Nucleosomal embedding reshapes the dynamics of abasic sites

E Bignon, VEP Claerbout, T Jiang, C Morell, N Gillet… - Scientific reports, 2020 - nature.com
Apurinic/apyrimidinic (AP) sites are the most common DNA lesions, which benefit from a
most efficient repair by the base excision pathway. The impact of losing a nucleobase on the …

A dynamic view of the interaction of histone tails with clustered abasic sites in a nucleosome core particle

E Bignon, N Gillet, T Jiang, C Morell… - The Journal of Physical …, 2021 - ACS Publications
Apurinic/apyrimidinic sites are the most common forms of DNA damage under physiological
conditions, yet their structural and dynamical behavior within nucleosome core particles has …

[PDF][PDF] Local DNA sequence controls asymmetry of DNA unwrapping from nucleosome core particles

AW Mauney, JM Tokuda, LM Gloss, O Gonzalez… - Biophysical journal, 2018 - cell.com
DNA is tightly wrapped around histone proteins in nucleosome core particles (NCPs) yet
must become accessible for processing in the cell. This accessibility, a key component of …

Correlation of bistranded clustered abasic DNA lesion processing with structural and dynamic DNA helix distortion

E Bignon, H Gattuso, C Morell, F Dehez… - Nucleic Acids …, 2016 - academic.oup.com
Clustered apurinic/apyrimidinic (AP; abasic) DNA lesions produced by ionizing radiation are
by far more cytotoxic than isolated AP lesion entities. The structure and dynamics of a series …

Nucleosome Histone Tail Conformation and Dynamics: Impacts of Lysine Acetylation and a Nearby Minor Groove Benzo[a]pyrene-Derived Lesion

I Fu, Y Cai, NE Geacintov, Y Zhang, S Broyde - Biochemistry, 2017 - ACS Publications
Histone tails in nucleosomes play critical roles in regulation of many biological processes,
including chromatin compaction, transcription, and DNA repair. Moreover, post-translational …

Conformational Dynamics of the Nucleosomal Histone H2B Tails Revealed by Molecular Dynamics Simulations

R Patel, A Onyema, PK Tang… - Journal of Chemical …, 2024 - ACS Publications
Epigenetic modifications of histone N-terminal tails play a critical role in regulating the
chromatin structure and biological processes such as transcription and DNA repair. One of …

Rapid DNA–protein cross-linking and strand scission by an abasic site in a nucleosome core particle

JT Sczepanski, RS Wong… - Proceedings of the …, 2010 - National Acad Sciences
Apurinic/apyrimidinic (AP) sites are ubiquitous DNA lesions that are highly mutagenic and
cytotoxic if not repaired. In addition, clusters of two or more abasic lesions within one to two …

Chromatin unfolding by epigenetic modifications explained by dramatic impairment of internucleosome interactions: a multiscale computational study

R Collepardo-Guevara, G Portella… - Journal of the …, 2015 - ACS Publications
Histone tails and their epigenetic modifications play crucial roles in gene expression
regulation by altering the architecture of chromatin. However, the structural mechanisms by …

Differences in the access of lesions to the nucleotide excision repair machinery in nucleosomes

Y Cai, K Kropachev, MA Terzidis, A Masi… - Biochemistry, 2015 - ACS Publications
In nucleosomes, the access of DNA lesions to nucleotide excision repair is hindered by
histone proteins. However, evidence that the nature of the DNA lesions may play a role in …

Partial unwrapping and histone tail dynamics in nucleosome revealed by coarse-grained molecular simulations

H Kenzaki, S Takada - PLoS computational biology, 2015 - journals.plos.org
Nucleosomes, basic units of chromatin, are known to show spontaneous DNA unwrapping
dynamics that are crucial for transcriptional activation, but its structural details are yet to be …