


Vol 60, No 4 (2019)
- Year: 2019
- Articles: 19
- URL: https://journal-vniispk.ru/0022-4766/issue/view/9823
Article
Electronic Structure and Dielectric Properties of Azides Ca(N3)2 and Sr(N3)2
Abstract
The paper presents a first-principle study of electronic structure and dielectric properties of calcium and strontium azides carried out in the framework of the density functional theory using a numerical pseudoatomic orbital basis set and a plane wave basis set. The band spectra and the nature of chemical bonding in these systems are considered. Theoretical values of high-frequency dielectric permittivity tensor and Born effective charges are calculated in the framework of density functional perturbation theory and are reported here for the first time.



Simulation of the Crystal Structure of GelSimCn Compounds and the Study of Their Electronic Structure
Abstract
Hypothetical crystals GeSiC2, Ge2SiC, and GeSi2C with an ordered arrangement of Ge, Si, and C atoms in the cationic and anionic sublattices of the chalcopyrite crystal structure are studied using the density functional theory. Lattice parameters of equilibrium states are obtained by geometry optimization of the crystals, stability of these states is established. Energy band structures, densities of states, and distribution maps of valence electron charges are obtained. The features of chemical bonding associated with different occupations of cationic and anionic sublattices by Ge, Si, and C atoms in the chalcopyrite structure are revealed.



Theoretical Study of the Possibility of Functionalization of C20 Fullerene with the Simplest Ketene CH2CO
Abstract
The functionalization is known as a structural modification procedure of fullerenes and carbon nanotubes. This method improves the chemical and physical properties, such as reactivity and solubility. This paper intends to theoretically describe the possibility of functionalization of C20 fullerene with the simplest ketene CH2CO. In the first step, two possible [2+2] and [4+2] cycloaddition reactions between C20 and ketene are considered and simulated theoretically. The results show that the [2+2] reaction is favorable both thermodynamically and kinetically. Also, the IRC analysis of transition states indicates that the reaction takes place via a step-wise mechanism in which a zwitterionic intermediate is generated in a rate-determining step. The solvation effect study based on the CPCM model reveals that by changing the reaction medium from nonpolar to polar, the reaction rate is increased. The NBO analysis and the calculation of global electron density transfer (GEDT) indicate that the reaction involves polar transition states. The calculations of the thermodynamic and kinetic parameters of the [2+2] cycloaddition reaction of bowl C20 with ketene show that this reaction is unfavorable.



Crystal Structure, DFT and Molecular Docking Studies of tris[N-(2-Furylmethyl)-3-Methoxy Salicylidenaminato]Cobalt(III)
Abstract
A tris[N-(2-fv4rylmethyl)-3-methoxy-salicylidenaminato]cobalt(III) complex is synthesized and characterized by the single crystal X-ray diffraction analysis. The complex crystallizes in the monoclinic space group P21/n with a = 10.8547(4) Å, b = 9.5515(3) Å, c = 34.2590(10) Å, β = 95.246(4)°, V = 3537.0(2) Å3, Z = 4. The cationic part of the complex is comprised of a dianionic N2O2-type Schiff base ligand occupying six equatorial positions of an octahedron around the Co(III) ion. Quantum mechanical studies of the complex at the density functional theory (DFT) level with the B3LYP functionals and the LANL2DZ basis set have been reported. The experimental structure and the calculated geometric structure of the complex have been compared. The DFT optimized structures of the complexes agree well with the corresponding X-ray structures. The value of the energy separation between the HOMO and the LUMO is 3.3136 eV. Molecular docking studies of the investigated complex have also been reported that identified the interaction of the Co(III) complex with DNA. The relative binding energy of the docked compound-(B-DNA) is found to be −6.4 kcal/mol. The complex binds at the active site of 1BNA proteins by weak non-covalent interactions, with most prominent of which being conventional π-anion, π-alkyl, CH ⋯ O, and CH ⋯ N.



Effect of the External Electric Field on the Electronic Structure and Aromaticity of Iridabenzene: A DFT Study
Abstract
The modified Perdew-Wang exchange and correlation method (MPW1PW91) is used to analyze the impact of the external electric field on the total energy, dipole moment, energies of frontier orbitals, HOMO-LUMO gaps, electron affinity, ionization potential, and aromaticity of the C5H5Ir(PH3)3 complex. We explore the percentage compositions of frontier orbitals in terms of the defined groups in the presence and absence of the external electric field. Additionally, a dependence of the global reactivity descriptors on the electric field strength is inspected. The aromaticity of the complex is analyzed by nucleus independent chemical shift values in the presence and absence of the external electric field.



