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Vol 57, No 6 (2016)

Article

Quantum chemical calculation of the structure, dipole moment, and polarizability of O-isopropyl methylphosphonofluoridate in the gas phase

Lebedev A.V.

Abstract

Six conformers of O-isopropyl methylphosphonofluoridate (IMPF) are revealed. Their geometric parameters, dipole moments, and polarizabilities are calculated. The applicability of methods chosen for the phosphoryl compounds not distinguished by conformational diversity is evaluated for the calculation of the structure and mentioned properties of IMPF conformer. The features of the IMPF structure and stereochemistry are considered.

Journal of Structural Chemistry. 2016;57(6):1057-1067
pages 1057-1067 views

Structure of zirconium tetrahydroborate Zr(BH4)4: A molecular dynamics study

Igoshkin A.M., Golovnev I.F., Krisyuk V.V., Igumenov I.K.

Abstract

In the work the structural and thermodynamic characteristics of zirconium tetrahydroborate Zr(BH4)4 are considered. The initial compound organized in a cubic lattice was heated from absolute zero to temperatures exceeding the experimental boiling temperature. Temperature dependences of the parameters of the internal structure, energy, and density of molecules in bulk are obtained. It is found that on heating the compound to 300 K its structure is maintained and on further cooling it returns to the initial state. On heating above 400 K the irreversible destruction of the crystal lattice is observed. On further cooling the compound in the solid phase becomes amorphous. It is shown that in the new state the average binding energy is lower than that in the initial one and the cubic lattice has the highest binding energy among the considered Zr(BH4)4 structures.

Journal of Structural Chemistry. 2016;57(6):1068-1073
pages 1068-1073 views

First-principles study of the pressure effects on the structural and electronic properties of crystalline organic azide C10H8N6O4

Fedorov I.A., Zhuravlev Y.N.

Abstract

Within the density functional theory with regard to the dispersion interaction the crystal structure parameters of organic C10H8N6O4 azide are determined. The pressure effect in the range 0-20 GPa on its structural and electronic properties is studied. Parameters of the equation of state in the Vinet and Birch–Murnaghan models are determined. Within the quasi-particle method (G0W0) the energy band structure is calculated. It is shown that the hydrostatic pressure of 20 GPa results in the approach of planes of C10H8N6O4 molecules and their shift relative to each other. This is accompanied by a broadening of the upper valence bands and a decrease in the band gap from 5.07 eV to 3.97 eV.

Journal of Structural Chemistry. 2016;57(6):1074-1078
pages 1074-1078 views

Computational design of a new pedal-like nanorobot based on nitrogen inversion

Samadizadeh M., Gorgani S.S.

Abstract

Ab initio calculations are employed to investigate nitrogen inversion as a configuration change that can supply an infinitely useful switchable control mechanism for some complex systems. In this paper, the design of a new pedal-like nano-scale robot is discussed based on nitrogen inversion. This work introduces the design of a nano pedal in which different structures of the arms created two diverse kinds of pedals: a) nano pedal without intersectional motion and b) nano pedal with intersectional motion. In (a), due to stereo repellent in the two pedal arms, they were unable to pass each other and could only move back and forth in one direction. However, in (b), due to an increase in the axis connecting the two arms, the issue of stereo repellent of nitrogen was looked over and the arms could pass each other and moved in a larger domain.

Journal of Structural Chemistry. 2016;57(6):1079-1084
pages 1079-1084 views

Ab initio prediction of plausible conformers of a flexible N-(3-chloro-4-fluorophenyl)thiourea (CFT) molecule: A validation study

Stephen A.D., Nidhin P.V., Srinivasan P.

Abstract

The current aim of the ab initio crystal structure prediction is to find the possible conformers of the flexible N-(3-chloro-4-fluorophenyl)thiourea (CFT) molecule using gas phase optimization with an MP2/6-31G(d,p) basis set, and the lattice energy minimization in the presence of a repulsion-dispersion electrostatic potential. If the molecule deviates from the gas phase conformation, suitable intermolecular interactions are added, and the molecule favours stable packing. The crystal structure is said to be feasible if the intermolecular lattice energy compensates the intermolecular energy penalty associated with the suboptimal gas phase conformers. The idea of the current research is to find the least energy hydrogen bonded crystal structure from a set of rigid conformers in a conformation region, with a significant similarity of packing, which may lead to the prediction of polymorphs associated with the considered CFT molecule.

