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Analyzing and Building Nucleic Acid Structures with 3DNA
Published on: April 26, 2013
Writhe formulas and antipodal points in plectonemic DNA configurations
Sébastien Neukirch1, Eugene L Starostin
1Institut Jean le Rond d'Alembert, CNRS and UPMC Univ. Paris 6, 4 Place Jussieu (case 162), 75005 Paris, France.
Abstract:
The linking and writhing numbers are key quantities when characterizing the structure of a piece of supercoiled DNA. Defined as double integrals over the shape of the double helix, these numbers are not always straightforward to compute, though a simplified formula was established in a theorem by Fuller [Proc. Natl. Acad. Sci. U.S.A. 75, 3557 (1978)]. We examine the range of applicability of this widely used simplified formula, and show that it cannot be employed for plectonemic DNA. We show that inapplicability is due to a hypothesis of Fuller theorem that is not met. The hypothesis seems to have been overlooked in many works.
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