Biochemical analysis of human PIF1 helicase and functions of its N-terminal domain

Nucleic Acids Research

Volumn 36, Issue 19, 2008, Pages 6295-6308

  Gu, Yongqing ^a,b   Masuda, Yuji ^a   Kamiya, Kenji ^a  

^a HIROSHIMA UNIVERSITY   (Japan)

^b SHIHEZI UNIVERSITY   (China)

Author keywords

[No Author keywords available]

Indexed keywords

ADENOSINE TRIPHOSPHATASE; ADENOSINE TRIPHOSPHATE; HELICASE; PETITE INTEGRATION FREQUENCY 1 PROTEIN; REPLICATION FACTOR A; SINGLE STRANDED DNA; UNCLASSIFIED DRUG;

AMINO TERMINAL SEQUENCE; ARTICLE; BINDING AFFINITY; CONTROLLED STUDY; DNA DENATURATION; DNA STRAND; DNA STRUCTURE; ENZYME ACTIVITY; ENZYME SUBSTRATE; GENE DELETION; HUMAN; HUMAN CELL; NONHUMAN; NUCLEOTIDE SEQUENCE; PRIORITY JOURNAL; PROTEIN DNA INTERACTION; PROTEIN DOMAIN; PROTEIN FUNCTION;

ADENOSINE TRIPHOSPHATASES; DNA; DNA HELICASES; DNA, SINGLE-STRANDED; HUMANS; PROTEIN STRUCTURE, TERTIARY; REPLICATION PROTEIN A; SEQUENCE DELETION;

EID: 56049120070     PISSN: 03051048     EISSN: 13624962     Source Type: Journal    
DOI: 10.1093/nar/gkn609     Document Type: Article

References (48)

