Related papers: On the quantum dynamics of Davydov solitons in pro…
The essential biological processes that sustain life are catalyzed by protein nano-engines, which maintain living systems in far-from-equilibrium ordered states. To investigate energetic processes in proteins, we have analyzed the system of…
Biological order provided by $\alpha$-helical secondary protein structures is an important resource exploitable by living organisms for increasing the efficiency of energy transport. In particular, self-trapping of amide I energy quanta by…
We consider the Davydov model of {\alpha}-helix protein chain with both exciton-exciton and excitonphonon couplings and investigate on the evolution of elliptic solitons. In the discrete regime of the adiabatic limit, we analytically and…
We investigate some aspects of the soliton dynamics in an alpha-helical protein macromolecule within the steric Davydov-Scott model. Our main objective is to elucidate the important role of the helical symmetry in the formation, stability…
Protein$\alpha$-helices provide an ordered biological environment that is conducive to soliton-assisted energy transport. The nonlinear interaction between amide I excitons and phonon deformations induced in the hydrogen-bonded lattice of…
Protein clamps provide the cell with effective mechanisms for sensing of environmental changes and triggering adaptations that maintain homeostasis. The general physical mechanism behind protein clamping action, however, is poorly…
Following the ideas of Davydov's soliton theory, we study the bio-energy transport in protein molecules. By using a quantum Brownian motion model for a phonon dressed vibrational exciton, we calculate the time-dependence on the mean square…
Transport of excitations along proteins can be formulated in a quantum physics context, based on the periodicity and vibrational modes of the structures. Exact solutions are very challenging to obtain on classical computers, however,…
Charge transfer in homogeneous nucleotide chains is modeled on the basis of Holstein Hamiltonian. The path length of Davydov solitons in these chains is being studied. It is shown that in a dispersionless case, when the soliton velocity V…
The Davydov model of energy transfer in molecular chains is reconsidered assuming the distance dependence of the exciton hopping term. New equations of motion for phonons and excitons are derived within the coherent state approximation.…
The phenomenon of coherent energetic pulse propagation in exciton-phonon molecular chains such as $\alpha$-helix protein is studied using an ODE system model of Davydov-Scott type, both with numerical studies using a new unconditionally…
We suggest that Davidov's solitons, propagating through the backbone of a protein, can mediate conformational transition and folding of a protein to its native state. A simple toy model is presented in which a Non Linear Schrodinger (NLS)…
The influence of an external oscillating in time magnetic field on the dynamics of the Davydov's soliton is investigated. It is shown that it essentially depends not only on the amplitude and frequency of the magnetic field, but also on the…
Heuristic insights into a physical picture of Davydov's solitonic model of the one-dimensional protein chain are presented supporting the idea of a non-equilibrium competition between the Davydov phase and a complementary, dynamical-…
We use the torsional angles of the protein chain as generalized coordinates in the canonical formalism, derive canonical equations of motion, and investigate the coordinate dependence of the kinetic energy expressed in terms of the…
Dynamics of the Davydov's soliton in an external oscillating in time magnetic field is studied analytically. It is shown that in a field perpendicular to the molecular chain axis, soliton wavefunction is a product of the electron plane wave…
We describe a mechanism for transport of energy in a mechanical system consisting of a pendulum and a rotator subject to a random perturbation. The perturbation that we consider is the product of a Hamiltonian vector field and a scalar,…
The Davydov model describes amide I energy transfer in proteins without dispersion or dissipation. In spite of five decades of study, there are few exact analytical results, especially for the discrete version of this model. Here we develop…
Polarons, introduced by Davydov to explain energy transport in $\alpha$-helices, correspond to electrons localised on a few lattice sites because of their interaction with phonons. While the static polaron field configurations have been…
The role of noise in the transport properties of quantum excitations is a topic of great importance in many fields, from organic semiconductors for technological applications to light-harvesting complexes in photosynthesis. In this paper we…