Functional and structural aspects of helicobacter pylori acidic stress response factors

IUBMB Life

Volumn 62, Issue 10, 2010, Pages 715-723

  Zanotti, Giuseppe ^a   Cendron, Laura ^b  

^a UNIVERSITY OF PADOVA   (Italy)

^b VENETIAN INSTITUTE OF MOLECULAR MEDICINE   (Italy)

Author keywords

acid stress; gastric pathogen; Helicobacter pylori; structural biology

Indexed keywords

PROTEIN; UREASE;

ACIDITY; GENE CONTROL; HELICOBACTER PYLORI; MOLECULAR MECHANICS; NONHUMAN; PROTEIN EXPRESSION; PROTEIN FUNCTION; PROTEIN STRUCTURE; REVIEW;

ACIDS; ADAPTATION, PHYSIOLOGICAL; ANIMALS; BACTERIAL PROTEINS; GENE EXPRESSION PROFILING; GENE EXPRESSION REGULATION, BACTERIAL; HELICOBACTER PYLORI; HUMANS; HYDROGEN-ION CONCENTRATION; STOMACH; UREASE;

BACTERIA (MICROORGANISMS); HELICOBACTER PYLORI;

EID: 79951997008     PISSN: 15216543     EISSN: 15216551     Source Type: Journal    
DOI: 10.1002/iub.382     Document Type: Review

References (43)

