Journal article
Tension-Dependent Free Energies of Nucleosome Unwrapping
ACS central science, v 2(9), pp 660-666
28 Sep 2016
PMID: 27725965
Featured in Collection : UN Sustainable Development Goals @ Drexel
Abstract
Nucleosomes form the basic unit of compaction within eukaryotic genomes, and their locations represent an important, yet poorly understood, mechanism of genetic regulation. Quantifying the strength of interactions within the nucleosome is a central problem in biophysics and is critical to understanding how nucleosome positions influence gene expression. By comparing to single-molecule experiments, we demonstrate that a coarse-grained molecular model of the nucleosome can reproduce key aspects of nucleosome unwrapping. Using detailed simulations of DNA and histone proteins, we calculate the tension-dependent free energy surface corresponding to the unwrapping process. The model reproduces quantitatively the forces required to unwrap the nucleosome and reveals the role played by electrostatic interactions during this process. We then demonstrate that histone modifications and DNA sequence can have significant effects on the energies of nucleosome formation. Most notably, we show that histone tails contribute asymmetrically to the stability of the outer and inner turn of nucleosomal DNA and that depending on which histone tails are modified, the tension-dependent response is modulated differently.
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Details
- Title
- Tension-Dependent Free Energies of Nucleosome Unwrapping
- Creators
- Joshua Lequieu - University of ChicagoAndres Cordoba - University of ChicagoDavid C. Schwartz - University of Wisconsin–MadisonJuan J. de Pablo - University of ChicagoArgonne National Laboratory (ANL), Argonne, IL (United States)
- Publication Details
- ACS central science, v 2(9), pp 660-666
- Publisher
- American Chemical Society; Washington, DC
- Number of pages
- 7
- Grant note
- R01HG000225 / NATIONAL HUMAN GENOME RESEARCH INSTITUTE; United States Department of Health & Human Services; National Institutes of Health (NIH) - USA; NIH National Human Genome Research Institute (NHGRI) R01 HG000225 / NHGRI NIH HHS; United States Department of Health & Human Services; National Institutes of Health (NIH) - USA; NIH National Human Genome Research Institute (NHGRI)
- Resource Type
- Journal article
- Language
- English
- Academic Unit
- Chemical and Biological Engineering
- Web of Science ID
- WOS:000384750900016
- Scopus ID
- 2-s2.0-85017328334
- Other Identifier
- 991020950711404721
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- Collaboration types
- Domestic collaboration
- Web of Science research areas
- Chemistry, Multidisciplinary