Journal of Structural Chemistry. 2016;57(6):1085-1095
pages 1085-1095 views

A DFT study on the geometry, spectroscopic properties, and tautomerization of the local anaesthetic drug prilocaine

Heshmatipour F., Beyramabadi S.A., Morsali A., Heravi M.M.

Abstract

The prilocaine is a significant amino amide local anaesthetic. This drug can exist as three possible tautomers. Herein, by using density functional theory (DFT), and handling the solvent effects with the PCM model, the structure, energetic behavior, kinetics and mechanism of tautomerization, as well as the natural bond orbital analysis (NBO) of the prilocaine are reported. P1 is the most stable tautomer of the prilocaine, which can be tautomerized to two other tautomers via the intramolecular-proton transfer. Good agreement between the calculated NMR chemical shifts and IR vibrational frequencies with the experimental values approves the suitability of the optimized geometry for the prilocaine. A large HOMO-LUMO energy gap implies a high stability of the prilocaine.

Journal of Structural Chemistry. 2016;57(6):1096-1103
pages 1096-1103 views

Crystal structure determination, and DFT Calculations of dichlorobis-(dimethylsulfoxide-O)copper(II)

Chebbi H., Chebbi M., Guesmi A., Arfaoui Y.

Abstract

The crystal structure of dichlorobis(dimethylsulfoxide-O)copper(II), [CuCl2(DMSO)2] (I), previously determined by Willett and Chang, is reinvestigated. It crystallizes in the orthorhombic system with the space group Pnma (N°62), Z = 4, and unit cell parameters a = 8.053(1) Å, b = 11.642(5) Å, c = 11.347(3) Å. Our structure determination is of a significantly higher precision in terms of bond lengths, angles, and R factors (e.g., Cu1–O1 = 1.9737(24) Å, O1–Cu1–O1i = 173.08(13)° (symmetry code: Ix, 1/2–y, z) and R(F2) = 0.046 compared to 1.955(4) Å, 173.0(3)° and R(F) = 0.075). In contrast to the previous investigation, all H atoms are placed at calculated positions. In the title molecule, the CuII atom is five coordinated in a distorted square pyramidal geometry. Thus, as reported previously, it can be shown that the crystal structure consists of [CuCl2(DMSO)2] molecules which, by virtue of long Cu–Cl interactions, are tied together to form chains parallel to the [100] direction. The density functional theory (DFT) optimized structure at the B3LYP/6-311++G(2d,2p) level is compared with the experimentally determined molecular structure. The HOMO-LUMO energy gap and other related molecular properties are also calculated. Comprehensive experimental and theoretical structural studies on the studied complex are carried out by FT-IR and UV-visible spectroscopies.

Journal of Structural Chemistry. 2016;57(6):1104-1110
pages 1104-1110 views

Structural study of the stability of the captopril drug regarding the formation of its captopril disulphide dimer

de Souza M.C., Diniz L.F., de Jesus Franco C.H., de Abreu H.A., Diniz R.

Abstract

Captopril disulphide is obtained under hydrothermal conditions. The IR and Raman spectra data are in agreement with the X-ray diffraction results. The disappearance of the band at 2566 cm–1 (ν(SH)) in both spectra of captopril disulphide is consistent with the formation of the S–S bond. The degradation of the captopril drug is investigated by Raman spectroscopy and the results indicate that after 6 weeks of air exposure, a band at 512 cm–1, assigned as ν(SS), is observed, suggesting the formation of captopril disulphide. DFT calculations in the solid state are performed for captopril and captopril disulphide. The results indicate that captopril disulphide is approximately 30 kcal•mol–1 more stable than captopril. The analysis of the total density of states (DOS) reveals that the captopril valence band contains a significant contribution from the S atom, whereas for captopril disulphide, the O atom is the most important for the valence band.

