Carbamohydrazonothioate derivative—experimental and theoretical explorations of the crystal and molecular structure

Structural Chemistry - The structural studies of carbamohydrazonothioate derivative and its hydrochloride solvate are the aim of hereunder presented research. The combination of the...     

Structural properties of montmorillonite intercalated with tetraalkylammonium cations—Computational and experimental study

Several tetraalkylammonium (TAA) cations intercalated in layered clay mineral montmorillonite were studied by a combination of theoretical approach based on density functional theory (DFT) and infrared spectroscopy. DFT calculations revealed positions of TAA cations in the interlayer space and a dependence of d₀₀₁ parameter on the cation size. A finite difference method and molecular dynamic simulations were used to analyze and interpret vibrational modes observed in the experimental spectra with a specific focus on the CH₃ and CH₂ stretching modes. MD simulations on the tetraethylammonium-montmorillonite (TEA-M) model showed a high sensitivity of the position of the stretching vibrations of the CH₃ and CH₂ groups on the d₀₀₁ value. MD calculations also helped to distinguish vibrations of the parallel and perpendicular CH₃ groups of the tetramethylammonium-montmorillonite (TMA-M) which was not possible from the experimental infrared spectra because of many overlapping broad bands.     

Kinetics and mechanism of thermal gas-phase elimination of α- and β- (N-arylamino)propanoic acid: experimental and theoretical analysis

2-(N-Phenylamino)propanoic acid 1a and 3-(N-phenylamino)-propanoic acid 2a together with four of their aryl analogues were pyrolysed in the gas-phase. The reactions were homogeneous and free from catalytic and radical pathways. Analysis of the pyrolysate of 1 showed the elimination products to be carbon monoxide, acetaldehyde and aniline, while the pyrolysate of 2 reveals the formation of acrylic acid in addition to aniline. Theoretical study of the pyrolysis of 2 using an ab initio SCF method lend support to a reaction pathway involving a 4-membered cyclic transition state.     

Protonation and coordination ability of small peptides – theoretical and experimental approaches for elucidation

This review deals with modern theoretical and experimental approaches as well as structural elucidation of small peptides (SP), their protonated forms and metal complexes. Free peptide bond rotation in amino acids (AA) and peptides yielded various conformers, which may possess differing biological activities. Inter- and/or intramolecular stacking observed in aromatic SP is another phenomenon typical for both peptide salts and complexes. These phenomenological effects can be successfully studied, both theoretically and experimentally, using a combination of the theoretical approximations and physical methods, such as electronic absorption spectroscopy, vibrational spectroscopy (including IR and Raman), nuclear magnetic resonance, mass spectrometry, as well as single-crystal X-ray diffraction. The physical and chemical properties of these systems can be precisely calculated by ab initio and DFT methods, varying basis sets and the results obtained allow elucidation of their conformations as a function of the reaction conditions (pH, type of the solvent, temperature, metal to ligand molar ratio). Although the 3-D structures of many peptides have been determined over the past decades, peptide crystallization is still a major obstacle to crystallographic work and the presence of chiral center/s adds further difficulties. For this reason, a specific part of the review is focused on the study of the absolute structure of the peptides, their salts and metal complexes, discussing the conformational preferences of the peptides during these processes. The available crystallographic data for metal complexes are successfully used for the correlation between the structures and the spectroscopic properties.     

The role of β-bulky substituents in aldol reactions of boron enolates of methylketones with aldehydes: experimental and theoretical studies by DFT analysis

In this work, we show the influence of the volume of the β-substituents on the levels of 1,5-stereoselectivities of aldol reactions of boron enolates generated from β-alkoxy methylketones with aldehydes. Excellent levels of 1,5-syn stereoinduction were obtained when the β-protecting group is a silicon ether. This remarkable selectivity is attributed to the volume of the β-bulky substituent of the corresponding boron enolate. We have investigated a stereochemical model using DFT analysis to rationalize the sense of 1,5-syn stereoselectivities of β-alkyl-β-alkoxy methylketones.     

