Physical and functional interactions between Escherichia coli MutL and the Vsr repair endonuclease

Nucleic Acids Research

Volumn 37, Issue 13, 2009, Pages 4453-4463

  Heinze, Roger J ^a   Giron Monzon, Luis ^a   Solovyova, Alexandra ^b   Elliot, Sarah L ^b   Geisler, Sven ^a   Cupples, Claire G ^c   Connolly, Bernard A ^b   Friedhoff, Peter ^a  

^a JUSTUS LIEBIG UNIVERSITY   (Germany)

^b NEWCASTLE UNIVERSITY   (United Kingdom)

^c UNIVERSITY OF VICTORIA   (Canada)

Author keywords

[No Author keywords available]

Indexed keywords

ADENOSINE TRIPHOSPHATE; ENDONUCLEASE; NUCLEIC ACID BINDING PROTEIN; PROTEIN MUTL; PROTEIN VSR; UNCLASSIFIED DRUG;

ARTICLE; BINDING AFFINITY; BINDING COMPETITION; CONTROLLED STUDY; CROSS LINKING; DNA CLEAVAGE; DNA SEQUENCE; ENZYME ACTIVATION; ESCHERICHIA COLI; MISMATCH REPAIR; NONHUMAN; PRIORITY JOURNAL; PROTEIN ANALYSIS; PROTEIN EXPRESSION; PROTEIN FUNCTION; PROTEIN HYDROLYSIS; PROTEIN LOCALIZATION; PROTEIN PROTEIN INTERACTION; PROTEIN PURIFICATION; SEDIMENTATION RATE; ULTRACENTRIFUGATION;

ADENOSINE TRIPHOSPHATASES; CROSS-LINKING REAGENTS; DNA MISMATCH REPAIR; DNA REPAIR ENZYMES; DNA-BINDING PROTEINS; ENDODEOXYRIBONUCLEASES; ESCHERICHIA COLI PROTEINS; MUTS DNA MISMATCH-BINDING PROTEIN; PHOTOCHEMICAL PROCESSES; PROTEIN STRUCTURE, TERTIARY; ULTRACENTRIFUGATION;

ESCHERICHIA COLI;

EID: 67949091127     PISSN: 03051048     EISSN: 13624962     Source Type: Journal    
DOI: 10.1093/nar/gkp380     Document Type: Article

References (52)

