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Vol 59, No 8 (2018)

Article

Crystalline, Electronic, and Vibrational Structures of Zinc Cyanides

Basalaev Y.M., Emelyanova A.M., Sidorova A.V.

Abstract

A model of ZnCN2 crystal with classical chalcopyrite structure is considered within density functional theory. The obtained equilibrium lattice parameters are a = 4.2395 Å and c = 6.5258 Å, the tetragonal compression is γ = 1.539, and the anion displacement is u = 0.346. The electronic structure, optical frequencies, and elastic constants are calculated for the simulated crystal ZnCN2 and for its isostructural analogue Zn(CN2). Some features of the electronic structure, vibrational modes, and chemical bonding are shown to result from the short-range order in the studied cyanides.

Journal of Structural Chemistry. 2018;59(8):1761-1767
pages 1761-1767 views

A Quantum Chemical Simulation of the Interaction Between Leucine and the Dimer of Sodium Dodecyl Sulphate

Giricheva N.I., Kurbatova M.S., Tyunina E.Y., Barannikov V.P.

Abstract

Complexes formed by leucine (Leu) and the dimer of sodium dodecyl sulfate (DDSNa)2 are studied by the quantum chemical method DFT using the hybrid exchange-correlation functional B97 with Grimme's dispersion correction D2 and the 6-311++G(2d,2p) basic set. The complexes formed by Leu and the dimer of DDSNa (considered as a micelle fragment) are studied in terms of their spatial structures and the energies of intermolecular interactions ЕIMI, depending on the penetration depth of Leu inside the micelle model. The highest energy ЕIMI is exhibited by the complex formed by the zwitterionic form of the amino acid and the hydrophilic part of sodium dodecyl sulfate. When the hydrophilic environment is replaced by the hydrophobic one, the intramolecular hydrogen bond in the amino acid changes in terms of its type and strength: N–H…O (weak) → N…H…O (strong) → N…O–H (weak). The energies of frontier orbitals and, therefore, redox properties of leucine also undergo changes in the course of the process.

Journal of Structural Chemistry. 2018;59(8):1768-1775
pages 1768-1775 views

Dft Study on the Co Catalytic Oxidation Reaction on Ptcu-Embedded Graphene

Tong Y.C., Wang Q.Y., Li Z., Yu L.B.

Abstract

PtCu-embedded graphene (PtCu/graphene) is one of the high-efficiency catalysts in catalytic oxidation of CO. In this paper, CO catalytic oxidation on PtCu/graphene is studied by density functional theory. According to the calculation, the coadsorption configuration is more stable than the configuration of O2 or CO adsorption on PtCu/graphene. Thus, the reaction mechanism of catalytic CO oxidation is the LH mechanism, which proceeds via two steps with barrier energies of 0.21 eV and 0.52 eV, respectively. Compared with pure Pt/graphene and Cu/graphene, Pt mixed in Cu can lower the barrier energy, improving the catalytic activity. Therefore, the research of PtCu/graphene can provide a certain reference value and guidance for the study of another similar catalytic CO oxidation.

Journal of Structural Chemistry. 2018;59(8):1776-1783
pages 1776-1783 views

Theoretical Study of the Arene Ligand Effect on the Structure and Properties of Cr(CO)3(Arene) Complexes (Arene = Benzene, Biphenyl, Triphenly, Tetraphenyl)

Ardestani E., Ghiasi R., Tabatabai J.M.

Abstract

In the present research, the impact of the arene ligand on the dipole moment, electronic structure, hyperpolarizability, and frontier orbital energy in Cr(CO)3(arene) complexes (arene = benzene, biphenyl, triphenly, tetraphenyl) is studied by MPW1PW91 quantum chemical computations. The chemical bond nature between the arene ligand and the Cr(CO)3 fragment is demonstrated through the energy decomposition analysis (EDA). The percentage composition of frontier orbitals considering the specified groups of these complexes is obtained to investigate the features of metal–ligand bonds. The internal reorganization energy values are calculated to study the charges mobility. The quadrupole polarization magnitude of the carbonyl carbon atom is calculated as an assessment of the amount of pπ–dπ back donation in Cr–CO bonds. Moreover, the effect of aromatic ring numbers is calculated on the βtot values for these complexes.

Journal of Structural Chemistry. 2018;59(8):1784-1790
pages 1784-1790 views

A Computational Approach for Hydrolysis of the Third-Generation Anticancer Drug: Trans-Platinum(Ii) Complex of 3-Aminoflavone

Sadeghi N., Ghiasi R., Jamehbozorgi S.

