Electronegativities of Pauling and Mulliken in Density Functional Theory

Classification of substances by health hazard using deep neural networks and molecular electron densities

In this paper we present a method that allows leveraging 3D electron density information to train a deep neural network pipeline to segment regions of high, medium and low electronegativity and classify substances as health hazardous or non-hazardous. We show that this can be used for use-cases such as cosmetics and food products. For this purpose, we first generate 3D electron density cubes using semiempirical molecular calculations for a custom European Chemicals Agency (ECHA) subset consisting of substances labelled as hazardous and non-hazardous for cosmetic usage. Together with their 3-class electronegativity maps we train a modified 3D-UNet with electron density cubes to segment reactive sites in molecules and classify substances with an accuracy of 78.1%. We perform the same process on a custom food dataset (CompFood) consisting of hazardous and non-hazardous substances compiled from European Food Safety Authority (EFSA) OpenFoodTox, Food and Drug Administration (FDA) Generally Recognized as Safe (GRAS) and FooDB datasets to achieve a classification accuracy of 64.1%. Our results show that 3D electron densities and particularly masked electron densities, calculated by taking a product of original electron densities and regions of high and low electronegativity can be used to classify molecules for different use-cases and thus serve not only to guide safe-by-design product development but also aid in regulatory decisions. SCIENTIFIC CONTRIBUTION: We aim to contribute to the diverse 3D molecular representations used for training machine learning algorithms by showing that a deep learning network can be trained on 3D electron density representation of molecules. This approach has previously not been used to train machine learning models and it allows utilization of the true spatial domain of the molecule for prediction of properties such as their suitability for usage in cosmetics and food products and in future, to other molecular properties. The data and code used for training is accessible at https://github.com/s-singh-ivv/eDen-Substances .

Method for determining the electronegativity of bound atoms of chemical elements with a small atomic number

The classical approach of James and Brindley for determining the shielding of a nucleus by electrons from the atomic form factor of the scattering of x rays is generalized for atoms in a bound state. It is shown that for chemical elements with atomic number Z < 10, the ratio of the peaks of coherent IR and incoherent IC scattering in the range of (sin θ)/λ from 0.7 to 2.0 Å-1 is determined by the form factor of scattering by internal electrons of the (1, 0) level. For each atom in a multicomponent system, there is only one adjustable parameter-the effective charge Z* = (Z - s), which characterizes the shielding of the nucleus by electrons. Fitting the dependence IR/IC ((sin θ)/λ) allows you to determine Z* for each free or bound atom and calculate its electronegativity. The values of the electronegativity of lithium, boron, carbon, oxygen, and fluorine in compounds with different types of chemical bonds are analyzed.

Tuning Molecular Electron Affinities against Atomic Electronegativities by Spatial Expansion of a π-System

2,1,3-Benzochalcogenadiazoles C₆ R₄ N₂ E (E/R; E=S, Se, Te; R=H, F, Cl, Br, I) and C₆ H₂ R₂ N₂ E (E/R'; E=S, Se, Te; R=Br, I) are 10π-electron hetarenes. By CV/EPR measurements, DFT calculations, and QTAIM and ELI-D analyses, it is shown that their molecular electron affinities (EAs) increase with decreasing Allen electronegativities and electron affinities of the E and non-hydrogen R (except Cl) atoms. DFT calculations for E/R+e⋅^- →[E/R]⋅^- electron capture reveal negative ΔG values numerically increasing with increasing atomic numbers of the E and R atoms; positive ΔS has a minor influence. It is suggested that the EA increase is caused by more effective charge/spin delocalization in the radical anions of heavier derivatives due to contributions from diffuse (a real-space expanded) p-AOs of the heavier E and R atoms; and that this counterintuitive effect might be of the general character.

Molecular Iodine-Catalyzed Synthesis of Imidazo[1,2-a]Pyridines: Screening of Their In Silico Selectivity, Binding Affinity to Biological Targets, and Density Functional Theory Studies Insight

The present paper discloses an ultrasonication strategy assisted by molecular iodine as an environmentally benign catalyst leading to the synthesis of pharmacologically significant imidazo[1,2-a]pyridine scaffolds. The molecular-iodine-catalyzed approach for the synthesis of biologically active synthetic equivalents was achieved through three-component coupling embracing 2-aminopyridine derivatives, pertinent acetophenones, and dimedone in water medium under aerobic conditions. The higher product yield (up to 96%) with a miniature reaction time and modest catalyst loading as demonstrated by higher ecological compatibility and sustainability factors are fascinating features of this protocol. The structures of synthesized compounds were accomplished through FT-IR, ¹H NMR,¹³C NMR, mass, and elemental analysis data. The virtual screening of synthetic moieties was performed to ascertain the in silico selectivity and binding affinities against several biological targets. Lipinski's rules of five, ADMET, and TOPKAT descriptors were used to evaluate the drug-likeness assets. Furthermore, a quantum computational study was computed at the B3LYP/6-311G++(d,p) level of theory to investigate the density functional theory-based chemical reactivity parameters and HOMO-LUMO energy gap of the synthesized derivatives. The present studies open the way for in vitro and in vivo testing of synthesized derivatives as potent inhibitors with an improved pharmacological profile against farnesyl diphosphate synthase, phosphodiesterase III, CXCR4, and GABAa receptor agonists.

