A model for soliton dynamics on a hydrogen-bond network in helical proteins is proposed. It employs the formalism-of fully integrable Toda lattices in three dimensions which admit phonons as well as solitons along the hydrogen bonds of the helices. A simulation of the three-dimensional Toda lattice system shows that the solitons are spontaneously created and are stable and moving along the helix axis. A perturbation on one of the three H-bond lines forms solitons on the other H bonds as well. The robust solitary wave may explain very long-lived modes in the frequency range of 100 cm(-1) which are found in recent x-ray laser experiments. The dynamics parameters of the Toda lattice are in accordance with the usual Lennard-Jones parameters used for realistic H-bond potentials in proteins.
|Journal||Journal of Physics Condensed Matter|
|Publication status||Published - 2003|
|Event||Nanophysics of Life Systems Symposium - Copenhagen, Denmark|
Duration: 21 Jun 2002 → 22 Jun 2002
|Conference||Nanophysics of Life Systems Symposium|
|Period||21/06/2002 → 22/06/2002|