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. 1972 Nov;69(11):3448–3452. doi: 10.1073/pnas.69.11.3448

DNA Nucleotide Sequence Restricted by the RI Endonuclease

Joe Hedgpeth 1,2, Howard M Goodman 1,2, Herbert W Boyer 1,2
PMCID: PMC389791  PMID: 4343974

Abstract

The sequence of DNA base pairs adjacent to the phosphodiester bonds cleaved by the RI restriction endonuclease in unmodified DNA from coliphage λ has been determined. The 5′-terminal nucleotide labeled with 32P and oligonucleotides up to the heptamer were analyzed from a pancreatic DNase digest. The following sequence of nucleotides adjacent to the RI break made in λ DNA was deduced from these data and from the 3′-dinucleotide sequence and nearest-neighbor analysis obtained from repair synthesis with the DNA polymerase of Rous sarcoma virus [Formula: see text] The RI endonuclease cleavage of the phosphodiester bonds (indicated by arrows) generates 5′-phosphoryls and short cohesive termini of four nucleotides, pApApTpT. The most striking feature of the sequence is its symmetry.

Keywords: symmetry, cohesive ends, RSV DNA polymerase, DNA-protein recognition, R-factor product, coliphage λ

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Selected References

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

  1. Arber W., Linn S. DNA modification and restriction. Annu Rev Biochem. 1969;38:467–500. doi: 10.1146/annurev.bi.38.070169.002343. [DOI] [PubMed] [Google Scholar]
  2. Boyer H. W. DNA restriction and modification mechanisms in bacteria. Annu Rev Microbiol. 1971;25:153–176. doi: 10.1146/annurev.mi.25.100171.001101. [DOI] [PubMed] [Google Scholar]
  3. Faras A. J., Taylor J. M., McDonnell J. P., Levinson W. E., Bishop J. M. Purification and characterization of the deoxyribonucleic acid polymerase associated with Rous sarcoma virus. Biochemistry. 1972 Jun 6;11(12):2334–2342. doi: 10.1021/bi00762a020. [DOI] [PubMed] [Google Scholar]
  4. Glynn I. M., Chappell J. B. A simple method for the preparation of 32-P-labelled adenosine triphosphate of high specific activity. Biochem J. 1964 Jan;90(1):147–149. doi: 10.1042/bj0900147. [DOI] [PMC free article] [PubMed] [Google Scholar]
  5. Hurwitz J., Leis J. P. RNA-dependent DNA polymerase activity of RNA tumor viruses. I. Directing influence of DNA in the reaction. J Virol. 1972 Jan;9(1):116–129. doi: 10.1128/jvi.9.1.116-129.1972. [DOI] [PMC free article] [PubMed] [Google Scholar]
  6. Junowicz E., Spencer J. H. Nucleotide clusters in deoxyribonucleic acids. Separation of oligo-nucleotides released by deoxyribonuclease I. Biochemistry. 1970 Sep 1;9(18):3640–3648. doi: 10.1021/bi00820a022. [DOI] [PubMed] [Google Scholar]
  7. Kelly T. J., Jr, Smith H. O. A restriction enzyme from Hemophilus influenzae. II. J Mol Biol. 1970 Jul 28;51(2):393–409. doi: 10.1016/0022-2836(70)90150-6. [DOI] [PubMed] [Google Scholar]
  8. Kühnlein U., Arber W. Host specificity of DNA produced by Escherichia coli. XV. The role of nucleotide methylation in in vitro B-specific modification. J Mol Biol. 1972 Jan 14;63(1):9–19. doi: 10.1016/0022-2836(72)90518-9. [DOI] [PubMed] [Google Scholar]
