TL;DR: A simple and computationally efficient method is presented to determine the potential dependence of the activation energies for proton-electron transfer from a single ab initio barrier calculation that shows that the transfer coefficient is given by the charge transferred from the initial to transition state.
Abstract: We present a simple and computationally efficient method to determine the potential dependence of the activation energies for proton–electron transfer from a single ab initio barrier calculation. We show that the potential dependence of the activation energy is given by the partial charge transferred at the transition state. The method is evaluated against the potential dependence determined explicitly through multiple calculations at varying potential. We show that the transfer coefficient is given by the charge transferred from the initial to transition state, which has significant implications for electrochemical kinetics.
TL;DR: A set of empirical potentials have been developed to enable molecular dynamics simulations of oxide glasses with the most common glass formers: silica, boron and aluminum oxides as mentioned in this paper.
Abstract: A set of empirical potentials have been developed to enable molecular dynamics simulations of oxide glasses with the most common glass formers: silica, boron and aluminum oxides. Built upon the recent borosilicate potentials, this set of partial charge effective potentials features composition dependent variable atomic charges and pairwise short range interactions that ensure high computational efficiency. They can correctly reproduce the short range structure features of boroaluminosilicate glasses including [SiO4] tetrahedral network, aluminum coordination, and, importantly, the coordination change of boron as a function of composition. By using the newly developed potentials, a series of sodium boroaluminosilicate glasses were simulated and the structures analyzed in terms of bond distance, bond angle, and coordination number, which were compared with available theoretical, simulation and experimental results. Structural analysis such as polyhedral connectivity analysis, Qn analysis, and ring size distribution were obtained to investigate the medium range structure features of these glasses. Furthermore, mechanical properties such as Young's, shear and bulk moduli were calculated and were found to be in good agreement with experimental data. The vibrational density of states was also calculated and compared with previous MD and ab initio results. The results show [3]B and [4]B had distinctive spectra features and vibrational spectra were in good agreement with earlier ab initio studies.
TL;DR: In this paper, it was observed that a 2 × 2 supercell can bind three, six, and eight lithium adatoms in different configurations with a binding energy much higher than the cohesive energy of Li, indicating that a distribution of Li over the monolayer can form without clustering of Li occurring.
Abstract: Quantum chemical density functional theory calculations have been used to study the structural, electronic, and hydrogen storage properties of a monolayer that is a stable allotrope of carbon nitride (g-C6N8). It was observed that a 2 × 2 supercell can bind three, six, and eight lithium (Li) adatoms in different configurations with a binding energy much higher than the cohesive energy of Li, indicating that a distribution of Li over the monolayer can form without clustering of Li occurring. Density of states calculations suggests that adding Li atoms transforms the semiconducting (g-C6N8) monolayer into a conducting one. A significant amount of charge is transferred from Li to the monolayer that induces a partial positive charge on each Li adatom. This facilitates the polarization of the H2 molecules exposed to Li, which are then held by it through electrostatic and van der Waals interactions. Each Li can adsorb multiple H2 molecules with adsorption energies that lie within the desired range for an effici...
TL;DR: The combined results demonstrate that solvent partial charges can be scaled in systems dominated by strong electrostatic interactions to achieve trends in ion solvation and transport properties that are comparable to ab initio and experimental results.
Abstract: Lithium-ion solvation and diffusion properties in ethylene carbonate (EC) and propylene carbonate (PC) were studied by molecular simulation, experiments, and electronic structure calculations. Studies carried out in water provide a reference for interpretation. Classical molecular dynamics simulation results are compared to ab initio molecular dynamics to assess nonpolarizable force field parameters for solvation structure of the carbonate solvents. Quasi-chemical theory (QCT) was adapted to take advantage of fourfold occupancy of the near-neighbor solvation structure observed in simulations and used to calculate solvation free energies. The computed free energy for transfer of Li+ to PC from water, based on electronic structure calculations with cluster-QCT, agrees with the experimental value. The simulation-based direct-QCT results with scaled partial charges agree with the electronic structure-based QCT values. The computed Li+/PF6– transference numbers of 0.35/0.65 (EC) and 0.31/0.69 (PC) agree well w...