1. Boulé,J.B. and Zakian,V.A. (2007) The yeast Pif1p DNA helicase preferentially unwinds RNA DNA substrates. Nucleic Acids Res., 35, 5809-5818.
2. Foury,F. and Lahaye,A. (1987) Cloning and sequencing of the PIF gene involved in repair and recombination of yeast mitochondrial DNA. EMBO J., 6, 1441-1449.
3. Futami,K., Shimamoto,A. and Furuichi,Y. (2007) Mitochondrial and nuclear localization of human Pif1 helicase. Biol. Pharm. Bull., 30, 1685-1692.
4. Huang,Y., Zhang,D.H. and Zhou,J.Q. (2006) Characterization of ATPase activity of recombinant human Pif1. Acta. Biochim. Biophys. Sin. (Shanghai)., 38, 335-341.
5. Lahaye,A., Leterme,S. and Foury,F. (1993) PIF1 DNA helicase from Saccharomyces cerevisiae. Biochemical characterization of the enzyme. J. Biol. Chem., 268, 26155-26161.
6. Lahaye,A., Stahl,H., Thines-Sempoux,D. and Foury,F. (1991) PIF1: A DNA helicase in yeast mitochondria. EMBO J., 10, 997-1007.
7. Ryu,G.H., Tanaka,H., Kim,D.H., Kim,J.H., Bae,S.H., Kwon,Y.N., Rhee,J.S., MacNeill,S.A. and Seo,Y.S. (2004) Genetic and biochemical analyses of Pfh1 DNA helicase function in fission yeast. Nucleic Acids Res., 32, 4205-4216.
8. Tanaka,H., Ryu,G.H., Seo,Y.S., Tanaka,K., Okayama,H., MacNeill,S.A. and Yuasa,Y. (2002) The fission yeast pfh1+ gene encodes an essential 5′ to 3′ DNA helicase required for the completion of S-phase. Nucleic Acids Res., 30, 4728-4739.
9. Zhang,D.H., Zhou,B., Huang,Y., Xu,L.X. and Zhou,J.Q. (2006) The human Pif1 helicase, a potential Escherichia coli RecD homologue, inhibits telomerase activity. Nucleic Acids Res., 34, 1393-1404.
10. Zhou,J.Q., Qi,H., Schulz,V.P., Mateyak,M.K., Monson,E.K. and Zakian,V.A. (2002) Schizosaccharomyces pombe pfh1+ encodes an essential 5′ to 3′ DNA helicase that is a member of the PIF1 subfamily of DNA helicases. Mol. Biol. Cell, 13, 2180-2191.
11. Bessler,J.B., Torredagger,J.Z. and Zakian,V.A. (2001) The Pif1p subfamily of helicases: Region-specific DNA helicases? Trends Cell Biol., 11, 60-65.
12. Foury,F. and Dyck,E.V. (1985) A PIF-dependent recombinogenic signal in the mitochondrial DNA of yeast. EMBO J., 4, 3525-3530.
13. - genomes having tandemly arrayed repeat units in Saccharomyces cerevisiae. Proc. Natl Acad. Sci. USA, 80, 5345-5349.
14. Doudican,N.A., Song,B., Shadel,G.S. and Doetsch,P.W. (2005) Oxidative DNA damage causes mitochondrial genomic instability in Saccharomyces cerevisiae. Mol. Cell Biol., 25, 5196-5204.
15. O'Rourke,T.W., Doudican,N.A., Mackereth,M.D., Doetsch,P.W. and Shadel,G.S. (2002) Mitochondrial dysfunction due to oxidative mitochondrial DNA damage is reduced through cooperative actions of diverse proteins. Mol. Cell Biol., 22, 4086-4093.
16. O'Rourke,T.W., Doudican,N.A., Zhang,H., Eaton,J.S., Doetsch,P.W. and Shadel,G.S. (2005) Differential involvement of the related DNA helicases Pif1p and Rrm3p in mtDNA point mutagenesis and stability. Gene, 354, 86-92.
17. Cheng,X., Dunaway,S. and Ivessa,A.S. (2007) The role of Pif1p, a DNA helicase in Saccharomyces cerevisiae, in maintaining mitochondrial DNA. Mitochondrion, 7, 211-222.
18. Zhou,J., Monson,E.K., Teng,S.C., Schulz,V.P. and Zakian,V.A. (2000) Pif1p helicase, a catalytic inhibitor of telomerase in yeast. Science 289, 771-774.
19. Schulz,V.P. and Zakian,V.A. (1994) The Saccharomyces PIF1 DNA helicase inhibits telomere elongation and de novo telomere formation. Cell, 76, 145-155.
20. Kanaar,R., Wyman,C. and Rothstein,R. (2008) Quality control of DNA break metabolism: In the 'end', it's a good thing. EMBO J., 27, 581-588.
21. Mangahas,J.L., Alexander,M.K., Sandell,L.L. and Zakian,V.A. (2001) Repair of chromosome ends after telomere loss in Saccharomyces. Mol. Biol. Cell, 12, 4078-4089.
22. Mateyak,M.K. and Zakian,V.A. (2006) Human PIF helicase is cell cycle regulated and associates with telomerase. Cell Cycle, 5, 2796-2804.
23. Myung,K., Chen,C. and Kolodner,R.D. (2001) Multiple pathways cooperate in the suppression of genome instability in Saccharomyces cerevisiae. Nature, 411, 1073-1076.
24. Pennaneach,V., Putnam,C.D. and Kolodner,R.D. (2006) Chromosome healing by de novo telomere addition in Saccharomyces cerevisiae. Mol. Microbiol., 59, 1357-1368.
25. Boulé,J.B., Vega,L.R. and Zakian,V.A. (2005) The yeast Pif1p helicase removes telomerase from telomeric DNA. Nature, 438, 57-61.
26. Budd,M.E., Reis,C.C., Smith,S., Myung,K. and Campbell,J.L. (2006) Evidence suggesting that Pif1 helicase functions in DNA replication with the Dna2 helicase/nuclease and DNA polymerase δ. Mol. Cell Biol., 26, 2490-2500.
