Related papers: Peierls-Nabarro Barrier and Protein Loop Propagati…

Energy landscape theory describes how a full-length protein can attain its native fold by sampling only a tiny fraction of all possible structures. Although protein folding is now understood to be concomitant with synthesis on the ribosome,…

Natural proteins fold to a unique, thermodynamically dominant state. Modeling of the folding process and prediction of the native fold of proteins are two major unsolved problems in biophysics. Here, we show successful all-atom ab initio…

Chromatin and associated proteins constitute the highly folded structure of chromosomes. We consider a self-avoiding polymer model of the chromatin, segments of which may get cross-linked via protein binders that repel each other. The…

Chevron rollovers of some proteins imply that their logarithmic folding rates are nonlinear in native stability. This is predicted by lattice and continuum G\=o models to arise from diminished accessibilities of the ground state from…

Moir\'e lattices are a general feature of bilayer structures, where an additional periodic superstructure is generated by either lattice mismatch or from a twist angle. They have been shown to stabilise new ground states, including…

Quasi-one-dimensional spin-Peierls and spin-ladder systems are characterized by a gap in the spin-excitation spectrum, which can be modeled at low energies by that of Dirac fermions with a mass. In the presence of disorder these systems can…

We address the problem of directional mobility of discrete solitons in two-dimensional rectangular lattices, in the framework of a discrete nonlinear Schr\"odinger model with saturable on-site nonlinearity. A numerical constrained…

Proteins with nontrivial topology, containing knots and slipknots, have the ability to fold to their native states without any additional external forces invoked. A mechanism is suggested for folding of these proteins, such as YibK and…

Simplified Go models, where only native contacts interact favorably, have proven useful to characterize some aspects of the folding of small proteins. The success of these models is limited by the fact that all residues interact in the same…

We present a solvable model that predicts the folding kinetics of two-state proteins from their native structures. The model is based on conditional chain entropies. It assumes that folding processes are dominated by small-loop closure…

We investigate the propagation dynamics of initially localized excitations in spin-1/2 Heisenberg ladders. We consider initial states with two overturned spins, either on neighboring sites on the same leg or on the two sites of a single…

We consider the $\alpha$-$T_3$ model which provides a smooth crossover between the honeycomb lattice with pseudospin $1/2$ and the dice lattice with pseudospin $1$ through the variation of a parameter $\alpha$. We study the dynamics of a…

We propose a lattice model for the realization of exotic quartic semi-Dirac fermions, i.e. quasiparticles exhibiting a dispersion with quartic momentum dependence in a given direction, and a linear dependence in the perpendicular direction.…

The dynamics of a folded protein is studied in water and glycerol at a series of temperatures below and above their respective dynamical transition. The system is modeled in two distinct states whereby the protein is decoupled from the bulk…

Spontaneous brittle fracture is studied based on the recently introduced model (Mishuris and Slepyan, Brittle fracture in a periodic structure with internal potential energy. Proc. Roy. Soc. A, in press). A periodic structure is considered,…

We study the propagation of one-dimentional optical beams in a weakly nonlocal medium exhibiting cubic-quintic nonlinearity. A nonlinear equation governing the evolution of the beam intensity in the nonlocal medium is derived thereby which…

Within the framework of the kinetic energy driven superconductivity, we study the electronic structure of cuprate superconductors. It is shown that the spectral weight of the electron spectrum in the antinodal point of the Brillouin zone…

We consider a model of a biomembrane with attached proteins. The membrane is represented by a near spherical continuous surface and attached proteins are described as discrete rigid structures which attach to the membrane at a finite number…

We introduce a topology-based nonlinear network model of protein dynamics with the aim of investigating the interplay of spatial disorder and nonlinearity. We show that spontaneous localization of energy occurs generically and is a…

In Laves phases, synchroshear is the dominant basal slip mechanism. It is accomplished by the glide of synchro-Shockley dislocations. However, the atomic-scale mechanisms of motion of such zonal dislocations are still not well understood.…