TL;DR: In this paper, the electronic transport properties, optical properties and atomic partial charges of the recently proposed isostructural materials: penta-graphene (PG), pentagonal silicon dicarbide (p-SiC2), and pentagonal carbon nitride (pCN2) were investigated.
Abstract: Using density functional theory in combination with the nonequilibrium Green's function formalism we study the electronic transport properties, optical properties and atomic partial charges of the recently proposed isostructural materials: penta-graphene (PG), pentagonal silicon dicarbide (p-SiC2) and pentagonal carbon nitride (p-CN2). Enhanced electronic transport is obtained in p-SiC2 as compared to PG due to the delocalization of the electronic states and smaller variations of the electrostatic potential. This enhancement occurs despite a smaller contribution of Si atoms to the density of states of the system. Penta-SiC2 also displays improved dielectric and optical properties as compared to its all-carbon analogue. For example, larger absorption is obtained in both the visible and the ultraviolet spectral ranges. Strong variation in the atomic partial charge distribution was found in p-SiC2. On the contrary, p-CN2 was not found to exhibit improved optoelectronic properties compared to PG, except for larger partial charges on the surface of the sample. Our findings demonstrate the potential of p-SiC2 in optoelectronic applications.
TL;DR: The results show that it is possible to generate thermodynamically consistent force fields without using atomic polarizability.
Abstract: We optimize force fields for H3O(+) and OH(-) that reproduce the experimental solvation free energies and the activities of H3O(+) Cl(-) and Na(+) OH(-) solutions up to concentrations of 1.5 mol/l. The force fields are optimized with respect to the partial charge on the hydrogen atoms and the Lennard-Jones parameters of the oxygen atoms. Remarkably, the partial charge on the hydrogen atom of the optimized H3O(+) force field is 0.8 ± 0.1|e|--significantly higher than the value typically used for nonpolarizable water models and H3O(+) force fields. In contrast, the optimal partial charge on the hydrogen atom of OH(-) turns out to be zero. Standard combination rules can be used for H3O(+) Cl(-) solutions, while for Na(+) OH(-) solutions, we need to significantly increase the effective anion-cation Lennard-Jones radius. While highlighting the importance of intramolecular electrostatics, our results show that it is possible to generate thermodynamically consistent force fields without using atomic polarizability.
TL;DR: Quantum chemical calculations at the MP2/aug-cc-pVTZ and CCSD(T) levels have been carried out for the title compounds and suggest a significant covalent character for the hydrogen bonds to the noble gas atoms in [NgHNg](+) and to the halogen atoms in[XHX](-) .
Abstract: Quantum chemical calculations at the MP2/aug-cc-pVTZ and CCSD(T)/aug-cc-pVTZ levels have been carried out for the title compounds. The electronic structures were analyzed with a variety of charge and energy partitioning methods. All molecules possess linear equilibrium structures with D∞h symmetry. The total bond dissociation energies (BDEs) of the strongly bonded halogen anions [XHX](-) and [XAuX](-) decrease from [FHF](-) to [IHI](-) and from [FAuF](-) to [IAuI](-) . The BDEs of the noble gas compounds [NgHNg](+) and [NgAuNg](+) become larger for the heavier atoms. The central hydrogen and gold atoms carry partial positive charges in the cations and even in the anions, except for [IAuI](-) , in which case the gold atom has a small negative charge of -0.03 e. The molecular electrostatic potentials reveal that the regions of the most positive or negative charges may not agree with the partial charges of the atoms, because the spatial distribution of the electronic charge needs to be considered. The bonding analysis with the QTAIM method suggests a significant covalent character for the hydrogen bonds to the noble gas atoms in [NgHNg](+) and to the halogen atoms in [XHX](-) . The covalent character of the bonding in the gold systems [NgAuNg](+) and [XAuX](-) is smaller than in the hydrogen compound. The energy decomposition analysis suggests that the lighter hydrogen systems possess dative bonds X(-) →H(+) ←X(-) or Ng→H(+) ←Ng while the heavier homologues exhibit electron sharing through two-electron, three-center bonds. Dative bonds X(-) →Au(+) ←X(-) and Ng→Au(+) ←Ng are also diagnosed for the lighter gold systems, but the heavier compounds possess electron-shared bonds.
