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Register a new userWater under extreme confinement in graphene: Oscillatory dynamics, structure, and hydration pressure explained as a function of the confinement width
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Graphene nanochannels are relevant for their possible applications, as in water purification, and for the challenge of understanding how they change the properties of confined liquids. Here, we use all-atom molecular dynamics simulations to investigate water confined in an open graphene slit-pore as a function of its width $w$, down to sub-nm scale. We find that the water translational and rotational dynamics exhibits an oscillatory dependence on $w$, due to water layering. The oscillations in dynamics correlate with those in hydration pressure, which can be negative (hydrophobic attraction), or as high as $sim 1$ GPa, as seen in the experiments. At pore widths commensurable with full layers (around $7.0$ AA and $9.5$ AA for one and two layers, respectively), the free energy of the system has minima, and the hydration pressure vanishes. These are the separations at which the dynamics of confined water slows down. Nevertheless, the hydration pressure vanishes also where the free energy has maxima, i.e., for those pore-widths which are incommensurable with the formation of well-separated layers, as $wsimeq 8.0$ AA. Around these values of $w$, the dynamics is faster than in bulk, with water squeezed out from the pore. This behavior has not been observed for simple liquids under confinement, either for water in closed nano-pores. The decomposition of the free energy clarifies the origins of the dynamics speedups and slowdowns. In particular, we find that the nature of the slowdown depends on the number of water layers: for two layers, it is due to the internal energy contribution, as in simple liquids, while for one layer, it has an entropic origin possibly due to the existence of a hydrogen-bond network in water. Our results shed light on the mechanisms ruling the dynamics and thermodynamics of confined water and are a guide for future experiments.
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Water shapes and defines the properties of biological systems. Therefore, understanding the nature of the mutual interaction between water and biological systems is of primary importance for a proper assessment of biological activity and the development of new drugs and vaccines. A handy way to characterize the interactions between biological systems and water is to analyze their impact on water density and dynamics in the proximity of the interfaces. It is well established that water bulk density and dynamical properties are recovered at distances in the order of $sim1$~nm from the surface of biological systems. Such evidence led to the definition of emph{hydration} water as the thin layer of water covering the surface of biological systems and affecting-defining their properties and functionality. Here, we review some of our latest contributions showing that phospholipid membranes affect the structural properties and the hydrogen bond network of water at greater distances than the commonly evoked $sim1$~nm from the membrane surface. Our results imply that the concept of hydration water should be revised or extended, and pave the way to a deeper understanding of the mutual interactions between water and biological systems.
We report extensive simulations of the relaxation dynamics of a self-avoiding polymer confined inside a cylindrical pore. In particular, we concentrate on examining how confinement influences the scaling behavior of the global relaxation time of the chain, t, with the chain length N and pore diameter D. An earlier scaling analysis based on the de Gennes blob picture led to t ~ N^2D^(1/3). Our numerical effort that combines molecular dynamics and Monte Carlo simulations, however, consistently produces different t-results for N up to 2000. We argue that the previous scaling prediction is only asymptotically valid in the limit N >> D^(5/3) >> 1, which is currently inaccessible to computer simulations and, more interestingly, is also difficult to reach in experiments. Our results are thus relevant for the interpretation of recent experiments with DNA in nano- and micro-channels.
Many active matter systems are known to perform L{e}vy walks during migration or foraging. Such superdiffusive transport indicates long-range correlated dynamics. These behavior patterns have been observed for microswimmers such as bacteria in microfluidic experiments, where Gaussian noise assumptions are insufficient to explain the data. We introduce textit{active Levy swimmers} to model such behavior. The focus is on ideal swimmers that only interact with the walls but not with each other, which reduces to the classical Levy walk model but now under confinement. We study the density distribution in the channel and force exerted on the walls by the Levy swimmers, where the boundaries require proper explicit treatment. We analyze stronger confinement via a set of coupled kinetics equations and the swimmers stochastic trajectories. Previous literature demonstrated that power-law scaling in a multiscale analysis in free space results in a fractional diffusion equation. We show that in a channel, in the weak confinement limit active Levy swimmers are governed by a modified Riesz fractional derivative. Leveraging recent results on fractional fluxes, we derive steady state solutions for the bulk density distribution of active Levy swimmers in a channel, and demonstrate that these solutions agree well with particle simulations. The profiles are non-uniform over the entire domain, in contrast to constant-in-the-bulk profiles of active Brownian and run-and-tumble particles. Our theory provides a mathematical framework for Levy walks under confinement with sliding no-flux boundary conditions and provides a foundation for studies of interacting active Levy swimmers.
Using Langevin dynamics simulations, we investigate the dynamics of a flexible polymer translocation into a confined area under a driving force through a nanopore. We choose an ellipsoidal shape for the confinement and consider the dependence of the asymmetry of the ellipsoid measured by the aspect ratio on the translocation time. Compared with an isotropic confinement (sphere), an anisotropic confinement (ellipsoid) with the same volume slows down the translocation, and the translocation time increases with increasing the aspect ratio of the ellipsoid. We further find that it takes different time for polymer translocation into the same ellipsoid through major-axis and minor-axis directions, depending on the average density of the whole chain in the ellipsoid, $phi$. For $phi$ lower than a critical value $phi_c$, the translocation through minor axis is faster, and vice versa. These complicated behaviors are interpreted by the degree of the confinement and anisotropic confinement induced folding of the translocated chain.
The effects of static electric field on the dynamics of lysozyme and its hydration water have been investigated by means of incoherent quasi-elastic neutron scattering (QENS). Measurements were performed on lysozyme samples, hydrated respectively with heavy water (D2O) to capture the protein dynamics, and with light water (H2O), to probe the dynamics of the hydration shell, in the temperature range from 210 $<$ T $<$ 260 K. The hydration fraction in both cases was about $sim$ 0.38 gram of water per gram of dry protein. The field strengths investigated were respectively 0 kV/mm and 2 kV/mm (2 10$^6$ V/m) for the protein hydrated with D2O and 0 kV and 1 kV/mm for the H2O hydrated counterpart. While the overall internal protons dynamics of the protein appears to be unaffected by the application of electric field up to 2 kV/mm, likely due to the stronger intra-molecular interactions, there is also no appreciable quantitative enhancement of the diffusive dynamics of the hydration water, as would be anticipated based on our recent observations in water confined in silica pores under field values of 2.5 kV/mm. This may be due to the difference in surface interactions between water and the two adsorption hosts (silica and protein), or to the existence of a critical threshold field value Ec $sim$ 2-3 kV/mm for increased molecular diffusion, for which electrical breakdown is a limitation for our sample.
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