Molecular aggregation in liquid water: Laplace spectra and spectral clustering of H-bonded network

Application of the spectral clustering method based on the analyses of the Laplace matrix is an acceptable indicator of the global properties of H-bonded network. The first peak of the Laplace spectra contains six eigenvalues. These results suggest that six communities are always formed in our simulated systems independently of the number of molecules in the cubic box. We showed that the H-bonded environment on the surface of the clusters is different from what can be found inside of the clusters. The fraction of four-coordinated molecules is significantly larger in the case of surface molecules. Our work emphasizes that the periodic boundary conditions always cause clustering in the system

Molecular Dynamics Simulation Studies of the Temperature-Dependent Structure and Dynamics of Isopropanol–Water Liquid Mixtures at Low Alcohol Content

Series of molecular dynamics simulations for 2-propanol–water mixtures, as a function of temperature (between freezing and room temperature) and composition (xip = 0, 0.5, 0.1, and 0.2), have been performed for temperatures reported in the only available experimental structure study. It is shown that when the all-atom optimized potentials for liquid simulations interatomic potentials for the alcohol are combined with the TIP4P/2005 water model, then the near-quantitative agreement with measured X-ray data, in the reciprocal space, can be achieved. Such an agreement justifies detailed investigations of structural, energetic, and dynamic properties on the basis of simulation trajectories. Here, we focus on characteristics related to hydrogen bonds (HB): cluster-, and in particular, ring formation, energy distributions, and lifetimes of HB-s have been scrutinized for the entire system, as well as for the water and isopropanol subsystems. It is demonstrated that similar to ethanol–water mixtures, the occurrence of 5-membered-hydrogen-bonded rings are significant, particularly at higher alcohol concentrations. Concerning HB energetics, an intriguing double maximum appears on the alcohol–alcohol HB energy distribution function. HB lifetimes have been found significantly longer in the mixtures than they are in pure liquids

The influence of cations on the dipole moments of neighboring polar molecules

It is shown that the dipole moment of polar (water, methanol, formamide, acetone and acetonitrile) molecules in the neighborhood of a cation is increased primarily by polarization from the bare electrostatic charge of the cation, although the effective value of the latter is somewhat reduced by "back donation" of electrons from neighbouring polar molecules. In other words, the classical picture may be viewed as if a point charge slightly smaller than the nominal charge of the cation would be placed at the cation site. It was found that the geometrical arrangement of the polar molecules in the first solvation shell is such that their mutual polarization reduces the dipole moments of individual molecules, so that in some cases they become smaller than the dipole moment of the free protic or aprotic molecule. We conjecture that this behavior is essentially a manifestation of the Le Chatellier-Braun principle

Temperature dependent dynamics in water-ethanol liquid mixtures

Temperature dependent hydrogen bond energetics and dynamical features, such as the diffusion coefficient and re-orientational times, have been determined for ethanol-water mixtures with 10, 20 and 30 mol% of ethanol. Concerning pairwise interaction energies between molecules, it is found that water-water interactions become stronger, while ethanol-ethanol ones become significantly weaker in the mixtures, than the corresponding values characteristic to the pure substances. Concerning the diffusion processes, for all concentrations the activation barrier of water and ethanol molecule become very similar to each other. Re-orientational motions of water and ethanol become slower as ethanol concentration is increasing. Characteristic re-orientational times of water in the mixtures are substantially longer than these values in the pure substance. On the other hand, this change for ethanol is only moderate. Re-orientational motions of water (especially the ones related to the H-bonded interaction) become very similar for those of ethanol in the mixtures

Temperature dependent network stability in simple alcohols and pure water: The evolution of Laplace spectra

A number of computer-generated models of water, methanol and ethanol are considered at room temperature and ambient pressure, and also as a function of temperature (for water and ethanol), and the potential model (for water only). The Laplace matrices are determined, and various characteristics of them, such as eigenvalues and eigenvectors, as well as the corresponding Laplace spectra are calculated. It is revealed how the width of the spectral gap in the Laplace matrix of H-bonded networks may be applied for characterising the stability of the network. A novel method for detecting the presence percolated network in these systems is also introduced

Properties of hydrogen bonded network in ethanol-water liquid mixtures as a function of temperature: diffraction experiments and computer simulations

New X-ray and neutron diffraction experiments have been performed on ethanol-water mixtures as a function of decreasing temperature, so that such diffraction data are now available over the entire composition range. Extensive molecular dynamics simulations show that the all-atom interatomic potentials applied are adequate for gaining insight of the hydrogen bonded network structure, as well as of its changes on cooling. Various tools have been exploited for revealing details concerning hydrogen bonding, like determining H-bond acceptor and donor sites, calculating cluster size distributions and cluster topologies, as well as computing the Laplace spectra and fractal dimensions of the networks. It is found that 5-membered hydrogen bonded cycles are dominant up to an ethanol content of 70% at room temperature, above which concentration ring structures nearly disappear. Percolation has been given special attention, so that it could be shown that at low temperature, close to the freezing point even the mixture with 90% ethanol possesses a 3D percolating network. Moreover, the water sub-network also percolates even at room temperature, with a percolation transition occurring around 50% ethanol

Properties of Hydrogen-Bonded Networks in Ethanol-Water Liquid Mixtures as a Function of Temperature: Diffraction Experiments and Computer Simulations

[Image: see text] New X-ray and neutron diffraction experiments have been performed on ethanol–water mixtures as a function of decreasing temperature, so that such diffraction data are now available over the entire composition range. Extensive molecular dynamics simulations show that the all-atom interatomic potentials applied are adequate for gaining insight into the hydrogen-bonded network structure, as well as into its changes on cooling. Various tools have been exploited for revealing details concerning hydrogen bonding, as a function of decreasing temperature and ethanol concentration, like determining the H-bond acceptor and donor sites, calculating the cluster-size distributions and cluster topologies, and computing the Laplace spectra and fractal dimensions of the networks. It is found that 5-membered hydrogen-bonded cycles are dominant up to an ethanol mole fraction x(eth) = 0.7 at room temperature, above which the concentrated ring structures nearly disappear. Percolation has been given special attention, so that it could be shown that at low temperatures, close to the freezing point, even the mixture with 90% ethanol (x(eth) = 0.9) possesses a three-dimensional (3D) percolating network. Moreover, the water subnetwork also percolates even at room temperature, with a percolation transition occurring around x(eth) = 0.5

Hydrogen bonding and percolation in propan-2-ol -- water liquid mixtures: X-ray diffraction experiments and computer simulations

Synchrotron X-ray diffraction measurements have been conducted on aqueous mixtures of propan-2-ol (a.k.a. isopropanol, or 2-propanol), for alcohol contents between 10 and 90 molar %, from room temperature down to 230 K. Molecular dynamics simulations, by using an all-atom parametrization of the propan-2-ol molecule and the well-known TIP4P/2005 water model, were able to provide semi-quantitative descriptions of the measured total structure factors. Various quantities related to hydrogen bonding, like hydrogen bond numbers, size distribution of cyclic entities and cluster size distributions, have been determined from the particle co-ordinates obtained from the simulations. The percolation threshold at room temperature could be estimated to be between isopropanol concentrations of 62 and 74 molar %, whereas at very low temperature, calculations yielded a value above 90 molar %