ATP-dependent RecG helicase is required for the transcriptional regulator OxyR function in Pseudomonas species

Journal of Biological Chemistry

Volumn 287, Issue 29, 2012, Pages 24492-24504

  Yeom, Jinki ^a   Lee, Yunho ^a   Park, Woojun ^a  

^a Korea University   (South Korea)

Author keywords

[No Author keywords available]

Indexed keywords

BACTERIAL TRANSCRIPTION; HELICASE GENES; HELICASES; IN-VITRO; P.AERUGINOSA; PALINDROMIC; PSEUDOMONAS AERUGINOSA; PSEUDOMONAS PUTIDA; PSEUDOMONAS SPECIES; SINGLE-STRAND BINDING PROTEIN; TETRAMERS; TRANSCRIPTIONAL FUNCTIONS; TRANSCRIPTIONAL REGULATOR; TRANSCRIPTOMES;

BACTERIA; ESCHERICHIA COLI; GENES; METAL IONS; OLIGOMERS;

TRANSCRIPTION;

ADENOSINE TRIPHOSPHATE; CRUCIFORM DNA; DIMER; MAGNESIUM ION; OXYR PROTEIN; PALINDROMIC DNA; RECG HELICASE; REGULATOR PROTEIN; TETRAMER; UNCLASSIFIED DRUG;

ARTICLE; BACTERIAL GENE; BINDING SITE; CONTROLLED STUDY; DNA STRUCTURE; ESCHERICHIA COLI; GENE EXPRESSION REGULATION; IN VITRO STUDY; NONHUMAN; OXIDATIVE STRESS; OXYR GENE; PRIORITY JOURNAL; PROMOTER REGION; PROTEIN BINDING; PSEUDOMONAS; PSEUDOMONAS AERUGINOSA; PSEUDOMONAS PUTIDA; RECG GENE; REGULON; TRANSCRIPTION INITIATION; TRANSCRIPTOMICS; TRXB GENE;

ADENOSINE TRIPHOSPHATE; BACTERIAL PROTEINS; BLOTTING, NORTHERN; DNA HELICASES; ELECTROPHORETIC MOBILITY SHIFT ASSAY; GENE EXPRESSION REGULATION, BACTERIAL; PSEUDOMONAS AERUGINOSA; PSEUDOMONAS PUTIDA; REVERSE TRANSCRIPTASE POLYMERASE CHAIN REACTION; TRANS-ACTIVATORS;

BACTERIA (MICROORGANISMS); ESCHERICHIA COLI; PSEUDOMONAS; PSEUDOMONAS AERUGINOSA; PSEUDOMONAS PUTIDA;

EID: 84863798009     PISSN: 00219258     EISSN: 1083351X     Source Type: Journal    
DOI: 10.1074/jbc.M112.356964     Document Type: Article

References (36)

