Molecular dynamics study of the influence of calcium ions on the conformation of gelsolin S2 domain

Abstract

Gelsolin is an actin-severing protein whose action is promoted by Ca 2+ ions and inhibited by binding to lipid phosphoinositides incorporated in the inner leaflet of the plasma membrane inner lipid bilayer. In this study, we carried out molecular dynamics (MD) simulations to investigate the influence of calcium cations on the conformation of gelsolin S2 domain. First, gelsolin S2 domain taken from the crystal structure of apo-gelsolin (PDB code: 1D0N) was subjected to three 1100 ps MD simulations in a periodic water box with the amber 5.0 force field at T=298 K. In the first simulation (S2_Ca 2+) excess concentration of Ca 2+ was applied, in the second one (S2_phys) the concentration of Ca 2+ ions was physiological and in the third one (S2_w) no Ca 2+ ions were added. The results of MD simulations showed high conformational flexibility of the N-terminal part of the S2 domain. S2_w deviated from the starting structure considerably more that S2_phys and S2_Ca 2+ suggesting that Ca 2+ ions stabilize the conformation of the S2 domain of gelsolin.