Abstract

In this study, hydrolysis of the anticancer drug trans-bis-(3-amino-flavone)dichloridoplatinum(II) (trans- Pt(3-af)2Cl2; TCAP) in gas and solution phases is studied. With the polarizable continuum model (PCM) model the complex computational study is performed in an aqueous solvent. Before the complex interaction with the target biomolecules, two typical reactions involved in the complex hydrolysis include the first and second hydrolysis processes. Thermodynamic and kinetic parameters of the hydrolysis reactions are analyzed. The variations of two structural parameters of the reaction are discussed.

Journal of Structural Chemistry. 2018;59(8):1791-1796
pages 1791-1796 views

Redetermination and Density Functional Studies of N,N′-(Disulfanediyldibenzene-2,1-Diyl) Dipyridine-2-Carboxamide

Yildirim S.Ö., Büyükmumcu Z., Dogan S.D., Butcher R.J.

Abstract

The title compound C24H18N4O2S2 is synthesized via the azide method and its structure is redetermined at 100(2) K. The title structure, N,N′-(disulfanediyldibenzene-2,1-diyl)dipyridine-2-carboxamide is redetermined from the data published by Lumb, Hundal, and Hundal (Inorg. Chem., 2014, 53, 7770-7779). The redetermination is of significantly higher precision than a previous low-temperature structure and the improvement of the present redetermination consists in a released geometry of the 1,2-diphenyldisulfane group. The molecular structure crystallizes in the triclinic space group, P-1, with a = 7.3492(3) Å, b = 11.6753(5) Å, c = 13.1814(6) Å, α = 95.077(4)°, β = 105.316(4)°, γ = 100.759(4)°, and V = 1060.28(8) Å3. The S–S bond length of 2.0758(4) Å and S–C distances of 1.7818(13) Å and 1.7767(13) Å for this redetermination are much closer to those observed in comparable structures. Intraand intermolecular N–H…S, N–H…N, C–H…O, C–H…S hydrogen bonds are present in the crystal structure. The molecular geometry of the title compound is optimized by the DFT method and the calculated geometrical parameters are compared with experimental ones. The NBO analysis of possible intramolecular hydrogen bonds is made on the optimized structure for comparison.

Journal of Structural Chemistry. 2018;59(8):1797-1803
pages 1797-1803 views

Synthesis, Characterization, and Computional Studies of Triazatetracyclo Acetamide

Odame F., Hosten E.C., Tshentu Z.R.

Abstract

N-[(9E)-8,0 10,0 17-triazatetracyclo[8.7.0.02,7.011,18]heptadeca-1(17),2(7),3,5,11,13,15-heptaen-9-ylidene] acetamide (I) is synthesized and characterized by spectroscopy, microanalysis, and single crystal X-ray diffractometry. Compound 1 crystallizes in the monoclinic space group P21/n with a = 17.5552(17) Å, b = 4.6163(4) Å, c = 17.7662(17) Å, β = 115.953(3)°, and Z = 4. The bond angles and bond lengths of the compound are computed using the density functional theory with B3LYP, BPW91, and wB97XD functionals and the 6-31G++(d,p) basis set. The frontier orbitals that contribute to the reactivity of triazatetracyclics are discussed.

Journal of Structural Chemistry. 2018;59(8):1804-1809
pages 1804-1809 views

A Theoretical Investigation on the Regioselectivity of the Diels–Alder Cycloaddition of 9-(Methoxymethyl) Anthracene And Citraconic Anhydride

Bazian A., Beyramabadi S.A., Davoodnia A., Bozorgmehr M.R., Pordel M.

Abstract

The mechanism and regioselectivity of the Diels–Alder cycloaddition reaction between 9- (methoxymethyl)anthracene and citraconic anhydride are explored using the valuable density functional theory (DFT) methods. The solvent effects are considered using the polarizable continuum model in the toluene solution. Due to a small electrophilicity difference of the reactants, the reaction has a low polar character. The investigated Diels–Alder reaction has a normal electron demand character. Depending on the respective position of substituents in the cycloadducts (head-to-head (ortho) or head-to-tail (meta)) the reaction can be progressed via two different pathways: ortho and meta. Due to a very high activation energy, the meta pathway is rejected. The product of the ortho pathway is demonstrated to be the final product of the reaction in the toluene solution. The obtained DFT results are in good agreement with the experimental results.

Journal of Structural Chemistry. 2018;59(8):1810-1817
pages 1810-1817 views

A Mass Spectrometric Study of the Supramolecular Structure of Praseodymium Tris(Pivaloyltrifluoroacetone)

Kostyuk N.N., Dick T.A.

Abstract

A mass spectrometric study of praseodymium tris(pivaloyltrifluoroacetone) is reported. The mass spectrum of the compound changes as a result of oligomerization as compared to the spectra of metal tris(β- diketonates). The mass spectrum demonstrates signals of mono-, bis-, and triscations with partially destructed ligands and, in some cases, a fluorine atom is attached to praseodymium. The mass spectrum contains polynuclear cations, which appear mainly as dimers. Tetramers of praseodymium tris(pivaloyltrifluoroacetone) are also detected. The obtained data are used to elaborate procedures for the destruction of praseodymium tris (pivaloyltrifluoroacetone) using electron ionization.