TL;DR: The findings indicate that the use of a two-step methodology of geometry optimization and single-point energy calculations using DFT methods produces potentials which compare favorably to high level theory calculation.
Abstract: We describe a general scheme to obtain force-field parameters for classical molecular dynamics simulations of conjugated polymers. We identify a computationally inexpensive methodology for calculation of accurate intermonomer dihedral potentials and partial charges. Our findings indicate that the use of a two-step methodology of geometry optimization and single-point energy calculations using DFT methods produces potentials which compare favorably to high level theory calculation. We also report the effects of varying the conjugated backbone length and alkyl side-chain lengths on the dihedral profiles and partial charge distributions and determine the existence of converged lengths above which convergence is achieved in the force-field parameter sets. We thus determine which calculations are required for accurate parametrization and the scope of a given parameter set for variations to a given molecule. We perform simulations of long oligomers of dioctylfluorene and hexylthiophene in explicit solvent and f...
TL;DR: A self-consistent scheme is developed to determine the atomic partial charges of ionic liquid and major effects are found on the energetics and dynamics, with improvements of the overestimated heat of vaporization and the too slow motions of ions observed in MD simulations using commonly used force fields.
Abstract: A self-consistent scheme is developed to determine the atomic partial charges of ionic liquid. Molecular dynamics (MD) simulation was conducted to sample a set of ion configurations, and these configurations were subject to density functional theory (DFT) calculations to determine the partial charges. The charges were then averaged and used as inputs for the subsequent MD simulation, and MD and DFT calculations were repeated until the MD results are not altered any more. We applied this scheme to 1,3-dimethylimidazolium bis(trifluoromethylsulfonyl) imide ([C1mim][NTf2]) and investigated its structure and dynamics as a function of temperature. At convergence, the average ionic charges were ±0.84 e at 350 K due to charge transfer among ions, where e is the elementary charge, while the reduced ionic charges do not affect strongly the density of [C1mim][NTf2] and radial distribution function. Instead, major effects are found on the energetics and dynamics, with improvements of the overestimated heat of vapori...
TL;DR: This work investigates how geometry can influence the magnetic properties of nanoparticles, focusing in particular on platinum clusters of 1-2 nm in size, and finds that the total magnetization depends strongly on the local atomic arrangements.
Abstract: Elucidating the connection between shape and properties is a challenging but essential task for a rational design of nanoparticles at the atomic level. As a paradigmatic example we investigate how geometry can influence the magnetic properties of nanoparticles, focusing in particular on platinum clusters of 1–2 nm in size. Through first-principle calculations, we have found that the total magnetization depends strongly on the local atomic arrangements. This is due to a contraction of the nearest neighbor distance together with an elongation of the second nearest neighbor distance, resulting in an interatomic partial charge transfer from the atoms lying on the subsurface layer (donors) toward the vertexes (acceptors).
TL;DR: In this paper, the effect of intermolecular aggregation of both the polymer donor and fullerene acceptor on charge separation has been studied, and it has been shown that long-lived charge carriers are only produced in films with inter-olecular aggregates of either RR-P3HT or PC61BM.