Journal of Structural Chemistry. 2016;57(6):1111-1120
pages 1111-1120 views

An X-ray photoelectron study of the electronic structure of Cu(II) complexes with dia- and paramagnetic derivatives of 2-imidazoline

Fedorenko A.D., Mazalov L.N., Oglezneva I.M., Fursova E.Y., Ovcharenko V.I.

Abstract

The electronic structure of free radicals and Cu(II) complexes with the nitronyl nitroxide radical and aminonitrone is studied by X-ray photoelectron spectroscopy (XPS). N1s XPS spectra of nitrogen atoms of Cu(II) complexes with aminonitrones confirm the diamagnetic nature of the ligands. The binding energies of the main peak and the intense satellite structure in the Cu2p3/2,1/2 spectra of the complexes under study correspond to the Cu(II) state. The structure of the satellite in the Cu2p3/2,1/2 spectrum depends on the environment of the metal ion.

Journal of Structural Chemistry. 2016;57(6):1121-1126
pages 1121-1126 views

Analysis of the oxidation state of platinum particles in supported catalysts by double differentiation of XPS lines

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

Abstract

In the work the double differentiation of functions describing the Pt4f7/2 band in the XPS spectra of model supported Pt/SiO2 catalysts is performed in order to determine the number of different chemical states of platinum particles. The functions for the differentiation are obtained by the deconvolution of the experimental spectral contour into two spin-orbit components. As a result of the performed analysis of the number and position of the minima of the second derivative of the function of Pt437/2 the conditions of the oxidation of platinum particles in the Pt/SiO2 sample on treating in a NO + O2 mixture and the reduction of platinum oxide particles on interacting of the PtOx/SiO2 sample with hydrogen are determined.

Journal of Structural Chemistry. 2016;57(6):1127-1133
pages 1127-1133 views

Structural features of hydrate forms of iron(III) oxalate

Tyapkin P.Y., Petrov S.A., Chernyshev A.P., Ancharov A.I., Sheludyakova L.A., Uvarov N.F.

Abstract

The existence of hydrate forms of iron(III) oxalate, which noticeably differ from each other in the Mössbauer spectral parameters (isomer shift and quadrupole splitting), is detected. In the assumption of the formation of phases with different structural characteristics, the samples of compound under study are examined by the powder X-ray diffraction analysis (including the application of synchrotron radiation), Mössbauer and IR spectroscopy. It is shown that the phase characterized by new values of the Mössbauer parameters has its own IR spectrum and it is X-ray amorphous and metastable.

Journal of Structural Chemistry. 2016;57(6):1134-1140
pages 1134-1140 views

Structure of liquid chlorobenzene in the temperature range 293-363 K

Alekseev E.S., Bogdan T.V.

Abstract

The classical molecular dynamics method is used to simulate the structure of liquid chlorobenzene in the temperature range 293-363 K. Theradial angular distribution functions for the distances between the benzene molecular planes and the angle between them; the radial distribution functions for the distances between chlorine atoms; self-diffusion coefficients, local dipole moments, and permittivities are calculated. In the entire temperature range molecules are joined into agglomerates due to contacts between chlorine atoms (halogen aggregation) and to the specific interactions of benzene rings, which causes mainly parallel and perpendicular orientations of the rings in the first coordination sphere. The molecules in the agglomerates are mostly organized in the 1D motif: chains of chlorine atoms and stacks of benzene rings. With increasing temperature, the agglomerate structure is reorganized, with the most visible changes occurring in temperature ranges 293-298 K, 313-323 K, and 343-353 K.

Journal of Structural Chemistry. 2016;57(6):1141-1149
pages 1141-1149 views

New gadolinium polyselenide GdSe1.89(6) in the PbFCl matlockite structure type

Zelenina L.N., Chusova T.P., Podberezskaya N.V., Korolkov I.V., Piryazev D.A.