Journal of Structural Chemistry. 2018;59(8):1818-1824
pages 1818-1824 views

Synthesis, Ion Mobility, and Phase Transition in the (NH4)6LiHf2Zr2F23 Compound

Kavun V.Y., Antokhina T.F., Savchenko N.N., Polyantsev M.M., Brovkina O.V.

Abstract

Ion mobility and a phase transition (PT) in the compound (NH4)6LiHf2Zr2F23 are studied using 1H NMR, 19F NMR, XRD, and DSC methods. The types of ionic motions in the fluoride and ammonium sublattices of this compound are determined at 150–450 K; their activation energies are estimated. It is shown that an order-disorder PT occurs in this compound at 400–450 K to form a metastable high-temperature modification, where ionic motions are represented mainly by the diffusion of fluoride and ammonium ions.

Journal of Structural Chemistry. 2018;59(8):1825-1832
pages 1825-1832 views

An Xps Study of Solid Solutions Mo1–XNbxS2 (0 < x < 0.15)

Ledneva A.Y., Dalmatova S.A., Fedorenko A.D., Asanov I.P., Enyashin A.N., Mazalov L.N., Fedorov V.E.

Abstract

Solid solutions Mo1–xNbxS2 (x = 0, 0.05, 0.10, and 0.15) crystallizing in the hexagonal structure 2H-MoS2 are synthesized. The samples are characterized by powder X-ray diffraction (XRD) and Raman spectroscopies, X-ray photoelectron spectroscopy (XPS), and quantum chemical calculations (DFT). The changes occurring in the electronic properties of high-resistivity semiconductor MoS2 and indicating metallic behavior of obtained solid solutions Mo1–xNbxS2 are not accompanied by substantial changes in the atomic photoelectron spectra.

Journal of Structural Chemistry. 2018;59(8):1833-1840
pages 1833-1840 views

An Xps and Low-Temperature Nitrogen Adsorption Study of the Structure of Carbon-Fluorocarbon Nanocomposites

Mitkin V.N., Asanov I.P., Sagidullin A.K.

Abstract

The products of mechanosynthesis in the systems “superstoichiometric fluorocarbon nanomaterial CF1.2–thermally expanded graphite” are studied using X-ray photoelectron spectroscopy and low-temperature nitrogen adsorption to identify texture characteristics. A correlation is revealed between the conductivity of the composites and functional composition of their surface layers. The obtained results are explained by the fact that mechanosynthesis products contain mesoporous carbon-fluorocarbon nanocomposites consisting of micro- and nanoparticles CF1+x coated by an outer nanolayer sp2-C–sp3-C–F.

Journal of Structural Chemistry. 2018;59(8):1841-1848
pages 1841-1848 views

Using Xps Data for Determining Spatial Distribution of Metals in Bimetallic Particles Supported on a Flat Surface

Smirnov M.Y., Kalinkin A.V., Bukhtiyarov V.I.

Abstract

Expressions are obtained for the intensities of photoemission lines of silver and gold in bimetallic particles formed during sequential deposition of metals on the flat surface of the support. Two cases are considered: bimetallic particles with a non-uniform distribution of metals (silver core covered with a gold shell) and alloy particles of uniform composition. The particle shapes are assumed to be hemispherical. Expressions were obtained for the photoemission lines of gold Au4f, Au3d3/2 and silver Ag3d as well as for the Auger line of silver AgMVV recorded using radiation AlKα ( = 1486.6 eV) and AgLα (hν = 2983.4 eV). Gold shells on the surface of silver particles are shown to diminish the intensity ratio of AgMVV line to Ag3d line, and this effect becomes stronger with the increasing ratio γ of gold atoms to silver atoms. In the case of alloy particles Ag–Au, the intensity ratio of these lines also decreases with increasing γ, though to a much lesser extent. The intensity ratios of gold Au4f and Au3d3/2 lines to the silver Ag3d line are also considered. The obtained equations can be used in XPS studies to consider formation of bimetallic particles in model planar systems and the changes occurring with the particles as a result of heat treatment in a vacuum or in a reaction medium.

Journal of Structural Chemistry. 2018;59(8):1849-1857
pages 1849-1857 views

Structure and Chemical Composition of the Ordinary Chondrite Jiddat Al Harasis 055

Guda L.V., Kravtsova A.N., Kubrin S.P., Mazuritsky M.I., Kirichkov M.V., Rusalyov Y.V., Shapovalov V.V., Soldatov A.V.

