Water structure in the Gramicidin A transmembrane channel.
The interaction energy and the structure of water molecules either inside the Gramicidin A transmembrane channel or at its two extremities is examined with the use of iso-energy maps and Monte Carlo simulations. The shape of the channel as experienced by water is analyzed in detail. Variations in the hydration structure due to the presence of a Na+ ion placed at several positions along the channel are simulated, analyzed and discussed. Preliminary data on Li+ and K+ interacting with Gramicidin A and the system of water molecules are reported. The Gramicidin A atomic coordinates have been taken from Urry's recent papers.
D003198:Computer Simulation; D006096:Gramicidin; D007473:Ion Channels; D015394:Molecular Structure; D009010:Monte Carlo Method; D013816:Thermodynamics; D014867:Water
D007473:Ion Channels; D014867:Water; D006096:Gramicidin