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. 1982 May 11;10(9):2763–2773. doi: 10.1093/nar/10.9.2763

Primary and secondary structure specificity of the cleavage of 'single-stranded' DNA by endonuclease Hinf I.

B Hofer, G Ruhe, A Koch, H Köster
PMCID: PMC320654  PMID: 6285307

Abstract

The interaction of endonuclease Hinf I with single-stranded fd DNA was examined. The sizes of the cleavage products indicate that the enzyme cuts this substrate at the same sequences as double-stranded DNA (GANTC). To determine whether or not the recognition sites in single-stranded DNA have to be present in double-stranded form in order to be cleaved, DNA fragments containing complementary or non-complementary Hinf I sequences were prepared and treated as substrates. The results suggest that completely base-paired recognition sites are necessary for cleavage. Sequences surrounding the Hinf I pentanucleotides significantly modulate the reaction rates.

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Selected References

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  1. Baumstark B. R., Roberts R. J., RajBhandary U. L. Use of short synthetic DNA duplexes as substrates for the restriction endonucleases Hpa II and Mno I. J Biol Chem. 1979 Sep 25;254(18):8943–8950. [PubMed] [Google Scholar]
  2. Beck E., Sommer R., Auerswald E. A., Kurz C., Zink B., Osterburg G., Schaller H., Sugimoto K., Sugisaki H., Okamoto T. Nucleotide sequence of bacteriophage fd DNA. Nucleic Acids Res. 1978 Dec;5(12):4495–4503. doi: 10.1093/nar/5.12.4495. [DOI] [PMC free article] [PubMed] [Google Scholar]
  3. Blakesley R. W., Dodgson J. B., Nes I. F., Wells R. D. Duplex regions in "single-stranded" phiX174 DNA are cleaved by a restriction endonuclease from Haemophilus aegyptius. J Biol Chem. 1977 Oct 25;252(20):7300–7306. [PubMed] [Google Scholar]
  4. Blakesley R. W., Wells R. D. 'Single-stranded' DNA from phiX174 and M13 is cleaved by certain restriction endonucleases. Nature. 1975 Oct 2;257(5525):421–422. doi: 10.1038/257421a0. [DOI] [PubMed] [Google Scholar]
  5. Godson G. N., Roberts R. J. dna, single stranded/*metab. Virology. 1976 Sep;73(2):561–567. doi: 10.1016/0042-6822(76)90421-9. [DOI] [PubMed] [Google Scholar]
  6. Greene P. H., Poonian M. S., Nussbaum A. L., Tobias L., Garfin D. E., Boyer H. W., Goodman H. M. Restriction and modification of a self-complementary octanucleotide containing the EcoRI substrate. J Mol Biol. 1975 Dec 5;99(2):237–261. doi: 10.1016/s0022-2836(75)80143-4. [DOI] [PubMed] [Google Scholar]
  7. Haasnoot C. A., den Hartog J. H., de Rooij J. F., van Boom J. H., Altona C. Loopstructures in synthetic oligodeoxynucleotides. Nucleic Acids Res. 1980 Jan 11;8(1):169–181. doi: 10.1093/nar/8.1.169. [DOI] [PMC free article] [PubMed] [Google Scholar]
  8. Hofer B., Köster H. Elimination of promoter function by base modification of DNA. FEBS Lett. 1979 Jun 1;102(1):87–90. doi: 10.1016/0014-5793(79)80934-5. [DOI] [PubMed] [Google Scholar]
  9. Hofer B., Köster H. Enzymatic synthesis, ligation, and restriction of DNA containing deoxy-4-thiothymidine. Nucleic Acids Res. 1981 Feb 25;9(4):753–767. doi: 10.1093/nar/9.4.753. [DOI] [PMC free article] [PubMed] [Google Scholar]
  10. Hofer B., Köster H. On the influence of thymidine analogues on the activity of phage fd promoters in vitro. Nucleic Acids Res. 1980 Dec 20;8(24):6143–6162. doi: 10.1093/nar/8.24.6143. [DOI] [PMC free article] [PubMed] [Google Scholar]
  11. Horiuchi K., Zinder N. D. Site-specific cleavage of single-stranded DNA by a Hemophilus restriction endonuclease. Proc Natl Acad Sci U S A. 1975 Jul;72(7):2555–2558. doi: 10.1073/pnas.72.7.2555. [DOI] [PMC free article] [PubMed] [Google Scholar]
  12. 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]
  13. Meyer T. F., Geider K., Kurz C., Schaller H. Cleavage site of bacteriophage fd gene II-protein in the origin of viral strand replication. Nature. 1979 Mar 22;278(5702):365–367. doi: 10.1038/278365a0. [DOI] [PubMed] [Google Scholar]
  14. Rubin R. A., Modrich P. Substrate dependence of the mechanism of EcoRI endonuclease. Nucleic Acids Res. 1978 Aug;5(8):2991–2997. doi: 10.1093/nar/5.8.2991. [DOI] [PMC free article] [PubMed] [Google Scholar]
  15. Yoo O. J., Agarwal K. L. Cleavage of single strand oligonucleotides and bacteriophage phi X174 DNA by Msp I endonuclease. J Biol Chem. 1980 Nov 25;255(22):10559–10562. [PubMed] [Google Scholar]

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