DFT Analysis of Copper(II) Complexes of cis-1,2-Diaminocyclohexane (Dach), [Cu(Dach)2(N3)]Cl·3H2O and [Cu(Dach)2-Ag(CN)2-Cu(Dach)2][Ag(CN)2]3
Abstract
Theoretical structures of copper(II) complexes of cis-1,2-diaminocyclohexane (Dach), [Cu(Dach)2(N3)]Cl·3H2O (1) and [Cu(Dach)2-Ag(CN)2-Cu(Dach)2][Ag(CN)2]3 (2) are predicted by DFT calculations. The DFT results reveal that the experimental structures are better reproduced by the calculations for complexes in a water solvent using the polarizable continuum model (PCM) rather than those performed for the system in the gas phase. Complex 1 was theoretically predicted with better accuracy than complex 2. Atomic charges and spin densities are calculated for the model complexes by the natural bond orbital (NBO) analysis.



Theoretical Study on the Inclusion Interaction of β-Cyclodextrin with Gabapentin and Its Stability
Abstract
In this paper, dispersion corrected density functional theory (DFT-D3) with the B3LYP method and the 6–31G(d) basis set is used to study the inclusion processes of gabapentin with β-cyclodextrin and the effect of inclusion on the dehydration condensation reaction of gabapentin. The calculation results show that β-cyclodextrin and gabapentin can form stable inclusion complexes in both vacuum and water. B-β-CDs is the most stable one of four inclusion complexes. After inclusion, the dehydration condensation potential barrier of gabapentin in the β-cyclodextrin cavity is significantly increased. Notably, the reaction barrier of gabapentin in the B-β-CDs complex (a protonated active group of gabapentin with a small mouth of β-cyclodextrin and its hexatomic ring in the cavity of cyclodextrin) even reaches 331.353 kJ/mol in vacuum and 283.538 kJ/mol in water, respectively. There are two obvious increases of 223.574 kJ/mol in vacuum and 193.932 kJ/mol in water after inclusion. Thus, the inclusion complex of β-cyclodextrin with gabapentin, especially B-β-CDs, inhibits the dehydration condensation side-reaction of gabapentin most effectively.



The Structure of Hydrated Sodium Fluorophosphatozirconates According to NMR Data
Abstract
23Na, 31P, 19F, 1H NMR and MAS NMR methods are used to study compounds Na2Zr3F2(PO4)4×3H2O (I), NaZr2F6PO4·4H2O (II), and NaZrO0.5FPO4·4H2O (III). It is established that fluorine in these compounds is coordinated to zirconium and occupies terminal positions in fluorophosphatozirconates I and III. Compound II contains both bridging and terminal fluorine atoms. Hypotheses are proposed concerning the nature of fluorophosphatozirconate crystal structure. The presence of translational motions of water molecules and sodium ions in compounds II and III has been established. The activation energy for the mobility of sodium ions in compound III is 0.24 eV.



Electronic and Crystal Structures of Nitrogen-Containing Electroconductive and Electroactive Polymers
Abstract
Current ideas about the electronic and crystal structures of nitrogen-containing conductive polymers are considered. A comparative critical analysis of literature data on electronic, vibrational, and NMR spectra for different nuclei, and X-ray diffraction data for various forms of polyaniline, polyphenylenediamine, and polypyrrole is presented. Particular attention is paid to the relationship between the electronic and crystal structure of nitrogen-containing polyconjugated systems and their electrical conductivity.



Crystallographic Analysis of the Genesis of the Structure Symmetry of Acid Sulfates M3H(SO4)2 (M = K, NH4)
Abstract
The crystallographic analysis of five compositionally similar structures shows that the \(R\overline 3 \)-symmetrical trigonal structure and two monoclinic (C2/c) structures with the ratio M:S = 3:2 that is the same for all three have identical cation sublattices and similar real configurations of atomic positions. Two structures with M:S = 9:8, with the orthorhombic symmetry (Pcan) and with its monoclinic distortion (P21/c), have identical cation sublattices. In the first group of the structures the symmetry and pseudosymmetry are determined by the SO4 template symmetry, namely, axis 3. In the second group the symmetry of cation frameworks and structures in general is partially formed by three mutually perpendicular axes \(\overline 4 \) of the SO4 tetrahedra.



