Bacillus subtilis hlpb encodes a conserved stand-alone HNH nuclease-like protein that is essential for viability unless the hlpb deletion is accompanied by the deletion of genes encoding the addab DNA repair complex

Journal of Bacteriology

Volumn 194, Issue 22, 2012, Pages 6184-6194

  Pediaditakis, Miriam ^a   Kaufenstein, Miriam ^a   Graumann, Peter L ^a,b  

^a UNIVERSITY OF FREIBURG   (Germany)

^b PHILIPPS UNIVERSITY MARBURG   (Germany)

Author keywords

[No Author keywords available]

Indexed keywords

BACTERIAL PROTEIN; COBALT; DOUBLE STRANDED DNA; EXODEOXYRIBONUCLEASE V; GREEN FLUORESCENT PROTEIN; NICKEL; PROTEIN HNH; RECJ PROTEIN; SINGLE STRANDED DNA; UNCLASSIFIED DRUG; ZINC;

ADDA GENE; ADDAB GENE; ARTICLE; BACILLUS SUBTILIS; BACTERIAL CELL; BACTERIAL GENE; BACTERIAL GENOME; BACTERIAL VIABILITY; BINDING AFFINITY; CELL GROWTH; CHROMOSOME REPLICATION; CHROMOSOME SEGREGATION; COMPLEX FORMATION; DNA BINDING; DNA REPAIR; DNA SEQUENCE; GENE DELETION; HLPB GENE; NONHUMAN; OPERON; PH; PRIORITY JOURNAL; PROTEIN DOMAIN; PROTEIN EXPRESSION; PROTEIN FUNCTION; PROTEIN LOCALIZATION; PROTEIN PURIFICATION;

AMINO ACID SEQUENCE; BACILLUS SUBTILIS; BACTERIAL PROTEINS; CLONING, MOLECULAR; DNA DAMAGE; DNA REPAIR; DNA, BACTERIAL; EXODEOXYRIBONUCLEASES; GENE DELETION; GENE EXPRESSION REGULATION, BACTERIAL; MICROBIAL VIABILITY; MOLECULAR SEQUENCE DATA;

BACILLUS SUBTILIS; BACTERIA (MICROORGANISMS);

EID: 84869116787     PISSN: 00219193     EISSN: 10985530     Source Type: Journal    
DOI: 10.1128/JB.05283-11     Document Type: Article

References (40)

