Hydrated excess proton at water-hydrophobic interfaces

The behavior of the hydrated excess proton is investigated at the water-vapor, water-hydrophobic wall, and water-carbon tetrachloride interfaces through molecular dynamics simulations using the third-generation multistate empirical valence bond model (MS-EVB3). The MS-EVB3 simulations show a surface preference of the excess proton at the water-vapor interface, consistent with the discovery of this effect using an earlier version of the MS-EVB model (Petersen et al. J. Phys. Chem. B 2004, 108, 14804) and with the experimental results. The preference of the hydrated excess proton for other water-hydrophobic interfaces is also analyzed for the first time. The hydrated proton structures and charge defect delocalization effects at these interfaces are discussed in detail. By decomposing the free energy profiles into the internal energy and entropic contributions, the thermodynamic (free energy) driving forces for the surface preference of the excess proton are also elaborated. These results indicate that the "rigid" hydrated proton structures at all the interfaces are energetically (as opposed to entropically) stabilized due to the "amphiphilic" nature of the hydrated excess proton, resulting in its overall interfacial concentration enhancement. The effects of acid concentration and nuclear quantization are also explored.     

Full configuration interaction computer simulation study of the thermodynamic and kinetic stability of hydrated dielectrons

The hydrated electron is a unique solvent-supported state comprised of an excess electron that is confined to a cavity by the surrounding water. Theoretical studies have suggested that two-electron solvent-supported states also can be formed; in particular, simulations indicate that two excess electrons could pair up and occupy a single cavity, forming a so-called hydrated dielectron. Although hydrated dielectrons have not been observed directly by experiment, their existence has been posited to explain the lack of an ionic strength effect in hydrated electron bimolecular annihilation [Schmidt, K. H.; Bartels, D. M. Chem. Phys. 1995, 190, 145]. To determine whether dielectrons may be created in the laboratory, we use thermodynamic integration (TI), combined with mixed quantum/classical molecular dynamics simulation, to examine the thermodynamic stability of hydrated electrons and dielectrons. For the dielectron calculations, we solve the two-electron quantum problem using full configuration interaction. Our results suggest that hydrated dielectrons are thermodynamically unstable relative to separated (single) hydrated electrons, although we also show that increasing the pressure could drive the equilibrium toward the formation of dielectrons. Because the simulations suggest that hydrated dielectrons are kinetically stable, we also examine a scenario for creating metstable, nonequilibrium populations of dielectrons, which involves the capture of a newly injected electron by a preexisting, equilibrated hydrated electron. These calculations, which allow for the full nonadiabatic relaxation of the injected electron, show that hydrated electrons may indeed act as trapping sites for unequilibrated electrons, so that capture may be a viable mechanism for creating dielectrons. We suggest possible experimental procedures to create such nonequilibrium hydrated dielectrons using either pulse radiolysis or ultrafast spectroscopic techniques.     

Electrostatics of B-DNA in NaCl and CaCl2 solutions: ion size, interionic correlation, and solvent dielectric saturation effects

The epsilon-modified Poisson-Boltzmann (-MPB) equations ( J. Phys. Chem. B, 2007, 111, 5264) have been solved on a three-dimensional grid for an all-atom geometry model of B-DNA. The approach is based on the implicit solvent model including finite sizes of hydrated ions and a dielectric approximation of the ion hydration shell. Results were obtained for the detailed geometry model of B-DNA in dilute and moderately concentrated solutions of NaCl and CaCl(2). All -MPB parameters of ions and dielectric medium were extracted from published results of all-atom molecular dynamics simulations. The study allows evaluations of the ion size, interionic correlation, and the solvent dielectric saturation effects on the ion distributions around DNA. It unambiguously suggests that the difference between the -MPB and Poisson-Boltzmann distributions of ions is low for Na(+) counterions. Such a difference in the case of divalent counterions Ca(2+) is dramatic: the dielectric saturation of the ion hydration shell leads to point-like adsorption of Ca(2+) on the phosphate groups of DNA. The -MPB equations were also applied to calculate the energy of interaction between two B-DNA molecules. Results agree with previously published simulations and experimental data. Some aspects of ion specificity of polyelectrolyte properties are discussed.     