Abstract

Optimal growth conditions for GdSe1.85 crystals are found by the thermodynamic simulation of the Gd–Se–I system. The obtained data are used to grow GdSe1.85 crystals by the vapor transport method using iodine as a transport agent. The grown crystals are identified by microprobe and powder XRD analyses. The structure is determined by the single crystal XRD analysis and the composition is refined. The crystal structure is in general typical of the structures of REM polychalcogenides, however, the unit cell represents the metric type unknown previously: a = 4.0562(2) Å, b = 8.1065(5) Å, c = 9.2489(5) Å, α = 115.9990(10)°, β = 90.000(2)°, γ = 89.9750(10)°, V = 273.34(3) Å3, Z = 4, dcalc = 7.659 g/cm3, space group Pb11. The experimental material for the single crystal XRD analysis is obtained on an automated Bruker X8 APEX diffractometer (MoKα radiation, graphite monochromator, CCD detector resolution 1024×1024 pixel, distance to the detector L = 50 mm, rotation about the φ axis 15 min) by the standard procedure, 2274 measured reflections, out of them 1523 independent (R(int) = 0.0352), R factor [I > 2σ(I)] = 0.0517, R factor (all measured) = 0.0694).

Journal of Structural Chemistry. 2016;57(6):1150-1157
pages 1150-1157 views

Synthesis and characterization of a pure inorganic 3D network based on the [Sr2P9HMo12O71]20–cluster and strontium(II) linkers

Ftini M.M.

Abstract

Novel supramolecular networks based on an anionic polymolybdophosphate cluster Sr10(H2O)12[Sr2P9HMo12O71] is hydrothermally synthesized and structurally characterized by single crystal X-ray diffraction, thermogravimetric analysis, infrared, ultraviolet spectroscopy, and cyclic voltammetry in an aqueous solution. It crystallizes in the orthorhombic space group Pnmm (No. 59) with a = 12.699(1) Å, b = 14.914(1) Å, c = 23.851(2) Å and Z = 2. The compound is made up of unusual shaped-cage [Sr2P9HMo12O71]20−. The strontium cations are divided in two kinds. The first occupy vacant sites in the [P9Mo12O68]n– polyoxoanions unit and the second [Sr(H2O)6]2+, [Sr(H2O)4]2+, and [Sr(H2O)2]2+ serve to bridge together the adjacent polymolybdophosphate clusters to yield unprecedented three-dimensional pure inorganic assemblies of the shaped-cage polymolybdophosphate clusters.

Journal of Structural Chemistry. 2016;57(6):1158-1164
pages 1158-1164 views

High-temperature cubic modification of tetramethylammonium hexafluoridozirconate (N(CH3)4)2[ZrF6]

Gerasimenko A.V., Gaivoronskaya K.A., Davidovich R.L., Didenko N.A.

Abstract

X-ray diffraction (XRD) and differential thermal analysis (DTA) methods are used to analyze tetramethylammonium hexafluoridozirconate of the composition [N(CH3)4]2ZrF6. In the temperature range between 96-110 °C, the crystals undergo a reversible phase transition from the low-temperature trigonal modification (space group R3 ) to the high-temperature cubic modification (space group Fm3m). The cubic phase is composed of regular [ZrF6]2–octahedral and tetrahedral (CH3)4N+ cations linked by ionic interactions and the С–H•••F hydrogen bonds.

Journal of Structural Chemistry. 2016;57(6):1165-1168
pages 1165-1168 views

Crystal structures of two one-dimensional coordination polymers constructed from Mn2+ ions, chelating hexafluoro-acetylacetonate anions, and flexible bipyridyl bridging ligands

Plater M.J., De Silva B.M., Foreman M.R., Harrison W.T.

