Context: We have performed a detailed MM and DFT investigation of neutral water clusters (HO) (n = 3-12). Our results show the trend of interaction energies in these clusters as a function of the size of the cluster. They show that the H-bond strength increases with cluster size and that the model of water is better described if two different partial charges are used on the hydrogen, depending on whether hydrogen is H-bonded or not. The average binding enthalpy change due to the formation of H-bonds between water molecules is found to be - 25.9 kJ mol at B3LYP/aug-cc-pVDZ level of theory. We observe the formation of cyclic H-bonded networks through the analysis of frontier orbitals and IR vibrational frequencies spectra. For the water cluster with n = 11, we observe an unusual reduction of the bandgap indicative of a cyclic H-bonded network.
Methods: Calculations were performed with the MMFF94 force field and the B3LYP method using various large basis sets. Molecular orbital diagrams and population analysis were done using standard tools in Gaussian.
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http://dx.doi.org/10.1007/s00894-024-05856-w | DOI Listing |
J Phys Chem A
January 2025
Institut des Sciences Moléculaires, UMR CNRS 5255, Univ. Bordeaux, Talence cedex F-33405, France.
The hydration mechanism of 3-methyl-1,2,3-butanetricarboxylic acid (MBTCA), a relevant marker of secondary organic aerosol formation from the atmospheric oxidation of α-pinene, has been investigated using the matrix-isolation infrared spectroscopy technique. The experimental results were supported by theoretical calculations. Monomers of MBTCA and heterocomplexes MBTCA-(HO) were identified.
View Article and Find Full Text PDFChemistry
December 2024
Dipartimento di Scienze Chimiche e Farmaceutiche, Università degli Studi di Trieste, 34127, Trieste, Italy.
In this work, we elucidate the electronic charge redistributions that occur within the cyanuric acid (CA) and melamine (M) molecules upon formation of the triple H-bond between the imide group of CA and the diaminopyridine group of M. To achieve this, we investigated 2D H-bonded assemblies of M, CA and CA*M grown on the Au(111) surface, using X-ray photoemission (XPS) and near edge X-ray absorption fine structure (NEXAFS) spectroscopies. Compared to the homomolecular networks, the spectra of the mixed sample reveal core level shifts in opposite directions for CA and M, indicating a nearly complementary charge accumulation on the CA molecule and a charge depletion on the M molecule.
View Article and Find Full Text PDFJ Chem Phys
December 2024
School of Physics and Astronomy, Applied Optics Beijing Area Major Laboratory, Beijing Normal University, Beijing 100875, China.
Oxide/water interfaces are ubiquitous, with alumina/water drawing particular interest due to its environmental and industrial applications. Understanding the interfacial structure at the molecular level is crucial for many physical and chemical processes occurring there. However, the exact structure of interfacial H-bonded network at different pH values remains unclear.
View Article and Find Full Text PDFPhys Chem Chem Phys
November 2024
Department of Chemistry, University of California, Irvine, CA, 92697-2025, USA.
Ionization desorption of charged analytes from the surface of solid amorphous glutaric acid particles, without the assistance of an external energy source, has been shown to be a promising method that can be coupled to mass spectrometry. We conduct mechanistic studies of the later stages of this ionization process using atomistic molecular dynamics. Our analysis focuses on the hydrogen bonding, diffusion, and ion desorption from nano-aggregates of glutaric acid.
View Article and Find Full Text PDFSoft Matter
October 2024
University of Split, Faculty of Science, Ru era Boškovića 33, 21000 Split, Croatia.
Aqueous glycerol mixtures are investigated over the whole concentration range of glycerol = 0.1-0.9 molecular dynamics (MD) simulations at ambient pressure and temperature.
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