Independent pairs and Monte-Carlo simulations of the geminate recombination of solvated electrons in liquid-to-supercritical water

Independent pairs (IP) and Monte Carlo (MC) simulations are employed to model experimental femtosecond time-resolved pump-probe spectroscopic data on the geminate recombination dynamics of solvated electrons in liquid-to-supercritical water. The hydrated electron was created by two-photon ionization of the neat fluid with a total ionization energy of 9.3 eV. In both numerical approaches, the ejection length, , (i.e. the distance from the ionization core, at which the electron is thermally and spatially localized) is used as the primary adjustable fitting parameter that can bring both model simulations into quantitative agreement with the ultrafast kinetic experiment. The influence of the thermodynamic conditions on the ejection length and on the recombination mechanism is discussed. Whereas in the compressed liquid associated with a high dielectric constant (ε ≥ 20), the electron recombines predominantly with the OH radical, the dissociative recombination via charge neutralization with the hydronium cation takes over at small dielectric constants (ε < 20). The importance of charge-dipole interactions for Monte-Carlo simulations of the recombination reactions of the hydrated electrons in the low-permittivity region is stressed.     

Hydrated electron yields in the heavy ion radiolysis of water

Experimental measurements coupled with Monte Carlo track simulations have been used to examine the yields of hydrated electrons in the radiolysis of water with protons, helium ions, and carbon ions. Glycylglycine, in concentrations ranging from 10(-4) to 1 M, was employed as a scavenger and the production of the ammonium cation used as a probe of hydrated electron yields from about 2 ns to 20 mus. Monte Carlo track simulations employing diffusion-kinetic calculations of product yields are found to reproduce experimental observations satisfactorily. Model details are used to elucidate the heavy ion track physics and chemistry. Comparison of the heavy ion results with those found in gamma radiolysis shows intratrack reactions are significant on the nanosecond to microsecond time scale as the ion track relaxes, and that a constant (escape) yield is never attained on this time scale. Numerical interpolation techniques are used to obtain both track average and track segment yields for use in practical applications or comparison with other models. The model results give the first hints that initial ( approximately 5 ps) hydrated electron yields, and possibly other water decomposition products, are dependent on the type and energy of the incident radiation.     

Toward predictive permeabilities: Experimental measurements and multiscale simulation of methanol transport in Nafion

A polymer membrane's permeability to solutes determines its suitability for various applications: a permeability value is essential for predicting performance in diverse contexts. Using aqueous methanol permeation through Nafion as an example, we describe a methodology for determining membrane permeability that accounts for boundary layer effects and the possibility of swelling. For the materials and apparatus used herein, analysis of a permeance measurement and computational fluid dynamics simulations show that the mass transfer boundary layer is on the order of ones to tens of microns. The data are used to develop and validate a multiscale model describing solute permeation through a hydrated membrane as a series of physical mechanistic steps: reversible adsorption from solution at the membrane interface, diffusion driven by a concentration gradient within the membrane, and reversible desorption into solution at the opposite membrane interface. The validated model is used to predict methanol transport across a solar-driven CO₂ reduction device and to assess the impact of polymer changes on the measured value. The approach of combining experimental data, computational fluid dynamics, and the mechanistic multiscale model is expected to provide more accurate analysis of membrane permeation data in cases with polymer swelling or unusual device geometries, among others.     

Dynamics of H2O and Na+ in nafion membranes

We investigate the transport properties of a model of a hydrated Na-Nafion membrane using molecular dynamics simulations. The system consists of several Nafion chains forming a pore with the water and ions inside. At low water content, the hydrophilic domain is not continuous and diffusion is very slow. The diffusion coefficient of both water and Na+ increases with increasing hydration (more strongly so for Na+). The simulations are in qualitative agreement with experimental results for similar systems. The diffusion coefficient is an average over the motion of ions or water molecules located in different environments. To better understand the role of the environment, we calculate the distribution of the residence times of the ion (or water) at different locations in the system. We discuss the transport mechanism in light of this information.     