Abstract

The syntheses and crystal structures of two one-dimensional coordination polymers, [Mn(C5HO2F6)2(C16H20N2)]n (1) and [Mn(C5HO2F6)2(C20H20N2)]n (2), are described, where C5HO2F6 is the hexafluoro acetylacetonate anion, C16H20N2 is 1,6-bis(4-pyridyl)-hexane, and C20H20N2 is 1,4-bis[2-(3-pyridyl)ethyl]-benzene. In both phases, the metal ion lies on a crystallographic twofold axis and is coordinated by two chelating C5HO2F6 anions and two bridging bipyridyl ligands to generate a cis-MnN2O4 octahedron. The bridging ligands, which are completed by crystallographic inversion symmetry in both compounds, connect the metal nodes into zigzag [20 1 ] chains in 1 and contorted [001] chains in 2. Intrachain C–H•••O interactions occur in 1 but not in 2, which may be correlated with the relative orientations of the ligands. Crystal data: 1, C26H22F12MnN2O4, Mr = 709.40, monoclinic, C2/c (No. 15), a = 9.3475(2) Å, b = 16.6547(3) Å, c = 18.3649(4) Å, β = 91.1135(8)°, V = 2858.50(10) Å3, Z = 4, R(F) = 0.030, wR(F2) = 0.075. 2, C30H22F12MnN2O4, Mr = 757.44, monoclinic, C2/c (No. 15), a = 19.9198(2) Å, b = 10.6459(2) Å, c = 16.8185(3) Å, β = 119.8344(8)°, V = 3093.91(9) Å3, Z = 4, R(F) = 0.032, wR(F2) = 0.078.

Journal of Structural Chemistry. 2016;57(6):1169-1175
pages 1169-1175 views

Crystal structure and spectroscopic characterization of a coordination polymer of Copper(II) chloride with ethylenediamine and the 2-hydroxybenzoate ion

Batool S.S., Gilani S.R., Tahir M.N., Siddique A., Harrison W.T.

Abstract

A new mixed-ligand one-dimensional copper(II) coordination polymer [Cu(en)(sal)Cl]n where en = ethylenediamine(C2H8N2) and Hsal = 2-hydroxybenzoic acid (salicylic acid; C7H6O3) is synthesized and characterized by FTIR spectroscopy and single crystal X-ray diffraction. The structure contains Cu2+ ions in two different distorted octahedral coordination environments: an axially extended CuN4Cl2 moiety arising from a pair of bidentate en ligands and a CuO4Cl2 moiety arising from a pair of asymmetrically coordinated sal anions. The chloride ions bridge the copper ions into a zigzag chain propagating in [001]. The structure is consolidated by N–H•••O and N–H•••Cl hydrogen bonds which generate a layered network. Crystal data: C9H13ClCuN2O3, Mr = 296.20, monoclinic, P21/c, a = 13.9179(10) Å, b = 10.4900(8) Å, c = 8.5181(6) Å, β = 105.518(4)°, V = 1198.30(15) Å3, Z = 4, R(F) = 0.026, wR(F2) = 0.068.

Journal of Structural Chemistry. 2016;57(6):1176-1181
pages 1176-1181 views

Synthesis and crystal structure of trans-[Ru(NO)(NH3)4SO4]ClO4 and [Ru(NO)(NH3)4SO4][Ru(NO)(NH3)3Cl(SO4)]HSO4•H2O

Makhinya A.N., Il’in M.A., Baidina I.A., Korol’kov I.V.

Abstract

After the addition of the saturated NaClO4 solution to a solution of trans-[Ru(NO)(NH3)4SO4]HSO4•H2O, trans-[Ru(NO)(NH3)4SO4]ClO4 perchlorate salt (I) is obtained with the yield of ~80%. The heating of trans-[Ru(NO)(NH3)4(H2O)](HSO4)SO4 at a temperature of ~220 °C results in a complete removal of coordination water and a partial removal of ammonia molecules. Successive treatment of the thermolysis product with sulfuric and hydrochloric acids yields [Ru(NO)(NH3)4SO4][Ru(NO)(NH3)3Cl(SO4)]HSO4•H2O crystals (II). The single crystal X-ray diffraction method is used to determine the structure of the compounds obtained. For I: space group P21/c, a = 6.6949(9) Å, b = 13.7049(19) Å, c = 12.8641(17) Å, β = 101.028(4)°; for II: space group Р21/c, a = 14.1304(4) Å, b = 12.4908(3) Å,, c = 11.6264(3) Å, β = 94.1980(10)°.

Journal of Structural Chemistry. 2016;57(6):1182-1187
pages 1182-1187 views

Structure and properties of the volatile isomers of bis(1,1,1-trifluoro-5,5-dimethylhexane-2,4-dionato) of platinum(II)

Baidina I.A., Zharkova G.I., Piryazev D.A.

