Single-stranded DNA binding protein and DNA helicase of bacteriophage T7 mediate homologous DNA strand exchange

EMBO Journal

Volumn 15, Issue 8, 1996, Pages 2010-2019

  Kong, Daochun ^a   Richardson, Charles C ^a  

^a HARVARD MEDICAL SCHOOL   (United States)

Author keywords

DNA replication; Gene 2.5 protein; Gene 4 protein; Recombination

Indexed keywords

CIRCULAR DNA; DOUBLE STRANDED DNA; HELICASE; NUCLEOSIDE; NUCLEOTIDE; SINGLE STRANDED DNA; SINGLE STRANDED DNA BINDING PROTEIN;

ARTICLE; BACTERIOPHAGE T7; BASE PAIRING; CONTROLLED STUDY; DNA STRAND; DNA SYNTHESIS; HYDROLYSIS; NONHUMAN; PRIORITY JOURNAL; PROTEIN PROTEIN INTERACTION; STOICHIOMETRY;

EID: 0029933249     PISSN: 02614189     EISSN: None     Source Type: Journal    
DOI: 10.1002/j.1460-2075.1996.tb00552.x     Document Type: Article

References (61)

1. Araki, H. and Ogawa, H. (1981) The participation of T7 DNA-binding protein in T7 genetic recombination. Virology, 111, 509-515.
2. Berger, H., Warren, A.J. and Fry, K.E. (1969) Variations in genetic recombination due to amber mutations in T4D bacteriophage. J. Virol., 3, 171-175.
3. Bernstein, J.A. and Richardson, C.C. (1988a) A 7-kDa region of the bacteriophage T7 gene 4 protein is required for primase but not for helicase activity. Proc. Natl. Acad. Sci. USA, 85, 396-400.
4. Bernstein, J.A. and Richardson, C.C. (1988b) Purification of the 56-kDa component of the bacteriophage T7 primase/helicase and characterization of its nucleoside 5′-triphosphatase activity. J. Biol. Chem., 263, 14891-14899.
5. Center, M.S., Studier, F.W and Richardson, C.C. (1970) The structural gene of a T7 endonuclease essential for phage DNA synthesis Proc. Natl Acad. Sci. USA, 65, 242-248.
6. Chase, J.W. and Williams, K.R (1986) Single-stranded DNA binding proteins required for DNA replication. Annu. Rev. Biochem., 55, 103-136.
7. Cox, M.M. and Lehman, I.R. (1981) RecA protein of Escherichia coli promotes branch migration, a kinetically distinct phase of DNA strand exchange. Proc. Natl Acad. Sci. USA, 78, 3433-3437.
8. Debyser, Z., Tabor, S. and Richardson, C.C. (1994) Coordination of leading and lagging strand DNA synthesis at the replication fork of bacteriophage T7. Cell. 77, 157-166.
9. de Massey, B., Weisberg, R.A. and Studier, F.W. (1987) Gene 3 endonuclease of bacteriophage T7 resolves conformationally branched DNA structures in double-stranded DNA J. Mol. Biol., 193, 359-376.
10. Dickie, P., McFadden, G. and Morgan, A.R. (1987) The site-specific cleavage of synthetic Holliday junction analogs related branched DNA structures by bacteriophage T7 endonuclease I. J. Biol. Chem., 262, 14826-14836.
11. Dunn, J.J. and Studier, F.W. (1983) Complete nucleotide sequence of bacteriophage T7 DNA and the locations of T7 genetic elements. J. Mol. Biol , 166, 477-535.
12. Dykstra, C.C., Hamatake, R.K and Sugino, A. (1990) DNA strand transfer protein beta from yeast mitotic cells differs from strand transfer protein alpha from meiotic cells. J. Biol. Chem., 265, 10968-10973.
13. Egelman, H.H., Yu, X., Wild, R., Hingorani, M.M. and Patel, S.S. (1995) Bacteriophage T7 helicase/primase proteins form rings around single-stranded DNA that suggest a general structure for hexameric helicases. Proc. Natl Acad. Sci. USA, 92, 3869-3873
14. Formosa, T. and Alberts, B.M. (1986) Purification and characterization of the T4 bacteriophage UvsX protein. J. Biol. Chem., 261, 6107-6118.
15. Glassberg, J., Meyer, R R and Kornberg, A. (1979) Mutant single-strand binding protein of Escherichia coli: genetic and physiological characterization. J Bacteriol., 140, 14-19.