Abstract

A comprehensive study of the Jiddat Al Harasis 055 (L4-5 type) ordinary chondrite is conducted using 2D X-ray fluorescence spectroscopy, Mössbauer spectroscopy, X-ray absorption near edge structure (XANES) spectroscopy, X-ray diffraction, and vibrating sample magnetometry. The content of Fe, Ni, Si, Mg, S, Ca, Al, Mn, Ti, and Cr is determined; several components and areas with increased content of S, Ti, Cr, and Ni are detected along with several Ca–Al inclusions. According to XANES data, the Jiddat Al Harasis 055 sample contains iron with the average oxidation state 2.4+. This result is consistent with the data of Mössbauer spectroscopy used to identify iron phases which testifis that 46% and 54% of iron ions appear in Fe2+ and Fe3+ states, respectively. By comparing the pre-edge energy position and the area under the preedge peak of XANES spectra with literature data reported for geological materials, the average coordination number in the first coordination sphere of iron is found to be 5.3. According to the data of Xray diffraction and Mössbauer spectroscopy, the iron-containing meteorite phases consist mainly of olivine, pyroxene, hematite, and goethite. The observed magnetic properties of the sample can be attributed to small inclusions of ferromagnetic phases such as nickel nanoparticles, which cannot be reliably identified using laboratory spectral methods.

Journal of Structural Chemistry. 2018;59(8):1858-1865
pages 1858-1865 views

Dft Calculations and Spectroscopic Studies of some Ni Dimethylglyoximebased Complexes Isolated by the Hydrothermal Process

Kichou N., Guechtouli N., Zaater S., Meghezzi H., Hank Z.

Abstract

In this paper, we report the synthesis of dimethylglyoximato-nickel complexes by the hydrothermal method. This process is rarely used for the preparation of coordination compounds. In order to identify the oxidation state of nickel within the complexes, the complexation study was conducted in two ways (with or without an oxidizing chemical agent, namely potassium persulfate). New mononuclear dimethylglyoxime–nickel complexes are isolated and thoroughly characterized by elemental analyses and commonly used spectral techniques. The EPR investigation confirms the oxidation state of nickel in all complexes. Infrared spectroscopy (IR) and nuclear magnetic resonances (1H and 13C) indicate the formation and presence of new reduced forms of oximes within the complexes, namely enamine. From all these investigations, the suggested formulas for the complexes are: (Ni(C4H7N2O)2OH), named bis(3-aminobut-3-en-2-one oximato)hydrox nickel(III), noted Ca, obtained without an oxidizing chemical agent and Ni(C4H6N2O)2(OH)2), named bis(3-aminobut-3-en-2-one oximato) dihydroxy nickel(IV), noted Cb, obtained with an oxidizing chemical agent. The experimental IR, 1H and 13C NMR results and the electronic spectra (UV) are compared to those obtained theoretically by the DFT method, with the B3LYP function and the LANL2DZ basis set. The energy, structural, and electronic parameters are determined for the ligand and each complex studied. Binding energies are also theoretically evaluated for each complex.

Journal of Structural Chemistry. 2018;59(8):1866-1879
pages 1866-1879 views

Chemical Structure of Pyridine Complexes Of Oxo(5,10,15,20-Tetraphenyl-21H,23H-Porphinato) Niobium(V) Chloride According to Formation Thermodynamics/Kinetics And Spectroscopy Data

Motorina E.V., Mozhzhukhina E.G., Lomova T.N.

Abstract

The equilibrium and the rate of stepwise reactions in the course of pyridine (Py) coordination by oxo(5,10,15,20-tetraphenylporphinato)niobium(V) chloride ((Cl)О=NbTPP) in toluene and the chemical structure of reaction products are studied using time-dependent titration, chemical kinetics, UV/Vis, IR, 1H NMR, and mass spectrometry methods. The interaction with Py is a complex system of simple, fast, reversible reactions of pyridine coordination (K1 = 2.2.105 l2/mol2, K2 = 5.2 l/mol) with subsequent nonreversible displacement of chloride ions into the second coordination sphere and cis–trans isomerization of axial ligands. A complete quantitative description of the interaction is obtained and spectral parameters were determined for intermediate and final products. Based on these data, the chemical structure of the latter is determined. The prospect of using (Cl)3NbTPP as a receptor for nitrogenous bases, the “building blocks” of pharmaceuticals and food components, as well as environmental pollutants, is substantiated. The obtained results are useful for the design of dye-sensitized solar cells (DSSCs), since the above reaction is a model of the self-assembly process of dipolar systems based on metalloporphyrins and pyridyl derivatives of carbon nanoforms.

Journal of Structural Chemistry. 2018;59(8):1880-1890
pages 1880-1890 views

Variations of Atomic Configurations in Stable Highly Symmetrical (Cubic) Structures

Borisov S.V., Pervukhina N.V., Magarill S.A.

