, T., Kubota, T. & Arakawa, Y. (2004). Antimicrob. Agents Chemother. 48, 2905-2910.
47. Wachino, J., Doi, Y., Yamane, K., Shibata, N., Yagi, T., Kubota, T., Ito, H. & Arakawa, Y. (2004). Antimicrob. Agents Chemother. 48, 1960-1967.
48. Wang, X., Minasov, G. & Shoichet, B. K. (2002). Proteins, 47, 86-96.