Crystal structure of the peptidase domain of Streptococcus ComA, a bifunctional ATP-binding cassette transporter involved in the quorum-sensing pathway

Journal of Biological Chemistry

Volumn 285, Issue 14, 2010, Pages 10777-10785

  Ishii, Seiji ^a   Yano, Takato ^a   Ebihara, Akio ^b,d   Okamoto, Akihiro ^c   Manzoku, Miho ^b   Hayashi, Hideyuki ^a  

^a OSAKA MEDICAL COLLEGE   (Japan)

^b Harima Institute ^*  (Japan)

^c TOKAI UNIVERSITY   (Japan)

^d GIFU UNIVERSITY   (Japan)

Author keywords

[No Author keywords available]

Indexed keywords

ACTIVE SITE; AMPHIPATHIC; ATP-BINDING CASSETTE TRANSPORTERS; BACTERIOCINS; BIFUNCTIONAL; CLEAVAGE SITES; CONCAVE SURFACE; CYSTEINE PROTEASE; DUAL MODES; MUTATIONAL EXPERIMENTS; N-TERMINAL HELIX; N-TERMINALS; PROPEPTIDES; QUORUM-SENSING; STREPTOCOCCUS MUTANS; SUBSTRATE RECOGNITION; SUBSTRATE SPECIFICITY; THREE-DIMENSIONAL CRYSTALS;

AMINO ACIDS; COMPLEXATION; ORGANIC ACIDS; THREE DIMENSIONAL;

CRYSTAL STRUCTURE;

ABC TRANSPORTER; CARRIER PROTEIN; PEPTIDASE; PROTEIN COMA; PROTEIN COMC; UNCLASSIFIED DRUG;

AMINO ACID SEQUENCE; ARTICLE; BINDING SITE; CONTROLLED STUDY; CRYSTAL STRUCTURE; ENZYME ACTIVE SITE; ENZYME STRUCTURE; MUTATION; PRIORITY JOURNAL; QUORUM SENSING; STREPTOCOCCUS; STRUCTURAL HOMOLOGY;

ATP-BINDING CASSETTE TRANSPORTERS; BACTERIAL PROTEINS; CIRCULAR DICHROISM; CRYSTALLOGRAPHY, X-RAY; MODELS, MOLECULAR; MUTAGENESIS, SITE-DIRECTED; MUTATION; PEPTIDE HYDROLASES; PROTEIN CONFORMATION; PROTEIN STRUCTURE, TERTIARY; QUORUM SENSING; SIGNAL TRANSDUCTION; STREPTOCOCCUS; SUBSTRATE SPECIFICITY;

STREPTOCOCCUS; STREPTOCOCCUS MUTANS;

EID: 77951235672     PISSN: 00219258     EISSN: 1083351X     Source Type: Journal    
DOI: 10.1074/jbc.M109.093781     Document Type: Article

References (47)

