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. 1982 Dec;79(24):7724–7728. doi: 10.1073/pnas.79.24.7724

Bacteriophage lambda int protein recognizes two classes of sequence in the phage att site: characterization of arm-type sites.

W Ross, A Landy
PMCID: PMC347420  PMID: 6218502

Abstract

Purified int protein from bacteriophage lambda binds to specific sites in DNA that are not part of the functional attachment sites (non-att DNA) as well as to specific sites in att DNA. Analysis of non-att sites protected from nucleases by int has permitted definition of two distinctly different consensus recognition sequences, one of which, the arm-type sequence, is characterized in this report. Both types of recognition sequence occur in attP; five copies of the arm-type consensus sequence are located distant from the crossover region in the P1, P2, and P' arm protected regions. The second type of recognition sequence occurs at the crossover region. Modification of int with N-ethylmaleimide selectively alters its interaction with arm-type sequences.

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Selected References

These references are in PubMed. This may not be the complete list of references from this article.

  1. Anderson W. F., Ohlendorf D. H., Takeda Y., Matthews B. W. Structure of the cro repressor from bacteriophage lambda and its interaction with DNA. Nature. 1981 Apr 30;290(5809):754–758. doi: 10.1038/290754a0. [DOI] [PubMed] [Google Scholar]
  2. Better M., Lu C., Williams R. C., Echols H. Site-specific DNA condensation and pairing mediated by the int protein of bacteriophage lambda. Proc Natl Acad Sci U S A. 1982 Oct;79(19):5837–5841. doi: 10.1073/pnas.79.19.5837. [DOI] [PMC free article] [PubMed] [Google Scholar]
  3. Draper D. E., von Hippel P. H. Nucleic acid binding properties of Escherichia coli ribosomal protein S1. I. Structure and interactions of binding site I. J Mol Biol. 1978 Jul 5;122(3):321–338. doi: 10.1016/0022-2836(78)90193-6. [DOI] [PubMed] [Google Scholar]
  4. Draper D. E., von Hippel P. H. Nucleic acid binding properties of Escherichia coli ribosomal protein S1. II. Co-operativity and specificity of binding site II. J Mol Biol. 1978 Jul 5;122(3):339–359. doi: 10.1016/0022-2836(78)90194-8. [DOI] [PubMed] [Google Scholar]
  5. Eisenberg S., Griffith J., Kornberg A. phiX174 cistron A protein is a multifunctional enzyme in DNA replication. Proc Natl Acad Sci U S A. 1977 Aug;74(8):3198–3202. doi: 10.1073/pnas.74.8.3198. [DOI] [PMC free article] [PubMed] [Google Scholar]
  6. Felsenfeld G. Chromatin. Nature. 1978 Jan 12;271(5641):115–122. doi: 10.1038/271115a0. [DOI] [PubMed] [Google Scholar]
  7. Geisler N., Weber K. Isolation of amino-terminal fragment of lactose repressor necessary for DNA binding. Biochemistry. 1977 Mar 8;16(5):938–943. doi: 10.1021/bi00624a020. [DOI] [PubMed] [Google Scholar]
  8. Gottesman S. Lambda site-specific recombination: the att site. Cell. 1981 Sep;25(3):585–586. doi: 10.1016/0092-8674(81)90165-3. [DOI] [PubMed] [Google Scholar]
  9. Heidekamp F., Baas P. D., van Boom J. H., Veeneman G. H., Zipursky S. L., Jansz H. S. Construction and characterization of recombinant plasmid DNAs containing sequences of the origin of bacteriophage phi X174 DNA replication. Nucleic Acids Res. 1981 Jul 24;9(14):3335–3354. doi: 10.1093/nar/9.14.3335. [DOI] [PMC free article] [PubMed] [Google Scholar]
  10. Hsu P. L., Ross W., Landy A. The lambda phage att site: functional limits and interaction with Int protein. Nature. 1980 May 8;285(5760):85–91. doi: 10.1038/285085a0. [DOI] [PMC free article] [PubMed] [Google Scholar]
  11. Kikuchi Y., Nash H. A. Nicking-closing activity associated with bacteriophage lambda int gene product. Proc Natl Acad Sci U S A. 1979 Aug;76(8):3760–3764. doi: 10.1073/pnas.76.8.3760. [DOI] [PMC free article] [PubMed] [Google Scholar]
  12. Kikuchi Y., Nash H. Integrative recombination of bacteriophage lambda: requirement for supertwisted DNA in vivo and characterization of int. Cold Spring Harb Symp Quant Biol. 1979;43(Pt 2):1099–1109. doi: 10.1101/sqb.1979.043.01.122. [DOI] [PubMed] [Google Scholar]
  13. Kirkegaard K., Wang J. C. Mapping the topography of DNA wrapped around gyrase by nucleolytic and chemical probing of complexes of unique DNA sequences. Cell. 1981 Mar;23(3):721–729. doi: 10.1016/0092-8674(81)90435-9. [DOI] [PubMed] [Google Scholar]
