Related papers: Discrete breathers in protein structures
Anomalous non-exponential relaxation in hydrated biomolecules is commonly attributed to the complexity of the free-energy landscapes, similarly to polymers and glasses. It was found recently that the hydrogen-bond breathing of terminal DNA…
The formation of bubbles in nucleic acids (NAs) are fundamental in many biological processes such as DNA replication, recombination, telomeres formation, nucleotide excision repair, as well as RNA transcription and splicing. These precesses…
We study discrete breathers in prototypical nonlinear oscillator networks subjected to non-harmonic zero-mean periodic excitations. We show how the generation of stationary and moving discrete breathers are optimally controlled by solely…
We employ the Distance Matrix method to investigate metabasin dynamics in supercooled water. We find that the motion of the system consists in the exploration of a finite region of configuration space (enclosing several distinct local…
In the presence of a finite interlayer displacement field bilayer graphene has an energy gap that is dependent on stacking and largest for the stable AB and BA stacking arrangements. When the relative orientations between layers are twisted…
We discuss the existence of breathers and lower bounds on their power, in nonlinear Schr\"odinger lattices with nonlinear hopping. Our methods extend from a simple variational approach to fixed point arguments, deriving lower bounds for the…
We study the effects of electron-lattice interaction in the presence of discrete breathers. The lattice is treated classically. We consider two different situations - i) the scattering of an electron by a discrete breather in the…
This work focuses on the study of time-periodic solutions, including breathers, in a nonlinear lattice consisting of elements whose contacts alternate between strain-hardening and strain-softening. The existence, stability, and bifurcation…
We explore breather propagation in the damped oscillatory chain with essentially nonlinear (non-linearizable) nearest-neighbour coupling. Combination of the damping and the substantially nonlinear coupling leads to rather unusual two-stage…
We develop a theoretical framework for understanding dynamic morphologies and stability of droplet interface bilayers (DIBs), accounting for lipid kinetics in the monolayers and bilayer, and droplet evaporation due to imbalance between…
The Protein Data Bank (PDB) contains the atomic structures of over 105 biomolecules with better than 2.8A resolution. The listing of the identities and coordinates of the atoms comprising each macromolecule permits an analysis of the…
We show for the first time that highly localized in-plane breathers can propagate in specific directions with minimal lateral spreading in a model 2-D hexagonal non-linear lattice. The lattice is subject to an on-site potential in addition…
Liquid cellular compartments spatially segregate from the cytoplasm and can regulate aberrant protein aggregation, a process linked to several medical conditions, including Alzheimer's and Parkinson's diseases. Yet the mechanisms by which…
An intrinsically disordered protein (IDP) lacks a stable three-dimensional structure, while it folds into a specific structure when it binds to a target molecule. In some IDP-target complexes, not all target binding surfaces are exposed on…
Moire patterns result from setting a 2D material such as graphene on another 2D material with a small twist angle or from the lattice mismatch of 2D heterostructures. We present a continuum model for the elastic energy of these bilayer…
We investigate aggregation mechanism of two proteins in a thermodynamically unambiguous manner by considering the finite size effect of free energy landscape of HP lattice protein model. Multi-Self-Overlap-Ensemble Monte Carlo method is…
The human proteome is enriched in proteins that do not fold into a stable 3D structure. These intrinsically disordered proteins (IDPs) spontaneously fluctuate between a large number of configurations in their native form. Remarkably, the…
Active transport of biomolecular condensates and cell migration in collectives are fundamental to development, homeostasis, and processes such as cancer progression, wound healing, and infection response. Yet how these assemblies are…
Recent papers have considered moving breathers (MBs) in DNA models including long range interaction due to the dipole moments of the hydrogen bonds. We have recalculated the value of the charge transfer when hydrogen bonds stretch using…
The dynamics of static and travelling breathers in two-species Bose-Einstein condensates in a one-dimensional optical lattice is modelled within the tight-binding approximation. Two coupled discrete nonlinear Schr\"odinger equations…