A novel molecular dynamics study of CO2 permeation through aquaporin-5
Department of Mechanical Engineering, Shiraz University, Shiraz, Iran
* e-mail: email@example.com
Accepted: 24 October 2019
Published online: 27 November 2019
Aquaporins (AQPs) are protein channels which facilitate rapid water permeation across cell membrane. The AQPs are very vital for biological organs, as their malfunction causes severe diseases in human body. A particular family of AQPs, that is AQP5, has a significant role in lung fluid transport due to submucosal glands structure. However, it has not been yet well understood whether these protein channels can conduct gas molecules. Here, Molecular Dynamics (MD) simulations are used to investigate the CO2 permeability and diffusion in AQP5 during a 40-nanosecond period. For the first time, equilibrium and Steered MD (SMD) are used to simulate self and force-induced diffusion of CO2 molecules across AQP5 and POPE lipid bilayer. According to PMFs profile associated to CO2 permeation, the hydrophobic central pore provides a more suitable pathway for gas molecules compared to other AQP5 channels. Although CO2 molecules can also permeate across AQP5 water channels, the rate of CO2 permeation through four channels of the AQP5 monomers is much lower than the central pore. The rate of CO2 permeation through four AQP5 water channels is even lower than CO2 diffusion through POPE lipid membrane. The results reported in this investigation demonstrate that MD simulations of human AQP5 provide valuable insights into the gas permeation mechanism for both the equilibrium self-diffusion, and quasi-equilibrium condition.
Key words: Flowing Matter: Interfacial phenomena
© EDP Sciences, Società Italiana di Fisica and Springer-Verlag GmbH Germany, part of Springer Nature, 2019