1. Imlay, J. A. (2008) Cellular defenses against superoxide and hydrogen peroxide. Annu. Rev. Biochem. 77, 755-776
2. Zheng, M., Wang, X., Templeton, L. J., Smulski, D. R., LaRossa, R. A., and Storz, G. (2001) DNA microarray-mediated transcriptional profiling of the Escherichia coli response to hydrogen peroxide. J. Bacteriol. 183, 4562-4570 (Pubitemid 32646006)
3. Lee, C., Lee, S. M., Mukhopadhyay, P., Kim, S. J., Lee, S. C., Ahn, W. S., Yu, M. H., Storz, G., and Ryu, S. E. (2004) Redox regulation of OxyR requires specific disulfide bond formation involving a rapid kinetic reaction path. Nat. Struct. Mol. Biol. 11, 1179-1185
4. Zaim, J., and Kierzek, A. M. (2003) The structure of full-length LysR-type transcriptional regulators. Modeling of the full-length OxyR transcription factor dimer. Nucleic Acids Res. 31, 1444-1454 (Pubitemid 36304906)
5. Rudolph, C. J., Upton, A. L., Briggs, G. S., and Lloyd, R. G. (2010) Is RecG a general guardian of the bacterial genome? DNA Repair 9, 210-223
6. Sharples, G. J., Ingleston, S. M., and Lloyd, R. G. (1999) Holliday junction processing in bacteria: insights from the evolutionary conservation of RuvABC, RecG, and RusA. J. Bacteriol. 181, 5543-5550 (Pubitemid 29437122)
7. Hall, M. C., and Matson, S. W. (1999) Helicase motifs: The engine that powers DNA unwinding. Mol. Microbiol. 34, 867-877 (Pubitemid 30000306)
8. Gregg, A. V., McGlynn, P., Jaktaji, R. P., and Lloyd, R. G. (2002) Direct rescue of stalled DNA replication forks via the combined action of PriA and RecG helicase activities. Mol. Cell 9, 241-251 (Pubitemid 34195551)
9. Briggs, G. S., Mahdi, A. A., Wen, Q., and Lloyd, R. G. (2005) DNA binding by the substrate specificity (wedge) domain of RecG helicase suggests a role in processivity. J. Biol. Chem. 280, 13921-13927 (Pubitemid 40517292)
10. Rudolph, C. J., Upton, A. L., Harris, L., and Lloyd, R. G. (2009) Pathological replication in cells lacking RecG DNA translocase. Mol. Microbiol. 73, 352-366
11. Ren, B., Duan, X., and Ding, H. (2009) Redox control of the DNA damage-inducible protein DinG helicase activity via its iron-sulfur cluster. J. Biol. Chem. 284, 4829-4835
12. Voloshin, O. N., and Camerini-Otero, R. D. (2007) The DinG protein from Escherichia coli is a structure-specific helicase. J. Biol. Chem. 282, 18437-18447 (Pubitemid 47100196)
13. Kurahashi, H., Inagaki, H., Yamada, K., Ohye, T., Taniguchi, M., Emanuel, B. S., and Toda, T. (2004) CruciformDNAstructure underlies the etiology for palindrome-mediated human chromosomal translocations. J. Biol. Chem. 279, 35377-35383 (Pubitemid 39100537)
14. Yeom, S., Yeom, J., and Park, W. (2010) Molecular characterization of FinR, a novel redox-sensing transcriptional regulator in Pseudomonas putida KT2440. Microbiology 156, 1487-1496
15. Kang, J. G., Hahn, M. Y., Ishihama, A., and Roe, J. H. (1997) Identification of σ factors for growth phase-related promoter selectivity of RNA polymerases from Streptomyces coelicolor A3(2). Nucleic Acids Res. 25, 2566-2573 (Pubitemid 27298150)
16. Ochsner, U. A., Vasil, M. L., Alsabbagh, E., Parvatiyar, K., and Hassett, D. J. (2000) Role of the Pseudomonas aeruginosa oxyR-recG operon in oxidative stress defense and DNA repair: OxyR-dependent regulation of katB-ankB, ahpB, and ahpC-ahpF. J. Bacteriol. 182, 4533-4544 (Pubitemid 30599817)
17. Imlay, J. A. (2006) Iron-sulfur clusters and the problem with oxygen. Mol. Microbiol. 59, 1073-1082
18. Park, W., Peña-Llopis, S., Lee, Y., and Demple, B. (2006) Regulation of superoxide stress in Pseudomonas putida KT2440 is different from the SoxR paradigm in Escherichia coli. Biochem. Biophys. Res. Commun. 341, 51-56 (Pubitemid 43117385)