1. Cover, T. L., and, Blaser, M. J., (1996) Helicobacter pylori infection, a paradigm for chronic mucosal inflammation: pathogenesis and implications for eradication and prevention. Adv. Intern. Med. 41, 85-117. (Pubitemid 126816483)
2. Covacci, A., Telford, J. L., Del Giudice, G., Parsonnet, J., and, Rappuoli, R., (1999) Helicobacter pylori virulence and genetic geography. Science 284, 1328-1333. (Pubitemid 29289653)
3. Cover, T. L., and, Blaser, M. J., (2009) Helicobacter pylori in health and disease. Gastroenterology 136, 1863-1873.
4. Foster, J. W., (1999) When protons attack: microbial strategies of acid adaptation. Curr. Opin. Microbiol. 2, 170-174. (Pubitemid 29176941)
5. Schade, C., Flemstrom, G., and, Holm, L., (1994) Hydrogen ion concentration in the mucus layer on top of acid-stimulated and -inhibited rat gastric mucosa. Gastroenterology 107, 180-188. (Pubitemid 24195360)
6. Sachs, G., Weeks, D. L., Melchers, K., and, Scott, D. R., (2003) The gastric biology of Helicobacter pylori. Annu. Rev. Physiol. 65, 349-369. (Pubitemid 38249158)
7. Wen, Y., Marcus, E. A., Matrubutham, U., Gleeson, M. A., Scott, D. R., and, Sachs, G., (2003) Acid-adaptive genes of Helicobacter pylori. Infect. Immun. 71, 5921-5939. (Pubitemid 37205645)
8. Huynh, K. K., and, Grinstein, S., (2007) Regulation of vacuolar pH and its modulation by some microbial species. Microbiol. Mol. Biol. Rev. 71, 452-462. (Pubitemid 47429280)
9. Tomb, J. F., White, O., Kerlavage, A. R., Clayton, R. A., Sutton, G. G., Fleischmann, R. D., Ketchum, K. A., Klenk, H. P., Gill, S., Dougherty, B. A., Nelson, K., Quackenbush, J., Zhou, L., Kirkness, E. F., Peterson, S., Loftus, B., Richardson, D., Dodson, R., Khalak, H. G., Glodek, A., McKenney, K., Fitzegerald, L. M., Lee, N., Adams, M. D., Hickey, E. K., Berg, D. E., Gocayne, J. D., Utterback, T. R., Peterson, J. D., Kelley, J. M., Cotton, M. D., Weidman, J. M., Fujii, C., Bowman, C., Watthey, L., Wallin, E., Hayes, W. S., Borodovsky, M., Karp, P. D., Smith, H. O., Fraser, C. M., and, Venter, J. C., (1997) The complete genome sequence of the gastric pathogen Helicobacter pylori. Nature 388, 539-547. (Pubitemid 27339996)
10. Allan, E., Clayton, C. L., McLaren, A., Wallace, D. M., and, Wren, B. W., (2001) Characterization of the low-pH responses of Helicobacter pylori using genomic DNA arrays. Microbiology 147, 2285-2292. (Pubitemid 32785508)
11. Ang, S., Lee, C. Z., Peck, K., Sindici, M., Matrubutham, U., Gleeson, M. A., and, Wang, J. T., (2001) Acid-induced gene expression in Helicobacter pylori: study in genomic scale by microarray. Infect. Immun. 69, 1679-1686. (Pubitemid 32187625)
12. Bury-Mone, S., Thiberge, J. M., Contreras, M., Maitournam, A., Labigne, A., and, De Reuse, H., (2004) Responsiveness to acidity via metal ion regulators mediates virulence in the gastric pathogen Helicobacter pylori. Mol. Microbiol. 53, 623-638. (Pubitemid 38998180)
13. Merrell, D. S., Goodrich, M. L., Otto, G., Tompkins, L. S., and, Falkow, S., (2003) pH-regulated gene expression of the gastric pathogen Helicobacter pylori. Infect. Immun. 71, 3529-3539. (Pubitemid 36637582)
14. Toledo, H., Valenzuela, M., Rivas, A., and, Jerez, C. A., (2002) Acid stress response in Helicobacter pylori. FEMS Microbiol. Lett. 213, 67-72. (Pubitemid 34804519)
15. Shao, C., Zhang, Q., Tang, W., Qu, W., Zhou, Y., Sun, Y., Yu, H., and, Jia, J., (2008) The changes of proteomes components of Helicobacter pylori in response to acid stress without urea. J. Microbiol. 46, 331-337. (Pubitemid 351951123)
16. Dong, Q., Hyde, D., Herra, C., Kean, C., Murphy, P., O'Morain, C. A., and, Buckley, M., (2001) Identification of genes regulated by prolonged acid exposure in Helicobacter pylori. FEMS Microbiol. Lett. 196, 245-249. (Pubitemid 32232268)
17. Huang, C. H., Lee, I. L., Yeh, I. J., Liao, J. H., Ni, C. L., Wu, S. H., and, Chiou, S. H., (2010) Upregulation of a non-heme iron-containing ferritin with dual ferroxidase and DNA-binding activities in Helicobacter pylori under acid stress. J. Biochem. 147, 535-543.
18. Eaton, K. A., Brooks, C. L., Morgan, D. R., and, Krakowka, S., (1991) Essential role of urease in pathogenesis of gastritis induced by Helicobacter pylori in gnotobiotic piglets. Infect. Immun. 59, 2470-2475.
19. Foster, J. W., (1999) When protons attack: microbial strategies of acid adaptation. Curr. Opin. Microbiol. 2, 170-174. (Pubitemid 29176941)
20. Weeks, D. L., Eskandari, S., Scott, D. R., and, Sachs, G., (2000) A H+-gated urea channel: the link between Helicobacter pylori urease and gastric colonization. Science 287, 482-485.
21. Marcus, E. A., Moshfegh, A. P., Sachs, G., and, Scott, D. R., (2005) The periplasmic alpha-carbonic anhydrase activity of Helicobacter pylori is essential for acid acclimation. J. Bacteriol. 187, 729-738. (Pubitemid 40096259)
22. Ha, N. C., Oh, S. T., Sung, J. Y., Cha, K. A., Lee, M. H., and, Oh, B. H., (2001) Supramolecular assembly and acid resistance of Helicobacter pylori urease. Nat. Struct. Biol. 8, 505-509. (Pubitemid 32525008)
