The implication of DNA bending energy for nucleosome positioning and sliding

G Liu, Y Xing, H Zhao, L Cai, J Wang - Scientific reports, 2018 - nature.com
Nucleosome not only directly affects cellular processes, such as DNA replication,
recombination, and transcription, but also severs as a fundamentally important target of …

FRET analysis of the sequence-dependent unwrapping of nucleosomal DNA

T Sunami, H Kono - Biophysical Journal, 2024 - cell.com
Nucleosome is the fundamental unit of eukaryotic chromatin, in which DNA wraps around
histone proteins. It is essential to know the regulation of DNA unwrapping because the DNA …

Nucleosome sliding induced by the xMi-2 complex does not occur exclusively via a simple twist-diffusion mechanism

S Aoyagi, PA Wade, JJ Hayes - Journal of Biological Chemistry, 2003 - ASBMB
ATP-dependent chromatin remodeling complexes can induce the translocation (sliding) of
nucleosomes in cis along DNA, but the mechanism by which sliding occurs is not well …

Kinetic proofreading in chromatin remodeling: the case of ISWI/ACF

R Blossey, H Schiessel - Biophysical journal, 2011 - cell.com
For activation or repression of genes in eukaryotic organisms, the chromatin structure has to
be adapted. This action is performed at least in part by dedicated motor proteins, the …

The nucleosome unwrapping free energy landscape defines distinct regions of transcription factor accessibility and kinetics

BT Donovan, Y Luo, Z Meng… - Nucleic Acids Research, 2023 - academic.oup.com
Transcription factors (TF) require access to target sites within nucleosomes to initiate
transcription. The target site position within the nucleosome significantly influences TF …

Nucleosome remodeling by the human SWI/SNF complex requires transient global disruption of histone-DNA interactions

S Aoyagi, G Narlikar, C Zheng, S Sif… - … and Cellular Biology, 2002 - Taylor & Francis
We utilized a site-specific cross-linking technique to investigate the mechanism of
nucleosome remodeling by hSWI/SNF. We found that a single cross-link between H2B and …

Mechanism (s) of SWI/SNF‐induced nucleosome mobilization

N Liu, A Balliano, JJ Hayes - Chembiochem, 2011 - Wiley Online Library
Impediments to DNA access due to assembly of the eukaryotic genome into chromatin are in
part overcome by the activity of ATP‐dependent chromatin‐remodeling complexes. These …

The importance of DNA sequence for nucleosome positioning in transcriptional regulation

M Sahrhage, NB Paul, T Beißbarth… - Life Science …, 2024 - life-science-alliance.org
Nucleosome positioning is a key factor for transcriptional regulation. Nucleosomes regulate
the dynamic accessibility of chromatin and interact with the transcription machinery at every …

Persistent site-specific remodeling of a nucleosome array by transient action of the SWI/SNF complex

T Owen-Hughes, RT Utley, J Cote, CL Peterson… - Science, 1996 - science.org
The SWI/SNF complex participates in the restructuring of chromatin for transcription. The
function of the yeast SWI/SNF complex in the remodeling of a nucleosome array has now …

Activation domains drive nucleosome eviction by SWI/SNF

JL Gutiérrez, M Chandy, MJ Carrozza… - The EMBO …, 2007 - embopress.org
ATP‐dependent chromatin remodeling complexes play a critical role in chromatin dynamics.
A large number of in vitro studies have pointed towards nucleosome sliding as the principal …