title: Continuum molecular simulation of large conformational changes during ion-channel gating.
abstract: A modeling framework was developed to simulate large and gradual conformational changes within a macromolecule (protein) when its low amplitude high frequency vibrations are not concerned. Governing equations were derived as alternative to Langevin and Smoluchowski equations and used to simulate gating conformational changes of the Kv7.1 ion-channel over the time scale of its gating process (tens of milliseconds). The alternative equations predict the statistical properties of the motion trajectories with good accuracy and do not require the force field to be constant over the diffusion length, as assumed in Langevin equation. The open probability of the ion-channel was determined considering cooperativity of four subunits and solving their concerted transition to the open state analytically. The simulated open probabilities for a series of voltage clamp tests produced current traces that were similar to experimentally recorded currents.
authors.affiliation: Cardiac Bioelectricity and Arrhythmia Center and Department of Biomedical Engineering, Washington University in St. Louis, St. Louis, Missouri, United States of America. nekouzadeh@wustl.edu
authors.forename: Ali
authors.initials: A
authors.lastname: Nekouzadeh
authors.forename: Yoram
authors.initials: Y
authors.lastname: Rudy
mesh_terms: D015640:Ion Channel Gating; D008962:Models, Theoretical; D011487:Protein Conformation