Molecular dynamics simulations reveal statistics and microscopic mechanisms of water permeation in membrane-embedded artificial water channel nanoconstructs

Bis-Alkylureido Imidazole Artificial Water Channels

Nature creates aquaporins to effectively transport water, rejecting all ions including protons. Aquaporins (AQPs) has brought inspiration for the development of Artificial Water Channels (AWCs). Imidazole-quartet (I-quartet) was the first AWC that enabled to self-assemble a tubular backbone for rapid water and proton permeation with total ion rejection. Here, we report the discovery of bis-alkylureido imidazole compounds, which outperform the I-quartets by exhibiting ≈3 times higher net and single channel permeabilities (107 H2 O/s/channel) and a ≈2-3 times lower proton conductance. The higher water conductance regime is associated to the high partition of more hydrophobic bis-alkylureido channels in the membrane and to their pore sizes, experiencing larger fluctuations, leading to an increase in the number of water molecules in the channel, with decreasing H-bonding connectivity. This new class of AWCs will open new pathways toward scalable membranes with enhanced water transport performances.

CHARMM-GUI Membrane Builder: Past, Current, and Future Developments and Applications

Molecular dynamics simulations of membranes and membrane proteins serve as computational microscopes, revealing coordinated events at the membrane interface. As G protein-coupled receptors, ion channels, transporters, and membrane-bound enzymes are important drug targets, understanding their drug binding and action mechanisms in a realistic membrane becomes critical. Advances in materials science and physical chemistry further demand an atomistic understanding of lipid domains and interactions between materials and membranes. Despite a wide range of membrane simulation studies, generating a complex membrane assembly remains challenging. Here, we review the capability of CHARMM-GUI Membrane Builder in the context of emerging research demands, as well as the application examples from the CHARMM-GUI user community, including membrane biophysics, membrane protein drug-binding and dynamics, protein-lipid interactions, and nano-bio interface. We also provide our perspective on future Membrane Builder development.