1. Slupphaug,G., Kavli,B. and Krokan,H.E. (2003) The interacting pathways for prevention and repair of oxidative DNA damage. Mutat. Res., 531, 231-251.
2. Bai,H. and Lu,A.L. (2007) Physical and functional interactions between Escherichia coli MutY glycosylase and mismatch repair protein MutS. J. Bacteriol., 189, 902-910.
3. York,S.J. and Modrich,P. (2006) Mismatch repair-dependent iterative excision at irreparable O6-methylguanine lesions in human nuclear extracts. J. Biol. Chem., 281, 22674-22683.
4. Bhagwat,A.S. and Connolly,B. (2006) In Siede, W., Kow, Y.W. and Doetsch,P.W. (eds), DNA Damage Recognition. Marcel Dekker Inc, New York, pp. 476-492.
5. Yang,W. (2006) Poor base stacking at DNA lesions may initiate recognition by many repair proteins. DNA Repair, 5, 654-666.
6. Hennecke,F., Kolmar,H., Brundl,K. and Fritz,H.J. (1991) The vsr gene product of E. coli K-12 is a strand- and sequence-specific DNA mismatch endonuclease. Nature, 353, 776-778.
7. Iyer,R.R., Pluciennik,A., Burdett,V. and Modrich,P.L. (2006) DNA mismatch repair: Functions and mechanisms. Chem. Rev., 106, 302-323.
8. Lieb,M. and Bhagwat,A.S. (1996) Very short patch repair: Reducing the cost of cytosine methylation. Mol. Microbiol., 20, 467-473.
9. Lieb,M. (1991) Spontaneous mutation at a 5-methylcytosine hotspot is prevented by very short patch (VSP) mismatch repair. Genetics, 128, 23-27.
10. Petropoulos,L., Vidmar,J.J., Passi,E. and Cupples,C.G. (1994) A simple assay for monitoring the mutagenic effects of 5-methylcytosine deamination in Escherichia coli. Mut. Res., 304, 181-185.
11. Bell,D.C. and Cupples,C.G. (2001) Very-short-patch repair in Escherichia coli requires the dam adenine methylase. J. Bacteriol. 183, 3631-3635.
12. Jones,M., Wagner,R. and Radman,M. (1987) Mismatch repair and recombination in E. coli. Cell, 50, 621-626.
13. Lieb,M. (1987) Bacterial genes mutL, mutS, and dcm participate in repair of mismatches at 5-methylcytosine sites. J. Bacteriol., 169, 5241-5246.
14. Zell,R. and Fritz,H.J. (1987) DNA mismatch-repair in Escherichia coli counteracting the hydrolytic deamination of 5-methyl-cytosine residues. EMBO J., 6, 1809-1815.
15. Macintyre,G., Doiron,K.M. and Cupples,C.G. (1997) The Vsr endonuclease of Escherichia coli: An efficient DNA repair enzyme and a potent mutagen. J. Bacteriol., 179, 6048-6052.
16. Lieb,M., Rehmat,S. and Bhagwat,A.S. (2001) Interaction of MutS and Vsr: some dominant-negative mutS mutations that disable methyladenine-directed mismatch repair are active in very-short-patch repair. J. Bacteriol., 183, 6487-6490.
17. Macintyre,G., Pitsikas,P. and Cupples,C.G. (1999) Growth phase-dependent regulation of Vsr endonuclease may contribute to 5-methylcytosine mutational hot spots in Escherichia coli. J. Bacteriol., 181 4435-4436.
18. Feng,G., Tsui,H.C. and Winkler,M.E. (1996) Depletion of the cellular amounts of the MutS and MutH methyl-directed mismatch repair proteins in stationary-phase Escherichia coli K-12 cells. J. Bacteriol., 178, 2388-2396.
19. Tsui,H.C., Feng,G. and Winkler,M.E. (1997) Negative regulation of mutS and mutH repair gene expression by the Hfq and RpoS global regulators of Escherichia coli K-12. J. Bacteriol., 179, 7476-7487.
20. Mansour,C.A., Doiron,K.M. and Cupples,C.G. (2001) Characterization of functional interactions among the Escherichia coli mismatch repair proteins using a bacterial two-hybrid assay. Mutat. Res., 485 331-338.
21. Monastiriakos,S.K., Doiron,K.M., Siponen,M.I. and Cupples,C.G. (2004) Functional interactions between the MutL and Vsr proteins of Escherichia coli are dependent on the N-terminus of Vsr. DNA Repair, 3, 639-647.
22. Drotschmann,K., Aronshtam,A., Fritz,H.J. and Marinus,M.G. (1998) The Escherichia coli MutL protein stimulates binding of Vsr and MutS to heteroduplex DNA. Nucleic Acids Res., 26, 948-953.
23. Rye,P.T., Delaney,J.C., Netirojjanakul,C., Sun,D.X., Liu,J.Z. and Essigmann,J.M. (2008) Mismatch repair proteins collaborate with methyltransferases in the repair of O(6)-methylguanine. DNA Repair 7, 170-176.
24. Ban,C., Junop,M. and Yang, W. (1999) Transformation of MutL by ATP binding and hydrolysis: A switch in DNA mismatch repair. Cell, 97, 85-97.
25. Giron-Monzon,L., Manelyte,L., Ahrends,R., Kirsch,D., Spengler,B. and Friedhoff,P. (2004) Mapping protein-protein interactions between MutL and MutH by cross-linking. J. Biol. Chem., 279, 49338-49345.
26. Loh,T., Murphy,K.C. and Marinus,M.G. (2001) Mutational analysis of the MutH protein from Escherichia coli. J. Biol. Chem., 276, 12113-12119.
27. Cupples,C.G. and Macintyre,G. (2000) The E. coli Vsr endonuclease. Assaying activity in vitro and in vivo. Methods Mol. Biol., 152, 63-73.
