[HTML][HTML] Chromatin compaction multiscale modeling: a complex synergy between theory, simulation, and experiment

A Bendandi, S Dante, SR Zia, A Diaspro… - Frontiers in Molecular …, 2020 - frontiersin.org
Understanding the mechanisms that trigger chromatin compaction, its patterns, and the
factors they depend on, is a fundamental and still open question in Biology. Chromatin …

Nucleosome allostery in pioneer transcription factor binding

C Tan, S Takada - Proceedings of the National Academy of …, 2020 - National Acad Sciences
While recent experiments revealed that some pioneer transcription factors (TFs) can bind to
their target DNA sequences inside a nucleosome, the binding dynamics of their target …

[HTML][HTML] Nucleosome unwrapping and unstacking

H Kono, H Ishida - Current Opinion in Structural Biology, 2020 - Elsevier
Access to the eukaryotic genome is key to the regulation of such DNA processes as
transcription, replication and repair. About three-quarters of the human genome is stored …

[HTML][HTML] Nucleosomal DNA dynamics mediate Oct4 pioneer factor binding

J Huertas, CM MacCarthy, HR Schöler, V Cojocaru - Biophysical Journal, 2020 - cell.com
Transcription factor (TF) proteins bind to DNA to regulate gene expression. Normally,
accessibility to DNA is required for their function. However, in the nucleus, the DNA is often …

Dynamics of the nucleosomal histone H3 N-terminal tail revealed by high precision single-molecule FRET

K Lehmann, S Felekyan, R Kühnemuth… - Nucleic Acids …, 2020 - academic.oup.com
Chromatin compaction and gene accessibility are orchestrated by assembly and
disassembly of nucleosomes. Although the disassembly process was widely studied, little is …

Elucidating the influence of linker histone variants on chromatosome dynamics and energetics

DC Woods, J Wereszczynski - Nucleic acids research, 2020 - academic.oup.com
Linker histones are epigenetic regulators that bind to nucleosomes and alter chromatin
structures and dynamics. Biophysical studies have revealed two binding modes in the linker …

Emergence of chromatin hierarchical loops from protein disorder and nucleosome asymmetry

A Sridhar, SE Farr, G Portella… - Proceedings of the …, 2020 - National Acad Sciences
Protein flexibility and disorder is emerging as a crucial modulator of chromatin structure.
Histone tail disorder enables transient binding of different molecules to the nucleosomes …

[HTML][HTML] The role of histone tails in nucleosome stability: An electrostatic perspective

A Bendandi, AS Patelli, A Diaspro… - Computational and …, 2020 - Elsevier
We propose a methodology for the study of protein-DNA electrostatic interactions and apply
it to clarify the effect of histone tails in nucleosomes. This method can be used to correlate …

[HTML][HTML] Partial replacement of nucleosomal DNA with human FACT induces dynamic exposure and acetylation of histone H3 N-terminal tails

Y Tsunaka, H Ohtomo, K Morikawa, Y Nishimura - Iscience, 2020 - cell.com
The FACT (facilitates chromatin transcription) complex, comprising SPT16 and SSRP1,
conducts structural alterations during nucleosome unwrapping. Our previous cryoelectron …

[HTML][HTML] Molecular mechanism of histone variant H2A. B on stability and assembly of nucleosome and chromatin structures

J Peng, C Yuan, X Hua, Z Zhang - Epigenetics & chromatin, 2020 - Springer
Abstract Background H2A. B, the most divergent histone variant of H2A, can significantly
modulate nucleosome and chromatin structures. However, the related structural details and …