Structural mechanics of DNA wrapping in the nucleosome.

Journal of Molecular Biology
Federica BattistiniMartin J Packer

Abstract

Experimental X-ray crystal structures and a database of calculated structural parameters of DNA octamers were used in combination to analyse the mechanics of DNA bending in the nucleosome core complex. The 1kx5 X-ray crystal structure of the nucleosome core complex was used to determine the relationship between local structure at the base-step level and the global superhelical conformation observed for nucleosome-bound DNA. The superhelix is characterised by a large curvature (597 degrees) in one plane and very little curvature (10 degrees) in the orthogonal plane. Analysis of the curvature at the level of 10-step segments shows that there is a uniform curvature of 30 degrees per helical turn throughout most of the structure but that there are two sharper kinks of 50 degrees at +/-2 helical turns from the central dyad base pair. The curvature is due almost entirely to the base-step parameter roll. There are large periodic variations in roll, which are in phase with the helical twist and account for 500 degrees of the total curvature. Although variations in the other base-step parameters perturb the local path of the DNA, they make minimal contributions to the total curvature. This implies that DNA bending in the nucleosome is a...Continue Reading

References

Mar 1, 1979·Nucleic Acids Research·V B ZhurkinV I Ivanov
Oct 1, 1989·Proceedings of the National Academy of Sciences of the United States of America·T E Shrader, D M Crothers
Dec 15, 1987·Philosophical Transactions of the Royal Society of London. Series B, Biological Sciences·A A Travers, A Klug
Jul 25, 1988·Nucleic Acids Research·R D Kornberg, L Stryer
Dec 20, 1986·Journal of Molecular Biology·C R Calladine, H R Drew
Dec 20, 1985·Journal of Molecular Biology·H R Drew, A A Travers
Jan 1, 1983·Proceedings of the National Academy of Sciences of the United States of America·R T Simpson, D W Stafford
Oct 7, 1993·Nature·Y KimP B Sigler
Jan 1, 1996·Endeavour·M A el Hassan, C R Calladine
Feb 1, 1996·BioEssays : News and Reviews in Molecular, Cellular and Developmental Biology·C A Hunter
Feb 18, 1997·Proceedings of the National Academy of Sciences of the United States of America·P T Lowary, J Widom
Jun 1, 1997·Journal of Biomolecular Structure & Dynamics·C A Hunter, X J Lu
Mar 31, 1998·Current Opinion in Structural Biology·K Luger, T J Richmond
Jul 1, 1998·Annual Review of Biophysics and Biomolecular Structure·J Widom
Sep 16, 1998·Proceedings of the National Academy of Sciences of the United States of America·W K OlsonV B Zhurkin
Jul 27, 2001·Journal of the American Chemical Society·M J Packer, C A Hunter
Feb 13, 2002·Quarterly Reviews of Biophysics·J Widom
May 9, 2003·Nature·Timothy J Richmond, Curt A Davey
Sep 23, 2003·Journal of Molecular Biology·Eleanor J GardinerPeter Willett
Mar 25, 2004·Methods : a Companion to Methods in Enzymology·A ThåströmJ Widom
Jun 18, 2005·Science·Guo-Cheng YuanOliver J Rando
Aug 27, 2005·Cell·Dmitry K PokholokRichard A Young
Sep 27, 2005·Biopolymers·Jochen FarwerChristopher A Hunter
Oct 26, 2005·Nucleic Acids Research·Alexandre V MorozovEric D Siggia
Sep 12, 2006·Nature Genetics·Ilya P IoshikhesB Franklin Pugh
Jan 16, 2007·Nature Biotechnology·Fatih OzsolakDavid E Fisher
Mar 24, 2007·Journal of Molecular Biology·Michelle S OngCurt A Davey
Jun 26, 2007·Journal of Molecular Biology·Michael Y TolstorukovVictor B Zhurkin
Jul 11, 2007·Genome Research·Heather E PeckhamZhiping Weng
Sep 18, 2007·Nature Genetics·William LeeCorey Nislow
Jan 30, 2008·PLoS Computational Biology·Guo-Cheng Yuan, Jun S Liu
Mar 11, 2008·Cell·Dustin E SchonesKeji Zhao

❮ Previous
Next ❯

Citations

Dec 19, 2012·Chromosome Research : an International Journal on the Molecular, Supramolecular and Evolutionary Aspects of Chromosome Biology·Jian-Ying WangGuoqing Liu
Jun 27, 2013·BMC Bioinformatics·Petr ČechDaniel Svozil
Nov 16, 2010·Epigenetics & Chromatin·Christoforos NikolaouRoderic Guigó
Sep 23, 2014·Fungal Genetics and Biology : FG & B·Juan Manuel González-PrietoJosé Ruiz-Herrera
Sep 14, 2014·Expert Opinion on Investigational Drugs·Jason TasoulasStamatios Theocharis
Dec 8, 2015·ACS Nano·Xiaojing Teng, Wonmuk Hwang
Apr 5, 2012·Journal of Molecular Biology·Federica BattistiniJonathan Widom
Feb 7, 2013·Journal of Biomolecular Structure & Dynamics·Davood Norouzi, Farshid Mohammad-Rafiee
May 15, 2012·Organic & Biomolecular Chemistry·Elena ChekmenevaSimon M Turega
Apr 16, 2014·Physical Review. E, Statistical, Nonlinear, and Soft Matter Physics·Sarah E LeGresleyMatthew Antonik

❮ Previous
Next ❯

Related Concepts

Related Feeds

Antifungals (ASM)

An antifungal, also known as an antimycotic medication, is a pharmaceutical fungicide or fungistatic used to treat and prevent mycosis such as athlete's foot, ringworm, candidiasis, cryptococcal meningitis, and others. Discover the latest research on antifungals here.

Antifungals

An antifungal, also known as an antimycotic medication, is a pharmaceutical fungicide or fungistatic used to treat and prevent mycosis such as athlete's foot, ringworm, candidiasis, cryptococcal meningitis, and others. Discover the latest research on antifungals here.

© 2022 Meta ULC. All rights reserved