Hydrated Electron Transfer to Nucleobases in Aqueous Solutions Revealed by Ab Initio Molecular Dynamics Simulations

We present an ab initio molecular dynamics (AIMD) simulation study into the transfer dynamics of an excess electron from its cavity‐shaped hydrated electron state to a hydrated nucleobase (NB)‐bound state. In contrast to the traditional view that electron localization at NBs (G/A/C/T), which is the first step for electron‐induced DNA damage, is related only to dry or prehydrated electrons, and a fully hydrated electron no longer transfers to NBs, our AIMD simulations indicate that a fully hydrated electron can still transfer to NBs. We monitored the transfer dynamics of fully hydrated electrons towards hydrated NBs in aqueous solutions by using AIMD simulations and found that due to solution‐structure fluctuation and attraction of NBs, a fully hydrated electron can transfer to a NB gradually over time. Concurrently, the hydrated electron cavity gradually reorganizes, distorts, and even breaks. The transfer could be completed in about 120–200 fs in four aqueous NB solutions, depending on the electron‐binding ability of hydrated NBs and the structural fluctuation of the solution. The transferring electron resides in the π*‐type lowest unoccupied molecular orbital of the NB, which leads to a hydrated NB anion. Clearly, the observed transfer of hydrated electrons can be attributed to the strong electron‐binding ability of hydrated NBs over the hydrated electron cavity, which is the driving force, and the transfer dynamics is structure‐fluctuation controlled. This work provides new insights into the evolution dynamics of hydrated electrons and provides some helpful information for understanding the DNA‐damage mechanism in solution.     

Poisson-Boltzmann description of the electrical double layer including ion size effects

The electrical double layer is examined using a generalized Poisson-Boltzmann equation that takes into account the finite ion size by modeling the aqueous electrolyte solution as a suspension of polarizable insulating spheres in water. We find that this model greatly amplifies the steric effects predicted by the usual modified Poisson-Boltzmann equation, which imposes only a restriction on the ability of ions to approach one another. This amplification should allow for an interpretation of the experimental results using reasonable effective ionic radii (close to their well-known hydrated values).     

NMR and monte carlo simulation studies of water adsorption dynamics

Nuclear magnetic resonance water proton spin-spin relaxation time T(2) was measured in wood samples with moisture contents ranging from 0.50 to 26.4%. The experimental results are discussed in terms of Monte Carlo simulations, which determine the correlation times tau for reorientation of the water molecule proton-proton vectors. We demonstrate that 1/T(2) and tau qualitatively follow the same behavior with surface hydration. The common application of the multisite exchange model to hydrated systems is discussed in light of the new results.     

Influence of monovalent ion size on colloidal forces probed by Monte Carlo simulations

The present work studies the role of ionic size in the interactions between the electrical double layers of colloids immersed into electrolyte solutions of monovalent ions. Such interactions are studied by means of Monte Carlo (MC) simulations and the classical Derjaguin-Landau-Verwey-Overbeek (DLVO) theory. Despite the omission of the steric effects and some other features of real electrolyte solutions, DLVO theory is known to work qualitatively well for 1:1 electrolyte solutions. However, this affirmation is based on previous tests where an ionic diameter around 0.4 nm was taken for all ionic species. In contrast, some experimental studies suggest that larger hydrated ions should be considered and even specified for each type of ion. In this work, the importance of ionic size is analyzed by applying the primitive model of electrolyte to the intermediate region between a pair of equally charged infinite planar surfaces. The double layer interactions were calculated from the ionic densities at the distance of closest approach to the charged surfaces, this method constitutes an alternative to the traditional calculations at the midplane. Our MC simulations predict the existence of negative net pressures for monovalent electrolytes in the case of zero charge density. In addition, MC simulations reveal some disagreements with theoretical predictions for ionic diameters larger than 0.4 nm. These discrepancies can become significant if surface charge density is large enough due to the restructuration of the double layer. The physical mechanisms for these deviations are also discussed.     