Pyrazolium- and 1,2-cyclopentadiene-based ligands as σ-donors: a theoretical study of electronic structure and bonding

A high-level theoretical investigation of 1,2-cyclopentadiene (4) was performed using density functional theory and wave function methods. The results reveal that, in contrast to earlier assumptions, the ground state of this ephemeral "allene" is carbene-like with a small diradical component. Furthermore, the electronic structure and chemistry of 4 are found to parallel that of 1,2,4,6-cycloheptatetraene: both molecules possess a low-lying excited singlet state with a closed-shell carbenic structure, enabling rich coordination chemistry. Energy decomposition analyses conducted for currently unknown metal complexes of 4 as well as those involving stable carbenes based on the pyrazolium framework (aka "bent allenes" or remote N-heterocyclic carbenes) indicate that all investigated ligands form particularly strong metal-carbon bonds. Most notably, without exocyclic π-type substituents, 4 and pyrazolin-4-ylidenes are the strongest donor ligands examined, in large part because of the energy and shape of their highest occupied molecular orbital. As a whole, the current work opens a new chapter in the chemistry of 1,2-cyclopentadiene, which is hoped to spark renewed interest among experimentalists. In addition, results from the conducted bonding analyses underline that more emphasis should be placed on purely carbocyclic carbenes as unprecedented σ-donor strengths can be realized through this route.     

Two-photon absorption properties of two-dimensional π-conjugated chromophores: combined experimental and theoretical study

The two-photon absorption (TPA) properties of four TPEB [tetrakis(phenylethynyl)benzene] derivatives (TD, para, ortho, and meta) with different donor/acceptor substitution patterns have been investigated experimentally by the femtosecond open-aperture Z-scan method and theoretically by the time-dependent density-functional theory (TDDFT) method. The four compounds show relatively large TPA cross sections, and the all-donor substituted species (TD) displays the largest TPA cross-section σ(2) = 520 ± 30 GM. On the basis of the calculated electronic structure, TD shows no TPA band in the lower energy region of the spectrum because the transition density is concentrated on particular transitions due to the high symmetry of the molecular structure. The centrosymmetric donor-acceptor TPEB para shows excitations resulting from transitions centered on D-π-D and A-π-A moieties, as well as transition between the D-π-D and A-π-A moieties; this accounts for the broad nature of the TPA bands for this compound. Calculations for two noncentrosymmetric TPEBs (ortho and meta) reveal that the diminished TPA intensities of higher-energy bands result from destructive interference between the dipolar and three-state terms. The molecular orbitals (MOs) of the TPEBs are derivable with linear combinations of the MOs of the two crossing BPEB [bis(phenylethynyl)benzene] derivatives. Overall, the characteristics of the experimental spectra are well-described based on the theoretical analysis.     

Nature of Cl···Cl intermolecular interactions via experimental and theoretical charge density analysis: correlation of polar flattening effects with geometry

The experimental charge density distribution in three compounds, 2-chloro-3-quinolinyl methanol, 2-chloro-3-hydroxypyridine, and 2-chloro-3-chloromethyl-8-methylquinoline, has been obtained using high-resolution X-ray diffraction data collected at 100 K based on the aspherical multipole modeling of electron density. These compounds represent type I (cis), type I (trans), and type II geometries, respectively, as defined for short Cl···Cl interactions. The experimental results are compared with the theoretical charge densities using theoretical structure factors obtained from a periodic quantum calculation at the B3LYP/6-31G** level. The topological features derived from the Bader's theory of atoms in molecules (AIM) approach unequivocally suggest that both cis and trans type I geometries show decreased repulsion, whereas type II geometry is attractive based on the nature of polar flattening of the electron density around the Cl atom.     