16. Hall, S.D. and Kolodner, R.D. (1994) Homologous pairing and strand exchange promoted by the Escherichia coli RecT protein. Proc Natl Acad. Sci. USA, 91, 3205-3209.
17. Iwasaki, H., Takahagi, M., Nakata, A. and Shinagawa, H. (1992) Escherichia coli RuvA and RuvB proteins specifically interact with Holliday junctions and promote branch migration. Genes Dev., 6, 2214-2220.
18. Johnson, A.W. and Kolodner, R D. (1991) Strand exchange protein I from Saccharomyces cerevisiae. J. Biol. Chem., 266, 14046-14054.
19. Kahn, R., Cummingham, R P., DasGupta, C. and Radding, C.M. (1981) Polarity of heteroduplex formation promoted by Escherichia coli recA protein. Proc. Natl Acad. Sci. USA, 78, 4786-4790.
20. Kerr, C. and Sadowski, P.D. (1972) Gene 6 exonuclease of bacteriophage T7 J Biol. Chem. 247, 311-318.
21. Kerr, C. and Sadowski, P.D. (1975) The involvement of genes 3, 4, 5 and 6 in genetic recombination in bacteriophage T7. Virology, 65, 281-285.
22. Kim, Y.T. and Richardson, C C. (1993) Bacteriophage T7 gene 2.5 protein: an essential protein for DNA replication. Proc Natl Acad. Sci. USA, 90, 10173-10177.
23. Kim, Y.T. and Richardson, C.C. (1994) Acidic carboxyl-terminal domain of gene 2.5 protein of bacteriophage T7 is essential for protein-protein interactions. J. Biol. Chem., 269, 5270-5278
24. Kim, Y.T., Tabor, S , Bortner, C., Griffith, J.D. and Richardson, C.C. (1992a) Purification and characterization of the bacteriophage T7 gene 2.5 protein. J. Biol. Chem., 267, 15022-15031.
25. Kim, Y.T., Tabor, S., Churchich, J.E. and Richardson, C.C (1992b) Interaction of gene 2.5 protein and DNA polymerase of bacteriophage T7. J Biol. Chem., 267, 15032-15040.
26. Kodadek, T. (1990) The role of the bacteriophage T4 gene 32 protein in homologous pairing. J. Biol. Chem., 265, 20966-20969
27. Kodadek, T and Alberts, B.M. (1987) Stimulation of protein-directed strand exchange by a DNA helicase. Nature, 326, 312-314.
28. Kodadek, T., Wong, M.L and Alberts, B.M. (1988) The mechanism of homologous DNA strand exchange catalyzed by the bacteriophage T4 UvsX and gene 32 proteins J. Biol. Chem., 263, 9427-9436.
29. Kolodner, R., Evans, D.H. and Morrison, P.T. (1987) Purification and characterization of an activity from Saccharomyces cerevisiae that catalyzes homologous pairing and strand exchange. Proc. Natl Acad. Sci. USA, 84, 5560-5564
30. Kowalczykowski, S.C. and Eggleston, A.K. (1994) Homologous, pairing and DNA strand-exchange proteins. Annu. Rev. Biochem., 63, 991-1043.
31. Lebowitz, J H. and McMacken, R. (1986) The Escherichia coli dnaB protein is a DNA helicase. J Biol. Chem., 261, 4738-4748
32. Lechner, R.L. and Richardson, C.C. (1983) A preformed, topologically stable replication fork. J. Biol Chem., 258, 11185-11196
33. Matson, S.W and Katser-Rogers, K.A. (1990) DNA helicases. Annu. Rev. Biochem , 59, 289-329.
34. Matson, S.W , Tabor, S. and Richardson, C.C. (1983) The gene 4 protein of bacteriophage T7, characterization of helicase activity J. Biol. Chem., 258, 14017-14024.
35. McEntee, K , Weinstock, G M. and Lehman, I.R. (1980) RecA protein-catalyzed strand assimilation: stimulation by Escherichia coli single-stranded DNA binding protein. Proc. Natl Acad. Sci. USA, 77, 857-861.
36. Mendelman, L. V. and Richardson, C.C. (1991) Requirements for primer synthesis by bacteriophage T7 63-kDa gene 4 protein. J. Biol. Chem., 266, 23240-23250.
37. Mendelman, L.V., Notainicoia, S.M. and Richardson, C C. (1993) Evidence for distinct primase and helicase domains in the 63-kDa gene 4 protein of bacteriophage T7: characterization of a nucleotide binding site mutant. J. Biol. Chem , 268, 27208-27213.
