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. 1991 Apr;10(4):997–1007. doi: 10.1002/j.1460-2075.1991.tb08034.x

PIF1: a DNA helicase in yeast mitochondria.

A Lahaye 1, H Stahl 1, D Thines-Sempoux 1, F Foury 1
PMCID: PMC452744  PMID: 1849081

Abstract

The PIF1 gene is involved in repair and recombination of mitochondrial DNA (mtDNA). In this study, the PIF1 gene product, which cannot be identified in normal yeast cells, has been overproduced from the GALI promoter to detectable protein levels. Location of PIF1 in mitochondria has been shown by immunoelectron microscopy and in vivo import experiments using ts mas1 mutants deficient in the mitochondrial matrix-localized processing protease. Overproduction of PIF1 protein in pif1 mutants restores mtDNA recombination proficiency but is toxic to yeast cells as observed by slower growth. The overproduced PIF1 protein, which is firmly associated with insoluble mitochondrial structures, has been partially purified in a mitochondrial nuclease deficient nuc1 strain by a procedure including solubilization by urea and renaturation by dialysis at alkaline pH. PIF1 is a single-stranded (ss) DNA-dependent ATPase and a DNA helicase which unwinds partially DNA duplexes in a 5' to 3' direction with respect to the ss DNA on which it binds first.

