Abstract
Relaxation of a DNA superhelical stress due to the B to A transition induced by trifluoroethanol has been studied by assessing the change of DNA orientation in a flow gradient. Using DNAs of different superhelical densities, a decrease in the winding angle during the B----A shift of DNA was found to be 1.5 degrees per base pair in solution. Accepting the winding angle for B-DNA in solution to be 34.1 degrees, that for A-DNA must have a value of 32.6 degrees which agrees with the X-ray data for A-DNA in the condensed state. The date obtained within the B-A transition interval make it possible to conclude that there is an increase in winding at each B/A junction, which is about 5 degrees per one junction.
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- BRAHMS J., MOMMAERTS W. F. A STUDY OF CONFORMATION OF NUCLEIC ACIDS IN SOLUTION BY MEANS OF CIRCULAR DICHROISM. J Mol Biol. 1964 Oct;10:73–88. doi: 10.1016/s0022-2836(64)80029-2. [DOI] [PubMed] [Google Scholar]
- Benham C. J. Statistical mechanical analysis of competing conformational transitions in superhelical DNA. Cold Spring Harb Symp Quant Biol. 1983;47(Pt 1):219–227. doi: 10.1101/sqb.1983.047.01.027. [DOI] [PubMed] [Google Scholar]
- Goulet I., Zivanovic Y., Prunell A. Helical repeat of DNA in solution. The V curve method. Nucleic Acids Res. 1987 Apr 10;15(7):2803–2821. doi: 10.1093/nar/15.7.2803. [DOI] [PMC free article] [PubMed] [Google Scholar]
- Gray D. M., Taylor T. N., Lang D. Dehydrated circular DNA: circular dichroism of molecules in ethanolic solutions. Biopolymers. 1978 Jan;17(1):145–157. doi: 10.1002/bip.1978.360170111. [DOI] [PubMed] [Google Scholar]
- Greenfield L., Simpson L., Kaplan D. Conversion of closed circular DNA molecules to single-nicked molecules by digestion with DNAase I in the presence of ethidium bromide. Biochim Biophys Acta. 1975 Oct 15;407(3):365–375. doi: 10.1016/0005-2787(75)90104-5. [DOI] [PubMed] [Google Scholar]
- Ivanov V. I., Krylov DYu, Minyat E. E. Three-state diagram for DNA. J Biomol Struct Dyn. 1985 Aug;3(1):43–55. doi: 10.1080/07391102.1985.10508397. [DOI] [PubMed] [Google Scholar]
- Ivanov V. I., Minchenkova L. E., Minyat E. E., Frank-Kamenetskii M. D., Schyolkina A. K. The B to A transition of DNA in solution. J Mol Biol. 1974 Aug 25;87(4):817–833. doi: 10.1016/0022-2836(74)90086-2. [DOI] [PubMed] [Google Scholar]
- Ivanov V. I., Minchenkova L. E., Minyat E. E., Schyolkina A. K. Cooperative transitions in DNA with no separation of strands. Cold Spring Harb Symp Quant Biol. 1983;47(Pt 1):243–250. doi: 10.1101/sqb.1983.047.01.029. [DOI] [PubMed] [Google Scholar]
- Ivanov V. I., Minchenkova L. E., Schyolkina A. K., Poletayev A. I. Different conformations of double-stranded nucleic acid in solution as revealed by circular dichroism. Biopolymers. 1973;12(1):89–110. doi: 10.1002/bip.1973.360120109. [DOI] [PubMed] [Google Scholar]
- Malenkov G., Minchenkova L., Minyat E., Schyolkina A., Ivanov V. The nature of the B-A transition of DNA in solution. FEBS Lett. 1975 Mar 1;51(1):38–42. doi: 10.1016/0014-5793(75)80850-7. [DOI] [PubMed] [Google Scholar]
- Minchenkova L. E., Schyolkina A. K., Chernov B. K., Ivanov V. I. CC/GG contacts facilitate the B to A transition of DNA in solution. J Biomol Struct Dyn. 1986 Dec;4(3):463–476. doi: 10.1080/07391102.1986.10506362. [DOI] [PubMed] [Google Scholar]
- Peck L. J., Wang J. C. Sequence dependence of the helical repeat of DNA in solution. Nature. 1981 Jul 23;292(5821):375–378. doi: 10.1038/292375a0. [DOI] [PubMed] [Google Scholar]
- Wang J. C. Helical repeat of DNA in solution. Proc Natl Acad Sci U S A. 1979 Jan;76(1):200–203. doi: 10.1073/pnas.76.1.200. [DOI] [PMC free article] [PubMed] [Google Scholar]
- Wang J. C. The degree of unwinding of the DNA helix by ethidium. I. Titration of twisted PM2 DNA molecules in alkaline cesium chloride density gradients. J Mol Biol. 1974 Nov 15;89(4):783–801. doi: 10.1016/0022-2836(74)90053-9. [DOI] [PubMed] [Google Scholar]
- Zavriev S. K., Minchenkova L. E., Frank-Kamenetskii M. D., Ivanov V. I. On the flexibility of the boundaries between the A-form and B-form sections in DNA molecule. Nucleic Acids Res. 1978 Jul;5(7):2657–2663. doi: 10.1093/nar/5.7.2657. [DOI] [PMC free article] [PubMed] [Google Scholar]