Stochastic mechano-chemical kinetics of molecular motors: a multidisciplinary enterprise from a physicist's perspective
D Chowdhury - Physics Reports, 2013 - Elsevier
A molecular motor is made of either a single macromolecule or a macromolecular complex.
Just like their macroscopic counterparts, molecular motors “transduce” input energy into …
Just like their macroscopic counterparts, molecular motors “transduce” input energy into …
Statics and dynamics of strongly charged soft matter
Soft matter materials, such as polymers, membranes, proteins, are often electrically charged.
This makes them water soluble, which is of great importance in technological application …
This makes them water soluble, which is of great importance in technological application …
Nonspecific bridging-induced attraction drives clustering of DNA-binding proteins and genome organization
Molecular dynamics simulations are used to model proteins that diffuse to DNA, bind, and
dissociate; in the absence of any explicit interaction between proteins, or between …
dissociate; in the absence of any explicit interaction between proteins, or between …
The physics of chromatin
H Schiessel - Journal of Physics: Condensed Matter, 2003 - iopscience.iop.org
Recent progress has been made in the understanding of the physical properties of
chromatin—the dense complex of DNA and histone proteins that occupies the nuclei of plant …
chromatin—the dense complex of DNA and histone proteins that occupies the nuclei of plant …
Evidence for DNA translocation by the ISWI chromatin-remodeling enzyme
I Whitehouse, C Stockdale, A Flaus… - … and cellular biology, 2003 - Taylor & Francis
The ISWI proteins form the catalytic core of a subset of ATP-dependent chromatin-
remodeling activities. Here, we studied the interaction of the ISWI protein with nucleosomal …
remodeling activities. Here, we studied the interaction of the ISWI protein with nucleosomal …
Predicting nucleosome positions on the DNA: combining intrinsic sequence preferences and remodeler activities
Nucleosome positions on the DNA are determined by the intrinsic affinities of histone
proteins to a given DNA sequence and by the ATP-dependent activities of chromatin …
proteins to a given DNA sequence and by the ATP-dependent activities of chromatin …
Multi-scale coding of genomic information: From DNA sequence to genome structure and function
Understanding how chromatin is spatially and dynamically organized in the nucleus of
eukaryotic cells and how this affects genome functions is one of the main challenges of cell …
eukaryotic cells and how this affects genome functions is one of the main challenges of cell …
Nucleosome dynamics: sequence matters
B Eslami-Mossallam, H Schiessel… - Advances in colloid and …, 2016 - Elsevier
About three quarter of all eukaryotic DNA is wrapped around protein cylinders, forming
nucleosomes. Even though the histone proteins that make up the core of nucleosomes are …
nucleosomes. Even though the histone proteins that make up the core of nucleosomes are …
Dynamic properties of nucleosomes during thermal and ATP-driven mobilization
A Flaus, T Owen-Hughes - Molecular and cellular biology, 2003 - Taylor & Francis
The fundamental subunit of chromatin, the nucleosome, is not a static entity but can move
along DNA via either thermal or enzyme-driven movements. Here we have monitored the …
along DNA via either thermal or enzyme-driven movements. Here we have monitored the …
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 …