The hydration of glucose: the local configurations in sugar-water hydrogen bonds

The hydration of a simple sugar is an essential model for understanding interactions between hydrophilic groups and interfacial water molecules. Here I perform first-principles molecular dynamics simulations on a glucose-water system and investigate how individual hydroxyl groups are locally hydrated. I demonstrate that the hydroxyl groups are less hydrated and more incompatible with a locally tetrahedral network of hydrogen bonds than previously thought. The results suggest that the hydroxyl groups form roughly two hydrogen bonds. Further, I find that the local hydration of the hydroxyl groups is sensitively affected by seemingly small variations in the local electronic structure and bond polarity of the groups. My findings offer insight into an atomic-level understanding of sugar-water interactions.     

Evolution of mechanical response of sodium montmorillonite interlayer with increasing hydration by molecular dynamics

The mechanical response of the interlayer of hydrated montmorillonite was evaluated using steered molecular dynamics. An atomic model of the sodium montmorillonite was previously constructed. In the current study, the interlayer of the model was hydrated with multiple layers of water. Using steered molecular dynamics, external forces were applied to individual atoms of the clay surface, and the response of the model was studied. The displacement versus applied stress and stress versus strain relationships of various parts of the interlayer were studied. The paper describes the construction of the model, the simulation procedure, and results of the simulations. Some results of the previous work are further interpreted in the light of the current research. The simulations provide quantitative stress deformation relationships as well as an insight into the molecular interactions taking place between the clay surface and interlayer water and cations.     

The structure of the hydrated electron. Part 2. A mixed quantum/classical molecular dynamics embedded cluster density functional theory: single-excitation configuration interaction study

Adiabatic mixed quantum/classical (MQC) molecular dynamics (MD) simulations were used to generate snapshots of the hydrated electron in liquid water at 300 K. Water cluster anions that include two complete solvation shells centered on the hydrated electron were extracted from the MQC MD simulations and embedded in a roughly 18 Ax18 Ax18 A matrix of fractional point charges designed to represent the rest of the solvent. Density functional theory (DFT) with the Becke-Lee-Yang-Parr functional and single-excitation configuration interaction (CIS) methods were then applied to these embedded clusters. The salient feature of these hybrid DFT(CIS)/MQC MD calculations is significant transfer (approximately 18%) of the excess electron's charge density into the 2p orbitals of oxygen atoms in OH groups forming the solvation cavity. We used the results of these calculations to examine the structure of the singly occupied and the lower unoccupied molecular orbitals, the density of states, the absorption spectra in the visible and ultraviolet, the hyperfine coupling (hfcc) tensors, and the infrared (IR) and Raman spectra of these embedded water cluster anions. The calculated hfcc tensors were used to compute electron paramagnetic resonance (EPR) and electron spin echo envelope modulation (ESEEM) spectra for the hydrated electron that compared favorably to the experimental spectra of trapped electrons in alkaline ice. The calculated vibrational spectra of the hydrated electron are consistent with the red-shifted bending and stretching frequencies observed in resonance Raman experiments. In addition to reproducing the visible/near IR absorption spectrum, the hybrid DFT model also accounts for the hydrated electron's 190-nm absorption band in the ultraviolet. Thus, our study suggests that to explain several important experimentally observed properties of the hydrated electron, many-electron effects must be accounted for: one-electron models that do not allow for mixing of the excess electron density with the frontier orbitals of the first-shell solvent molecules cannot explain the observed magnetic, vibrational, and electronic properties of this species. Despite the need for multielectron effects to explain these important properties, the ensemble-averaged radial wavefunctions and energetics of the highest occupied and three lowest unoccupied orbitals of the hydrated electrons in our hybrid model are close to the s- and p-like states obtained in one-electron models. Thus, one-electron models can provide a remarkably good approximation to the multielectron picture of the hydrated electron for many applications; indeed, the two approaches appear to be complementary.     

