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The resulting computed spectrum is in excellent agreement with experiment for the peak position, with little influence from ion pairing, but is in qualitative disagreement on the width, being only about half as wide. It is concluded that simulation by classical molecular dynamics fails to provide an adequate variety of structures to explain the experimental CTTS spectrum of aqueous Cl-.Studies have debated what is a favorable cluster size in liquid methanol. Applications of the quantum cluster equilibrium (QCE) model on a limited set of cluster structures have demonstrated the dominance of cyclic hexamers in liquid methanol. In this study, we examined the aforementioned question by integrating our implementation of QCE with a molecular-dynamics-based structural searching scheme. QCE simulations were performed using a database comprising extensively searched stable conformers of (MeOH)n for n = 2-14, which were optimized by B3LYP/6-31+G(d,p) with and without the dispersion correction. Our analysis indicated that an octamer structure can contribute significantly to cluster probability. By reoptimizing selected conformers with high probability at the MP2 level, we found that the aforementioned octamer became the dominant species due to favorable vibrational free energy, which was attributed to modes of intermolecular vibration.The microscopic properties that determine hygroscopic behavior are complex. The importance of hygroscopicity to many areas, and particularly atmospheric chemistry, in terms of aerosol growth and cloud nucleation, mandate the need for robust models to understand this behavior. Toward this end, we have employed molecular dynamics simulations to calculate hygroscopicity from atomistic models using free energy perturbation. We find that currently available force fields may not be well-suited to modeling the extreme environments of aerosol particles. Nonetheless, the results illuminate some shortcomings in our current understanding of hygroscopic growth and cloud nucleation. The most widely used model of hygroscopicity, κ-Köhler Theory (κKT), breaks down in the case of deviations from ideal solution behavior and empirical adjustments within the simplified framework cannot account for non-ideal behavior. A revised model that incorporates non-ideal mixing rescues the general framework of κKT and allows us to understand our simulation results as well as the behavior of atmospheric aerosols over the full range of humidity. The revised model shows that non-ideal mixing dominates hygroscopic growth at subsaturation humidity. Thus, a model based on ideal mixing will fail to predict subsaturation growth from cloud condensation nucleus (CCN) activation or vice versa; a single parameter model for hygroscopicity will generally be insufficient to extrapolate across wide ranges of humidity. We argue that in many cases, when data are limited to subsaturation humidity, an empirical model for non-ideal mixing may be more successful than one for ideal mixing.Retraction of 'Polycaprolactone composites with TiO2 for potential nanobiomaterials tunable properties using different phases' by Kamal K. Gupta et al., Phys. learn more Chem. link2 Chem. Phys., 2012, 14, 12844-12853, DOI 10.1039/C2CP41789H.The accurate prediction of protein-ligand binding free energies with tractable computational methods has the potential to revolutionize drug discovery. Modeling the protein-ligand interaction at a quantum mechanical level, instead of relying on empirical classical-mechanics methods, is an important step toward this goal. In this study, we explore the QM-PBSA method to calculate the free energies of binding of seven ligands to the T4-lysozyme L99A/M102Q mutant using linear-scaling density functional theory on the whole protein-ligand complex. By leveraging modern high-performance computing we perform over 2900 full-protein (2600 atoms) DFT calculations providing new insights into the convergence, precision and reproducibility of the QM-PBSA method. We find that even at moderate sampling over 50 snapshots, the convergence of QM-PBSA is similar to traditional MM-PBSA and that the DFT-based energy evaluations are very reproducible. We show that in the QM-PBSA framework, the physically-motivated GGA exchange-correlation functional PBE outperforms the more modern, dispersion-including non-local and meta-GGA-nonlocal functionals VV10 and B97M-rV. Different empirical dispersion corrections perform similarly well but the three-body dispersion term, as included in Grimme's D3 dispersion, is significant and improves results slightly. Inclusion of an entropy correction term sampled over less than 25 snapshots is detrimental while an entropy correction sampled over the same 50 or 100 snapshots as the enthalpies improves the accuracy of the QM-PBSA method. As full-protein DFT calculations can now be performed on modest computational resources our study demonstrates that they can be a useful addition to the toolbox of free energy calculations.The photocatalytic decomposition of nitrogen oxides (NOx) has attracted significant interest as a potential measure of reducing NOx levels in the urban atmosphere. Since photocatalytic activity is highly variable depending on atmospheric conditions, the uptake of NO, NO2 and HONO was studied on a commercial photocatalytic dispersion paint in a flow photoreactor as a function of the relative humidity and temperature. Since the relative humidity is a function of the surface's temperature, here both dependencies were carefully decoupled for the first time. In addition, for the first time the temperature dependence of the whole NOx reaction system including the important intermediate HONO was investigated. While for NO and NO2 strong negative humidity dependencies were observed, the