The force is strong with this epigenome: chromatin structure and mechanobiology
All life forms sense and respond to mechanical stimuli. Throughout evolution, organisms
develop diverse mechanosensing and mechanotransduction pathways, leading to fast and …
develop diverse mechanosensing and mechanotransduction pathways, leading to fast and …
Chiral systems made from DNA
The very chemical structure of DNA that enables biological heredity and evolution has non‐
trivial implications for the self‐organization of DNA molecules into larger assemblies and …
trivial implications for the self‐organization of DNA molecules into larger assemblies and …
AWSEM-IDP: a coarse-grained force field for intrinsically disordered proteins
The associative memory, water-mediated, structure and energy model (AWSEM) has been
successfully used to study protein folding, binding, and aggregation problems. In this work …
successfully used to study protein folding, binding, and aggregation problems. In this work …
Exploring the free energy landscape of nucleosomes
The nucleosome is the fundamental unit for packaging the genome. A detailed molecular
picture for its conformational dynamics is crucial for understanding transcription and gene …
picture for its conformational dynamics is crucial for understanding transcription and gene …
Protein unfolding by SDS: the microscopic mechanisms and the properties of the SDS-protein assembly
The effects of detergent sodium dodecyl sulfate (SDS) on protein structure and dynamics are
fundamental to the most common laboratory technique used to separate proteins and …
fundamental to the most common laboratory technique used to separate proteins and …
Intrinsic elasticity of nucleosomes is encoded by histone variants and calibrated by their binding partners
DP Melters, M Pitman, T Rakshit… - Proceedings of the …, 2019 - National Acad Sciences
Histone variants fine-tune transcription, replication, DNA damage repair, and faithful
chromosome segregation. Whether and how nucleosome variants encode unique …
chromosome segregation. Whether and how nucleosome variants encode unique …
Explicit ion modeling predicts physicochemical interactions for chromatin organization
Molecular mechanisms that dictate chromatin organization in vivo are under active
investigation, and the extent to which intrinsic interactions contribute to this process remains …
investigation, and the extent to which intrinsic interactions contribute to this process remains …
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 …
diameter nucleus. For the genetic information encoded in the DNA to become available for …
Sequence-dependent nucleosome sliding in rotation-coupled and uncoupled modes revealed by molecular simulations
While nucleosome positioning on eukaryotic genome play important roles for genetic
regulation, molecular mechanisms of nucleosome positioning and sliding along DNA are not …
regulation, molecular mechanisms of nucleosome positioning and sliding along DNA are not …
[HTML][HTML] Breaths, twists, and turns of atomistic nucleosomes
J Huertas, V Cojocaru - Journal of molecular biology, 2021 - Elsevier
Gene regulation programs establish cellular identity and rely on dynamic changes in the
structural packaging of genomic DNA. The DNA is packaged in chromatin, which is formed …
structural packaging of genomic DNA. The DNA is packaged in chromatin, which is formed …