Abstract

In the work, isomeric complexes of platinum(II) with the (ptac)–1 pivaloyltrifluoroacetonate ion (Pt((CH3)3–CO–CH–CO–CF3)2) are studied. The synthesis and chromatographic separation of Pt(ptac)2 isomers are described, TGA data for the separated isomers are given, and the crystal structures of the solid phases are studied. The cis-Pt(ptac)2 complex crystallizes in the space group P-1, a = 10.7091(4) Å, b = 12.7787(6) Å, c = 16.0154(8) Å, α = 92.389(2)°, β = 90.868(2)°, γ = 112.1260(10)°, V = 2027.39(16) Å3, Z = 4, dcalc = 1.918 g/cm3. The trans-Pt(ptac)2 complex crystallizes in the space group C2/m, a = 13.3235(5) Å, b = 8.5515(3) Å, c = 9.6694(3) Å, β = 118.5880(10)°, V = 967.38(6) Å3, Z = 2, dcalc = 2.010 g/cm3. The structures of the complexes are molecular, the Pt atom has a square coordination of four oxygen atoms of two ligands; for cis-Pt(ptac)2, the Pt–Oav distance is 1.968 Å, for trans-Pt(ptac)2 it is 1.980 Å.

Journal of Structural Chemistry. 2016;57(6):1188-1194
pages 1188-1194 views

Single crystal X-ray diffraction study of 2,4,6-triazidopyridine and its 3,5-dibromosubstituted derivative

Korchagin D.V., Aldoshin S.M., Chapyshev S.V.

Abstract

By the single crystal X-ray diffraction analysis in combination with quantum chemical calculations the molecular and crystal structures of high-energy 2,4,6-triazidopyridine and 2,4,6-triazido-3,5- dibromopyridine are studied; the dependence of structural parameters of their azido groups on the size of substituents in β-positions of the pyridine ring is analyzed. The effect of the intramolecular contact involving the central nitrogen atom of γ-azido groups in substituted triazides on their structure and properties is revealed.

Journal of Structural Chemistry. 2016;57(6):1195-1202
pages 1195-1202 views

Effect of the pH value on the synthesis of silver nanoparticles in an aqueous cysteine–silver solution

Baranova O.A., Khizhnyak S.D., Pakhomov P.M.

Abstract

Silver nanoparticles are synthesized in the medium of an aqueous cysteine–silver solution at different рН values using sodium borohydride as a reductant. Dynamic light scattering, electron spectroscopy, and transmission electron microscopy are applied to find that the size and stability of nanoparticles in this system depend on рН, which is regulated by alkali, and on the concentration of the cysteine–silver solution. Under certain conditions, it is possible to obtain a unimodal distribution for silver nanoparticles with an average size of ~40 nm.

Journal of Structural Chemistry. 2016;57(6):1203-1208
pages 1203-1208 views

The phase composition and physicochemical properties of transparent nanocomposite films of silicon oxycarbonitride

Plekhanov A.G., Fainer N.I., Rumyantsev Y.M., Yushina I.V., Rakhmanova M.I.

Abstract

Films of hydrogenated SiCxNyOz:H obtained by plasma-enhanced chemical vapor deposition from a mixture of 1,1,3,3-tetramethyldisilazane with oxygen and nitrogen (TMDS+ O2+xN2) in the temperature range 373-973 K are nanocomposites in whose amorphous part nanocrystals belonging to phases of the Si–C–N: α-Si3–xCxN4 system and graphite are distributed. A change in the chemical composition of gas mixtures enables the preparation of SiCxNyOz:H films with a broad variation range of functional properties, such as the 1.45-2.15 variation of the refractive index; the controlled transparency (T ~ 92-99.7%) in the UV, visible, and IR spectral ranges; tunable characteristics of the band gap (3.5-5.4 eV), and dielectric constants (5.2-5.8).

Journal of Structural Chemistry. 2016;57(6):1209-1215
pages 1209-1215 views

Photochromic properties of polycrystals: 2,3-diarylcyclopentenone and its adduct with a metal-organic coordination polymer

Semionova V.V., Korolev V.V., Glebov E.M., Shirinyan V.Z., Sapchenko S.A.