Synthesis,characterization and biological evaluation of N-substituted triazinane-2-thiones and theoretical–experimental mechanism of condensation reaction

The synthesis of triazinthions and their reactions with some nucleophilic reagents have been investigated during this scientific study. Thus, thiourea with a single component has been synthesized as a result of concomitant reactions of aldehyde and amines trials. The structure of the synthesized compounds was confirmed by ¹H, ¹³C NMR spectroscopy methods. The inhibitory effects of novel N-substituted triazinane-2-thione derivatives on acetylcholinesterase (AChE) activity were performed according to the spectrophotometric method of Ellman et al. These novel N-substituted triazinane-2-thiones derivatives were effective inhibitors of the α-glycosidase, cytosolic carbonic anhydrase I and II isoforms (hCA I and II), and Acetylcholinesterase (AChE) enzymes with K_i values in the range of 1.01 ± 0.28 to 2.12 ± 0.37 nm for α-glycosidase, 13.44 ± 4.39 to 74.98 ± 6.25 nm for hCA I, 10.41 ± 4.8 to 72.6 ± 17.66 nm for hCA II, 36.82 ± 9.95 to 108.48 ± 1.17 nm for AChE, and 624.62 ± 100.34 to 1124.16 ± 205.14 nm for α-glycosidase, respectively.     

Capacity of layered cathode materials for lithium-ion batteries — a theoretical study and experimental evaluation

The theoretical capacity and the vacancy concentration of metal-ion-doped layered compounds such as LiCoO₂, LiNiO₂, and LiMnO₂, acting as cathodes in high-voltage lithium-ion batteries are calculated. The capacity shows strong dependence on valency of the doped metal ion and vacancy concentration. Experimental verification carried out to check the validity of the proposed equation for aluminium substitution into the potential layered materials shows good agreement between the experimental and theoretical capacity values. The vacancy concentration values of doped layered compounds have been found to be high when compared with that of the doped spinel compounds.     

Derivation of ligand σ- and π-bonding parameters from density functional theoretical calculations and Bursten ligand additivity relationships

New ligand additivity equations, based on the Bursten model, describing dπ orbital energies in square-planar and square–pyramidal complexes are proposed and tested for hypothetical binary Cr(0) and Mn(I) complexes of CO and CNMe. Density functional theory calculations are used to calculate the energies of dπ orbitals of binary octahedral, square–planar, and square–pyramidal d⁶ complexes of Mn(I) and Cr(0). Combination of the modified equations for unsaturated species with Bursten’s original equations for octahedral species allows for calculation of individual ligand bonding parameters and the separation of σ- and π-bonding effects. The calculated parameters provide interesting insight into the nature of metal–ligand bonding in the species studied. The method of separating σ- and π-bonding effects, applied here to CO and CNMe, is proposed as general method for solution of the Bursten equations for low-spin d⁶ octahedral systems.     

Usefulness of π...π aromatic interactions in the selective separation and analysis of imidazolium and pyridinium ionic liquid cations

Current research indicates that replacing organic solvents with room-temperature ionic liquids may lead to remarkable improvements in well-known processes. Ionic liquids have already been utilized as alternative solvents in organic synthesis and catalysis, and also in electrochemistry and in separation sciences. Their wide applicability will soon result in their production on an industrial scale. Therefore, analytical methods applicable to various matrices for product control and environmental monitoring will be very much in demand. In this study, the usefulness of π...π interactions between alkylimidazolium and pyridinium cations and the aromatic π...π active moiety of the stationary phase was investigated for the selective separation and analysis of some ionic liquids. With phenyl-bonded phases, very good separations of the cations were achieved. Special attention was paid to the short-chain hydrophilic entities, known to be poorly separated on conventional reversed-phase columns. Further, the nature of the interactions occurring in the system under study was investigated by varying the content of methanol/acetonitrile used as organic modifiers in the mobile phases. The analytical method developed here is simple and reproducible, and its quantitative analytical performance was excellent. The paper also discusses the applicability of the method for monitoring degraded cations of 1-butyl-3-methylimidazolium salts obtained in the Fenton process.     

