Atmospheric implication of synergy in methanesulfonic acid–base trimers: a theoretical investigation

Synergy between molecules is ubiquitous in atmospheric clusters and significantly affects new particle formation (NPF). Herein, the effects of the synergy between base molecules on the stability and evaporation of MSA–X–Y (MSA = methanesulfonic acid; X, Y = ammonia (A), methylamine (M), or dimethylamine (D)) trimers were investigated via density functional theory (DFT) and the atmospheric clusters dynamic code (ACDC) method. The results show that proton transfer from MSA to X is exothermal and barrierless due to the synergy between X and Y molecules in MSA–X–Y trimers compared with MSA-X dimers. Cyclic hydrogen bonds are a typical characteristic of the stable trimers. Topological analysis using atoms in molecules (AIM) theory indicates that the electron density (ρ) and Laplacian of the electron density (∇²ρ) at the bond critical points (BCPs) in the trimers exceed the standard range of hydrogen bonds. The affinity for attaching a Y molecule to the MSA–X dimers and the substitution of Y₁ (Y = A and MA) by Y₂ (Y₂ = MA and DMA) in the MSA–X–Y trimers are thermodynamically spontaneous. In addition, the cyclic stabilization energy of the MSA–X–Y trimers increased as the alkalinities of X and Y increased. The total evaporation rate of the trimers decreased as the alkalinities of X and Y increased. Low temperature and high pressure significantly facilitate the formation of trimers. It is further confirmed that synergy plays an important role in atmospheric NPF events.

The effects of synergy of between X and Y on the stability of MSA–X–Y trimers were investigated via quantum chemical and kinetics simulation method.

Enhancing Potential of Trimethylamine Oxide on Atmospheric Particle Formation

The role of an oxidation product of trimethylamine, trimethylamine oxide, in atmospheric particle formation is studied using quantum chemical methods and cluster formation simulations. Molecular-level cluster formation mechanisms are resolved, and theoretical results on particle formation are confirmed with mass spectrometer measurements. Trimethylamine oxide is capable of forming only one hydrogen bond with sulfuric acid, but unlike amines, trimethylamine oxide can form stable clusters via ion–dipole interactions. That is because of its zwitterionic structure, which causes a high dipole moment. Cluster growth occurs close to the acid:base ratio of 1:1, which is the same as for other monoprotic bases. Enhancement potential of trimethylamine oxide in particle formation is much higher than that of dimethylamine, but lower compared to guanidine. Therefore, at relatively low concentrations and high temperatures, guanidine and trimethylamine oxide may dominate particle formation events over amines.

Machine Learning-Guided Approach for Studying Solvation Environments

Molecular-level understanding and characterization of solvation environments are often needed across chemistry, biology, and engineering. Toward practical modeling of local solvation effects of any solute in any solvent, we report a static and all-quantum mechanics-based cluster-continuum approach for calculating single-ion solvation free energies. This approach uses a global optimization procedure to identify low-energy molecular clusters with different numbers of explicit solvent molecules and then employs the smooth overlap for atomic positions learning kernel to quantify the similarity between different low-energy solute environments. From these data, we use sketch maps, a nonlinear dimensionality reduction algorithm, to obtain a two-dimensional visual representation of the similarity between solute environments in differently sized microsolvated clusters. After testing this approach on different ions having charges 2+, 1+, 1-, and 2-, we find that the solvation environment around each ion can be seen to usually become more similar in hand with its calculated single-ion solvation free energy. Without needing either dynamics simulations or an a priori knowledge of local solvation structure of the ions, this approach can be used to calculate solvation free energies within 5% of experimental measurements for most cases, and it should be transferable for the study of other systems where dynamics simulations are not easily carried out.

Unexpected quenching effect on new particle formation from the atmospheric reaction of methanol with SO3

Despite the high abundance in the atmosphere, alcohols in general and methanol in particular are believed to play a small role in atmospheric new particle formation (NPF) largely due to the weak binding abilities of alcohols with the major nucleation precursors, e.g., sulfuric acid (SA) and dimethylamine (DMA). Herein, we identify a catalytic reaction that was previously overlooked, namely, the reaction between methanol and SO₃, catalyzed by SA, DMA, or water. We found that alcohols can have unexpected quenching effects on the NPF process, particularly in dry and highly polluted regions with high concentrations of alcohols. Specifically, the catalytic reaction between methanol and SO₃ can convert methanol into a less-volatile species--methyl hydrogen sulfate (MHS). The latter was initially thought to be a good nucleation agent for NPF. However, our simulation results suggest that the formation of MHS consumes an appreciable amount of atmospheric SO₃, disfavoring further reactions of SO₃ with H₂O. Indeed, we found that MHS formation can cause a reduction of SA concentration up to 87%, whereas the nucleation ability of MHS toward new particles is not as good as that of SA. Hence, a high abundance of methanol in the atmosphere can lower the particle nucleation rate by as much as two orders of magnitude. Such a quenching effect suggests that the recently identified catalytic reactions between alcohols and SO₃ need to be considered in atmospheric modeling in order to predict SA concentration from SO₂, while also account for their potentially negative effect on NPF.

