相关论文: Launching of Davydov solitons in protein $\alpha$-…
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…
The transport of energy inside protein $\alpha$-helices is studied by deriving a system of quantum equations of motion from the Davydov Hamiltonian with the use of the Schr\"odinger equation and the generalized Ehrenfest theorem.…
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…
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…
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…
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…
Davydov's model of solitons in alpha-helix protein chains is shown to display features of self-organized criticality (SOC), i.e., power law behaviour of correlations in space and 1/f-noise, as a consequence of considering random peptide…
Davydov's model of solitons in alpha-helix protein chains is shown to display features of self-organized criticality (SOC), i.e., power law behaviour of correlations in space and 1/f-noise, as a consequence of considering random peptide…
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 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 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. To remove 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…
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…
Macromolecular protein complexes catalyze essential physiological processes that sustain life. Various interactions between protein subunits could increase the effective mass of certain peptide groups, thereby compartmentalizing protein…
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…
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 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 propose that protein loops can be interpreted as topological domain-wall solitons. They interpolate between ground states that are the secondary structures like alpha-helices and beta-strands. Entire proteins can then be folded simply by…
We consider six different secondary structures of proteins and construct two types of Go-type off-lattice models: with the steric constraints and without. The basic aminoacid-aminoacid potential is Lennard Jones for the native contacts and…