Crystal Structures of Compounds Obtained in Reactions of Heterometallic Pivalate Complexes With Dicarboxylic Acids
Abstract
In the reaction of a heterometallic complex of the composition [Li2Zn2(piv)6(py)2] (piv− is the pivalate anion, py is pyridine) with 2,5-pyridinedicarboxylic acid (H2pdc) and 4,4′-bipyridyl (4,4′-bpy), molecular complex [Zn(MeOH)2(Hpdc)2]·4,4′-bpy (1) is obtained. In the interaction of the same complex with another dicarboxylic acid (1,4-naphthalenedicarboxylic (H2ndc)) and also in the presence of 4,4′-bipyridyl, heterometallic metal-organic framework (MOF) [{LiZn}4(4,4′-bpy)(dmf)2(ndc)6]·3DMF·H2O (2) is formed. In the interaction of a polymeric pivalate complex of the composition [Cd2Eu(piv)7(H2O)2]·nMeCN with thiophenedicarboxylic acid (H2tdc), layered MOF (Me2NH2)2[Cd(tdc)2]·1.5DMF·H2O is obtained (3). The structures of 1–3 are determined by single crystal X-ray diffraction. In the reactions studied, the structures of initial heterometallic {Li2Zn2} and {Cd2Eu} moieties is partially retained only for MOF 2. This coordination polymer is of interest for the study of luminescent and sorption properties. In the other cases, the heterometallic unit is fragmented, which results in the formation of a final product involving only one of two metal cations contained in the initial unit.



CuI-Based Coordination Polymer Assembled from a 2-Pyridyl Sulfide Ligand: Synthesis and Luminescent Properties
Abstract
2-Ehtylthiopyridine (L) reacts with CuI (MeCN, r.t.) to afford a 1D chain coordination polymer (CP), [Cu2I2(L)]n in a 75% yield. The latter consists of double-stranded (Cu2I2)n ribbons ligated on both sides by 2-ehtylthiopyridines in a 1,3-N,S bridging manner. In the solid state at 298 K, this CP displays yellow-green photoluminescence (λmax = 550 nm) with a short lifetime (2.4 µs) and a moderate emission quantum yield (16%).



Synthesis, Stability, and Crystal Structure of the (NMe2H2)9[(AsW9O33)2(NbO)3(H2O)]·44H2O Complex
Abstract
Citrate complexes of niobium(V) formed in the interaction of [Nb6O19]8− hexaniobate with citric acid are used for transferring the {NbO}3+ niobium group to the pseudo-trilacunary [α-B-AsIIIW9O33]9− anion with the formation of sandwich-type [(AsW9O33)2(NbO)3(H2O)]9− complexes. Slow evaporation of the reaction mixture in the presence of dimethylammonium chloride yields crystalline product (NMe2H2)9[(AsW9O33)2(NbO)3(H2O)]·44H2O (1) whose structure is determined by single crystal XRD. When the (NBu4)+ salt (obtained by the exchange reaction between 1 and tetrabutylammonium bromide) of [(AsW9O33)2(NbO)3(H2O)]9− is dissolved in DMF, As3+ is oxidized to As5+ with the formation of a mixture of the Keggin-type [AsW11NbO40]4− and [AsW10Nb2O40]5− anions. In an aqueous solution 1 is oxidized by hydrogen peroxide with the formation of a mixture of Keggin anions with different numbers of niobium atoms in the structure.



Structure and Properties of the Molecular Complex of Antimony(III) Fluoride with γ-Glycine
Abstract
A binuclear complex of composition 2SbF3·(C2H5NO2) (I) of antimony(III) with the γ-glycine amino acid is prepared. The antimony atoms in this complex are connected to each other by the amino acid ligand. The crystal structure of this complex is determined to be monoclinic, a = 11.5155(3) \(\acute{\overset{\circ}{\mathrm{A}}}\), b = 12.3905(3) \(\acute{\overset{\circ}{\mathrm{A}}}\), c = 8.0906(2) \(\acute{\overset{\circ}{\mathrm{A}}}\), β = 134.261(1)°, Z = 4, space group Cc, which is a novel structural type of antimony(III) fluoride complex compound. The structure is formed by molecular groups SbF3(C2H5NO2)SbF3 connected by secondary bonds into polymeric ribbons parallel to the plane (bc). The ribbons are connected by longer bonds Sb…F (2.674-3.177 \(\acute{\overset{\circ}{\mathrm{A}}}\)) and hydrogen bonds N-H⋯F and C-H⋯F into a three-dimensional framework. Vibrational spectra of I are studied in comparison with those of crystalline γ-glycine. The biological activity of the compound of the antimony(III) fluoride complex with the amino acid is studied in vitro against the following type strains of test cultures: gram-negative bacteria (E. coli, P. aeruginosa), gram-positive bacteria (S. aureus, B. subtilis), and fungi (C. albicans).