28. Turner,D.P. and Connolly,B.A. (2000) Interaction of the E. coli DNA G:T-mismatch endonuclease (vsr protein) with oligonucleotides containing its target sequence. J. Mol. Biol., 304, 765-778.
29. Manelyte,L., Urbanke,C., Giron-Monzon,L. and Friedhoff,P. (2006) Structural and functional analysis of the MutS C-terminal tetramerization domain. Nucleic Acids Res., 34, 5270-5279.
30. Elliott,S.L., Brazier,J., Cosstick,R. and Connolly,B.A. (2005) Mechanism of the Escherichia coli DNA T:G-mismatch endonuclease (Vsr protein) probed with thiophosphate-containing oligodeoxynucleotides. J. Mol. Biol., 353, 692-703.
31. Schuck,P. (2003) On the analysis of protein self-association by sedimentation velocity analytical ultracentrifugation. Anal. Biochem. 320, 104-124.
32. Brown,P.H. and Schuck,P. (2006) Macromolecular size-and-shape distributions by sedimentation velocity analytical ultracentrifugation. Biophys. J., 90, 4651-4661.
33. Wang,H. and Hays,J.B. (2001) Simple and rapid preparation of gapped plasmid DNA for incorporation of oligomers containing specific DNA lesions. Mol. Biotechnol., 19, 133-140.
34. Thomas,E., Pingoud,A. and Friedhoff,P. (2002) An efficient method for the preparation of long heteroduplex DNA as substrate for mismatch repair by the Escherichia coli MutHLS system. Biol. Chem., 383, 1459-1462.
35. Kirsch,R.D. and Joly,E. (1998) An improved PCR-mutagenesis strategy for two-site mutagenesis or sequence swapping between related genes. Nucleic Acids Res., 26, 1848-1850.
36. Garcia De La Torre,J., Huertas,M.L. and Carrasco,B. (2000) Calculation of hydrodynamic properties of globular proteins from their atomic-level structure. Biophys. J., 78, 719-730.
37. Ban,C. and Yang, W. (1998) Crystal structure and ATPase activity of MutL: Implications for DNA repair and mutagenesis. Cell, 95, 541-552.
38. Doiron,K.M., Viau,S., Koutroumanis,M. and Cupples,C.G. (1996) Overexpression of vsr in Escherichia coli is mutagenic. J. Bacteriol., 178, 4294-4296.
39. Hall,M.C., Jordan,J.R. and Matson,S.W. (1998) Evidence for a physical interaction between the Escherichia coli methyl- directed mismatch repair proteins MutL and UvrD. EMBO J., 17, 1535-1541.
40. Bhagwat,A.S. and Lieb,M. (2002) Cooperation and competition in m 'ismatch repair: Very short-patch repair and methyl-directed mismatch repair in Escherichia coli. Mol. Microbiol., 44, 1421-1428.
41. Kosinski,J., Steindorf,I., Bujnicki,J.M., Giron-Monzon,L. and Friedhoff,P. (2005) Analysis of the quaternary structure of the MutL C-terminal domain. J. Mol. Biol., 351, 895-909.
42. Lahue,R.S., Su,S.S. and Modrich,P. (1987) Requirement for d(GATC) sequences in Escherichia coli mutHLS mismatch correction. Proc. Natl Acad. Sci. USA, 84, 1482-1486.
43. Robertson,A.B., Pattishall,S.R., Gibbons,E.A. and Matson,S.W. (2006) MutL-catalyzed ATP hydrolysis is required at a post-UvrD loading step in methyl-directed mismatch repair. J. Biol. Chem., 281, 19949-19959.
44. Junop,M.S., Yang,W., Funchain,P., Clendenin,W. and Miller,J.H. (2003) In vitro and in vivo studies of MutS, MutL and MutH mutants: Correlation of mismatch repair and DNA recombination. DNA Repair, 2, 387-405.
45. Pearl,L.H. and Prodromou,C. (2006) Structure and mechanism of the Hsp90 molecular chaperone machinery. Annu. Rev. Biochem., 75, 271-294.
46. Ahrends,R., Kosinski,J., Kirsch,D., Manelyte,L., Giron-Monzon,L., Hummerich,L., Schulz,O., Spengler,B. and Friedhoff,P. (2006) Identifying an interaction site between MutH and the C-terminal domain of MutL by crosslinking, affinity purification, chemical coding and mass spectrometry. Nucleic Acids Res., 34, 3169-3180.
47. Li,G.M. (2008) Mechanisms and functions of DNA mismatch repair. Cell Res., 18, 85-98.
48. Bruni,R., Martin,D. and Jiricny,J. (1988) d(GATC) sequences influence Escherichia coli mismatch repair in a distance-dependent manner from positions both upstream and downstream of the mismatch. Nucleic Acids Res., 16, 4875-4890.
49. Polosina, Y.Y., Mui,J., Pitsikas,P. and Cupples,C.G. (2009) The Escherichia coli mismatch repair protein MutL recruits the Vsr and MutH endonucleases in response to DNA damage. J. Bacteriol. doi:101128/JB.00066-09.
50. Laging,M., Lindner,E., Fritz,H.J. and Kramer,W. (2003) Repair of hydrolytic DNA deamination damage in thermophilic bacteria: Cloning and characterization of a Vsr endonuclease homolog from Bacillus stearothermophilus. Nucleic Acids Res., 31, 1913-1920.
51. Pruitt,K.D., Tatusova,T. and Maglott,D.R. (2007) NCBI reference sequences (RefSeq): A curated non-redundant sequence database of genomes, transcripts and proteins. Nucleic Acids Res., 35, D61-D65.
52. Tsutakawa,S.E., Jingami,H. and Morikawa,K. (1999) Recognition of a TG mismatch: The crystal structure of very short patch repair endonuclease in complex with a DNA duplex. Cell, 99, 615-623.