English: Quantum dynamics of a Davydov soliton with pN generated by an initial Gaussian step distribution of amide I energy over 3 peptide groups at the N-end of a single α-helix spine composed of 40 peptide groups (extending along the x-axis) during a period of 125 picoseconds. Quantum probabilities of amide I excitation are plotted in blue along the z-axis. Phonon lattice displacement differences (measured in picometers) are plotted in red along the y-axis. The soliton is formed by self-trapping of the amide I energy by the induced lattice distortion.
Date
Source
The file is created using my own mathematical code written for simulation of Davydov soliton
Previously published: Results using my mathematical code were reported in: Danko D Georgiev and James F Glazebrook. On the quantum dynamics of Davydov solitons in protein α-helices. Physica A: Statistical Mechanics and its Applications 517:257-269, 2019.
I, the copyright holder of this work, hereby publish it under the following licenses:
Permission is granted to copy, distribute and/or modify this document under the terms of the GNU Free Documentation License, Version 1.2 or any later version published by the Free Software Foundation; with no Invariant Sections, no Front-Cover Texts, and no Back-Cover Texts. A copy of the license is included in the section entitled GNU Free Documentation License.http://www.gnu.org/copyleft/fdl.htmlGFDLGNU Free Documentation Licensetruetrue
to share – to copy, distribute and transmit the work
to remix – to adapt the work
Under the following conditions:
attribution – You must give appropriate credit, provide a link to the license, and indicate if changes were made. You may do so in any reasonable manner, but not in any way that suggests the licensor endorses you or your use.
share alike – If you remix, transform, or build upon the material, you must distribute your contributions under the same or compatible license as the original.
{{subst:Upload marker added by en.wp UW}} {{Information |Description = {{en|Quantum dynamics of a Davydov soliton with χ = 35 pN generated by an initial Gaussian step distribution of amide I energy over 3 peptide groups at the N-end of a single α-helix spine composed of 40 peptide groups (extending along the x-axis) during a period of 125 picoseconds. Quantum probabilities |a_n|^2 are plotted in blue along the z-axis. Phonon lattice displacement differences b_n-b_{n-1} (measured in picometers...