38. Mendelman, L V., Beauchamp, B B. and Richardson, C.C. (1994) Requirement for a zinc motif for template recognition by the bacteriophage T7 primase EMBO J., 13, 3909-3916.
39. Menetski J.P. and Kowalczykowski, S C. (1985) Interaction of recA protein with single-stranded DNA. Quantitative aspects of binding affinity modulation by nucleotide cofactors. J Mol. Biol., 181, 281-295.
40. Messing, J. (1983) New M13 vectors for cloning. Methods Enzymol., 101, 20-78.
41. Mosig, G , Luder, A., Garcia, G , Dannenberg, R. and Bock, S. (1979) In vivo interactions of genes and proteins in DNA replication and recombination of phase T4. Cold Spring Harbor Symp. Quant. Biol., 43, 501-515.
42. Muniyappa, K. and Radding, C.M. (1986) The homologous recombination system of phage λ. Pairing activities of β protein. J. Biol. Chem., 261, 7472-7478.
43. Nakai, H. and Richardson, C.C. (1988) The effect of the T7 and Escherichia coli DNA-binding proteins at the replication fork of bacteriophage T7. J. Biol. Chem., 263, 9831-9839.
44. Notarnicola, S.M., Park, K., Griffith, J.D and Richardson, C.C. (1995) A domain of the gene 4 helicase/primase of bacteriophage T7 required for the formation of an active hexamer. J Biol. Chem., 270, 20215-20224.
45. Patel, S.S. and Hingoram, M.M. (1993) Oligomeric structure of acteriophage T7 DNA primase/helicase proteins. J. Biol. Chem , 268, 10668-10675.
46. Powling, A. and Knippers, R. (1974) Some functions involved in bacteriophage T7 genetic recombination. Mol. Gen. Genet. 134, 173-180.
47. Radding, C.M. (1982) Homologous pairing and strand exchange in genetic recombination. Annu. Rev. Genet., 16, 405-437.
48. Richardson, C.C. (1983) Bacteriophage T7: minimal requirements for the replication of a duplex DNA molecule. Cell, 33, 315-317.
49. Richardson, C.C., Lehman, I R. and Kornberg, A. (1964) A deoxyribonucleic acid phosphatase - exonuclease from Escherichia coli, II. Characterization of the exonuclease activity. J. Biol. Chem., 239, 251-258.
50. Richardson, R.W. and Nossal, N.G. (1989) Characterization of the bacteriophage T4 sene 41 DNA helicase. J. Biol. Chem., 264, 4725-4731.
51. Sadowski, P.D., Bradley, W., Lee, D. and Roberts, L. (1980) Genetic recombination of bacteriophage T7 DNA in vitro. ICN-UCLA Symp. Mol. Cell. Biol. 19, 941-952.
52. Salinas, F. and Kodadek, T. (1995) Phase T4 homologous strand exchange: a DNA helicase, not the strand transferase, drives polar branch migration. Cell, 82, 111-119.
53. Shinozaki, K. and Okazaki, T. (1977) RNA-linked nascent DNA pieces in T7 phage-infected Escherichia coli cells. I. Role of gene 6 exonuclease in removal of the linked RNA. Mol. Gen. Genet., 154, 263-267.
54. Studier, F.W. (1969) The genetics and physiology of bacteriophage T7. Virology, 39, 562-574.
55. Studier, F.W. (1972) Bacteriophage T7. Science, 176, 367-376.
56. Sung, P. (1994) Catalysis of ATP-dependent homologous DNA pairing and strand exchange by yeast RAD51 protein. Science, 265, 1241-1243.
57. Tabor, S. and Richardson, C.C. (1981) Template recognition sequence for RNA primer synthesis by gene 4 protein of bacteriophage T7. Proc. Natl Acad. Sci. USA, 78, 205-209.
58. Tomizawa, J., Anraku, N. and Iwama, Y (1996) Molecular mechanisms of genetic recombination in bacteriophage. J Mol Biol , 21, 247-253.
59. Tsaneva, I.R., Muller, B. and West, S.C. (1992) ATP-dependent branch migration of Holliday junctions promoted by the RuvA and RuvB proteins of E.coli. Cell, 69, 1171-1180.
60. Tsaneva, I.R., Muller, B. and West, S.C. (1993) RuvA and RuvB proteins of Escherichia coli exhibit DNA helicase activity in vitro. Proc. Natl Acad. Sci. USA, 90, 1315-1319.
61. 32P]cordycepin-5′-triphosphate. Gene, 10, 177-183.