Abstract: How free charge is generated at organic donor-acceptor interfaces is an important question, as the binding energy of the lowest energy (localized) charge transfer states should be too high for the electron and hole to escape each other. Recently, it has been proposed that delocalization of the electronic states participating in charge transfer is crucial, and aggregated or otherwise locally ordered structures of the donor or the acceptor are the precondition for this electronic characteristic. The effect of intermolecular aggregation of both the polymer donor and fullerene acceptor on charge separation is studied. In the first case, the dilute electron acceptor triethylsilylhydroxy-1,4,8,11,15,18,22,25-octabutoxyphthalocyaninatosilicon(IV) (SiPc) is used to eliminate the influence of acceptor aggregation, and control polymer order through side-chain regioregularity, comparing charge generation in 96% regioregular (RR-) poly(3-hexylthiophene) (P3HT) with its regiorandom (RRa-) counterpart. In the second case, ordered phases in the polymer are eliminated by using RRa-P3HT, and phenyl-C61-butyric acid methyl ester (PC61BM) is used as the acceptor, varying its concentration to control aggregation. Time-resolved microwave conductivity, time-resolved photoluminescence, and transient absorption spectroscopy measurements show that while ultrafast charge transfer occurs in all samples, long-lived charge carriers are only produced in films with intermolecular aggregates of either RR-P3HT or PC61BM,more » and that polymer aggregates are just as effective in this regard as those of fullerenes.« less
TL;DR: In this article, the electron density ρ, its negative Laplacian L = −∇2ρ and the electrostatic potential φ functions have been used to study the intrachain I−I and I⋯I interactions.
Abstract: In tyrosinium polyiodide hydrate, cations and anions aggregate in layers. The cation layers are stabilized by classical hydrogen bonds. The anionic part of the structure consists of parallel infinite polyiodide strands; the distance pattern along these chains suggests the presence of smaller subunits I3−, I2 and I−. Comparative calculations for small fragments and longer chains in frozen geometries indicate that this unexpected arrangement is favoured by local stabilizing anion⋯anion interactions and partial charge transfer between the subunits. The topological analyses of the electron density ρ, its negative Laplacian L = −∇2ρ and the electrostatic potential φ functions have been used to study the intrachain I–I and I⋯I interactions. Thorough analysis carried out with L indicates the successive arrangement of generalized charge concentration and charge depletion sites (for either L > 0 or L < 0 regions) along bond paths, and permits to distinguish iodides from iodine atoms even when they are involved in intermediate situations where interatomic distances and net charges are not conclusive.
TL;DR: The aim is to provide a simple yet accurate picture of a chemical interaction by condensing the information on the charge rearrangement accompanying it into a few chemically meaningful parameters, which can be useful in a wide variety of contexts.
Abstract: We define new general density-based descriptors for the quantification of charge transfer and polarization effects associated with the interaction between two fragments and the formation of a chemical bond. Our aim is to provide a simple yet accurate picture of a chemical interaction by condensing the information on the charge rearrangement accompanying it into a few chemically meaningful parameters. These charge displacement (CD) parameters quantify the total charge displaced upon bond formation and decompose it into a charge transfer component between the fragments and charge rearrangements taking place within the fragments. We then show how the new parameters can be easily calculated using the well-known CD function, which describes the charge flow along a chosen axis accompanying the formation of a bond. The approach presented here can be useful in a wide variety of contexts, ranging from weak interactions to electronic excitations to coordination chemistry. In particular, we discuss here how the sche...
TL;DR: Natural bond orbital analysis, adaptive natural density partitioning algorithm, electron localization function, and partial charge plots demonstrate that bare Ce6O8 cluster exhibits d‐AO spherical σ aromaticity, thus explaining its exotic geometry and stability.
Abstract: After the first introduction of π aromaticity in chemistry to explain the bonding, structure, and reactivity of benzene and its derivatives, this concept was further applied to many other compounds featuring other types of aromaticity (i.e., σ, δ). Thus far, there have been no reports on d-AO-based spherical σ aromaticity. Here, we predict a highly stable bare Ce6O8 cluster of a spherical shape using evolutionary algorithm USPEX and DFT + U calculations. Natural bond orbital analysis, adaptive natural density partitioning algorithm, electron localization function, and partial charge plots demonstrate that bare Ce6O8 cluster exhibits d-AO spherical σ aromaticity, thus explaining its exotic geometry and stability. Ce6O8 complex plays an important role in many reactions and is known to exist in many forms, such as in NH4[Ce6(μ(3)O)5(μ(3)OH)3(μ(2)-C6H5COO)9(NO3)3(DMF)3]*DMF*H2O compound, which is prepared under room temperature, and acts as an oxidizing agent.
TL;DR: In this paper, the energy of individual intermolecular interactions in such systems is vital and still an open problem that has been tackled here within the framework of the natural bond orbital (NBO) and the quantum theory of atoms in molecules (QTAIM).
