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Proceedings of the National Academy of Sciences of the United States of America logoLink to Proceedings of the National Academy of Sciences of the United States of America
. 1982 Nov;79(21):6484–6488. doi: 10.1073/pnas.79.21.6484

Spermidine-condensed phi X174 DNA cleavage by micrococcal nuclease: torus cleavage model and evidence for unidirectional circumferential DNA wrapping.

K A Marx, T C Reynolds
PMCID: PMC347151  PMID: 6216482

Abstract

Spermidine-condensed phi X174 replicative form (RF) II DNA was digested with micrococcal nuclease to yield seven identifiable DNA bands forming an arithmetic fragment-length series. The DNA monomer unit length was found to be 780 +/- 80 base pairs. This result is most consistent with a proposed model for micrococcal nuclease cleavage of a DNA torus organized by the unidirectional, circumferential wrapping of B-geometry DNA. By a topological consideration, the blunt-end-rod-fusion model for torus formation [Eickbush, T. H. & Moudrianakis, E. N. (1978) Cell 13, 295-306] is shown to be inconsistent with our empirical solution results. We propose a continuous, circumferential DNA wrapping model in which a significant fraction of the collapsed circular phi X174 RFII DNA molecules form regular toruses comprised of seven complete, unidirectional double-helical wraps.

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Selected References

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  1. Allison S. A., Herr J. C., Schurr J. M. Structure of viral phi 29 DNA condensed by simple triamines: a light-scattering and electron-microscopy study. Biopolymers. 1981 Mar;20(3):469–488. doi: 10.1002/bip.1981.360200305. [DOI] [PubMed] [Google Scholar]
  2. Chattoraj D. K., Gosule L. C., Schellman A. DNA condensation with polyamines. II. Electron microscopic studies. J Mol Biol. 1978 May 25;121(3):327–337. doi: 10.1016/0022-2836(78)90367-4. [DOI] [PubMed] [Google Scholar]
  3. Earnshaw W. C., Casjens S. R. DNA packaging by the double-stranded DNA bacteriophages. Cell. 1980 Sep;21(2):319–331. doi: 10.1016/0092-8674(80)90468-7. [DOI] [PubMed] [Google Scholar]
  4. Eickbush T. H., Moudrianakis E. N. The compaction of DNA helices into either continuous supercoils or folded-fiber rods and toroids. Cell. 1978 Feb;13(2):295–306. doi: 10.1016/0092-8674(78)90198-8. [DOI] [PubMed] [Google Scholar]
  5. Finch J. T., Lutter L. C., Rhodes D., Brown R. S., Rushton B., Levitt M., Klug A. Structure of nucleosome core particles of chromatin. Nature. 1977 Sep 1;269(5623):29–36. doi: 10.1038/269029a0. [DOI] [PubMed] [Google Scholar]
  6. Fittler F., Zachau H. G. Subunit structure of alpha-satellite DNA containing chromatin from African green monkey cells. Nucleic Acids Res. 1979 Sep 11;7(1):1–13. doi: 10.1093/nar/7.1.1. [DOI] [PMC free article] [PubMed] [Google Scholar]
  7. Furlong D., Swift H., Roizman B. Arrangement of herpesvirus deoxyribonucleic acid in the core. J Virol. 1972 Nov;10(5):1071–1074. doi: 10.1128/jvi.10.5.1071-1074.1972. [DOI] [PMC free article] [PubMed] [Google Scholar]
  8. Gosule L. C., Schellman J. A. DNA condensation with polyamines I. Spectroscopic studies. J Mol Biol. 1978 May 25;121(3):311–326. doi: 10.1016/0022-2836(78)90366-2. [DOI] [PubMed] [Google Scholar]
  9. Klimenko S. M., Tikchonenko T. I., Andreev V. M. Packing of DNA in the head of bacteriophage T2. J Mol Biol. 1967 Feb 14;23(3):523–533. doi: 10.1016/s0022-2836(67)80122-0. [DOI] [PubMed] [Google Scholar]
  10. Lohr D., Corden J., Tatchell K., Kovacic R. T., Van Holde K. E. Comparative subunit structure of HeLa, yeast, and chicken erythrocyte chromatin. Proc Natl Acad Sci U S A. 1977 Jan;74(1):79–83. doi: 10.1073/pnas.74.1.79. [DOI] [PMC free article] [PubMed] [Google Scholar]
  11. Mandelkern M., Dattagupta N., Crothers D. M. Conversion of B DNA between solution and fiber conformations. Proc Natl Acad Sci U S A. 1981 Jul;78(7):4294–4298. doi: 10.1073/pnas.78.7.4294. [DOI] [PMC free article] [PubMed] [Google Scholar]
  12. Manning G. S. The molecular theory of polyelectrolyte solutions with applications to the electrostatic properties of polynucleotides. Q Rev Biophys. 1978 May;11(2):179–246. doi: 10.1017/s0033583500002031. [DOI] [PubMed] [Google Scholar]
  13. Noll M. Subunit structure of chromatin. Nature. 1974 Sep 20;251(5472):249–251. doi: 10.1038/251249a0. [DOI] [PubMed] [Google Scholar]
  14. Ponder B. A., Crawford L. V. The arrangement of nucleosomes in nucleoprotein complexes from polyoma virus and SV40. Cell. 1977 May;11(1):35–49. doi: 10.1016/0092-8674(77)90315-4. [DOI] [PubMed] [Google Scholar]
  15. Richards K. E., Williams R. C., Calendar R. Mode of DNA packing within bacteriophage heads. J Mol Biol. 1973 Aug 5;78(2):255–259. doi: 10.1016/0022-2836(73)90114-9. [DOI] [PubMed] [Google Scholar]
  16. Skuridin S. G., Kadykov V. A., Shashkov V. S., Evdokimov Iu M., Varshavskii Ia M. Obrazovanie kompaktnoi formy DNK v rastvore pri vzaimodeistvii so spermidinom. Mol Biol (Mosk) 1978 Mar-Apr;12(2):413–420. [PubMed] [Google Scholar]
  17. Widom J., Baldwin R. L. Cation-induced toroidal condensation of DNA studies with Co3+(NH3)6. J Mol Biol. 1980 Dec 25;144(4):431–453. doi: 10.1016/0022-2836(80)90330-7. [DOI] [PubMed] [Google Scholar]
  18. Wilson R. W., Bloomfield V. A. Counterion-induced condesation of deoxyribonucleic acid. a light-scattering study. Biochemistry. 1979 May 29;18(11):2192–2196. doi: 10.1021/bi00578a009. [DOI] [PubMed] [Google Scholar]

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