Extended Fe₄ butterfly complexes: theoretical analysis of magnetic properties and magnetostructural maps

The inclusion of additional metal atoms in Fe? butterfly complexes drastically modifies their magnetic properties. Exchange interactions of a Fe?Y? complex have been calculated using theoretical methods based on density functional theory. The calculated values are in good agreement with experimental data showing that the change in the nature of bridging ligands induces a dramatic decrease of the antiferromagnetic wing-body interaction while the body-body interaction between the two central iron atoms is ferromagnetic. Finally, we propose a new tool to facilitate the understanding of the magnetic properties in polynuclear iron complexes. Magnetostructural maps allow us to correlate the calculated exchange coupling constants with metal-metal distances for the dinuclear or polynuclear iron complexes that we have studied.     

The Diels–Alder reactions of para-benzoquinone nitrogen-derivatives: an experimental and theoretical study

An experimental and theoretical study of the comparative reactivity and selectivity of the Diels–Alder reactions of para-benzoquinones and three nitrogen derivatives have been performed. The mono-oximes derivatives do not react under the tested reaction conditions, whereas the tosylated mono-oximes react slowly. However, the mono N-tosyl imines show excellent reactivity, and superior to the parent para-benzoquinones. DFT calculations support these experimental results.     

Theoretical analysis of transition states in the exchange reaction of hydrogen and methane involving σ-bond metathesis

Silica supported zirconium hydride species are used to model heterogeneous catalysts for industrially-relevant reactions such as hydrogenation of paraffins. This work explores the exchange reaction between methane and hydrogen in the presence of a silica-supported zirconium or titanium hydride catalyst in order to determine the preferred transition state. Calculations at the B3LYP/LanL2DZ level of theory are used to model two distinct pathways for the reaction. Orbital interactions are analyzed to elucidate the relative stability of the two transition states.     

Fragmentation of <Emphasis Type="Italic">α</Emphasis>-radical cations of arginine-containing peptides

Fragmentation pathways of peptide radical cations, M^+·, with well-defined initial location of the radical site were explored using collision-induced dissociation (CID) experiments. Peptide radical cations were produced by gas-phase fragmentation of Co^III(salen)-peptide complexes [salen=N,N′-ethylenebis (salicylideneiminato)]. Subsequent hydrogen abstraction from the β-carbon of the side-chain followed by C_α-C_β bond cleavage results in the loss of a neutral side chain and formation of an α-radical cation with the radical site localized on the α-carbon of the backbone. Similar CID spectra dominated by radical-driven dissociation products were obtained for a number of arginine-containing α-radicals, suggesting that for these systems radical migration precedes fragmentation. In contrast, proton-driven fragmentation dominates CID spectra of α-radicals produced via the loss of the arginine side chain. Radical-driven fragmentation of large M^+· peptide radical cations is dominated by side-chain losses, formation of even-electron a-ions and odd-electron x-ions resulting from C_α-C bond cleavages, formation of odd-electron z-ions, and loss of the N-terminal residue. In contrast, charge-driven fragmentation produces even-electron y-ions and odd-electron b-ions.     

Cyclization of N-alkyldithiocarbamates in alkaline media,a counter example of well-known chemistry – an experimental and theoretical study

In strong alkaline media, the reaction of 2-(tert-butylamino)ethanol (3: R?=?Bu^t) with CS₂ at 0°C produced a cyclic dithiocarbamate, 3-tert-butylthiazolidine-2-thione (1: R?=?Bu^t), rather than alkaline metal or ammonium salts of [S₂CN(Bu^t)CH₂CH₂OH]^?. This is in contrast to isolation of stable alkaline metal or ammonium salts of [S₂CN(R)CH₂CH₂OH]^? (R?=?Me, Et, Pr, or CH₂CH₂OH) obtained in analogous reactions. The use of Ni(OAc)₂, both as a source of Ni(II) and a weaker base, in a one-pot reaction with (3: R?=?Bu^t) and CS₂, successfully gave the first reported metal complex of [S₂CN(Bu^t)CH₂CH₂OH]^?, namely [Ni{S₂CN(Bu^t)CH₂CH₂OH}₂] (2: R?=?Bu^t). Compounds 1 and 2 have been fully characterized by infrared and NMR spectroscopies, and by X-ray crystallography. DFT calculations on the cyclization and stabilities of [S₂CN(R)CH₂CH₂OH]^? (R?=?Pr and Bu^t) have been carried out.