27. Ivessa,A.S., Zhou,J.Q. and Zakian,V.A. (2000) The Saccharomyces Pif1p DNA helicase and the highly related Rrm3p have opposite effects on replication fork progression in ribosomal DNA. Cell, 100, 479-489.
28. Wagner,M., Price,G. and Rothstein,R. (2006) The absence of Top3 reveals an interaction between the Sgs1 and Pif1 DNA helicases in Saccharomyces cerevisiae. Genetics, 174, 555-573.
29. Masuda,Y., Suzuki,M., Piao,J., Gu,Y., Tsurimoto,T. and Kamiya,K. (2007) Dynamics of human replication factors in the elongation phase of DNA replication. Nucleic Acids Res., 35, 6904-6916.
30. Henricksen,L.A., Umbricht,C.B. and Wold,M.S. (1994) Recombinant replication protein A: Expression, complex formation, and functional characterization. J. Biol. Chem., 269, 11121-11132.
31. Studier,F.W., Rosenberg,A.H., Dunn,J.J. and Dubendor.,J.W. (1990) Use of T7 RNA polymerase to direct expression of cloned genes. Methods Enzymol., 185, 60-89.
32. Snaith,M.R., Kilby,N.J. and Murray,J.A. (1996) An Escherichia coli system for assay of F1p site-speci.c recombination on substrate plasmids. Gene, 180, 225-227.
33. Sambrook,J., Fritsch,E.F. and Maniatis,T. (1989) Molecular Cloning: A Laboratory Manual, 2nd ed. Cold Spring Harbor Laboratory Press, Cold Spring Harbor, NY.
34. Masuda,Y., Takahashi,M., Tsunekuni,N., Minami,T., Sumii,M., Miyagawa,K. and Kamiya,K. (2001) Deoxycytidyl transferase activity of the human REV1 protein is closely associated with the conserved polymerase domain. J. Biol. Chem., 276, 15051-15058.
35. Carey,J. (1991) Gel retardation. Methods Enzymol., 208, 103-117.
36. Kornberg,A., Scott,J.F. and Bertsch,L.L. (1978) ATP utilization by rep protein in the catalytic separation of DNA strands at a replicating fork. J. Biol. Chem., 253, 3298-3304.
37. Matson,S.W. and George,J.W. (1987) DNA helicase II of Escherichia coli. Characterization of the single-stranded DNA-dependent NTPase and helicase activities. J. Biol. Chem., 262, 2066-2076.
38. Wold,M.S. (1997) Replication protein A: A heterotrimeric, singlestranded DNA-binding protein required for eukaryotic DNA metabolism. Annu. Rev. Biochem., 66, 61-92.
39. Cheok,C.F., Wu,L., Garcia,P.L., Janscak,P. and Hickson,I.D. (2005) The Bloom's syndrome helicase promotes the annealing of complementary single-stranded DNA. Nucleic Acids Res., 33, 3932-3941.
40. Garcia,P.L., Liu,Y., Jiricny,J., West,S.C. and Janscak,P. (2004) Human RECQ5b, a protein with DNA helicase and strandannealing activities in a single polypeptide. EMBO J., 23, 2882-2891.
41. Kanagaraj,R., Saydam,N., Garcia,P.L., Zheng,L. and Janscak,P. (2006) Human RECQ5β helicase promotes strand exchange on synthetic DNA structures resembling a stalled replication fork. Nucleic Acids Res. 34, 5217-5231.
42. Machwe,A., Xiao,L., Groden,J., Matson,S.W. and Orren,D.K. (2005) RecQ family members combine strand pairing and unwinding activities to catalyze strand exchange. J. Biol. Chem., 280, 23397-23407.
43. Macris,M.A., Krejci,L., Bussen,W., Shimamoto,A. and Sung,P. (2006) Biochemical characterization of the RECQ4 protein, mutated in Rothmund-Thomson syndrome. DNA Repair (Amst)., 5, 172-180.
44. Sharma,S., Sommers,J.A., Choudhary,S., Faulkner,J.K., Cui,S., Andreoli,L., Muzzolini,L., Vindigni,A. and Brosh,R.M. Jr (2005) Biochemical analysis of the DNA unwinding and strand annealing activities catalyzed by human RECQ1. J. Biol. Chem., 280, 28072-28084.
45. Machwe,A., Lozada,E.M., Xiao,L. and Orren,D.K. (2006) Competition between the DNA unwinding and strand pairing activities of the Werner and Bloom syndrome proteins. BMC Mol. Biol., 7, 1.
46. Brosh,R.M. Jr, Orren,D.K., Nehlin,J.O., Ravn,P.H., Kenny,M.K., Machwe,A. and Bohr,V.A. (1999) Functional and physical interaction between WRN helicase and human replication protein A. J. Biol. Chem., 274 18341-18350.
47. Brosh,R.M. Jr, Li,J.L., Kenny,M.K., Karow,J.K., Cooper,M.P., Kureekattil,R.P., Hickson,I.D. and Bohr,V.A. (2000) Replication protein A physically interacts with the Bloom's syndrome protein and stimulates its helicase activity. J. Biol. Chem., 275, 23500-23508.
48. Cui,S., Arosio,D., Doherty,K.M., Brosh,R.M. Jr, Falaschi,A. and Vindigni,A. (2004) Analysis of the unwinding activity of the dimeric RECQ1 helicase in the presence of human replication protein A. Nucleic Acids Res., 32, 2158-2170.