Abstract

The role of symmetry in the formation of stable crystal structures is considered on the examples of cubic (Fe,Ni)8AgS8 (\(Fm\bar 3m\)), KTb3F10 (\(Fm\bar 3m\)), (Ba,Pb)6(Cu,Fe,Ni)25S27 (\(Fm\bar 3m\)), and spinel Al2MgO4 (\(Fm\bar 3m\)). The variants of atomic arrangement in a standard lattice of symmetrically related sites that are often “uncomfortable” for the atoms falling into them, but satisfying a given stoichiometry are shown. The symmetry phenomenon significantly reducing the information space volume determining the structure is the main factor in crystal dynamics (order dynamics) in understanding the essence of crystallization processes.

Journal of Structural Chemistry. 2018;59(8):1891-1896
pages 1891-1896 views

[NiEn3]WO4. Crystal Structural Features Of The Phase Transition At 269 K

Khranenko S.P., Sukhikh A.S., Pishchur D.P., Buneeva P.S., Komarov V.Y., Gromilov S.A.

Abstract

The synthesis method for [NiEn3]WO4 complex salt is described. Data of single crystal X-ray diffraction at 115 K are: space group \(p\bar 3\), a = 15.9633(5) Å, c = 9.9446(4) Å, V = 2194.6(1) Å3, Z = 6, dx = 2.210 g/cm3, Ni–N is 2.120(2)-2.149(2) Å, ∠N–Ni–N is 80.69(7)-82.28(7)°. From the differential scanning calorimetry data it is found that a phase transition occurs at 269 K. The crystal structural characteristics at 298 K are as follows: space group \(p\bar 31c\), a = 9.2641(3) Å, c = 9.9817(3) Å, V = 741.89(4) Å3, Z = 2, dx = 2.179 g/cm3, Ni–N is 2.128(2) Å, ∠N–Ni–N is 81.05(12)°. The phase transition is shown to correspond to the disordering of tungstate anions over three positions. The comparative analysis of N–H…O and C–H…O interionic contacts is performed.

Journal of Structural Chemistry. 2018;59(8):1897-1902
pages 1897-1902 views

Bond Order Indices of Iodine: From Molecular Complexes to Crystals

Mukhitdinova S.E., Bartashevich E.V., Tsirelson V.G.

Abstract

A quantitative model to estimate bond order indices in molecular crystals is proposed for the bound iodine atom I–X/I…X, where X = I, N, S. The model is based on a quantitative relationship between electron delocalization indices and bond orders. The correlations of bond orders with electronic potential and kinetic energy densities at bond critical points are found for molecular complexes and the applicability of parametric equations for molecular crystals is verified. The capacity and limitations of the models are shown.

Journal of Structural Chemistry. 2018;59(8):1903-1910
pages 1903-1910 views

Synthesis, Molecular and Crystal Structure of Ethyl-4,6(R,S)-Diphenyl-2-Dicyanomethylenecyclohex-3-Ene-1(R,S)-Carboxylate

Ismiev A.I., Potekhin K.A., Maleev A.V., Askerov R.K., Maharramov A.M.

Abstract

We report a novel three-component condensation of benzalacetophenone, ethyl acetoacetate, and malonodinitrile in a 1:1:1 molar ratio respectively, involving an equimolar amount of morpholine acetate to form ethyl-4,6(R,S)-diphenyl-2-dicyanomethylenecyclohex-3-ene-1(R,S)-carboxylate whose crystal structure is determined by single crystal XRD. The intermolecular interaction is analyzed using an atomatom potential model, and infinite chains of energetically tightly coupled molecules in the crystal structure are identified and described. A weak hydrogen bond of the CAr–H…O type is found.

Journal of Structural Chemistry. 2018;59(8):1911-1917
pages 1911-1917 views

Crystal Structure of a New Zn(II) COordination Polymer Based on a Chiral Salen Schiff Base

Wang D., Yang B., Zhao N., Shi Z., Wang Y., Yang S.

Abstract

A new 1D Zn(II) coordination polymer [Zn(L)(PTA)(CH3OH)3]n (1) (L = N,N′-bis-(2-hydroxy-1- naphthalidehydene)-(1R,2R)-cyclohexanediamine, PTA = terephthalic acid) is synthesized and characterized by single crystal X-ray diffraction and elemental analysis. The X-ray crystallographic study shows that complex 1 crystallizes in the triclinic space group Pī. The central Zn(II) ion is six-coordinated with one phenolic oxygen atom from the chiral ligand L, two carboxylate oxygen atoms from two PTA ligands, and three CH3OH molecules. The Zn(II) ions are bridged by PTA molecules to form a 1D chain structure, and the chains are further assembled into a 2D supramolecular network via intermolecular hydrogen bonds and π–π interactions.

Journal of Structural Chemistry. 2018;59(8):1918-1921
pages 1918-1921 views

Crystal Structure and Luminescence of a Novel Binuclear Zinc(II) Complex with Di-2-Pyridylamine And 4,4′-Sulfonyldibenzoate

Yuan C., Liu S.N., Xu X.J.