  9. Linn S., Arber W. Host specificity of DNA produced by Escherichia coli, X. In vitro restriction of phage fd replicative form. Proc Natl Acad Sci U S A. 1968 Apr;59(4):1300–1306. doi: 10.1073/pnas.59.4.1300. [DOI] [PMC free article] [PubMed] [Google Scholar]
  10. Mertz J. E., Davis R. W. Cleavage of DNA by R 1 restriction endonuclease generates cohesive ends. Proc Natl Acad Sci U S A. 1972 Nov;69(11):3370–3374. doi: 10.1073/pnas.69.11.3370. [DOI] [PMC free article] [PubMed] [Google Scholar]
  11. Meselson M., Yuan R. DNA restriction enzyme from E. coli. Nature. 1968 Mar 23;217(5134):1110–1114. doi: 10.1038/2171110a0. [DOI] [PubMed] [Google Scholar]
  12. Murray K. Nucleotide 'maps' of digests of deoxyribonucleic acid. Biochem J. 1970 Aug;118(5):831–841. doi: 10.1042/bj1180831. [DOI] [PMC free article] [PubMed] [Google Scholar]
  13. Padmanabhan R., Wu R. Nucleotide sequence analysis of DNA. IV. Complete nucleotide sequence of the left-hand cohesive end of coliphage 186 DNA. J Mol Biol. 1972 Apr 14;65(3):447–467. doi: 10.1016/0022-2836(72)90201-x. [DOI] [PubMed] [Google Scholar]
  14. Richardson C. C. Phosphorylation of nucleic acid by an enzyme from T4 bacteriophage-infected Escherichia coli. Proc Natl Acad Sci U S A. 1965 Jul;54(1):158–165. doi: 10.1073/pnas.54.1.158. [DOI] [PMC free article] [PubMed] [Google Scholar]
  15. Roulland-Dussoix D., Boyer H. W. The Escherichia coli B restriction endonuclease. Biochim Biophys Acta. 1969 Nov 19;195(1):219–229. doi: 10.1016/0005-2787(69)90618-2. [DOI] [PubMed] [Google Scholar]
  16. Sanger F., Brownlee G. G., Barrell B. G. A two-dimensional fractionation procedure for radioactive nucleotides. J Mol Biol. 1965 Sep;13(2):373–398. doi: 10.1016/s0022-2836(65)80104-8. [DOI] [PubMed] [Google Scholar]
  17. Smith H. O., Wilcox K. W. A restriction enzyme from Hemophilus influenzae. I. Purification and general properties. J Mol Biol. 1970 Jul 28;51(2):379–391. doi: 10.1016/0022-2836(70)90149-x. [DOI] [PubMed] [Google Scholar]
  18. WEHRLI W. E., VERHEYDEN D. L., MOFFATT J. G. DISMUTATION REACTIONS OF NUCLEOSIDE POLYPHOSPHATES. II. SPECIFIC CHEMICAL SYNTHESES OF ALPHA-, BETA-, AND GAMMA-P32-NUCLEOSIDE 5'-TRIPHOSPHATES. J Am Chem Soc. 1965 May 20;87:2265–2277. doi: 10.1021/ja01088a028. [DOI] [PubMed] [Google Scholar]
  19. Wang J. C., Davidson N. On the probability of ring closure of lambda DNA. J Mol Biol. 1966 Aug;19(2):469–482. doi: 10.1016/s0022-2836(66)80017-7. [DOI] [PubMed] [Google Scholar]
  20. Weiss B., Live T. R., Richardson C. C. Enzymatic breakage and joining of deoxyribonucleic acid. V. End group labeling and analysis of deoxyribonucleic acid containing single straned breaks. J Biol Chem. 1968 Sep 10;243(17):4530–4542. [PubMed] [Google Scholar]
  21. Wu R., Taylor E. Nucleotide sequence analysis of DNA. II. Complete nucleotide sequence of the cohesive ends of bacteriophage lambda DNA. J Mol Biol. 1971 May 14;57(3):491–511. doi: 10.1016/0022-2836(71)90105-7. [DOI] [PubMed] [Google Scholar]

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