photocatalytic uptake of HONO increased with humidity. For constant relative humidity no temperature dependence of the photocatalytic oxidation of NO was observed, whereas the photocatalytic NO2 uptake decreased with increasing temperature, which is explained by a temperature dependent adsorption equilibrium of the surface active NO2. HONO uptake showed a positive temperature dependence confirming the proposed photocatalysis of nitrite in a layer of adsorbed water on the surface of the photocatalyst. The missing/negative temperature dependencies of the photocatalysis of NO/NO2 are overcompensated by their strong negative relative humidity dependencies, leading to increasing uptake for both pollutants when photocatalytic surfaces are heated by solar irradiation in the atmosphere.Photoexciting charge transfer (CT) transitions arising from host-guest interactions in a confined environment can efficiently yield kinetically trapped radicals. In order to predispose these photogenerated radicals for diffusion limited reactions it becomes imperative to understand the nature of the host-guest CT interactions in the ground and excited states. Here we probe the heterogeneity of guest orientations and the ensuing excited state charge transfer dynamics of an electron-rich molecular probe N,N-dimethylaminobenzonitrile (DMABN) incarcerated inside an electron deficient water-soluble cationic Pd6L412+ nanohost. Using a combination of 1H-NMR, resonance Raman spectrosocopy, and pump-probe spectroscopy we highlight the necessary challenges that need to be addressed in order to use molecular cages as photocatalytic reaction vessels.Inspired by the recent experimental reports on boron containing compounds to be active and biomimetic for carbon capture, we report the mechanistic details of CO2 hydration activities of boronic acids using density functional theory calculations. Four boronic acids were analyzed, viz., [3-methyl-6-(1H-pyrazol-1-yl)phenyl]boronic acid, 3-aminophenylboronic acid, 2,6-dibromophenylboronic acid and 2,6-bis(trifluoromethyl)phenylboronic acid. Free energy landscapes were developed for the hydration reaction. 2,6-Dibromophenylboronic acid showed the highest turnover frequency. Computational NMR and FTIR spectra for various intermediates of the reaction were analyzed and compared with experimental spectra. The energetics as well as the spectral analyses confirmed the biomimetic mechanism for CO2 hydration over all the boronic acid catalysts under investigation.Engineered heme enzymes such as myoglobin and cytochrome P450s metalloproteins are gaining widespread importance due to their efficiency in catalyzing non-natural reactions. In a recent strategy, the naturally occurring Fe metal in the heme unit was replaced with non-native metals such as Ir, Rh, Co, Cu, etc., and axial ligands to generate artificial metalloenzymes. Determining the best metal-ligand for a chemical transformation is not a trivial task. Here we demonstrate how computational approaches can be used in deciding the best metal-ligand combination which would be highly beneficial in designing new enzymes as well as small molecule catalysts. We have used Density Functional Theory (DFT) to shed light on the enhanced reactivity of an Ir system with varying axial ligands. We look at the insertion of a carbene group generated from diazo precursors via N2 extrusion into a C-H bond. For both Ir(Me) and Fe systems, the first step, i.e., N2 extrusion is the rate determining step. Strikingly, neither the betteenvironment's role and mutations in improving the catalytic activity of the Ir(Me) system.Calcium disilicide (CaSi2) possesses a layered structure composed of alternating monolayers of silicene (MLSi) and calcium. Here the mechanism by which fluorine (F) diffusion into CaSi2 leads to a phase transformation from MLSi to bilayer silicene (BLSi) was investigated. Disorder in intra-layer atomic arrangements and F aggregation were observed using HAADF-STEM in areas of low F concentration. Transformation of MLSi to BLSi in CaSi2Fx was predicted to occur at x = 0.63 based on cluster expansion (CE) and density functional theory (DFT) analyses, and these results agreed well with HAADF-STEM observations. The occurrence of F aggregation at low concentrations was also confirmed by Monte Carlo simulations using the interaction parameters obtained in CE analysis. Bader charge analysis, DFT calculations of charged states, and ab initio molecular dynamics simulations indicated that the aggregated F atoms withdrew electrons from MLSi, destabilizing the buckled honeycomb structure of MLSi in CaSi2. This charge imbalance caused the transformation of MLSi to the covalent-like BLSi.Graphene-based materials (GBMs) are a large family of materials that have attracted great interest due to potential applications. In this work, we applied first-principles calculations based on density functional theory (DFT) and fully atomistic reactive molecular dynamics (MD) simulations to study the structural and electronic effects of hydrogenation in Me-graphene, a non-zero bandgap GBM composed of both sp2 and sp3-hybridized carbon. Our DFT results show the hydrogenation can tune the electronic properties of Me-graphene significantly. link3 The bandgap varies from 0.64 eV to 2.81 eV in the GGA-PBE approach, passing through metallic ground-states and a narrower bandgap state depending on the hydrogen coverage. The analyses of structural properties and binding energies have shown that all carbon atoms are in sp3 hybridization in hydrogenated Me-graphene with strong and stable C-H bonds, resulting in a boat-like favorable conformation for fully-hydrogenated Me-graphene. Our MD simulations have indicated that the hydrogenation is temperature-dependent for Me-graphene, and the covalent adsorption tends to grow by islands.