Abstract: DNA and RNA base-pairs are the most important systems containing multiple hydrogen bonds. Characterizing the energy of individual intermolecular interactions in such systems is vital and still an open problem that has been tackled here within the framework of the natural bond orbital (NBO) and the quantum theory of atoms in molecules (QTAIM) theories. In the NBO language, energy of an individual H-bond depends on the interaction of the n
Y, σ*XH, and σXH orbitals directly involved in H-bonding. A partial charge transfer between donor (n
Y) and acceptor (σ*XH) orbitals provides a substantial bonding contribution to the energies of the H-bonds, and in the end, the H-bonded complexes. It is accompanied with a repulsive contribution due to the proximity of the n
Y and σXH orbitals. Energies of the individual H-bonds, resulting from addition of the both terms, were correlated with several parameters, provided by the QTAIM analysis which has also been extensively used to characterize the hydrogen bond. The calculations were performed for the G–C and A–T Watson–Crick base pairs, their substituted derivatives (by one of two substituents, NH3
+ or OH2
+), A–U occurring in RNA and a wobble pair G–U. The best correlations were found for the NBO energy with the electron density and the potential energy density at H-bond critical points. The correlations held for the heterogeneous samples of HBs of different types, i.e. N–H···O, N–H···N, and C–H···O, occurring simultaneously in DNA base pairs.
TL;DR: In this article, the role of the electrostatic interactions in stabilizing various phases of ionic liquids, especially smectic ionic liquid crystals, was investigated using a coarse-grained model of 1-hexadecyl-3-methylimidazolium nitrate, [C16mim][NO3], with the partial charges artificially rescaled by a factor from 0.7 to 1.2.
Abstract: In order to investigate the role of the electrostatic interactions in stabilizing various phases of ionic liquids, especially smectic ionic liquid crystals, we have employed a coarse-grained model of 1-hexadecyl-3-methylimidazolium nitrate, [C16mim][NO3], to perform molecular dynamics simulations with the partial charges artificially rescaled by a factor from 0.7 to 1.2. The simulated systems have been characterized by means of orientational and translational order parameters and by distribution functions. We have found that increasing the total charge of the ions strongly stabilizes the ionic smectic phase by shifting the clearing point (melting into the isotropic liquid phase) to higher temperatures, while a smaller effect is observed on the stability of the crystal phase. Our results highlight the importance of the electrostatic interactions in promoting the formation of ionic liquid crystals through microphase segregation. Moreover, as the total charge of the model is increased, we observe a transform...
TL;DR: In this article, simulations of H2 sorption were performed in a non-physical version of the M-MOF-74, and a set of calculated partial charges, appropriate for one of the other versions of this MOF-series analogues, were used.
Abstract: Simulations of H2 sorption were performed in Cu-MOF-74, a recent addition to the M-MOF-74 series. Electronic structure calculations revealed that the Cu2+ ions exhibit an unusually low partial positive charge distribution in Cu-MOF-74, which is a direct consequence of the Jahn–Teller effect. This is in contrast to the charge environment for the metal ions in some of the other M-MOF-74 variants as determined in previous work [Pham, T.; J. Phys. Chem. C 2015, 119, 1078−1090]. Because of the low magnitude of the partial charges of the Cu2+ ions in Cu-MOF-74, this MOF displays the lowest H2 uptake and Qst values of the M-MOF-74 series, which is consistent with what was observed experimentally for H2 sorption in this series of MOFs. Control simulations of H2 sorption in a nonphysical Cu-MOF-74 variant were performed in which a set of calculated partial charges, appropriate for one of the other M-MOF-74 analogues, were used. These simulations utilize a much higher partial positive charge for the metal ions and,...
TL;DR: The directing role of fluorine at C2 has been explored and localised partial charge inversion elicits a reversal of the substrate-based α-stereoselectivity, irrespective of the protecting group electronics.
Abstract: To reconcile the urgent need to access well defined β-configured 2,6-di-deoxypyranose analogues for chemical biology, with the intrinsic α-selectivity of the native system, the directing role of fluorine at C2 has been explored. Localised partial charge inversion (C-H(δ+)→ C-F(δ-)) elicits a reversal of the substrate-based α-stereoselectivity, irrespective of the protecting group electronics.
