Intrusion and extrusion of water in hydrophobic nanopores.
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ABSTRACT:
SUBMITTER: Tinti A
PROVIDER: S-EPMC5715783 | biostudies-literature |
REPOSITORIES: biostudies-literature
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Project description:Ion channel proteins form nanopores in biological membranes which allow the passage of ions and water molecules. Hydrophobic constrictions in such pores can form gates, i.e. energetic barriers to water and ion permeation. Molecular dynamics simulations of water in ion channels may be used to assess whether a hydrophobic gate is closed (i.e. impermeable to ions) or open. If there is an energetic barrier to water permeation then it is likely that a gate will also be impermeable to ions. Simulations of water behaviour have been used to probe hydrophobic gates in two recently reported ion channel structures: BEST1 and TMEM175. In each of these channels a narrow region is formed by three consecutive rings of hydrophobic sidechains and in both cases such analysis demonstrates that the crystal structures correspond to a closed state of the channel. In silico mutations of BEST1 have also been used to explore the effect of changes in the hydrophobicity of the gating constriction, demonstrating that substitution of hydrophobic sidechains with more polar sidechains results in an open gate which allows water permeation. A possible open state of the TMEM175 channel was modelled by the in silico expansion of the hydrophobic gate resulting in the wetting of the pore and free permeation of potassium ions through the channel. Finally, a preliminary study suggests that a hydrophobic gate motif can be transplanted in silico from the BEST1 channel into a simple ?-barrel pore template. Overall, these results suggest that simulations of the behaviour of water in hydrophobic gates can reveal important design principles for the engineering of gates in novel biomimetic nanopores.
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Project description:We study the slow dynamics of water evaporation out of hydrophobic cavities by using model porous silica materials grafted with octylsilanes. The cylindrical pores are monodisperse, with a radius in the range of 1-2 nm. Liquid water penetrates in the nanopores at high pressure and empties the pores when the pressure is lowered. The drying pressure exhibits a logarithmic growth as a function of the driving rate over more than three decades, showing the thermally activated nucleation of vapor bubbles. We find that the slow dynamics and the critical volume of the vapor nucleus are quantitatively described by the classical theory of capillarity without adjustable parameter. However, classical capillarity utterly overestimates the critical bubble energy. We discuss the possible influence of surface heterogeneities, long-range interactions, and high-curvature effects, and we show that a classical theory can describe vapor nucleation provided that a negative line tension is taken into account. The drying pressure then provides a determination of this line tension with much higher precision than currently available methods. We find consistent values of the order of -30 pN in a variety of hydrophobic materials.
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Project description:We optimized potential parameters in a molecular dynamics model to reproduce the experimental contact angle of a macroscopic mercury droplet on graphite. With the tuned potential, we studied the effects of pore size, geometry, and temperature on the wetting of mercury droplets confined in organic-rich shale nanopores. The contact angle of mercury in a circular pore increases exponentially as pore size decreases. In conjunction with the curvature-dependent surface tension of liquid droplets predicted from a theoretical model, we proposed a technique to correct the common interpretation procedure of mercury intrusion capillary pressure (MICP) measurement for nanoporous material such as shale. Considering the variation of contact angle and surface tension with pore size improves the agreement between MICP and adsorption-derived pore size distribution, especially for pores having a radius smaller than 5?nm. The relative error produced in ignoring these effects could be as high as 44%--samples that contain smaller pores deviate more. We also explored the impacts of pore size and temperature on the surface tension and contact angle of water/vapor and oil/gas systems, by which the capillary pressure of water/oil/gas in shale can be obtained from MICP. This information is fundamental to understanding multiphase flow behavior in shale systems.
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