New tricks for old dogs: improving the accuracy of biomolecular force fields by pair-specific corrections to non-bonded interactions
J Yoo, A Aksimentiev - Physical Chemistry Chemical Physics, 2018 - pubs.rsc.org
In contrast to ordinary polymers, the vast majority of biological macromolecules adopt highly
ordered three-dimensional structures that define their functions. The key to folding of a …
ordered three-dimensional structures that define their functions. The key to folding of a …
Replication-dependent histone isoforms: a new source of complexity in chromatin structure and function
R Singh, E Bassett, A Chakravarti… - Nucleic acids …, 2018 - academic.oup.com
Replication-dependent histones are expressed in a cell cycle regulated manner and supply
the histones necessary to support DNA replication. In mammals, the replication-dependent …
the histones necessary to support DNA replication. In mammals, the replication-dependent …
The conformation of the histone H3 tail inhibits association of the BPTF PHD finger with the nucleosome
Histone tails harbor a plethora of post-translational modifications that direct the function of
chromatin regulators, which recognize them through effector domains. Effector …
chromatin regulators, which recognize them through effector domains. Effector …
Modulation of nucleosomal DNA accessibility via charge-altering post-translational modifications in histone core
AT Fenley, R Anandakrishnan, YH Kidane… - Epigenetics & …, 2018 - Springer
Background Controlled modulation of nucleosomal DNA accessibility via post-translational
modifications (PTM) is a critical component to many cellular functions. Charge-altering PTMs …
modifications (PTM) is a critical component to many cellular functions. Charge-altering PTMs …
DNA sliding in nucleosomes via twist defect propagation revealed by molecular simulations
While nucleosomes are highly stable structures as fundamental units of chromatin, they also
slide along the DNA, either spontaneously or by active remodelers. Here, we investigate the …
slide along the DNA, either spontaneously or by active remodelers. Here, we investigate the …
Histone H2A variants confer specific properties to nucleosomes and impact on chromatin accessibility
A Osakabe, ZJ Lorković, W Kobayashi… - Nucleic Acids …, 2018 - academic.oup.com
In eukaryotes, variants of core histone H2A are selectively incorporated in distinct functional
domains of chromatin and are distinguished by conserved sequences of their C-terminal tail …
domains of chromatin and are distinguished by conserved sequences of their C-terminal tail …
Structural rearrangements of the histone octamer translocate DNA
S Bilokapic, M Strauss, M Halic - Nature communications, 2018 - nature.com
Nucleosomes, the basic unit of chromatin, package and regulate expression of eukaryotic
genomes. Nucleosomes are highly dynamic and are remodeled with the help of ATP …
genomes. Nucleosomes are highly dynamic and are remodeled with the help of ATP …
Nucleosome positions establish an extended mutation signature in melanoma
Ultraviolet (UV) light-induced mutations are unevenly distributed across skin cancer
genomes, but the molecular mechanisms responsible for this heterogeneity are not fully …
genomes, but the molecular mechanisms responsible for this heterogeneity are not fully …
Chromatin remodelers couple inchworm motion with twist-defect formation to slide nucleosomal DNA
GB Brandani, S Takada - PLoS computational biology, 2018 - journals.plos.org
ATP-dependent chromatin remodelers are molecular machines that control genome
organization by repositioning, ejecting, or editing nucleosomes, activities that confer them …
organization by repositioning, ejecting, or editing nucleosomes, activities that confer them …
Molecular mechanism for the role of the H2A and H2B histone tails in nucleosome repositioning
K Chakraborty, M Kang… - The Journal of Physical …, 2018 - ACS Publications
The nucleosome core particle (NCP) is the basic packaging unit of DNA. Recently reported
structures of the NCP suggest that the histone octamer undergoes conformational changes …
structures of the NCP suggest that the histone octamer undergoes conformational changes …