1. Fuqua, W. C., Winans, S. C., and Greenberg, E. P. (1994) J. Bacteriol. 176, 269-275
2. Fuqua, C., Parsek, M. R., and Greenberg, E. P. (2001) Annu. Rev. Genet. 35, 439-468
3. Miller, M. B., and Bassler, B. L. (2001) Annu. Rev. Microbiol. 55, 165-199
4. Greenberg, E. P. (2003) J. Clin. Invest. 112, 1288-1290
5. Kleerebezem, M., and Quadri, L. E. (2001) Peptides 22, 1579-1596
6. Cvitkovitch, D. G., Li, Y. H., and Ellen, R. P. (2003) J. Clin. Invest. 112, 1626-1632
7. Costerton, J. W., Stewart, P. S., and Greenberg, E. P. (1999) Science 284, 1318-1322
8. Li, Y. H., Tang, N., Aspiras, M. B., Lau, P. C., Lee, J. H., Ellen, R. P., and Cvitkovitch, D. G. (2002) J. Bacteriol. 184, 2699-2708
9. Gilmore, K. S., Srinivas, P., Akins, D. R., Hatter, K. L., and Gilmore, M. S. (2003) Infect. Immun. 71, 4759-4766
10. Petersen, F. C., Pecharki, D., and Scheie, A. A. (2004) J. Bacteriol. 186, 6327-6331
11. Raina, S., De Vizio, D., Odell, M., Clements, M., Vanhulle, S., and Keshavarz, T. (2009) Biotechnol. Appl. Biochem. 54, 65-84
12. Williams, P. (2007) Microbiology 153, 3923-3938
13. Watson, W. T., Minogue, T. D., Val, D. L., von Bodman, S. B., and Churchill, M. E. (2002) Mol. Cell 9, 685-694
14. Gould, T. A., Schweizer, H. P., and Churchill, M. E. (2004) Mol. Microbiol. 53, 1135-1146
15. Jahan, N., Potter, J. A., Sheikh, M. A., Botting, C. H., Shirran, S. L., Westwood, N. J., and Taylor, G. L. (2009) J. Mol. Biol. 392, 763-773
16. Luo, P., Li, H., and Morrison, D. A. (2004) Mol. Microbiol. 54, 172-183
17. Håvarstein, L. S., Diep, D. B., and Nes, I. F. (1995) Mol. Microbiol. 16, 229-240
18. Wu, K. H., and Tai, P. C. (2004) J. Biol. Chem. 279, 901-909
19. Ishii, S., Yano, T., and Hayashi, H. (2006) J. Biol. Chem. 281, 4726-4731
20. Kotake, Y., Ishii, S., Yano, T., Katsuoka, Y., and Hayashi, H. (2008) Biochemistry 47, 2531-2538
21. Rawlings, N. D., Morton, F. R., Kok, C. Y., Kong, J., and Barrett, A. J. (2008) Nucleic Acids Res. 36, D320-D325
22. Hendrickson, W. A., Horton, J. R., and LeMaster, D. M. (1990) EMBO J. 9, 1665-1672
23. Ueno, G., Kanda, H., Hirose, R., Ida, K., Kumasaka, T., and Yamamoto, M. (2006) J. Struct. Funct. Genomics 7, 15-22
24. Otwinowski, Z., and Minor, W. (1997) Methods Enzymol. 276, 307-326
25. Pape, T., and Schneider, T. R. (2004) J. Appl. Crystallogr. 37, 843-844
26. Adams, P. D., Grosse-Kunstleve, R. W., Hung, L. W., Ioerger, T. R., McCoy, A. J., Moriarty, N. W., Read, R. J., Sacchettini, J. C., Sauter, N. K., and Terwilliger, T. C. (2002) Acta Crystallogr. D. Biol. Crystallogr. 58, 1948-1954
27. Perrakis, A., Morris, R., and Lamzin, V. S. (1999) Nat. Struct. Biol. 6, 458-463
28. McRee, D. E. (1999) J. Struct. Biol. 125, 156-165
29. 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., and Warren, G. L. (1998) Acta Crystallogr. D. Biol. Crystallogr. 54, 905-921
30. Collaborative Computational Project Number 4 (CCP4) (1994) Acta Crystallogr. D. Biol. Crystallogr. 50, 760-763
31. DeLano, W. L. (2002) The PyMOL Molecular Graphics System, DeLano Scientific LLC, San Carlos, CA
32. Humphrey, W., Dalke, A., and Schulten, K. (1996) J. Mol. Graph. 14, 33-38
33. Dolinsky, T. J., Czodrowski, P., Li, H., Nielsen, J. E., Jensen, J. H., Klebe, G., and Baker, N. A. (2007) Nucleic Acids Res. 35, W522-W525
34. Li, H., Robertson, A. D., and Jensen, J. H. (2005) Proteins 61, 704-721
35. Phillips, J. C., Braun, R., Wang, W., Gumbart, J., Tajkhorshid, E., Villa, E., Chipot, C., Skeel, R. D., Kalé, L., and Schulten, K. (2005) J. Comput. Chem. 26, 1781-1802
36. MacKerell, A. D., Bashford, D., Bellot, M., Dunbrack, R. L., Evanseck, J. D., Field, M. J., Fischer, S., Gao, J., Guo, H., Ha, S., et al. (1998) J. Phys. Chem. B 102, 3586-3616
37. Jorgensen, W. L., Chandrasekhar, J., Madura, J. D., Imprey, R. W., and Klein, M. L. (1983) J. Chem. Phys. 79, 926-935
38. Darden, T. A., York, D. M., and Pedersen, L. G. (1993) J. Chem. Phys. 98, 10089-10092
39. Ryckaert, J., Ciccotti, G., and Berendsen, H. (1977) J. Comput. Phys. 23, 327-341
40. Schlick, T., Skeel, R. D., Brunger, A. T., Kale, L. V., Hermans, J., Schulten, K., and Board, J. A. (1999) J. Comput. Phys. 151, 9-48
41. Zhang, Y., Feller, S. E., Brooks, B. R., and Pastor, R. W. (1995) J. Chem. Phys. 103, 10252-10266
42. Ye, Y., and Godzik, A. (2004) Nucleic Acids Res. 32, W582-W585
43. Pettit, F. K., Bare, E., Tsai, A., and Bowie, J. U. (2007) J. Mol. Biol. 369, 863-879
44. Johnston, S. C., Riddle, S. M., Cohen, R. E., and Hill, C. P. (1999) EMBO J. 18, 3877-3887
45. Nicastro, G., Menon, R. P., Masino, L., Knowles, P. P., McDonald, N. Q., and Pastore, A. (2005) Proc. Natl. Acad. Sci. U.S.A. 102, 10493-10498
46. Polgár, L. (1974) FEBS Lett. 47, 15-18
47. Laskowski, R. A., Chistyakov, V. V., and Thornton, J. M. (2005) Nucleic Acids Res. 33, D266-D268