TL;DR: Ab initio derived atomic partial charges offer a simple, yet informative representation of the molecular electron density and constitute representations of choice for molecular modelling and design.
TL;DR: The origin of the particular stability of bare Ti8 O12 cluster is found: unique chemical bonding where eight electrons of Ti atoms interacting with each other in antiferromagnetic fashion to lower the total energy of the system.
Abstract: Using the evolutionary algorithm USPEX and DFT+U calculations, we predicted a high-symmetry geometric structure of the bare Ti8 O12 cluster composed of 8 Ti atoms forming a cube, in which O atoms are at midpoints of all of its edges, in excellent agreement with experimental results. Using natural bond orbital analysis, adaptive natural density partitioning algorithm, electron localization function, and partial charge plots, we find the origin of the particular stability of bare Ti8 O12 cluster: unique chemical bonding where eight electrons of Ti atoms interacting with each other in antiferromagnetic fashion to lower the total energy of the system. The bare Ti8 O12 is thus an unusual molecule stabilized by d-orbital antiferromagnetic coupling.
TL;DR: These findings clearly demonstrate that contrary to popular perception, even in the absence of surfactants, the net electrical charge of ionizable surfaces in contact with apolar solvents can be large enough to lead to significant repulsive forces.
Abstract: We present measurements of the net electrical surface charge of silicon dioxide (SiO2) in contact with solvents of dielectric constants between 5 and 80. Our experimental approach relies on observing the thermal motion of single silica particles confined in an electrostatic fluidic trap created by SiO2 surfaces. We compare the experimentally measured functional form of the trapping potential with that from free energy calculations and thereby determine the net surface charge in the system. Our findings clearly demonstrate that contrary to popular perception, even in the absence of surfactants, the net electrical charge of ionizable surfaces in contact with apolar solvents can be large enough to lead to significant repulsive forces. A charge regulation model for SiO2 surfaces with a single tunable parameter explains our measurements. This model may find general applicability in estimating the net charge of ionizable surfaces, given system parameters such as the dissociation or association constants of the ionizable groups and the pH, ionic strength, and dielectric constant of the solvent phase.
TL;DR: An empirically parameterized intermolecular force field is developed for crystal structure modelling and prediction and is optimized for use with an atomic multipole description of electrostatic interactions.
Abstract: We present a re-parameterization of a popular intermolecular force field for describing intermolecular interactions in the organic solid state. Specifically we optimize the performance of the exp-6 force field when used in conjunction with atomic multipole electrostatics. We also parameterize force fields that are optimized for use with multipoles derived from polarized molecular electron densities, to account for induction effects in molecular crystals. Parameterization is performed against a set of 186 experimentally determined, low-temperature crystal structures and 53 measured sublimation enthalpies of hydrogen-bonding organic molecules. The resulting force fields are tested on a validation set of 129 crystal structures and show improved reproduction of the structures and lattice energies of a range of organic molecular crystals compared with the original force field with atomic partial charge electrostatics. Unit-cell dimensions of the validation set are typically reproduced to within 3% with the re-parameterized force fields. Lattice energies, which were all included during parameterization, are systematically underestimated when compared with measured sublimation enthalpies, with mean absolute errors of between 7.4 and 9.0%.
TL;DR: In this article, a model-independent approach based on Gauss' theorem for measuring the local charge in a specimen from an electron-optical phase image recorded using off-axis electron holography was proposed.
Abstract: A model-independent approach based on Gauss' theorem for measuring the local charge in a specimen from an electron-optical phase image recorded using off-axis electron holography was recently proposed. Here, we show that such a charge measurement is reliable when it is applied to determine the total charge enclosed within an object. However, the situation is more complicated for a partial charge measurement when the integration domain encloses only part of the object. We analyze in detail the effects on charge measurement of the mean inner potential of the object, of the presence of induced charges on nearby supports/electrodes and of noise. We perform calculations for spherical particles and highlight the differences when dealing with other object shapes. Our analysis is tested using numerical simulations and applied to the interpretation of an experimental dataset recorded from a sapphire particle.