  14. Kleckner N. Transposable elements in prokaryotes. Annu Rev Genet. 1981;15:341–404. doi: 10.1146/annurev.ge.15.120181.002013. [DOI] [PubMed] [Google Scholar]
  15. Landy A., Ross W. Viral integration and excision: structure of the lambda att sites. Science. 1977 Sep 16;197(4309):1147–1160. doi: 10.1126/science.331474. [DOI] [PMC free article] [PubMed] [Google Scholar]
  16. Langeveld S. A., van Mansfeld A. D., van der Ende A., van de Pol J. H., van Arkel G. A., Weisbeek P. J. The nuclease specificity of the bacteriophage phi X174 A* protein. Nucleic Acids Res. 1981 Feb 11;9(3):545–562. doi: 10.1093/nar/9.3.545. [DOI] [PMC free article] [PubMed] [Google Scholar]
  17. Liu L. F., Wang J. C. DNA-DNA gyrase complex: the wrapping of the DNA duplex outside the enzyme. Cell. 1978 Nov;15(3):979–984. doi: 10.1016/0092-8674(78)90281-7. [DOI] [PubMed] [Google Scholar]
  18. Maxam A. M., Gilbert W. Sequencing end-labeled DNA with base-specific chemical cleavages. Methods Enzymol. 1980;65(1):499–560. doi: 10.1016/s0076-6879(80)65059-9. [DOI] [PubMed] [Google Scholar]
  19. Mizuuchi K., Weisberg R., Enquist L., Mizuuchi M., Buraczynska M., Foeller C., Hsu P. L., Ross W., Landy A. Structure and function of the phage lambda att site: size, int-binding sites, and location of the crossover point. Cold Spring Harb Symp Quant Biol. 1981;45(Pt 1):429–437. doi: 10.1101/sqb.1981.045.01.057. [DOI] [PubMed] [Google Scholar]
  20. Mizuuchi M., Mizuuchi K. Integrative recombination of bacteriophage lambda: extent of the DNA sequence involved in attachment site function. Proc Natl Acad Sci U S A. 1980 Jun;77(6):3220–3224. doi: 10.1073/pnas.77.6.3220. [DOI] [PMC free article] [PubMed] [Google Scholar]
  21. Nash H. A. Integration and excision of bacteriophage lambda: the mechanism of conservation site specific recombination. Annu Rev Genet. 1981;15:143–167. doi: 10.1146/annurev.ge.15.120181.001043. [DOI] [PubMed] [Google Scholar]
  22. Ogata R. T., Gilbert W. An amino-terminal fragment of lac repressor binds specifically to lac operator. Proc Natl Acad Sci U S A. 1978 Dec;75(12):5851–5854. doi: 10.1073/pnas.75.12.5851. [DOI] [PMC free article] [PubMed] [Google Scholar]
  23. Pabo C. O., Sauer R. T., Sturtevant J. M., Ptashne M. The lambda repressor contains two domains. Proc Natl Acad Sci U S A. 1979 Apr;76(4):1608–1612. doi: 10.1073/pnas.76.4.1608. [DOI] [PMC free article] [PubMed] [Google Scholar]
  24. Roberts J. W., Roberts C. W., Craig N. L. Escherichia coli recA gene product inactivates phage lambda repressor. Proc Natl Acad Sci U S A. 1978 Oct;75(10):4714–4718. doi: 10.1073/pnas.75.10.4714. [DOI] [PMC free article] [PubMed] [Google Scholar]
  25. Rosenberg M., Court D. Regulatory sequences involved in the promotion and termination of RNA transcription. Annu Rev Genet. 1979;13:319–353. doi: 10.1146/annurev.ge.13.120179.001535. [DOI] [PubMed] [Google Scholar]
  26. Ross W., Landy A., Kikuchi Y., Nash H. Interaction of int protein with specific sites on lambda att DNA. Cell. 1979 Oct;18(2):297–307. doi: 10.1016/0092-8674(79)90049-7. [DOI] [PMC free article] [PubMed] [Google Scholar]
  27. Ross W., Shulman M., Landy A. Biochemical analysis of att-defective mutants of the phage lambda site-specific recombination system. J Mol Biol. 1982 Apr 15;156(3):505–522. doi: 10.1016/0022-2836(82)90263-7. [DOI] [PubMed] [Google Scholar]
  28. Shibata T., Cunningham R. P., DasGupta C., Radding C. M. Homologous pairing in genetic recombination: complexes of recA protein and DNA. Proc Natl Acad Sci U S A. 1979 Oct;76(10):5100–5104. doi: 10.1073/pnas.76.10.5100. [DOI] [PMC free article] [PubMed] [Google Scholar]
  29. Sutcliffe J. G. Complete nucleotide sequence of the Escherichia coli plasmid pBR322. Cold Spring Harb Symp Quant Biol. 1979;43(Pt 1):77–90. doi: 10.1101/sqb.1979.043.01.013. [DOI] [PubMed] [Google Scholar]
  30. Wild M. A., Gall J. G. An intervening sequence in the gene coding for 25S ribosomal RNA of Tetrahymena pigmentosa. Cell. 1979 Mar;16(3):565–573. doi: 10.1016/0092-8674(79)90030-8. [DOI] [PubMed] [Google Scholar]
  31. van Mansfeld A. D., Langeveld S. A., Baas P. D., Jansz H. S., van der Marel G. A., Veeneman G. H., van Boom J. H. Recognition sequence of bacteriophage phi X174 gene A protein--an initiator of DNA replication. Nature. 1980 Dec 11;288(5791):561–566. doi: 10.1038/288561a0. [DOI] [PubMed] [Google Scholar]

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