Solvation of radical cations in water--reactive or unreactive solvation?

The solvation and reaction of ethylene radical cation in aqueous solution has been studied with Car-Parrinello molecular dynamics simulations. All ab initio simulations were performed using a system of 56 water and one ethylene molecule. Using a favorable symmetrically solvated radical cation as the starting point of the simulation a fast addition of water (within 90 fs) to the radical cation is observed. The primary addition product is rapidly deprotonated (within 100 fs) to yield the ethanol-2-yl radical. A second simulation was initiated through vertical ionization of neutral hydrated ethylene, representing a significantly less favorable situation for the addition process. No addition of water can be observed in this second simulation over a time span of 1.7 ps. Taken together the two simulations are indicative of a rearrangement of the solvent shell which represents the major part of the overall reaction barrier. Under these circumstances, the reaction rate of an otherwise spontaneous reaction is limited by the intrinsic solvent relaxation time. This interpretation of the reactivity of hydrated radical cations reconciles previously conflicting experimental condensed phase and theoretical gas phase studies.     

Simulating the Physiological Phase of Hydrated DPPC Bilayers: The Ester Moiety

Abstract

The charge on the ester oxygen of the sn2 group of the dipalmitoylphosphatidylcholine (DPPC) has a remarkable effect on the square area per lipid in simulations of a hydrated bilayer. This is in contrast to simulations of nonpolar, neutral lipids, where it has been found to have little effect. The charges associated with the GROMOS96 45A3 and 45A4 biomolecular force fields have been previously shown to cause significant membrane shrinkage. We find that the use of larger charges at the ester groups alone (as opposed to on all the polar moieties in the head group) remedies the shrinkage. The source of this effect in DPPC lies in the fact that the charge distribution of this polar group profoundly influences its free energy of hydration and, correspondingly, the water distribution around it. In an attempt to rationally tune the ester parameters, the repulsive Lennard–Jones parameters that represent the van der Waals interaction have been refined to reproduce the experimental density and heat of vaporization, and the charges of the ester groups have been tuned to reproduce the experimental free energies of hydration of a series of alkane esters. The new parameters form part of the GROMOS96 53A5 and 53A6 force fields. However, with the new force‐field parameters, the area per lipid in simulations of hydrated DPPC bilayers lies below that of the physiological liquid‐crystalline phase, the implications of which are discussed.     

Ettringite surface chemistry: Interplay of electrostatic and ion specificity

This paper presents a detailed experimental study combined with Monte Carlo (MC) simulations within the primitive model of the physical chemistry at the ettringite-water interface over a wide range of pH and bulk conditions for which ettringite exists thanks to its solubility in aqueous solutions. Ettringite, which is an important phase in hydrated cement-based systems, bears a permanent and positive structural charge. In contrast with previous studies, electrokinetic measurements together with the careful chemical analysis of the equilibrium solutions of the dispersions have brought strong support to designate sulfate as being the ion determining the potential. Simulations showed that electrostatics, through ion-ion correlations, are not strong enough to explain the charge reversal of ettringite immersed in sulfate salt solutions. However, an excellent agreement between simulated and experimental data was obtained including a short-range nonelectrostatic adsorption potential for the sulfate ion. This result strongly suggests the existence of a chemical specificity of sulfate ions for an ettringite surface.     

The properties of ion-water clusters. I. The protonated 21-water cluster

The ab initio atom-centered density-matrix propagation approach and the multistate empirical valence bond method have been employed to study the structure, dynamics, and rovibrational spectrum of a hydrated proton in the "magic" 21 water cluster. In addition to the conclusion that the hydrated proton tends to reside on the surface of the cluster, with the lone pair on the protonated oxygen pointing "outwards," it is also found that dynamical effects play an important role in determining the vibrational properties of such clusters. This result is used to analyze and complement recent experimental and theoretical studies.