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  1. Bulleid N. J., Freedman R. B. Defective co-translational formation of disulphide bonds in protein disulphide-isomerase-deficient microsomes. Nature. 1988 Oct 13;335(6191):649–651. doi: 10.1038/335649a0. [DOI] [PubMed] [Google Scholar]
  2. Chirico W. J., Waters M. G., Blobel G. 70K heat shock related proteins stimulate protein translocation into microsomes. Nature. 1988 Apr 28;332(6167):805–810. doi: 10.1038/332805a0. [DOI] [PubMed] [Google Scholar]
  3. Cousens L. S., Shuster J. R., Gallegos C., Ku L. L., Stempien M. M., Urdea M. S., Sanchez-Pescador R., Taylor A., Tekamp-Olson P. High level expression of proinsulin in the yeast, Saccharomyces cerevisiae. Gene. 1987;61(3):265–275. doi: 10.1016/0378-1119(87)90190-9. [DOI] [PubMed] [Google Scholar]
  4. Crute J. J., Tsurumi T., Zhu L. A., Weller S. K., Olivo P. D., Challberg M. D., Mocarski E. S., Lehman I. R. Herpes simplex virus 1 helicase-primase: a complex of three herpes-encoded gene products. Proc Natl Acad Sci U S A. 1989 Apr;86(7):2186–2189. doi: 10.1073/pnas.86.7.2186. [DOI] [PMC free article] [PubMed] [Google Scholar]
  5. Daum G., Böhni P. C., Schatz G. Import of proteins into mitochondria. Cytochrome b2 and cytochrome c peroxidase are located in the intermembrane space of yeast mitochondria. J Biol Chem. 1982 Nov 10;257(21):13028–13033. [PubMed] [Google Scholar]
  6. Deshaies R. J., Koch B. D., Werner-Washburne M., Craig E. A., Schekman R. A subfamily of stress proteins facilitates translocation of secretory and mitochondrial precursor polypeptides. Nature. 1988 Apr 28;332(6167):800–805. doi: 10.1038/332800a0. [DOI] [PubMed] [Google Scholar]
  7. Dujon B. Group I introns as mobile genetic elements: facts and mechanistic speculations--a review. Gene. 1989 Oct 15;82(1):91–114. doi: 10.1016/0378-1119(89)90034-6. [DOI] [PubMed] [Google Scholar]
  8. Foury F., Dyck E. V. A PIF-dependent recombinogenic signal in the mitochondrial DNA of yeast. EMBO J. 1985 Dec 16;4(13A):3525–3530. doi: 10.1002/j.1460-2075.1985.tb04112.x. [DOI] [PMC free article] [PubMed] [Google Scholar]
  9. Foury F., Kolodynski J. pif mutation blocks recombination between mitochondrial rho+ and rho- genomes having tandemly arrayed repeat units in Saccharomyces cerevisiae. Proc Natl Acad Sci U S A. 1983 Sep;80(17):5345–5349. doi: 10.1073/pnas.80.17.5345. [DOI] [PMC free article] [PubMed] [Google Scholar]
  10. Foury F., Lahaye A. Cloning and sequencing of the PIF gene involved in repair and recombination of yeast mitochondrial DNA. EMBO J. 1987 May;6(5):1441–1449. doi: 10.1002/j.1460-2075.1987.tb02385.x. [DOI] [PMC free article] [PubMed] [Google Scholar]
  11. Gorbalenya A. E., Koonin E. V., Donchenko A. P., Blinov V. M. A conserved NTP-motif in putative helicases. Nature. 1988 May 5;333(6168):22–22. doi: 10.1038/333022a0. [DOI] [PubMed] [Google Scholar]
  12. Gorbalenya A. E., Koonin E. V., Donchenko A. P., Blinov V. M. Two related superfamilies of putative helicases involved in replication, recombination, repair and expression of DNA and RNA genomes. Nucleic Acids Res. 1989 Jun 26;17(12):4713–4730. doi: 10.1093/nar/17.12.4713. [DOI] [PMC free article] [PubMed] [Google Scholar]
  13. Hirling H., Scheffner M., Restle T., Stahl H. RNA helicase activity associated with the human p68 protein. Nature. 1989 Jun 15;339(6225):562–564. doi: 10.1038/339562a0. [DOI] [PubMed] [Google Scholar]
  14. Hodgman T. C. A new superfamily of replicative proteins. Nature. 1988 May 5;333(6168):22–23. doi: 10.1038/333022b0. [DOI] [PubMed] [Google Scholar]
  15. Jacobs E., Gheysen D., Thines D., Francotte M., de Wilde M. The HIV-1 Gag precursor Pr55gag synthesized in yeast is myristoylated and targeted to the plasma membrane. Gene. 1989 Jun 30;79(1):71–81. doi: 10.1016/0378-1119(89)90093-0. [DOI] [PubMed] [Google Scholar]
  16. Jongeneel C. V., Bedinger P., Alberts B. M. Effects of the bacteriophage T4 dda protein on DNA synthesis catalyzed by purified T4 replication proteins. J Biol Chem. 1984 Oct 25;259(20):12933–12938. [PubMed] [Google Scholar]
  17. Kang P. J., Ostermann J., Shilling J., Neupert W., Craig E. A., Pfanner N. Requirement for hsp70 in the mitochondrial matrix for translocation and folding of precursor proteins. Nature. 1990 Nov 8;348(6297):137–143. doi: 10.1038/348137a0. [DOI] [PubMed] [Google Scholar]
  18. LOWRY O. H., ROSEBROUGH N. J., FARR A. L., RANDALL R. J. Protein measurement with the Folin phenol reagent. J Biol Chem. 1951 Nov;193(1):265–275. [PubMed] [Google Scholar]
  19. Laemmli U. K. Cleavage of structural proteins during the assembly of the head of bacteriophage T4. Nature. 1970 Aug 15;227(5259):680–685. doi: 10.1038/227680a0. [DOI] [PubMed] [Google Scholar]
  20. Lang K., Schmid F. X., Fischer G. Catalysis of protein folding by prolyl isomerase. Nature. 1987 Sep 17;329(6136):268–270. doi: 10.1038/329268a0. [DOI] [PubMed] [Google Scholar]
  21. Marston F. A., Hartley D. L. Solubilization of protein aggregates. Methods Enzymol. 1990;182:264–276. doi: 10.1016/0076-6879(90)82022-t. [DOI] [PubMed] [Google Scholar]
  22. Matson S. W., Kaiser-Rogers K. A. DNA helicases. Annu Rev Biochem. 1990;59:289–329. doi: 10.1146/annurev.bi.59.070190.001445. [DOI] [PubMed] [Google Scholar]