23. Lam, R., Romanov, V., Johns, K., Battaile, K. P., Wu-Brown, J., Guthrie, J. L., Hausinger, R. P., Pai, E. F., and, Chirgadze, N. Y., (2010) Crystal structure of a truncated urease accessory protein UreF from Helicobacter pylori. Proteins 78, 2839-2848
24. Shi, R., Munger, C., Asinas, A., Benoit, S. L., Miller, E., Matte, A., Maier, R. J., and, Cygler, M., (2010) Crystal Structures of Apo and Metal-Bound Forms of the UreE Protein from Helicobacter pylori: role of Multiple Metal Binding Sites. Biochemistry 49, 7080-7088.
25. Huang, S., Xue, Y., Sauer-Eriksson, E., Chirica, L., Lindskog, S., and, Jonsson, B. H., (1998) Crystal structure of carbonic anhydrase from Neisseria gonorrhoeae and its complex with the inhibitor acetazolamide. J. Mol. Biol. 283, 301-310. (Pubitemid 28466658)
26. Bahlawane, C., Dian, C., Muller, C., Round, A., Fauquant, C., Schauer, K., de Reuse, H., Terradot, L., and, Michaud-Soret, I., (2010) Structural and mechanistic insights into Helicobacter pylori NikR activation. Nucleic Acids Res. 38, 3106-3118.
27. van Vliet, A. H., Ernst, F. D., and, Kusters, J. G., (2004) NikR-mediated regulation of Helicobacter pylori acid adaptation. Trends Microbiol. 12, 489-494. (Pubitemid 39370730)
28. Dian, C., Schauer, K., Kapp, U., McSweeney, S. M., Labigne, A., and, Terradot, L., (2006) Structural basis of the nickel response in Helicobacter pylori: crystal structures of HpNikR in Apo and nickel-bound states. J. Mol. Biol. 361, 715-730. (Pubitemid 44175384)
29. Hung, C. L., Liu, J. H., Chiu, W. C., Huang, S. W., Hwang, J. K., and, Wang, W. C., (2007) Crystal structure of Helicobacter pylori formamidase AmiF reveals a cysteine-glutamate-lysine catalytic triad. J. Biol. Chem. 282, 12220-12229.
30. Andrade, J., Karmali, A., Carrondo, M. A., and, Frazao, C., (2007) Structure of amidase from Pseudomonas aeruginosa showing a trapped acyl transfer reaction intermediate state. J. Biol. Chem. 282, 19598-19605. (Pubitemid 47100064)
31. Baker, P. J., Waugh, M. L., Wang, X. G., Stillman, T. J., Turnbull, A. P., Engel, P. C., and, Rice, D. W., (1997) Determinants of substrate specificity in the superfamily of amino acid dehydrogenases. Biochemistry 36, 16109-16115. (Pubitemid 28065025)
32. Gupta, S. S., Borin, B. N., Cover, T. L., and, Krezel, A. M., (2009) Structural analysis of the DNA-binding domain of the Helicobacter pylori response regulator ArsR. J. Biol. Chem. 284, 6536-6545.
33. Wen, Y., Feng, J., Scott, D. R., Marcus, E. A., and, Sachs, G., (2007) The HP0165-HP0166 two-component system (ArsRS) regulates acid-induced expression of HP1186 alpha-carbonic anhydrase in Helicobacter pylori by activating the pH-dependent promoter. J. Bacteriol. 189, 2426-2434. (Pubitemid 46411357)
34. Loh, J. T., and, Cover, T. L., (2006) Requirement of histidine kinases HP0165 and HP1364 for acid resistance in Helicobacter pylori. Infect. Immun. 74, 3052-3059. (Pubitemid 43673022)
35. Barnard, F. M., Loughlin, M. F., Fainberg, H. P., Messenger, M. P., Ussery, D. W., Williams, P., and, Jenks, P. J., (2004) Global regulation of virulence and the stress response by CsrA in the highly adapted human gastric pathogen Helicobacter pylori. Mol. Microbiol. 51, 15-32. (Pubitemid 38031068)
36. Ikebuchi, M., Kashiwagi, A., Asahina, T., Tanaka, Y., Takagi, Y., Nishio, Y., Hidaka, H., Kikkawa, R., and, Shigeta, Y., (1993) Effect of medium pH on glutathione redox cycle in cultured human umbilical vein endothelial cells. Metabolism 42, 1121-1126. (Pubitemid 23292687)
37. Gustafsson, T. N., Sandalova, T., Lu, J., Holmgren, A., and, Schneider, G., (2007) High-resolution structures of oxidized and reduced thioredoxin reductase from Helicobacter pylori. Acta Crystallogr. D Biol. Crystallogr. 63, 833-843. (Pubitemid 46975673)
38. Grant, R. A., Filman, D. J., Finkel, S. E., Kolter, R., and, Hogle, J. M., (1998) The crystal structure of Dps, a ferritin homolog that binds and protects DNA. Nat. Struct. Biol. 5, 294-303. (Pubitemid 28164882)
39. D'Elios, M. M., Amedei, A., Cappon, A., Del Prete, G., and, de Bernard, M., (2007) The neutrophil-activating protein of Helicobacter pylori (HP-NAP) as an immune modulating agent. FEMS Immunol. Med. Microbiol. 50, 157-164. (Pubitemid 46918654)
40. Zanotti, G., Papinutto, E., Dundon, W. G., Battistutta, R., Seveso, M., Del Giudice, G., Rappuoli, R., and, Montecucco, C., (2002) Structure of the neutrophil-activating protein from Helicobacter pylori. J. Mol. Biol. 323, 125-130. (Pubitemid 35168485)
41. Ceci, P., Mangiarotti, L., Rivetti, C., and, Chiancone, E., (2007) The neutrophil-activating Dps protein of Helicobacter pylori, HP-NAP, adopts a mechanism different from Escherichia coli Dps to bind and condense DNA. Nucleic Acids Res. 35, 2247-2256. (Pubitemid 47073712)
42. Karita, M., Tummuru, M. K., Wirth, H. P., and, Blaser, M. J., (1996) Effect of growth phase and acid shock on Helicobacter pylori cagA expression. Infect. Immun. 64, 4501-4507. (Pubitemid 26357050)
43. Sisinni, L., Cendron, L., Favaro, G., and, Zanotti, G., (2010) Helicobacter pylori acidic stress response factor HP1286 is a YceI homolog with new binding specificity. FEBS J. 277, 1896-1905.