Analytical tools for solitons and periodic waves corresponding to phonons on Lennard-Jones lattices in helical proteins - Archive ouverte HAL Accéder directement au contenu
Article Dans Une Revue Physical Review E : Statistical, Nonlinear, and Soft Matter Physics Année : 2005

Analytical tools for solitons and periodic waves corresponding to phonons on Lennard-Jones lattices in helical proteins

Résumé

We study the propagation of solitons along the hydrogen bonds of an α helix. Modeling the hydrogen and peptide bonds with Lennard-Jones potentials, we show that the solitons can appear spontaneously and have long lifetimes. Remarkably, even if no explicit solution is known for the Lennard-Jones potential, the solitons can be characterized analytically with a good quantitative agreement using formulas for a Toda potential with parameters fitted to the Lennard-Jones potential. We also discuss and show the robustness of the family of periodic solutions called cnoidal waves, corresponding to phonons. The soliton phenomena described in the simulations of α helices may help to explain recent x-ray experiments on long α helices in Rhodopsin where a long lifetime of the vibrational modes has been observed.
Fichier principal
Vignette du fichier
10.1103PHYSREVE.71.026606.pdf (189.66 Ko) Télécharger le fichier
Origine Fichiers éditeurs autorisés sur une archive ouverte

Dates et versions

hal-00770747 , version 1 (17-03-2022)

Licence

Identifiants

Citer

Francesco d'Ovidio, Henrik Georg Bohr, Per-Anker Lindgård. Analytical tools for solitons and periodic waves corresponding to phonons on Lennard-Jones lattices in helical proteins. Physical Review E : Statistical, Nonlinear, and Soft Matter Physics, 2005, 71, pp.26606. ⟨10.1103/PHYSREVE.71.026606⟩. ⟨hal-00770747⟩
137 Consultations
26 Téléchargements

Altmetric

Partager

Gmail Mastodon Facebook X LinkedIn More