1. Beall B, Lutkenhaus J. 1991. FtsZ in Bacillus subtilis is required for vegetative septation and for asymmetric septation during sporulation. Genes Dev. 5:447-455.
2. Bujnicki JM, Radlinska M, Rychlewski L. 2000. Atomic model of the 5-methylcytosine-specific restriction enzyme McrA reveals an atypical zinc finger and structural similarity to betabetaalphaMe endonucleases. Mol. Microbiol. 37:1280-1281.
3. Chédin F, Handa N, Dillingham MS, Kowalczykowski SC. 2006. The AddAB helicase/nuclease forms a stable complex with its cognate chi sequence during translocation. J. Biol. Chem. 281:18610-18617.
4. Cheng YS, Hsia KC, Doudeva LG, Chak KF, Yuan HS. 2002. The crystal structure of the nuclease domain of colicin E7 suggests a mechanism for binding to double-stranded DNA by the H-N-H endonucleases. J. Mol. Biol. 324:227-236.
5. Connelly JC, Kirkham LA, Leach DR. 1998. The SbcCD nuclease of Escherichia coli is a structural maintenance of chromosomes (SMC) family protein that cleaves hairpin DNA. Proc. Natl. Acad. Sci. U. S. A. 95:7969-7974.
6. Cymerman IA, Obarska A, Skowronek KJ, Lubys A, Bujnicki JM. 2006. Identification of a new subfamily of HNH nucleases and experimental characterization of a representative member, HphI restriction endonuclease. Proteins 65:867-876.
7. Dalgaard JZ, et al. 1997. Statistical modeling and analysis of the LAGLIDADG family of site-specific endonucleases and identification of an intein that encodes a site-specific endonuclease of the HNH family. Nucleic Acids Res. 25:4626-4638.
8. +. Protein Sci. 15:269-280.
9. Drouin M, Lucas P, Otis C, Lemieux C, Turmel M. 2000. Biochemical characterization of I-CmoeI reveals that this H-N-H homing endonuclease shares functional similarities with H-N-H colicins. Nucleic Acids Res. 28:4566-4572.
10. Eastberg JH, Eklund J, Monnat R, Jr, Stoddard BL. 2007. Mutability of anHNHnuclease imidazole general base and exchange of a deprotonation mechanism. Biochemistry 46:7215-7225.
11. Feucht A, Lewis PJ. 2001. Improved plasmid vectors for the production of multiple fluorescent protein fusions in Bacillus subtilis. Gene 264:289-297.
12. Galburt EA, Stoddard BL. 2002. Catalytic mechanisms of restriction and homing endonucleases. Biochemistry 41:13851-13860.
13. Guérout-Fleury AM, Shazand K, Frandsen N, Stragier P. 1995. Antibiotic- resistance cassettes for Bacillus subtilis. Gene 167:335-336.
14. Hannan JP, et al. 2000. NMR studies of metal ion binding to the Znfinger- like HNH motif of colicin E9. J. Inorg. Biochem. 79:365-370.
15. Huang H, Yuan HS. 2007. The conserved asparagine in the HNH motif serves an important structural role in metal finger endonucleases. J. Mol. Biol. 368:812-821.
16. Jaacks KJ, Healy J, Losick R, Grossman AD. 1989. Identification and characterization of genes controlled by the sporulation regulatory gene spo0H in Bacillus subtilis. J. Bacteriol. 171:4121-4129.
17. Kidane D, Graumann PL. 2005. Dynamic formation of RecA filaments at DNA double strand break repair centers in live cells. J. Cell Biol. 170:357-366.
18. Kleanthous C, et al. 1999. Structural and mechanistic basis of immunity toward endonuclease colicins. Nat. Struct. Biol. 6:243-252.
19. Ko TP, Liao CC, Ku WY, Chak KF, Yuan HS. 1999. The crystal structure of the DNase domain of colicin E7 in complex with its inhibitor Im7 protein. Structure 7:91-102.
20. Köhler P, Marahiel MA. 1997. Association of the histone-like protein HBsu with the nucleoid of Bacillus subtilis. J. Bacteriol. 179:2060-2064.
21. Krishnamurthy M, Tadesse S, Rothmaier K, Graumann PL. 2010. A novel SMC-like protein, SbcE (YhaN), is involved in DNA double strand break repair and competence in Bacillus subtilis. Nucleic Acids Res. 38: 455-466.
22. Ku WY, et al. 2002. The zinc ion in the HNH motif of the endonuclease domain of colicin E7 is not required for DNA binding but is essential for DNA hydrolysis. Nucleic Acids Res. 30:1670-1678.
23. Landthaler M, Begley U, Lau NC, Shub DA. 2002. Two self-splicing group I introns in the ribonucleotide reductase large subunit gene of Staphylococcus aureus phage Twort. Nucleic Acids Res. 30:1935-1943.
24. Lewis PJ, Marston AL. 1999. GFP vectors for controlled expression and dual labelling of protein fusions in Bacillus subtilis. Gene 227:101-110.
25. Lindow JC, Kuwano M, Moriya S, Grossman AD. 2002. Subcellular localization of the Bacillus subtilis structural maintenance of chromosomes (SMC) protein. Mol. Microbiol. 46:997-1009.
26. Malik HS, Henikoff S. 2000. Dual recognition-incision enzymes might be involved in mismatch repair and meiosis. Trends Biochem. Sci. 25:414-418.
27. Mascarenhas J, et al. 2006. Bacillus subtilis SbcC protein plays an important role in DNA inter-strand cross-link repair. BMC Mol. Biol. 7:20. doi:10.1186/1471-2199-7-20.
28. Mascarenhas J, Soppa J, Strunnikov AV, Graumann PL. 2002. Cell cycle-dependent localization of two novel prokaryotic chromosome segregation and condensation proteins in Bacillus subtilis that interact with SMC protein. EMBO J. 21:3108-3118.
29. Moore T, McGlynn P, Ngo HP, Sharples GJ, Lloyd RG. 2003. The RdgC protein of Escherichia coli binds DNA and counters a toxic effect of RecFOR in strains lacking the replication restart protein PriA. EMBO J. 22:735-745.
30. Petit MA, et al. 1998. PcrA is an essential DNA helicase of Bacillus subtilis fulfilling functions both in repair and rolling-circle replication. Mol. Microbiol. 29:261-273.
31. Petit MA, Ehrlich D. 2002. Essential bacterial helicases that counteract the toxicity of recombination proteins. EMBO J. 21:3137-3147.
32. Pommer AJ, et al. 2001. Mechanism and cleavage specificity of the HN- H endonuclease colicin E9. J. Mol. Biol. 314:735-749.
33. Pommer AJ, et al. 1999. Homing in on the role of transition metals in the HNH motif of colicin endonucleases. J. Biol. Chem. 274:27153-27160.
34. San Filippo J, Lambowitz AM. 2002. Characterization of the C-terminal DNA-binding/DNA endonuclease region of a group II intron-encoded protein. J. Mol. Biol. 324:933-951.
35. Soufo CD, et al. 2008. Cell-cycle-dependent spatial sequestration of the DnaA replication initiator protein in Bacillus subtilis. Dev. Cell 15:935-941.
36. Sun Q, Margolin W. 2001. Influence of the nucleoid on placement of FtsZ and MinE rings in Escherichia coli. J. Bacteriol. 183:1413-1422.
37. Wach A. 1996. PCR-synthesis of marker cassettes with long flanking homology regions for gene disruptions in S. cerevisiae. Yeast 12:259-265.
38. Walker DC, et al. 2002. Mutagenic scan of the H-N-H motif of colicin E9: implications for the mechanistic enzymology of colicins, homing enzymes and apoptotic endonucleases. Nucleic Acids Res. 30:3225-3234.
39. Xu L, Marians KJ. 2003. PriA mediates DNA replication pathway choice at recombination intermediates. Mol. Cell 11:817-826.
40. Youngman PJ, Perkins JB, Losick R. 1983. Genetic transposition and insertional mutagenesis in Bacillus subtilis with Streptococcus faecalis transposon Tn917. Proc. Natl. Acad. Sci. U. S. A. 80:2305-2309.