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This article presents a new reactive potential in the ReaxFF formalism. It aims to include the chlorine element and opens up the fields of use of ReaxFF to the whole class of organochloride compounds including conjugated or aromatic groups. Numerous compounds in this family raise global awareness due to their environmental impact, and such a reactive potential will help investigate their degradation pathways. The new force field, named CHONCl-2022_weak, belongs to the aqueous branch. The force field parameters were fitted against high-level quantum chemistry calculations, including complete active space self-consistent field/NEVPT2 calculations and density functional theory calculations, and their accuracy was evaluated using a validation set. The root means square deviation against quantum mechanics energies is 0.38 eV (8.91 kcal mol−1). From a structural point of view, the root means square deviation is about 0.06 Å for the bond lengths, 11.86° for the angles, and 4.12° for the dihedral angles. With CHONCl-2022_weak new force field, we successfully investigated the regioselectivity for nucleophilic or electrophilic attacks on polychlorinated biphenyls, which are toxic and permanent pollutants. The rotation barriers along the bond linking the two benzene rings, which is crucial in the toxicity of these compounds, are well reproduced by CHONCl-2022_weak. Then, our new reactive potential is used to investigate the chlorobenzene reactivity in the presence of hydroxyl radicals in atmospheric condition or in aqueous solution. The reaction pathways computed with ReaxFF agree with the quantum mechanics results. We showed that, in the presence of dioxygen molecules, in atmospheric condition, the oxidation of chlorobenzene likely leads to the formation of highly oxygenated compounds after the abstraction of hydrogen radicals. In water, the addition of a hydroxyl radical leads to the formation of chlorophenol or phenol molecules, as already predicted from plasma-induced degradation experiments. [ABSTRACT FROM AUTHOR]

The pyramidalization angle and spherical curvature are well-known quantities used to characterize the local geometry of a molecule and to provide a measure of regio-chemical activity of molecules. In this paper, we give a self-contained presentation of these two concepts and discuss their limitations. These limitations can bypass, thanks to the introduction of the notions of angular defect and discrete Gauss curvature coming from discrete differential geometry. In particular, these quantities can be easily computed for arbitrary molecules, trivalent or not, with bond of equal lengths or not. All these quantities have been implemented. We then compute all these quantities over the Tománek database covering an almost exhaustive list of fullerene molecules. In particular, we discuss the interdependence of the pyramidalization angle with the spherical curvature, angular defect, and hybridization numbers. We also explore the dependence of the pyramidalization angle with respect to some characteristics of the molecule, such as the number of atoms, the group of symmetry, and the geometrical optimization process. [ABSTRACT FROM AUTHOR]

The dynamic and electronic absorption spectrum of enhanced cyan fluorescent protein (ECFT), a mutant of green fluorescent protein (GFP), was studied by means of a 1 ns molecular dynamics (MD) simulation. The result states that the two conformations are stable along 1 ns trajectories, the protein partly quenches the rotation of the chromophore around the two bridging bonds through repulsive van der Waals interactions and the spectra obtained for the two conformations of the protein are indistinct.

We present first-principle calculations of core-level binding energies for the study of insulating, bulk phase, compounds, based on the Slater-Janak transition state model. Those calculations were performed in order to find a reliable model of the amorphous LixPOyNz solid electrolyte which is able to reproduce its electronic properties gathered from X-ray photoemission spectroscopy (XPS) experiments. As a starting point, Li2PO2N models were investigated. These models, proposed by Du et al. on the basis of thermodynamics and vibrational properties, were the first structural models of LixPOyNz. Thanks to chemical and structural modifications applied to Li2PO2N structures, which allow to demonstrate the relevance of our computational approach, we raise an issue concerning the possibility of encountering a non-bridging kind of nitrogen atoms (=N-) in LixPOyNz compounds. [ABSTRACT FROM AUTHOR]

A study is conducted to examine the fluorescence decays of the purified enhanced cyan fluorescent protein (ECFP, with chromophore sequence Thr-Trp-Gly) and its variant carrying the single H148D mutation characteristics of the brighter form of Cerulean. The comparison of results with parallel measurements in living cells showed that the fluorescence properties of multiexponential decay of ECFP in neutral solution are very similar to those of cytosolic ECFP.

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The layered oxide LiNi 0.6 Mn 0.2 Co 0.2 O 2 is a very attractive positive electrode material, as shown by the good reversible capacity, chemical stability, and cyclability upon long-range cycling in Li-ion batteries and, hopefully, in the near future, in all-solid-state batteries. Three samples with variable primary particle sizes of 240 nm, 810 nm, and 2.1 μm on average and very similar structures close to the ideal 2D layered structure (less than 2% Ni 2+ ions in Li + sites) were obtained by coprecipitation followed by a solid-state reaction at high temperatures. The electrochemical performances of the materials were evaluated in a conventional organic liquid electrolyte in Li-ion batteries and in a gel electrolyte in all-solid-state batteries. The positive electrode/electrolyte interface was analyzed by X-ray photoelectron spectroscopy to determine its composition and the extent of degradation of the lithium salt and the carbonate solvents after cycling, taking into account the changes in particle size of the positive electrode material and the nature of the electrolyte.

This article focuses on the surface reactivity of two spinel samples with different stoichiometries and crystal morphologies, namely Li 1+x Mn 2-x O 4 with x = 0.05 and 0.10. LiMn 2 O 4 compounds are good candidates as positive electrode of high-power lithium-ion batteries for portable devices. The samples were investigated using both experimental and theoretical approaches. On the experimental point of view, they were characterized in depth from X-ray diffraction, scanning electron microscopy, and X-ray photoelectron spectroscopy (XPS) analyses. Then, the reactivity was investigated through the adsorption of (SO 2 ) gaseous probes, in controlled conditions, followed by XPS characterization. First-principle calculations were conducted simultaneously to investigate the electronic properties and the reactivity of relevant surfaces of an ideal LiMn 2 O 4 material. The results allow us to conclude that the reactivity of the samples is dominated by an acido-basic reactivity and the formation of sulfite species. Nonetheless, on the x = 0.05 sample, both sulfite and sulfate species are obtained, the later, in lesser extent, corresponding to a redox reactivity. Combining experimental and theoretical results, this redox reactivity could be associated with the presence of a larger quantity of Mn 4+ cations on the last surface layers of the material linked to a specific surface orientation.

This article deals with the surface reactivity of (001)-oriented Li 2 MnO 3 crystals investigated from a multitechnique approach combining material synthesis, X-ray photoemission spectroscopy (XPS), scanning electron microscopy, Auger electron spectroscopy, and first-principles calculations. Li 2 MnO 3 is considered as a model compound suitable to go further in the understanding of the role of tetravalent manganese atoms in the surface reactivity of layered lithium oxides. The knowledge of the surface properties of such materials is essential to understand the mechanisms involved in parasitic phenomena responsible for early aging or poor storage performances of lithium-ion batteries. The surface reactivity was probed through the adsorption of SO 2 gas molecules on large Li 2 MnO 3 crystals to be able to focus the XPS beam on the top of the (001) surface. A chemical mapping and XPS characterization of the material before and after SO 2 adsorption show in particular that the adsorption is homogeneous at the micro- and nanoscale and involves Mn reduction, whereas first-principles calculations on a slab model of the surface allow us to conclude that the most energetically favorable species formed is a sulfate with charge transfer implying reduction of Mn.