Abstract

A binuclear Zn(II) complex [Zn2(SDBA)2(DPA)2.2H2O] (1) (DPA = di-2-pyridylamine, H2SDBA = 4,4′- sulfonyldibenzoic acid) is synthesized and characterized using single crystal X-ray diffraction, IR spectroscopy, and elemental analysis. The single crystal X-ray diffraction analysis reveals that complex 1 is a binuclear zinc(II) complex. The binuclear molecules are further connected by three types of N–H...O, C–H...O, and O–H...O hydrogen bonds, generating a three-dimensional supramolecular structure. Meanwhile, S–O...π interactions further consolidate the three-dimensional supramolecular framework of 1. In addition, the thermal stability and luminescent properties of the title complex are briefly investigated. The luminescence measurements reveal that complex 1 exhibits fluorescent emission in the solid state at room temperature.

Journal of Structural Chemistry. 2018;59(8):1922-1927
pages 1922-1927 views

Synthesis, Crystal Structure and Fluorescent Property of a Onedimensional Coordination Polymer Constructed By 1,3-Bis(1,2,4-Triazol-1-Ylmethyl)- Benzene And 4,4′-Oxydiphthalic Acid

Yuan C., Liu S.N., Xu X.J.

Abstract

A one-dimensional Cd(II) complex [Cd(H3ODPT)2(MBTZ)2.2H2O]n (1) (MBTZ = 1,3-bis(1,2,4-triazol-1- yl-methyl)benzene, H4ODPT = 4,4′-oxydiphthalic acid) is synthesized and characterized using single crystal X-ray diffraction, IR spectroscopy, and elemental analysis. Single crystal X-ray diffraction analysis reveals that complex 1 is a one-dimensional double chain polymer containing 24-membered rings with MBTZ ligands as the bridges arranged parallel to the b crystal direction, while the singly deprotonated H4ODPT ligands are extended on both sides of such double chains. In addition, the luminescence measurements reveal that complex 1 exhibits strong fluorescent emission in the solid state at room temperature.

Journal of Structural Chemistry. 2018;59(8):1928-1934
pages 1928-1934 views

Synthesis Characterization, Crystal Structure, and Fluorescence of a New Samarium Schiff Base Complex

Abu-Yamin A.A., AlDamen M.A., Sinnokrot M.O., Juwhari H.K., Salman M., Sarairah I., Al-Hawarin J., Mubarak M.S.

Abstract

A new samarium Schiff base complex with the formula [SmIII(NO3)3(H2O)L2].EtOH, where L = {(E)-2- (((4-(ethoxycarbonyl)phenyl)iminio)-methyl)phenolate}, is synthesized. Its molecular structure is determined by means of single crystal X-ray diffraction (XRD). The complex crystallizes in the orthorhombic space group Pbca with the following unit cell dimensions: a = 14.1304(19) Å, b = 18.0218(13) Å, and c = 31.246(2) Å. Photoluminescence characteristics of the complex are investigated experimentally in the solid state and obtained theoretically using the Sparkle/PM7 modeling. Moreover, several methods such as powder XRD, FT-IR and UV-Visible spectroscopy are utilized to confirm the structure of the complex.

Journal of Structural Chemistry. 2018;59(8):1935-1943
pages 1935-1943 views

A Mercury(II) Mixed-Ligand Coordination Polymer Constructed from 4,7-Diphenyl- 1,10-Phenanthroline and Thiocyanate Ligands: Crystal Structure Studies, Spectroscopic Charactrization, And Thermal Analyses

Amani V., Alizadeh R., Khosrojerdy A.

Abstract

A new mixed-ligand coordination polymer [Hg(Ph2phen)(μ1,3-SCN)(SCN)]n (1) is prepared from Hg(SCN)2 and 4,7-diphenyl-1,10-phenanthroline (Ph2phen) in methanol. Suitable crystals for the X-ray diffraction measurement are obtained by methanol diffusion into a DMSO solution. Complex 1 is characterized by spectral methods (IR, UV-Vis, 13C{1H}NMR, 1H NMR, and luminescence), elemental analysis (CHNS), thermal analysis (TG, DTA), and single crystal X-ray diffraction. The structure of 1 is based on onedimensional zigzag chains running along the c axis. The luminescence spectrum shows stronger emission than that of free 4,7-diphenyl-1,10-phenanthroline.

Journal of Structural Chemistry. 2018;59(8):1944-1951
pages 1944-1951 views

A Molecular Dynamics Study of the Adsorption Equilibrium and Density Of Adsorbates

Tolmachev A.M., Anuchin K.M., Fomenkov P.E., Gumerov M.R.

Abstract

We consider our variants of applying a molecular dynamics method to quantitatively calculate adsorption isotherms of gases and vapor and their mixtures on microporous active coals in a wide temperature range (lower and higher than the critical one for adsorptives) and the dependence of adsorbate densities on the width of slit-like micropores.