Mixed-Ligand Iridium(III) Nitro Complexes with Phenantroline
Abstract
Interaction of iridium(III) nitro-aqua complexes with 1,10-phenanthroline is studied. Complex anions [Ir(phen)(NO2)4]− and [Ir(phen)(OH)(NO2)3]− are isolated in the solid phase. The complex Na[Ir(phen)(NO2)4](phen)(H2O) is structurally characterized for the first time. Crystallographic data: \(a = 8.0752(5)\acute{\overset{\circ}{\mathrm{A}}}\), \(b = 11.690(7)\acute{\overset{\circ}{\mathrm{A}}}\), \(c = 14.012(7)\acute{\overset{\circ}{\mathrm{A}}}\), α = 105.55(2)°, β = 91,99(2)°, γ = 103,71(2)° space group P-1, Z = 2, ρcalc = 1,936 g/cm3. The coordination sphere of the iridium atom has a distorted octahedral geometry. The obtained structure contains an island motif consisting of the pairs of complex anions [Ir(phen)(NO2)4]− linked to each other by sodium cations.



Interaction of Na9[SbW9O33] with Iridium(IV) Hydroxo Complexes
Abstract
Thermostating of the aqueous solution of Na9[SbW9O33] with K2[Ir(OH)6] at 70 °C for 17 h changes the solution’s color from blue to brown. The addition of KNO3 to the reaction solution and subsequent evaporation in air causes crystallization of the products to yield yellow crystals of composition K5.47Na2.3[Ir0.17Sb0.83W6O24](NO3)0.6·12H2O containing an Anderson-type anion \({[{\rm{S}}{{\rm{b}}^{\rm{V}}}{\rm{W}}_6^{{\rm{VI}}}{{\rm{O}}_{24}}]^{7 - }}\) with ∼20% of antimony positions occupied by iridium.



Molecular and Crystal Structure of (1S,2R)-1-{2-[(1S)-1-(Dimethylamino)Ethyl]Phenyl}-1,2-Diphenylethane-1,2-Diol
Abstract
The (R)-configuration of the carbinol center formed as a result of diastereospecific reduction of (2S)-2-{2-(1S)-1-(dimethylamino)ethyl]phenyl}-2-hydroxy-1,2-diphenylethanone is established by the XRD method. The analysis of shortened nonvalent intramolecular contacts testifies that the molecule is quite rigid, despite the presence of a large number of single valence bonds. Layered nature of molecular packaging is revealed.



Single Crystal X-Ray Structural Analysis of Two Polymorphs of Ethyl 2-(2-Chlorophenyl)-4-Hydroxy-5-Oxo-1-Phenyl-2,5-Dihydro-1H-Pyrrole-3-Carboxylate
Abstract
A single crystal X-ray structure analysis of two polymorphs of ethyl 2-(2-chlorophenyl)-4-hydroxy-5-oxo-1-phenyl-2,5-dihydro-1H-pyrrole-3-carboxylate, i.e. I (Z′ = 1) and II (Z′ = 4), is performed. It is shown that the molecular geometries are the same in I and II, and the same bifurcated O-H⋯O hydrogen bonds (involving hydroxyl and ester C=O groups) exist between the adjacent molecules, giving rise to molecular dimers which, however, are different in I and II: centrosymmetric (heterochiral) and homochiral, respectively.



First Principles Study on Structurally Resolved Titanium Dioxide Nanoparticles Functionalized by Organic Ligands
Abstract
Titanium dioxide nanoparticles representing those in dye-sensitized solar cell photoanodes are modeled by first principles calculations, employing a series of structurally resolved polyoxometalates functionalized with organic ligands via the phosphonate anchoring group as a modeling platform. Previous computational studies on titanium dioxide nanoparticles for dye-sensitized solar cells and water splitting systems are based on artificial cleaving of TiO2 from bulk crystals, which introduces potential various human-made errors. This manuscript focuses on structurally resolved titanium dioxide nanoparticles determined from X-ray diffraction experiments with a 10−3 Å resolution and demonstrates that charge transfer occurs from the organic ligands and oxygen atoms to the core titanium atoms. Also, different TiO2 nanoparticle geometries contribute to variation in the electronic and optical properties of the organic/TiO2 nanocomposite system. This computational work on structurally resolved molecularly functionalized titanium dioxide introduces a new way to model the TiO2 nanoparticle-based optoelectronic device, which eliminates the arbitrariness introduced during artificial cleaving and provides insights on the structure-property relationships of organic molecule-functionalized titanium dioxide nanoparticles for water splitting systems and dye-sensitized solar cells.


