Related papers: Solitons in alpha-helical proteins
Families of analytical solutions are found for symmetric and antisymmetric solitons in the dual-core system with the Kerr nonlinearity and PT-balanced gain and loss. The crucial issue is stability of the solitons. A stability region is…
We analyze numerically the formation and the subsequent dynamics of two-dimensional matter wave dark solitons in a Thomas-Fermi rubidium condensate using various techniques. An initially imprinted sharp phase gradient leads to the dynamical…
$\alpha$-helices stand out as common and relatively invariant secondary structural elements of proteins. However, $\alpha$-helices are not rigid bodies and their deformations can be significant in protein function ({\it e.g.} coiled coils).…
Soliton propagation dynamics under the presence of a complex potential are investigated. A large variety of qualitatively different potentials, including periodic, semi-infinite periodic and localized potentials, is considered. Cases of…
While fundamental-mode discrete solitons have been demonstrated with both self-focusing and defocusing nonlinearity, high-order-mode localized states in waveguide lattices have been studied thus far only for the self-focusing case. In this…
For Holstein model with Rashba spin-orbit coupling (SOC) we establish the nonlinear Schr\"odinger equations and obtain exact soliton solution analytically. It is found that the soliton is spin polarized determined both by the SOC and the…
We report on the existence and stability of multidimensional bound solitonic states in harmonically-trapped scalar Bose-Einstein condensates. Their equilibrium separation, as a measure of the strength of the soliton-soliton or the solitonic…
We obtain a two-dimensional nonlinear system of equations for the electrostatic potential envelope and the low-frequency magnetic field perturbation to describe the interaction of the upper hybrid wave propagating perpendicular to an…
We derive the equations governing the motion of Kerr solitons in pair waveforms. Recent experiments in microresonators have studied a variety of interaction effects in multisoliton waveforms, including collisions and formation of soliton…
We report results of the analysis for families of one-dimensional (1D) trapped solitons, created by competing self-focusing (SF) quintic and self-defocusing (SDF) cubic nonlinear terms. Two trapping potentials are considered, the…
We report that defocusing cubic media with spatially inhomogeneous nonlinearity, whose strength increases rapidly enough toward the periphery, can support stable bright localized modes. Such nonlinearity landscapes give rise to a variety of…
The two-vibron dynamics associated to amide-I vibrations in a 3D $\alpha$-helix is described according to a generalized Davydov model. The helix is modeled by three spines of hydrogen-bonded peptide units linked via covalent bonds. It is…
We present a first-principles derivation of the variational equations describing the dynamics of the interaction of a spatial soliton and a surface plasmon polariton (SPP) propagating along a metal/dielectric interface. The variational…
Dipolar interactions support the formation of inter-site soliton molecules in a stack of quasi-1D traps. We show that the stability and properties of individual solitons, and soliton molecules in such a geometry crucially depend on the…
Algebraic soliton interactions with a periodic or quasi-periodic random force are investigated using the Benjamin-Ono equation. The random force is modeled as a Fourier series with a finite number of modes and random phases uniformly…
We introduce a system of propagation equations for the fundamental-frequency (FF) and second-harmonic (SH) waves in the bulk waveguide with the effective fractional diffraction and quadratic (chi ^(2)) nonlinearity. The numerical solution…
The existence and stability of stable bright solitons in one-dimensional (1D) media with a spatially periodical modulated Kerr nonlinearity are demonstrated by means of the linear-stability analysis and in direct numerical simulations. The…
We demonstrate that periodic modulation of the nonlinearity coefficient in the discrete nonlinear Schr\"{o}dinger (DNLS) equation can strongly facilitate creation of traveling solitons in the lattice. We predict this possibility in an…
Non-Hermitian systems have been discussed mostly in the context of open systems and nonequilibrium. Recent experimental progress is much from optical, cold-atomic, and classical platforms due to the vast tunability and clear identification…
The twisting deformation of mechanically stretched DNA molecules is studied by a coarse grained Hamiltonian model incorporating the fundamental interactions that stabilize the double helix and accounting for the radial and angular base pair…