Abstract

In order to obtain crystalline photochromic materials combining the advantages of photochroms in liquid and polymeric solutions (high quantum yields) and in the solid state (enhanced resistance to photodegradation) a photochromic adduct consisting of a metal-organic framework [Zn4(dmf)(ur)2(ndc)4] (ndc2– is 2,6-naphthalenedicarboxylate, ur is urotropine, dmf is N,N-dimethylformamide) and 2,3-bis-(2,5- dimethylthiophen-3-yl-cyclopent-2-en-1-one) is synthesized (compound 1). The photochemistry of the adduct is studied. Solid 2,3-diarylcyclopentenone exhibits photochromism typical of diarylethenes. Quantum yields of the adduct photocoloration and photobleaching turn out to be 1.5 and 3 times higher respectively than those for solid compound 1 and lower than those of solution 1 in acetonitrile by an order of magnitude. The number of photochemical cycles for compound 1 in the solution, the solid state, and the adduct composition is limited by the monomolecular side reaction.

Journal of Structural Chemistry. 2016;57(6):1216-1224
pages 1216-1224 views

Structure of molecular cocrystals of 18-crown-6 and polyhalogeno-meta-phenylenediamines

Vaganova T.A., Gatilov Y.V., Rodionov V.I., Malykhin E.V.

Abstract

A motif of the supramolecular architecture of соcrystals of 18-crown-6 and polychloropolyfluoro-1,3- phenylenediamines or partially fluorinated 1,3-phenylenediamines (1:1 stoichiometry) is infinite 1D ensembles of alternating components. The mutual coordination of molecules in the ensembles is due to the hydrogen bond between crown ether oxygen atoms and hydrogen atoms of polyfluoroarene amino groups. Parameters of the architecture of соcrystals are determined by the effect of the number and arrangement of substituents (chlorine and fluorine atoms) in the polyhalogenated aromatic ring.

Journal of Structural Chemistry. 2016;57(6):1225-1234
pages 1225-1234 views

Study of the supramolecular interactions of carboxylic acids used as versatile ligands in coordination chemistry

Corrêa C.C., Scaldini F.M., Machado F.C., Pinheiro C.B.

Abstract

Carboxylate ligands are very versatile because they can adopt different coordination modes towards metal cations, such as monodentate, bidentate-chelate, bidentate bridging and monoatomic bridging. Because of this versatility, these ligands have been widely used in coordination chemistry. In this study the three dimensional structure of the crystal arrangement of 2,5-thiophenedicarboxylic (H2TPD), trans-3-(3- pyridyl)acrylic (HPYA), and 4,4′-sulfonyldibenzoic (H2SFD) acids are determined in order to investigate their supramolecular properties for coordination polymers and metal-organic framework (MOF) constructions.

Journal of Structural Chemistry. 2016;57(6):1235-1242
pages 1235-1242 views

Molecular dynamics study of self-radiation damage in mineral matrices

Grechanovsky A.E., Urusov V.S., Eremin N.N.

Abstract

Mechanisms of radiation damages in minerals promising for the utilization of highly active radioactive waste (zircon ZrSiO4, monazite LaPO4, orthophosphate YbPO4, lakargiite CaZr0,8Sn0,1Ti0,1O, and Gd2Zr2O7 and Gd2Ti2O7 compounds with the pyrochlore structure) are studied by the computer simulation using the molecular dynamics method. The formation of a damaged region in the structures under study is considered along with the recovery (relaxation) processes in these structures. The number of Frenkel pairs and antistructural defects that form in the structure of these minerals after the pass of the knocked out thorium atom is calculated by the molecular dynamics method. A parameter is proposed that characterizes the mineral tendency to amorphization under the effect of the radiation damage. The obtained results show that one of the main factors determining the radiation stability of minerals is the crystal structure type, compounds with the monazite structure being more radiationally stable than compounds with the zircon structure. It is found that the Gd2Zr2O7 compound and lakargiite have a weaker tendency to amorphization than other minerals such as zircon, monazite, and orthophosphate YbPO4. A high radiation stability of the studied Gd2Zr2O7 compound as well as a solid solution of the composition CaZr0.8Sn0.1Ti0.1O3 makes it possible to propose them as a possible matrix for the utilization of highly active radioactive waste.