Impact of alkaline-earth doping on electronic properties of the photovoltaic perovskite CsSnI3: insights from a DFT perspective

The oxidation of Sn(II) to the more stable Sn(IV) degrades the photovoltaic perovskite material CsSnI₃; however, this problem can be counteracted via alkaline-earth (AE) doping. In this work, the electronic properties of CsSn_1-xAE_xI₃, with x = 0 and 0.25, and AE = Mg and Ca, were investigated via Density Functional Theory. It is proven that the synthetic reactions of all these perovskites are thermodynamically viable. Besides, a slight strengthening in the metal-halide bonds is found in the Mg-doped perovskite; consequently, it exhibits the greatest bulk modulus. Nevertheless, the opposite occurrs with the Ca-doped perovskite, which has the smallest bulk modulus due to the weakening of its metal-halide bonds. The calculated bandgaps for CsSnI₃, Mg-doped and Ca-doped perovskites are 1.11, 1.32 and 1.55 eV, respectively, remaining remarkably close to the best photovoltaic-performing value for single-junction solar cells of 1.34 eV. Nevertheless, an indirect bandgap was predicted under Mg-doping. These results support the possibility of implementing AE-doped perovskites as absorber materials in single-junction solar cells, which can deliver higher output voltages than that using CsSnI₃. Finally, it was found that Sr or Ba doping could result in semiconductors with bandgaps close to 2.0 eV.

A theoretical study on the donor ability adjustment of tris(2,4,6-trichlorophenyl)methyl-triarylamine (TTM-TPA) radicals aiming to develop better organic luminescent materials

Spin-unrestricted DFT and spin-unrestricted TDDFT calculations were performed to systematically investigate the correlation between the electron donating ability of donors and photophysical properties in D–A luminescent radicals.

Can the Philicity of Radicals Be Influenced by Oriented External Electric Fields?

Herein, the effects of an electric field on radicals are investigated for a set of model radicals with varying complexity. An electric field impacts the intrinsic philicity of a radical, as quantified by the global electrophilicity index, ω. The extent of change in philicity depends on the directionality and strength of the applied electric field and the dipole moment and polarizability of the radical.

Thermochemical electronegativities of the elements

Electronegativity is a key property of the elements. Being useful in rationalizing stability, structure and properties of molecules and solids, it has shaped much of the thinking in the fields of structural chemistry and solid state chemistry and physics. There are many definitions of electronegativity, which can be roughly classified as either spectroscopic (these are defined for isolated atoms) or thermochemical (characterizing bond energies and heats of formation of compounds). The most widely used is the thermochemical Pauling's scale, where electronegativities have units of eV-1/2. Here we identify drawbacks in the definition of Pauling's electronegativity scale-and, correcting them, arrive at our thermochemical scale, where electronegativities are dimensionless numbers. Our scale displays intuitively correct trends for the 118 elements and leads to an improved description of chemical bonding (e.g., bond polarity) and thermochemistry.

Highlights of the characterization techniques on inorganic, organic (COF) and hybrid (MOF) photocatalytic semiconductors

This review is dedicated to the brave COVID warriors fighting against the COVID-2019 pandemic.

DFT Investigation of Hydrogen Atom Abstraction from NHC-Boranes by Methyl, Ethyl and Cyanomethyl Radicals-Composition and Correlation Analysis of Kinetic Barriers

Understanding the hydrogen atom abstraction (HAA) reactions of N-heterocyclic carbene (NHC)-boranes is essential for extending the practical applications of boron chemistry. In this study, density functional theory (DFT) computations were performed for the HAA reactions of a series of NHC-boranes attacked by ^•CH₂CN, Me^• and Et^• radicals. Using the computed data, we investigated the correlations of the activation and free energy barriers with their components, including the intrinsic barrier, the thermal contribution of the thermodynamic reaction energy to the kinetic barriers, the activation Gibbs free energy correction and the activation zero-point vibrational energy correction. Furthermore, to describe the dependence of the activation and free energy barriers on the thermodynamic reaction energy or reaction Gibbs free energy, we used a three-variable linear model, which was demonstrated to be more precise than the two-variable Evans–Polanyi linear free energy model and more succinct than the three-variable Marcus-theory-based nonlinear HAA model. The present work provides not only a more thorough understanding of the compositions of the barriers to the HAA reactions of NHC-boranes and the HAA reactivities of the substrates but also fresh insights into the suitability of various models for describing the relationships between the kinetic and thermodynamic physical quantities.

DFT investigation of hydrogen atom-abstraction reactions of NHC-boranes by various carbon-centered radicals: barriers and correlation analyses

In this study, we employed a quantum-mechanical computational method to investigate the hydrogen-atom abstraction reactions of two nitrogen heterocyclic carbene boranes (NHC-boranes), NHC-BH3 and NHC-BH2CN, by a series of carbon-centered radicals bearing various substituents. We explored the degree of correlation of the activation and free energy barriers to their components. Furthermore, we also investigated the effects of the radical and substituent sizes, nucleophilicity/electrophilicity indices, and the spin density distribution of the radical reactants on the three fundamental barriers and the thermal contribution of the reaction energy to the kinetic barrier. Using the generated data, we assessed the abilities of the various radical reactants to abstract the hydrogen atom from NHC-boranes. Further, we performed a similar analysis after dividing those radical reactants into four groups, which were classified based on the dominant factor affecting their electronic density distribution, which involves the inductive effect, conjugation, hyperconjugation, and the feedback of lone-pair electrons. The results and conclusions of this investigation not only provide insight into the relationships between some of the key kinetic and thermodynamic parameters, which is useful for understanding the dynamics of such hydrogen-abstraction reactions, but also provide information for selecting suitable radical reactants for further experimental investigations.