Journal of Structural Chemistry. 2018;59(8):1952-1959
pages 1952-1959 views

Comparison of Standard Functionals to Calculate the Properties of Molecules at the Variational Limit

Turovtsev V.V., Orlov Y.D., Kaplunov I.A.

Abstract

B1LYP, B1PW91, B3LYP, BHandH, BHandHLYP, BLYP, BP, CAMY-B3LYP, HTBS, KMLYP, LCYBLYP, LCY-BP86, LCY-PBE, LDA, M06, M06-2X, M06-HF, M06L, mPBE, mPW, MPW1K, MPW1PW, O3LYP, OLYP, OPBE, OPBE0, PBE, PBE0, PBEsol, PW91, revPBE, revTPSS, RPBE, TPSS, TPSSH, X3LYP, and HF methods are used to calculate the electron energy Eel of the reference GeO and C2H6 compounds in Slater basis sets QZ4P, aug-TZ2P, and TZ2P, as well as DZ for C2H6. The Eel values are recalculated into the bond breaking enthalpy D0(Ge–O) and formation enthalpy ΔfH2980 of ethane, and calculation errors for Eel are obtained at the variation limit. The ADF program settings are chosen so that they make it possible to attribute these Eel errors to the structure of DFT functionals. The dependence of the Eel values on the type (size) of the basis set is studied. It is demonstrated that when Eel is calculated for GeO, the optimum combination is DFT/TZ2P, where DFT = LCY-BLYP, LCY-BP86, LCY-PBE, CAMYB3LYP; for C2H6 it is DFT/TZ2P, where DFT = PBE0, M06, mPBE, OLYP. Errors in the calculation of the geometric parameters are studied.

Journal of Structural Chemistry. 2018;59(8):1960-1966
pages 1960-1966 views

Hydrogen Bond OH...ΠGTCB in Adsorption of Isobutanol, Tert-Butanol, and Tert-Amyl Alcohol on Graphitized Thermal Carbon Black

Terentiev A.V., Varfolomeeva V.V.

Abstract

Henry constants K1 are calculated for stable conformers of isobutanol, tert-butano, and tert-amyl alcohol molecules on graphitized thermal carbon black (GTCB). Parameters of the atom-atom potential taking into account the formation of a hydrogen bond between the adsorbate OH group with GTCB π electrons with regard to the direction are found. By density functional theory (DFT) and molecular statistical theory of adsorption the ratio between conformers stable in the gas phase and the adsorbed state are determined. The experimental Henry constants are compared with the results of the molecular statistical calculation for stable conformers of alcohols forming the bond OH...πGTCB.

Journal of Structural Chemistry. 2018;59(8):1967-1973
pages 1967-1973 views

Parallel Computations in the Development of Thermostable Lipase Mutants

Kondratyev M.S., Kabanov A.V., Samchenko A.A., Komarov V.M., Khechinashvili N.N.

Abstract

The advanced high performance computing methods are used to study the stability and conformational dynamics of the bacterial enzyme lipase LipA, its mutants, and the close homologous enzyme CLE whose substrate is polylactic acid-based plastics. From the analysis of the GPU molecular dynamics of native lipases and their mutants the amino acid residues whose point substitutions can markedly improve the thermostability of the enzymes under study without deteriorating their activity are determined.

Journal of Structural Chemistry. 2018;59(8):1974-1979
pages 1974-1979 views

Thermal Expansion of FeBO3 and Fe3BO6 Antiferromagnets Near the Neel Temperature

Biryukov Y.P., Filatov S.K., Vagizov F.G., Zinnatullin A.L., Bubnova R.S.

Abstract

FeBO3 and Fe3BO6 are antiferromagnets with TN ≈ 348 K and 508 K respectively. This work presents the results of the study of the thermal expansion and phase transitions occurring in these borates by hightemperature X-ray powder diffraction and Mössbauer spectroscopy in a wide temperature range. Unit cell parameters are refined by the Rietveld method at different temperatures. For both compounds an abrupt change in thermal expansion coefficients α is revealed near the magnetic antiferromagnet–paramagnet phase transition.

Journal of Structural Chemistry. 2018;59(8):1980-1988
pages 1980-1988 views

High-Temperature Studies of the Thermal Expansion of FeNb2O6

Gulyaeva R.I., Petrova S.A., Chumarev V.M.

Abstract

High-temperature X-ray diffraction is used to study structural changes and thermal expansion of the synthesized iron niobate sample FeNb2O6 of the orthorhombic modification. It is demonstrated that no phase transformations are observed in the temperature range 30–1230 °C; there are only anisotropic changes in unit cell parameters. The temperature dependences of the unit cell parameters are approximated by third order polynomials. Tensor coefficients of the thermal expansion are calculated based on the obtained data. The Schneider-Eberhard formalism is used for the quantitative estimation of thermal expansion anisotropy.