19. Cadman, C. J., and McGlynn, P. (2004) PriA helicase and SSB interact physically and functionally. Nucleic Acids Res. 32, 6378-6387 (Pubitemid 40202096)
20. Costes, A., Lecointe, F., McGovern, S., Quevillon-Cheruel, S., and Polard, P. (2010) The C-terminal domain of the bacterial SSB protein acts as a DNA maintenance hub at active chromosome replication forks. PLoS Genet. 6, e1001238
21. Singleton, M. R., Scaife, S., and Wigley, D. B. (2001) Structural analysis of DNA replication fork reversal by RecG. Cell 107, 79-89 (Pubitemid 32972039)
22. McGlynn, P., and Lloyd, R. G. (1999) RecG helicase activity at three- and four-strand DNA structures. Nucleic Acids Res. 27, 3049-3056 (Pubitemid 29355717)
23. Vologodskaia, M. Y., and Vologodskii, A. V. (1999) Effect of magnesium on cruciform extrusion in supercoiled DNA. J. Mol. Biol. 289, 851-859 (Pubitemid 29306654)
24. Shida, T., Iwasaki, H., Saito, A., Kyogoku, Y., and Shinagawa, H. (1996) Analysis of substrate specificity of the RuvC holliday junction resolvase with synthetic Holliday junctions. J. Biol. Chem. 271, 26105-26109 (Pubitemid 26347452)
25. Knapp, G. S., Tsai, J. W., and Hu, J. C. (2009) The oligomerization of OxyR in Escherichia coli. Protein Sci. 18, 101-107
26. Zeller, T., and Klug, G. (2004) Detoxification of hydrogen peroxide and expression of catalase genes in Rhodobacter. Microbiology 150, 3451-3462 (Pubitemid 39406213)
27. Brown, S. D., Thompson, M. R., Verberkmoes, N. C., Chourey, K., Shah, M., Zhou, J., Hettich, R. L., and Thompson, D. K. (2006) Molecular dynamics of the Shewanella oneidensis response to chromate stress. Mol. Cell Proteomics 5, 1054-1071 (Pubitemid 43985930)
28. Zhao, J. J., Chen, C., Zhang, L. P., and Hu, C. Q. (2009) Cloning, identification, and characterization of the rpoS-like σ factor rpoX from Vibrio alginolyticus. J. Biomed. Biotechnol. 2009, 126986
29. Kumar, J. K., Tabor, S., and Richardson, C. C. (2004) Proteomic analysis of thioredoxin-targeted proteins in Escherichia coli. Proc. Natl. Acad. Sci. U.S.A. 101, 3759-3764 (Pubitemid 38381051)
30. Kaan, T., Homuth, G., Mäder, U., Bandow, J., and Schweder, T. (2002) Genome-wide transcriptional profiling of the Bacillus subtilis cold-shock response. Microbiology 148, 3441-3455 (Pubitemid 35414455)
31. Hishinuma, S., Ohtsu, I., Fujimura, M., and Fukumori, F. (2008) OxyR is involved in the expression of thioredoxin reductase TrxB in Pseudomonas putida. FEMS Microbiol. Lett. 289, 138-145
32. Huang, Y. H., Lee, Y. L., and Huang, C. Y. (2011) Characterization of a single-stranded DNA binding protein from Salmonella enterica serovar Typhimurium LT2. Protein J. 30, 102-108
33. Taylor, A. F., and Smith, G. R. (1992) RecBCD enzyme is altered upon cutting DNA at a Chi recombination hotspot. Proc. Natl. Acad. Sci. U.S.A. 89, 5226-5230
34. Dai, X., and Rothman-Denes, L. B. (1998) Sequence and DNA structural determinants of N4 virion RNA polymerase-promoter recognition. Genes Dev. 12, 2782-2790 (Pubitemid 28420657)
35. Ohara, N., Kikuchi, Y., Shoji, M., Naito, M., and Nakayama, K. (2006) Superoxide dismutase-encoding gene of the obligate anaerobe Porphyromonas gingivalis is regulated by the redox-sensing transcription activator OxyR. Microbiology 152, 955-966
36. Panmanee, W., and Hassett, D. J. (2009) Differential roles of OxyR-controlled antioxidant enzymes alkyl hydroperoxide reductase (AhpCF) and catalase (KatB) in the protection of Pseudomonas aeruginosa against hydrogen peroxide in biofilm versus planktonic culture. FEMS Microbiol. Lett. 295, 238-244