Abstract
The possible existence of nucleic acids in right-handed and left-handed helical forms is considered. A statistical mechanical model is developed to obtain an expression for a change in twist during helical transformation in terms of corresponding free energies and linking for a supercoiled DNA. The theoretically predicted values are compared with those determined experimentally. The physico-chemical significance of the parameters is discussed.
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Literature
Benham, C. 1980. Theoretical analysis of transitions between B and Z conformation in torsionally stressed DNA.Nature 286, 637–638.
Benham, C. 1981. Theoretical analysis of competitive conformational transitions in torsionally stressed DNA.J. molec. Biol. 150, 43–68.
Benham, C. J. 1982. Statistical mechanical analysis of competing conformational transitions in superhelical DNA.Cold Spring Harb Symp. quant. Biol. 47, 219–228.
Benham, C. J. 1988. Superhelical DNA.Comments molec. cell. Biophys. 4(1), 35–53.
Camrini-Otero, R. D. and G. Felsenfeld, 1978. A simple model of DNA superhelices in solution.Proc. natn. Acad. Sci (USA) 75, 1708–1712.
Dickerson, R. E., H. R. Drew, B. N. Conner, R. M. Wing, A. V. Fratini and M. L. Kapka. 1982. The anatomy of A-, B-, and Z-DNA.Science 216, 475–485.
Doerfler, N. 1983. DNA methylation and gene activity.Ann. Rev. Biochem. 52, 93–124.
Gessner, R. V., C. A. Frederick, G. J. Quigley, A. Rich and A. H. Wang. 1989. The molecular structure of the left-handed Z-DNA double-helix at 1.0 Å atomic resolution.J. biol. Chem. 264, 7921–7935.
Ivanov, V. I., L. E. Minchenkova, E. E. Minyat and A. K. Schyolkina. 1982. Cooperative transitions in DNA with no separation of strands.Cold Spring Harb. Symp. quant. Biol. 47, 243–250.
Haniford, D. B. and D. E. Pulleyblank. 1983. Facile transition of poly [d(TG), d(CA)] into a left-handed helix in physiological conditions.Nature 302, 632–634.
Hao, M. H. and W. K. Olson. 1989. Modeling DNA supercoils and knots with B-spline functions.Biopolymers 28(4), 873–900.
Ho, P. S., G. Zohu and L. B. Clark. 1990. Polarised electronic spectra of Z DNA single crystals.Biopolymers 30 (1/2), 151–163.
Lamba, O. P., A. H. J. Wang and G. J. Thomas, Jr. 1989. Low frequency dynamics and raman scattering of crystals, of B-, A- and Z DNA and fibers of C-DNA.Biopolymers 28(2), 667–678.
Nordheim, A., E. M. Lafen, L. J. Peck, J. C. Wang, B. D. Stollar and A. Rich. 1982. Negatively supercoiled plasmids contain left-handed Z DNA segments as detected by specific antibody binding.Cell 31, 309–318.
Nordheim, A. and A. Rich. 1983. The sequence (dC-dA) n (dG-dT) n forms left-handed Z-DNA in negatively supercoiled plasmids.Proc. natn. Acad. Sci. (USA) 80, 1821–1825.
Peck, L. J. and J. C. Wang. 1983. Energetics of B to Z transition in DNA.Proc. natn. Acad. Sci. USA 80, 6206–6210.
Rich, A., A. Nordheim and A. H. J. Wang. 1984. The chemistry and biology of left-handed Z DNA.Ann. Rev. Biochem. 53, 791–846.
Sen, S. and R. Majumdar. 1987. Thermodynamics of B-Z transition in supercoiled DNA.Nucl. Acid Res. 15(14), 5863–5871.
Singleton, C. K., J. Khysik, S. M. Stirdivant and R. D. Well. 1982. Left-handed Z-DNA is induced by supercoiling in physiological ionic conditions.Nature 299, 312–316.
Umehara, T., J. Kuwavara, S. Mashimo and S. Yagihera. 1990. Dielectric study on hydration of B, A and Z DNA.Biopolymers 30(7/8), 649–656.
Wang, J. C., J. L. Peck and K. Becherer. 1982. DNA supercoiling and its effects on DNA structure and function.Cold Spring Harb. Symp. quant. Biol. 47, 85–91.
Zhong, L. and W. C. Johnson, Jr. 1990. Poly [d(Gm5C). d(Gm5C)] can assume the Z-form: a CD study.Biopolymers 30(7/8), 821–828.
Zimm, B. M. and J. K. Bragg. 1959. Theory of the phase transition between helix and random coli in polypeptide chains.J. Chem. Phys. 31(2), 526–535.
Zimmerman, S. B. 1982. The three dimensional structure of DNA.Ann. Rev. Biochem. 51, 395–427.
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Ghosh, S. Ising model forB-Z transition in supercoiled DNA. Bltn Mathcal Biology 54, 727–732 (1992). https://doi.org/10.1007/BF02459927
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DOI: https://doi.org/10.1007/BF02459927