Coupling between histone conformations and DNA geometry in nucleosomes on a microsecond timescale: atomistic insights into nucleosome functions

AK Shaytan, GA Armeev, A Goncearenco… - Journal of molecular …, 2016 - Elsevier
An octamer of histone proteins wraps about 200 bp of DNA into two superhelical turns to
form nucleosomes found in chromatin. Although the static structure of the nucleosomal core …

[HTML][HTML] Histone dynamics mediate DNA unwrapping and sliding in nucleosomes

GA Armeev, AS Kniazeva, GA Komarova… - Nature …, 2021 - nature.com
Nucleosomes are elementary building blocks of chromatin in eukaryotes. They tightly
wrap∼ 147 DNA base pairs around an octamer of histone proteins. How nucleosome …

[HTML][HTML] Binding of regulatory proteins to nucleosomes is modulated by dynamic histone tails

Y Peng, S Li, A Onufriev, D Landsman… - Nature …, 2021 - nature.com
Little is known about the roles of histone tails in modulating nucleosomal DNA accessibility
and its recognition by other macromolecules. Here we generate extensive atomic level …

[HTML][HTML] Clipping of flexible tails of histones H3 and H4 affects the structure and dynamics of the nucleosome

NP Nurse, I Jimenez-Useche, IT Smith, C Yuan - Biophysical journal, 2013 - cell.com
Förster resonance energy transfer was used to monitor the dynamic conformations of
mononucleosomes under different chromatin folding conditions to elucidate the role of the …

Histone tail network and modulation in a nucleosome

Y Tsunaka, A Furukawa, Y Nishimura - Current Opinion in Structural …, 2022 - Elsevier
The structural unit of eukaryotic chromatin is a nucleosome, comprising two histone
H2A/H2B heterodimers and one histone (H3/H4) 2 tetramer, wrapped around by∼ 146-bp …

Molecular mechanism of spontaneous nucleosome unraveling

D Winogradoff, A Aksimentiev - Journal of molecular biology, 2019 - Elsevier
Meters of DNA wrap around histone proteins to form nucleosomes and fit inside the micron-
diameter nucleus. For the genetic information encoded in the DNA to become available for …

[HTML][HTML] Multiscale modeling of nucleosome dynamics

S Sharma, F Ding, NV Dokholyan - Biophysical journal, 2007 - cell.com
Nucleosomes form the fundamental building blocks of chromatin. Subtle modifications of the
constituent histone tails mediate chromatin stability and regulate gene expression. For this …

[HTML][HTML] Dynamics of forced nucleosome unraveling and role of nonuniform histone-DNA interactions

IV Dobrovolskaia, G Arya - Biophysical journal, 2012 - cell.com
A coarse-grained model of the nucleosome is introduced to investigate the dynamics of force-
induced unwrapping of DNA from histone octamers. In this model, the DNA is treated as a …

[HTML][HTML] Histone tails cooperate to control the breathing of genomic nucleosomes

J Huertas, HR Schöler, V Cojocaru - PLoS computational biology, 2021 - journals.plos.org
Genomic DNA is packaged in chromatin, a dynamic fiber variable in size and compaction. In
chromatin, repeating nucleosome units wrap 145–147 DNA basepairs around histone …

[HTML][HTML] Dissecting DNA-histone interactions in the nucleosome by molecular dynamics simulations of DNA unwrapping

R Ettig, N Kepper, R Stehr, G Wedemann, K Rippe - Biophysical journal, 2011 - cell.com
The nucleosome complex of DNA wrapped around a histone protein octamer organizes the
genome of eukaryotes and regulates the access of protein factors to the DNA. We performed …