TL;DR: It is suggested the regions of activity contribution or optimization can be effectively determined by studying various charge-based models to understand SAR precisely.
Abstract: The estimation of atomic partial charges of the small molecules to calculate molecular interaction fields (MIFs) is an important process in field-based quantitative structure-activity relationship (QSAR). Several studies showed the influence of partial charge schemes that drastically affects the prediction accuracy of the QSAR model and focused on the selection of appropriate charge models that provide highest cross-validated correlation coefficient ([Formula: see text] or q(2)) to explain the variation in chemical structures against biological endpoints. This study shift this focus in a direction to understand the molecular regions deemed to explain SAR in various charge models and recognize a consensus picture of activity-correlating molecular regions. We selected eleven diverse dataset and developed MIF-based QSAR models using various charge schemes including Gasteiger-Marsili, Del Re, Merck Molecular Force Field, Huckel, Gasteiger-Huckel, and Pullman. The generalized resultant QSAR models were then compared with Open3DQSAR model to interpret the MIF descriptors decisively. We suggest the regions of activity contribution or optimization can be effectively determined by studying various charge-based models to understand SAR precisely.
TL;DR: Light is shed on controversies in the literature on the liquid structure of tetraalkylammonium based ionic liquids using force fields available from the literature as well as with new sets of partial charges proposed in this work.
Abstract: X-ray scattering experiments at room temperature were performed for the ionic liquids n-butyl-trimethylammonium bis(trifluoromethanesulfonyl)imide, [N1114][NTf2], and methyl-tributylammonium bis(trifluoromethanesulfonyl)imide, [N1444][NTf2]. The peak in the diffraction data characteristic of charge ordering in [N1444][NTf2] is shifted to longer distances in comparison to [N1114][NTf2], but the peak characteristic of short-range correlations is shifted in [N1444][NTf2] to shorter distances. Molecular dynamics (MD) simulations were performed for these ionic liquids using force fields available from the literature, although with new sets of partial charges for [N1114]+ and [N1444]+ proposed in this work. The shifting of charge and adjacency peaks to opposite directions in these ionic liquids was found in the static structure factor, S(k), calculated by MD simulations. Despite differences in cation sizes, the MD simulations unravel that anions are allowed as close to [N1444]+ as to [N1114]+ because anions are located in between the angle formed by the butyl chains. The more asymmetric molecular structure of the [N1114]+ cation implies differences in partial structure factors calculated for atoms belonging to polar or non-polar parts of [N1114][NTf2], whereas polar and non-polar structure factors are essentially the same in [N1444][NTf2]. Results of this work shed light on controversies in the literature on the liquid structure of tetraalkylammonium based ionic liquids.
TL;DR: Results for density, self-diffusivity and viscosity are in very good agreement with the available experimental data for all ILs verifying that the force field reliably reproduces the behaviour of the imidazolium-based [TCM(-)] IL family in a wide temperature range.
Abstract: Imidazolium-based ionic liquids (ILs) incorporating the tricyanomethanide ([TCM(-)]) anion are studied using an optimized classical force field. These ILs are very promising candidates for use in a wide range of cutting-edge technologies and, to our knowledge, it is the first time that this IL family is subject to a molecular simulation study with the use of a classical atomistic force field. The [C4mim(+)][TCM(-)] ionic liquid at 298.15 K and at atmospheric pressure was used as the basis for force field optimization which primarily involved the determination of the Lennard-Jones parameters of [TCM(-)] and the implementation of three quantum mechanical schemes for the calculation of the partial charge distribution and the identification of the appropriate scaling factor for the reduction of the total ionic charge. The optimized force field was validated by performing simulations of the 1-alkyl-3-methylimidazolium tricyanomethanide ([Cnmim(+)][TCM(-)], n = 2, 4, 6, and 8) IL family at various temperatures. The results for density, self-diffusivity and viscosity are in very good agreement with the available experimental data for all ILs verifying that the force field reliably reproduces the behaviour of the imidazolium-based [TCM(-)] IL family in a wide temperature range. Furthermore, a detailed analysis of the microscopic structure and the complex dynamic behaviour of the ILs under study was performed.
