Transmembrane protein 175, a lysosomal ion channel related to Parkinson's disease

T Tang, B Jian, Z Liu - Biomolecules, 2023 - mdpi.com
Lysosomes are membrane-bound organelles with an acidic lumen and are traditionally
characterized as a recycling center in cells. Lysosomal ion channels are integral membrane …

Computational methods and theory for ion channel research

C Guardiani, F Cecconi, L Chiodo, G Cottone… - … in physics: X, 2022 - Taylor & Francis
Ion channels are fundamental biological devices that act as gates in order to ensure
selective ion transport across cellular membranes; their operation constitutes the molecular …

Electronic Polarization Leads to a Drier Dewetted State for Hydrophobic Gating in the Big Potassium Channel

J Deng, Q Cui - The journal of physical chemistry letters, 2024 - ACS Publications
In the hydrophobic gating mechanism proposed for some ion channels, ion permeation is
not blocked by the physical dimension of the channel pore but by its dewetted state which …

Engineered active pure water with reduced hydrogen bonds catalyzes itself in green energy production of oxygen and hydrogen evolution reactions

SH Yu, CC Chang, FD Mai, HY Tsai, YC Liu - Chemical Engineering …, 2023 - Elsevier
Noble metals, like platinum (Pt), palladium (Pd) and gold (Au), that possess special
electronic configurations, are popularly used in renewable energy technologies of oxygen …

Electronic polarization is essential for the stabilization and dynamics of buried ion pairs in staphylococcal nuclease mutants

J Deng, Q Cui - Journal of the American Chemical Society, 2022 - ACS Publications
Buried charged residues play important roles in the modulation of protein stabilities and
conformational dynamics and make crucial contributions to protein functions. Considering …

Evaluating polarizable biomembrane simulations against experiments

HS Antila, S Dixit, B Kav, JJ Madsen… - Journal of Chemical …, 2024 - ACS Publications
Owing to the increase of available computational capabilities and the potential for providing
a more accurate description, polarizable molecular dynamics force fields are gaining …

Dynamic molecular portraits of ion-conducting pores characterize functional states of TRPV channels

YA Trofimov, NA Krylov, AS Minakov… - Communications …, 2024 - nature.com
Structural biology is solving an ever-increasing number of snapshots of ion channel
conformational ensembles. Deciphering ion channel mechanisms, however, requires …

Efficient Sampling of Cavity Hydration in Proteins with Nonequilibrium Grand Canonical Monte Carlo and Polarizable Force Fields

J Deng, Q Cui - Journal of Chemical Theory and Computation, 2024 - ACS Publications
Prediction of the hydration levels of protein cavities and active sites is important to both
mechanistic analysis and ligand design. Due to the unique microscopic environment of …

[HTML][HTML] When is a hydrophobic gate not a hydrophobic gate?

D Seiferth, PC Biggin, SJ Tucker - Journal of General Physiology, 2022 - rupress.org
The flux of ions through a channel is most commonly regulated by changes that result in
steric occlusion of its pore. However, ion permeation can also be prevented by formation of a …

Water will find its way: transport through narrow tunnels in hydrolases

C Sequeiros-Borja, B Surpeta… - Journal of Chemical …, 2024 - ACS Publications
An aqueous environment is vital for life as we know it, and water is essential for nearly all
biochemical processes at the molecular level. Proteins utilize water molecules in various …