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Bend-Induced Twist Waves and the Structure of Nucleosomal DNA

View ORCID ProfileEnrico Skoruppa, View ORCID ProfileStefanos K. Nomidis, John F. Marko, View ORCID ProfileEnrico Carlon
doi: https://doi.org/10.1101/256818
Enrico Skoruppa
1KU Leuven, Institute for Theoretical Physics, Celestijnenlaan 200D, 3001 Leuven, Belgium
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Stefanos K. Nomidis
1KU Leuven, Institute for Theoretical Physics, Celestijnenlaan 200D, 3001 Leuven, Belgium
2Flemish Institute for Technological Research (VITO), Boeretang 200, B-2400 Mol, Belgium
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John F. Marko
3Department of Physics and Astronomy, and Department of Molecular Biosciences, Northwestern University, Evanston, Illinois 60208, USA
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Enrico Carlon
1KU Leuven, Institute for Theoretical Physics, Celestijnenlaan 200D, 3001 Leuven, Belgium
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Abstract

Recent work indicates that twist-bend coupling plays an important role in DNA micromechanics. Here we show that this coupling induces standing twist waves in bent DNA, and we provide an analytical solution of the minimum-energy shape of a bent double-helical molecule. This solution is in excellent agreement with both coarse-grained simulations of DNA minicircles and experimental structural data for nucleosomal DNA, which is bent and wrapped around histone proteins in a superhelical conformation. Our analysis shows that the observed twist oscillation in nucleosomal DNA, so far attributed to the interaction with the histone proteins, is an intrinsic feature of free bent DNA, and should be observable in other protein-DNA complexes.

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Posted January 30, 2018.
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Bend-Induced Twist Waves and the Structure of Nucleosomal DNA
Enrico Skoruppa, Stefanos K. Nomidis, John F. Marko, Enrico Carlon
bioRxiv 256818; doi: https://doi.org/10.1101/256818
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Bend-Induced Twist Waves and the Structure of Nucleosomal DNA
Enrico Skoruppa, Stefanos K. Nomidis, John F. Marko, Enrico Carlon
bioRxiv 256818; doi: https://doi.org/10.1101/256818

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