TL;DR: In this paper, the authors investigated the charge transport properties of two fused-ring thienoacenes, (a) the syn-isomer of dibenzo-thieno-dithiophene (DBTDT), packing in the solid state with a π-π stacking arrangement and also known as bis-benzo thienono-thiophene, and (b) C6-DBDT, an alkylated derivative, packing in more conventional herring-bone arrangement, in the framework of the nonadiabatic hopping mechanism
Abstract: The charge transport properties of two fused-ring thienoacenes, (a) the syn-isomer of dibenzo-thieno-dithiophene (DBTDT), packing in the solid state with a π–π stacking arrangement and also known as bis-benzo-thieno-thiophene (BBTT) and (b) C6-DBTDT, an alkylated derivative, packing in the more conventional herring-bone arrangement, are investigated computationally in the framework of the non-adiabatic hopping mechanism. Charge transfer rate constants are computed within the Marcus–Levich–Jortner formalism including a single effective mode treated quantum mechanically and are injected in a kinetic Monte Carlo scheme to propagate the charge carrier in the crystal. Charge mobilities are computed at room temperature with and without the influence of an electric field and are shown to compare very well with the measured mobilities in single-crystal devices. Both systems show an almost 1D charge transport with C6-DBTDT displaying about a ten times larger mobility value, in agreement with experiment. It is shown that the role of the HOMO-1 orbital is not relevant for BBTT, while it might contribute to a more marked 2D charge transport character for C6-DBTDT.
TL;DR: Polar nanoparticles with varying surface polarity designed by assigning atomic partial charge to the surface of C60 tend to have higher water solubility and the polar nanoparticle with less ordered hydration structure tends to haveHigher water solubsility.
Abstract: In order to study the dependence of water solubility and hydration behavior of nanoparticles on their surface polarity, we designed polar nanoparticles with varying surface polarity by assigning atomic partial charge to the surface of C60. The water solubility of the nanoparticle is enhanced by several orders of magnitude after the introduction of surface polarity. Nevertheless, when the atomic partial charge grows beyond a certain value (qM), the solubility continuously decreases to the level of nonpolar nanoparticle. It should be noted that such qM is comparable with atomic partial charge of a variety of functional groups. The hydration behaviors of nanoparticles were then studied to investigate the non-monotonic dependence of solubility on the surface polarity. The interaction between the polar nanoparticle and the hydration water is stronger than the nonpolar counterpart, which should facilitate the dissolution of the nanoparticles. On the other hand, the surface polarity also reduces the interaction of hydration water with the other water molecules and enhances the interaction between the nanoparticles which may hinder their dispersion. Besides, the introduction of surface polarity disturbs and even rearranges the hydration structure of nonpolar nanoparticle. Interestingly, the polar nanoparticle with less ordered hydration structure tends to have higher water solubility.
TL;DR: The results indicate that commonly used class I force fields employing a fixed partial charge model for the electrostatic interaction provide mean errors in the ∼10 kJ/mol range for energies of conformational transition states for amino acid conformers.
Abstract: Exhaustive conformational interconversions including transition structure analyses of N-acetyl-l-glycine-N-methylamide as well as its alanine, serine, and cysteine analogues have been investigated at the MP2/6-31G** level, yielding a total of 142 transition states. Improved estimates of relative energies were obtained by separately extrapolating the Hartree–Fock and MP2 energies to the basis set limit and adding the difference between CCSD(T) and MP2 results with the cc-pVDZ basis set to the extrapolated MP2 results. The performance of eight empirical force fields (AMBER94, AMBER14SB, MM2, MM3, MMFFs, CHARMM22_CMAP, OPLS_2005, and AMOEBAPRO13) in reproducing ab initio energies of transition states was tested. Our results indicate that commonly used class I force fields employing a fixed partial charge model for the electrostatic interaction provide mean errors in the ∼10 kJ/mol range for energies of conformational transition states for amino acid conformers. Modern reparametrized versions, such as CHARMM2...