Journal of Structural Chemistry. 2018;59(8):1989-1994
pages 1989-1994 views

Powder X-Ray Diffraction Data on Polymorphism of RbBSi2O6 and Crystal Structure of Its High-Temperature Modification

Krzhizhanovskaya M.G., Bubnova R.S., Filatov S.K.

Abstract

Structural deformations and phase transformations of Rb-boroleucite RbBSi2O6 obtained by crystallization from glass at 1000 °C are studied by high-temperature X-ray powder diffraction and differential scanning calorimetry in the range 25–1200 °C. At 345 °C the compound undergoes a reversible cubic-cubic polymorphic transition with increasing symmetry \(I\bar 43d \leftrightarrow Ia\bar 3d\). The crystal structure of RbBSi2O6 is refined by the Rietveld method at temperatures of 25 °C, 100 °C, 200 °C, 300 °C, 310 °C, 320 °C, 330 °C, 340 °C, 350 °C, 360 °C, 380 °C, 400 °C, 500 °C, 600 °C, 700 °C, 800 °C, and 900 °C, according to the powder X-ray diffraction data.

Journal of Structural Chemistry. 2018;59(8):1995-2000
pages 1995-2000 views

High-Temperature Studies of the Structure of Complex Oxides Based on Bi26Mo10O69–d

Mikhaylovskaya Z.A., Petrova S.A., Buyanova E.S., Abrahams A.

Abstract

Complex oxides with the general formula Bi26–2xMe2x Mo10O69–d, Bi26Mo10–2yMe2y′′ O69–d are synthesized by the standard ceramic technology, certified and analyzed by high-temperature X-ray and neutron diffraction techniques. Specific features of the structures of triclinic and monoclinic modifications of complex oxides are determined. It helps interpret a change in the electroconductive properties of the samples as a result of a polymorphic transition: in the monoclinic modification [MoO4–O–MoO4] clusters are detected together with a doubled amount of [(MoO4)–Bi(MoO4)–]n chains oriented along the b axis, which may affect the character of oxygen ion transfer. For Fe-substituted samples selective iron substitution for molybdenum is revealed.

Journal of Structural Chemistry. 2018;59(8):2001-2010
pages 2001-2010 views

Structure and Morphology of Cds Nanoparticles

Evtushok B.Y., Cherepanova S.V., Kozlova E.A.

Abstract

The structure and morphology of CdS nanoparticles obtained by the hydrothermal synthesis are studied at temperatures of 80 °С, 100 °С, 120 °С, and 140 °С. The analysis is performed by calculating X-ray diffraction patterns by the Debye formula followed by the optimization of model parameters of nanocrystals. It is shown that with increasing temperature the CdS structure gradually transforms from a very defective sphalerite-like structure to very defective wurtzite-like one. At all temperatures the particles are ellipsoids stretched along the perpendicular to packing defects. An increase in the temperature causes a gradual enlargement of nanoparticles.

Journal of Structural Chemistry. 2018;59(8):2011-2017
pages 2011-2017 views

Structural Changes in Ytterbium Ferrite YbFe2O4 in the Temperature Range From–150 °C TO 300 °C

Fedorova O.M., Vedmid’ L.B.

Abstract

Structural changes and thermal expansion of the iron ferrite sample YbFe2O4 of a rhombohedral modification are studied by high-temperature X-ray diffraction and differential thermal analysis. It is demonstrated that no phase transitions are observed in the temperature range from–150 °C to 300 °С. There are only anisotropic changes in unit cell parameters due to changes in Yb–O and Fe–O bond lengths.

Journal of Structural Chemistry. 2018;59(8):2018-2022
pages 2018-2022 views

Transformation Of Magnetic Transitions and Crystal Structure of NdBaMn2O6 At Diamagnetic Dilution with Ti4+ Ions in the Mn-Sublattice

Sterkhov E.V., Uporov S.A.

Abstract

Magnetic and structural transitions in NdBaMn2−xTixO6 (x = 0, 0.2) samples obtained by the topotactic procedure at 1373 K and lgPO2=−19 atm are studied by low-temperature X-ray diffraction and magnetometry in 1–5 T fields. Undoped double manganite undergoes a reversible ferromagnet—antiferromagnet magnetic phase transition at ТN = 278 K without changing symmetry. The 20 mol.% titanium substitution for manganese causes a decrease in symmetry from the tetragonal space group P4/mmm to the orthorhombic space group Pmmm and a shift of magnetic transitions to lower temperatures. Oxide NdBaMn2O6 demonstrates high values of the magnetocaloric effect in the temperature range 250–315 K.

Journal of Structural Chemistry. 2018;59(8):2023-2028
pages 2023-2028 views