A molecular understanding of the interaction of typical aromatic acids with common aerosol nucleation precursors and their atmospheric implications

Aromatic acids, which are generated from numerous anthropogenic emissions and secondary transformations, have been considered to play a crucial role in new particle formation. In this study, we performed theoretical calculations at the PW91PW91/6-311++G(3df,3pd) level to investigate the interaction between typical aromatic acids namely benzoic acid (BA), phenylacetic acid (PAA), phthalic acid (PA), isophthalic acid (mPA), and terephthalic acid (PTA) and common atmospheric nucleation precursors namely sulfuric acid (SA), water (H2O), ammonia (NH3), methylamine (MA), dimethylamine (DMA), and trimethylamine (TMA). The geometric analysis, Gibbs free energy analysis, OH/NH-stretching vibrational frequency calculation, and atoms in molecules (AIM) analysis were conducted to determine the interactions in the complexes. The heterodimers formed a six to eight membered ring through four types of hydrogen bond, and the bond strength could be ranked in descending order: SO-H⋯O > O-H⋯O/N > N-H⋯O. The BA/PAA/mPA/PTA-SA complexes had the lowest Gibbs free energy values. PA was more likely to interact with NH3 or amines rather than SA due to an intra-molecular hydrogen bond. Additionally, the aromatic acids have similar ability to interact with SA and NH3 as monocarboxylic/dicarboxylic acid. The formation potential of the heterodimers from aromatic acids with common nucleation precursors in ambient atmosphere was investigated.

Computational Study of the Effect of Mineral Dust on Secondary Organic Aerosol Formation by Accretion Reactions of Closed-Shell Organic Compounds

The effect of dust aerosols on accretion reactions of water, formaldehyde, and formic acid was studied in the conditions of earth's troposphere at the DLPNO-CCSD(T)/aug-cc-pVTZ//ωB97X-D/6-31++G** level of theory. A detailed analysis of the reaction mechanisms in the gas phase and on the surface of mineral dust, represented by mono- and trisilicic acid, revealed that mineral dust has the potential of decreasing reaction barrier heights. Specifically, at 0 K, mineral dust can lower the apparent energy barrier of the reaction of formaldehyde with formic acid to zero. However, when the entropic contributions to the reaction free energies were accounted for, mineral dust was found to selectively enhance the reaction of water with formaldehyde, while inhibiting the reaction of formaldehyde and formic acid, in the lower parts of the troposphere (with temperatures around 298 K). In the upper troposphere (with temperatures closer to 198 K), mineral dust catalyzes both reactions and also the reaction of methanol with formic acid. Despite the intrinsic potential of mineral dust, calculation of the catalytic enhancement parameter for a likely range of dust aerosol concentrations suggested that dust aerosols will not contribute to secondary organic aerosol formation via dimerization of closed-shell organic compounds. The main reason for this is the relatively low absolute concentration of tropospheric dust aerosol and its inefficiency in increasing the effective reaction rate coefficients.

Geometric and Electronic Structures of VB40/+ Clusters and Reactivity of the Cationic Cluster with Methane from Quantum Chemical Calculations

Quantum chemical methods have been employed to study the geometric and electronic structures of VB₄^0/+ clusters and the mechanism of the reaction of the cationic clusters with methane. It was found that the ground states of the neutral and cationic clusters were ⁴A' and ³A' of a planar isomer in C_s symmetry in which vanadium atom side-on binds to the rhombic B₄ moiety. The ionization energy of the neutral cluster was calculated to be 7.13 eV at the CCSD(T) level. The reaction pathways on the triplet and quintet potential energy profiles of the dehydrogenation and elimination of V⁺ in the reaction of VB₄⁺ cluster with methane were established based on the BPW91 functional calculations. Both of the dehydrogenation and elimination of V⁺ in the reaction of VB₄⁺ cluster with methane were initiated by the B₄ moiety of the VB₄⁺ cluster, and these two reaction channels were thermodynamically and kinetically favorable. The dehydrogenation and elimination of V⁺ in the reaction of VB₄⁺ cluster with methane were exothermic processes.

Configurational Sampling of Noncovalent (Atmospheric) Molecular Clusters: Sulfuric Acid and Guanidine

We studied the configurational sampling of noncovalently bonded molecular clusters relevant to the atmosphere. In this article, we discuss possible approaches to searching for optimal configurations and present one alternative based on systematic configurational sampling, which seems able to overcome the typical problems associated with searching for global minima on multidimensional potential energy surfaces. Since atmospheric molecular clusters are usually held together by intermolecular bonds, we also present a cost-effective strategy for treating hydrogen bonding and proton transferring by using rigid molecules and ions in different protonation states and illustrate its performance on clusters containing guanidine and sulfuric acid.

Structures, relative stability and binding energies of neutral water clusters, (H2O)2–30

We have revised the structures of neutral water clusters, (H₂O)_n=2–30, with the affordable M06-2X functional, presenting up to 25 isomers for each cluster size.