  23. McKinney M. M., Parkinson A. A simple, non-chromatographic procedure to purify immunoglobulins from serum and ascites fluid. J Immunol Methods. 1987 Feb 11;96(2):271–278. doi: 10.1016/0022-1759(87)90324-3. [DOI] [PubMed] [Google Scholar]
  24. Moustacchi E. Evidence for nucleus independent steps in control of repair of mitochondrial damage. I. UV-induction of the cytoplasmic "petite" mutation in UV-sensitive nuclear mutants of Saccharomyces cerevisiae. Mol Gen Genet. 1972;114(1):50–58. doi: 10.1007/BF00268746. [DOI] [PubMed] [Google Scholar]
  25. Moustacchi E., Perlman P. S., Mahler H. R. A novel class of Saccharomyces cerevisiae mutants specifically UV-sensitive to "petite" induction. Mol Gen Genet. 1976 Nov 17;148(3):251–261. doi: 10.1007/BF00332899. [DOI] [PubMed] [Google Scholar]
  26. Ostermann J., Horwich A. L., Neupert W., Hartl F. U. Protein folding in mitochondria requires complex formation with hsp60 and ATP hydrolysis. Nature. 1989 Sep 14;341(6238):125–130. doi: 10.1038/341125a0. [DOI] [PubMed] [Google Scholar]
  27. Pelham H. R. Speculations on the functions of the major heat shock and glucose-regulated proteins. Cell. 1986 Sep 26;46(7):959–961. doi: 10.1016/0092-8674(86)90693-8. [DOI] [PubMed] [Google Scholar]
  28. Perlman P. S., Butow R. A. Mobile introns and intron-encoded proteins. Science. 1989 Dec 1;246(4934):1106–1109. doi: 10.1126/science.2479980. [DOI] [PubMed] [Google Scholar]
  29. Prakash L. Repair of pyrimidine dimers in nuclear and mitochondrial DNA of yeast irradiated with low doses of ultraviolet light. J Mol Biol. 1975 Nov 15;98(4):781–795. doi: 10.1016/s0022-2836(75)80010-6. [DOI] [PubMed] [Google Scholar]
  30. Queen C. A vector that uses phage signals for efficient synthesis of proteins in Escherichia coli. J Mol Appl Genet. 1983;2(1):1–10. [PubMed] [Google Scholar]
  31. Scheffner M., Knippers R., Stahl H. RNA unwinding activity of SV40 large T antigen. Cell. 1989 Jun 16;57(6):955–963. doi: 10.1016/0092-8674(89)90334-6. [DOI] [PubMed] [Google Scholar]
  32. Schiedner G., Wessel R., Scheffner M., Stahl H. Renaturation and DNA looping promoted by the SV40 large tumour antigen. EMBO J. 1990 Sep;9(9):2937–2943. doi: 10.1002/j.1460-2075.1990.tb07485.x. [DOI] [PMC free article] [PubMed] [Google Scholar]
  33. Seraphin B. Conserved helicase motifs in the PIF protein. Nucleic Acids Res. 1990 Feb 11;18(3):661–661. doi: 10.1093/nar/18.3.661. [DOI] [PMC free article] [PubMed] [Google Scholar]
  34. Sung P., Prakash L., Matson S. W., Prakash S. RAD3 protein of Saccharomyces cerevisiae is a DNA helicase. Proc Natl Acad Sci U S A. 1987 Dec;84(24):8951–8955. doi: 10.1073/pnas.84.24.8951. [DOI] [PMC free article] [PubMed] [Google Scholar]
  35. Sung P., Prakash L., Weber S., Prakash S. The RAD3 gene of Saccharomyces cerevisiae encodes a DNA-dependent ATPase. Proc Natl Acad Sci U S A. 1987 Sep;84(17):6045–6049. doi: 10.1073/pnas.84.17.6045. [DOI] [PMC free article] [PubMed] [Google Scholar]
  36. Thömmes P., Hübscher U. Eukaryotic DNA helicases. FEBS Lett. 1990 Aug 1;268(2):325–328. doi: 10.1016/0014-5793(90)81279-w. [DOI] [PubMed] [Google Scholar]
  37. Tjian R., Stinchcomb D., Losick R. Antibody directed against Bacillus subtilis rho factor purified by sodium dodecyl sulfate slab gel electrophoresis. Effect on transcription by RNA polymerase in crude extracts of vegetative and sporulating cells. J Biol Chem. 1975 Nov 25;250(22):8824–8828. [PubMed] [Google Scholar]
  38. Towbin H., Staehelin T., Gordon J. Electrophoretic transfer of proteins from polyacrylamide gels to nitrocellulose sheets: procedure and some applications. Proc Natl Acad Sci U S A. 1979 Sep;76(9):4350–4354. doi: 10.1073/pnas.76.9.4350. [DOI] [PMC free article] [PubMed] [Google Scholar]
  39. Waters R., Moustacchi E. The fate of ultraviolet-induced pyrimidine dimers in the mitochondrial DNA of Saccharomyces cerevisiae following various post-irradiation cell treatments. Biochim Biophys Acta. 1974 Oct 28;366(3):241–250. doi: 10.1016/0005-2787(74)90282-2. [DOI] [PubMed] [Google Scholar]
  40. Weber E. R., Dieckmann C. L. Identification of the CBP1 polypeptide in mitochondrial extracts from Saccharomyces cerevisiae. J Biol Chem. 1990 Jan 25;265(3):1594–1600. [PubMed] [Google Scholar]
  41. Wessel D., Flügge U. I. A method for the quantitative recovery of protein in dilute solution in the presence of detergents and lipids. Anal Biochem. 1984 Apr;138(1):141–143. doi: 10.1016/0003-2697(84)90782-6. [DOI] [PubMed] [Google Scholar]
  42. Yaffe M. P., Schatz G. Two nuclear mutations that block mitochondrial protein import in yeast. Proc Natl Acad Sci U S A. 1984 Aug;81(15):4819–4823. doi: 10.1073/pnas.81.15.4819. [DOI] [PMC free article] [PubMed] [Google Scholar]
  43. Zassenhaus H. P., Hofmann T. J., Uthayashanker R., Vincent R. D., Zona M. Construction of a yeast mutant lacking the mitochondrial nuclease. Nucleic Acids Res. 1988 Apr 25;16(8):3283–3296. doi: 10.1093/nar/16.8.3283. [DOI] [PMC free article] [PubMed] [Google Scholar]
  44. Zimmermann R., Sagstetter M., Lewis M. J., Pelham H. R. Seventy-kilodalton heat shock proteins and an additional component from reticulocyte lysate stimulate import of M13 procoat protein into microsomes. EMBO J. 1988 Sep;7(9):2875–2880. doi: 10.1002/j.1460-2075.1988.tb03144.x. [DOI] [PMC free article] [PubMed] [Google Scholar]

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