Potassium permeation through the KcsA channel: a density functional study

Abstract

We present a theoretical study on structural and electronic aspects of K + permeation through the binding sites of the KcsA channel's selectivity filter. Density functional calculations are carried out on models taken from selected snapshots of a molecular dynamics simulation recently reported [FEBS Lett. 477 (2000) 37]. During the translocation process from one binding site to the other, the coordination number of the permeating K + ion turns out to decrease and K + ion polarizes significantly its ligands, backbone carbonyl groups and a water molecule. K +-induced polarization increases significantly at the transition state (TS) between the two binding sites. These findings suggest that polarization effects play a significant role in the microscopic mechanisms regulating potassium permeation.