A non-conjugated polyethylenimine copolymer-based unorthodox nanoprobe for bioimaging and related mechanism exploration

A non-conjugated polyethylenimine copolymer-based nanoprobe for lysosome-specific staining and tumor-targeted bioimaging and related mechanism exploration.

Account of chemical bonding and enhanced reactivity of vanadium-doped rhodium clusters toward C–H activation: a DFT investigation

The chemical bonding and enhanced reactivity of vanadium-doped rhodium clusters toward C–H activation were investigated using DFT.

Insight into the structure and bonding of copper(i) iodide clusters and a cluster-based coordination polymer

The structure and chemical bonding pattern of selected copper(i) iodide clusters and a cluster-based coordination polymer are investigated using DFT.

The effects of aerogen-bonding on the geometries and spectral properties of several small molecular clusters containing XeO3

Aerogen bonding, as a specific noncovalent interaction, has attracted wide attention recently. A number of theoretical studies have proposed this effect based on the analysis of electronic structures of aerogen-containing systems though, the spectral characteristics have not been identified, which becomes the obstacle for the experimental confirmation of this interaction. In this paper, we employed the density functional theory to explore the energetic and geometric properties, infrared, Raman spectra of five small molecular clusters XeO₃·H₂O, XeO₃·NH₃, XeO₃ dimer, XeO₃ trimer, and XeO₃·2H₂O. Our results show the binding energies of the most favorable conformations for the dimers are larger than  -10.00 kcal mol^-1 and those for trimers are larger than  -20.00 kcal mol^-1, which indicates the strong aerogen bonding is favorable for the stabilities of these clusters. More importantly, some new IR and Raman vibrations at fingerprint region (<1000 cm^-1) are identified, which corresponds to the formation of aerogen bonds. This study provides a viable way for the experimentalists to characterize the aerogen bonding in future.

The role of nitric acid in atmospheric new particle formation

Nitric acid, an air pollutant with strong acidity and oxidizability, can be found in considerable quantities in the gas and aerosol phase. Understanding the role of nitric acid in atmospheric new particle formation is essential to study the complicated nucleation mechanism. Using density functional theory combined with the Atmospheric Clusters Dynamic Code (ACDC), the role of nitric acid in the formation of new particles has been investigated under different atmospheric conditions (different precursor concentrations and temperatures). The results show that nitric acid can form clusters with sulfuric acid and ammonia by hydrogen bond or even proton-transfer interactions. The concentrations of clusters involving nitric acid can be comparable with those of sulfuric acid-ammonia-based clusters, considering the thermodynamic stability combined with the realistic atmospheric concentrations of precursors. Within the atmospheric concentration range, nitric acid can enhance the formation rates of sulfuric acid-ammonia clusters, especially at low temperature, low sulfuric acid concentration and high ammonia concentration. In addition, the new particle formation mechanism indicates that nitric acid can contribute to the cluster formation and the role of nitric acid in the cluster formation pathway is as a "bridge" connecting the smaller and larger clusters.

Solvation energies of the proton in methanol revisited and temperature effects

Various functionals assessing solvation free energies and enthalpies of the proton in methanol.

A global optimization perspective on molecular clusters

Although there is a long history behind the idea of chemical structure, this is a key concept that continues to challenge chemists. Chemical structure is fundamental to understanding most of the properties of matter and its knowledge for complex systems requires the use of state-of-the-art techniques, either experimental or theoretical. From the theoretical view point, one needs to establish the interaction potential among the atoms or molecules of the system, which contains all the information regarding the energy landscape, and employ optimization algorithms to discover the relevant stationary points. In particular, global optimization methods are of major importance to search for the low-energy structures of molecular aggregates. We review the application of global optimization techniques to several molecular clusters; some new results are also reported. Emphasis is given to evolutionary algorithms and their application in the study of the microsolvation of alkali-metal and Ca²⁺ ions with various types of solvents.This article is part of the themed issue 'Theoretical and computational studies of non-equilibrium and non-statistical dynamics in the gas phase, in the condensed phase and at interfaces'.

Structures and energetics of hydrated deprotonated cis-pinonic acid anion clusters and their atmospheric relevance

Pinonic acid, a C₁₀-monocarboxylic acid with a hydrophilic –CO₂H group and a hydrophobic hydrocarbon backbone, is a key intermediate oxidation product of α-pinene – an important monoterpene compound in biogenic emission processes that influences the atmosphere.

The first water coordination sphere of lanthanide(iii) motexafins (Ln-Motex2+, Ln = La, Gd, Lu) and its effects on structures, reduction potentials and UV-vis absorption spectra. Theoretical studies

An explicit treatment of strongly bound water molecules is mandatory to calculate correct UV-vis absorption spectra of lanthanide(iii) motexafins.

Dielectric properties of pyridine–ethanol mixtures: density functional theory and experiments

The schematic of the experimental system.

Structures and spectroscopy of protonated ammonia clusters at different temperatures

Protonated ammonia clusters are all Eigen structures and the first solvation shell of the related ammonium ion core is saturated by four ammonia molecules.