Journal of Structural Chemistry. 2016;57(6):1243-1262
pages 1243-1262 views

Structure of 3-methyl-2,3,4,4a,5, 10b-hexahydro-1H-spiro[chromeno[3,4-c] pyridin-1,1'-cyclohexane]-2,4,5-trione

Kirillov N.F., Nikifirova E.A., Dmitriev M.V., Baibarodskikh D.V.

Abstract

3-Methyl-2,3,4,4a,5,10b-hexahydro-1H-spiro[chromeno[3,4-c]pyridin-1,1'-cyclohexane]-2,4,5-trione is obtained by the interaction of methyl 1-bromocyclohexane carboxylate with zinc and N-methyl-2-oxo-2H- chromen-3-carboxamide, and its structure is determined by the single crystal X-ray diffraction method.

Journal of Structural Chemistry. 2016;57(6):1263-1265
pages 1263-1265 views

Structure of ionic cocrystals piperidinium 2-thiobarbiturate–2-thiobarbituric acid

Golovnev N.N., Molokeev M.S., Sterkhova I.V., Golovneva I.I.

Abstract

The structure of ionic cocrystals of piperidinium 2-thiobarbiturate with 2-thiobarbituric acid PipeH+(HTBA)H2TBA (I) (H2TBA is 2-thiobarbituric acid, Pipe is piperidine) is determined. The asymmetric unit of I contains a H2TBA molecule in the form of thionemonocarbonyl tautomer, the HTBAion, and the PipeH+ piperidinium ion. The structure is stabilized by the intermolecular O–H•••O, N–H•••S, and N–H•••O hydrogen bonds (HBs) forming a three-dimensional framework. The results of single crystal XRD and IR spectroscopy indicate the formation of strong O–H•••O HB. The topological analysis of the HB network in I is performed.

Journal of Structural Chemistry. 2016;57(6):1266-1269
pages 1266-1269 views

Investigation of a new product of a condensation reation between 1,2,3,3-tetramethylindolenilium perchlorate and 2,6-diformyl-4-methyl-phenol

Tkachev V.V., Lukyanova M.B., Lukyanov B.S., Pugachev A.D., Aldoshin S.M., Minkin V.I.

Abstract

A new spiropyran salt in which the positive charge is localized on the nitrogen atom of the indoline moiety and the negative charge is localized on the ClO4 group is synthesized. The structure of the compound is determined by the single crystal X-ray diffraction analysis.

Journal of Structural Chemistry. 2016;57(6):1270-1271
pages 1270-1271 views

Crystal structure and catalytic properties of a two-dimensional copper(II) coordination polymer derived from rigid bis(triazole)

Hou W.-., Dong G.-., Zhang X.

Abstract

A new Cu(II) coordination polymer, namely {[Cu2(btb)2(sip)(OH)]•(H2O)0.25}n (btb = 4,4′-bis(1,2,4- triazolyl-1-yl)-biphenyl, H3sip = 5-sulfoisophthalic acid), is hydrothermally synthesized and characterized by elemental analyses, infrared (IR) spectroscopy, and single crystal X-ray diffraction. It crystallizes in the monoclinic space group P21/c, a = 14.9676(3) Å, b = 14.3478(3) Å, c = 21.2719(5) Å, β = 125.325(2)°, V = 3727.11(14) Å3, Z = 4, C40H28.50Cu2N12O8.25S, Mr = 968.39, Dc = 1.726 g/cm3, μ = 1.274 mm–1. The structural analyses reveal that the compound displays a 2D binodal rarely (4,5)-connected network with 4,5L50 topology. Moreover, the thermal and catalytic properties of the complex for the degradation of the congo red azo dye in a Fenton-like process are investigated.

Journal of Structural Chemistry. 2016;57(6):1272-1276
pages 1272-1276 views

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