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卷 57, 编号 3 (2016)

Article

A study of the electronic structure and properties of the propargyl radical

Turovtsev V., Chernova E., Sitnikov V., Emel’yanenko V., Orlov Y.

摘要

By means of B3LYP/6-311++G(3df,3pd) the electron density distribution in the propargyl radical CH2CCH is obtained. Within the Quantum Theory of Atoms in Molecules the phenomenon of conjugation and the spin density distribution of the unpaired electron in CH2CCH are studied at the qualitative level. Characteristics of the electronic structure of CH2CCH and its parent molecules CH3–C≡CH and CH2=C=CH2 are compared. With the use of the rigid rotator-anharmonic oscillator model the thermodynamic properties of the propargyl radical and enthalpies of bond cleavage in propyne and allene are calculated in the temperature range 298-1500 K. The relationship between the electronic and thermodynamic properties of CH2CCH is considered and its conjugation energy is calculated.

Journal of Structural Chemistry. 2016;57(3):423-430
pages 423-430 views

Quantum chemical simulation of trans- and cis-isomers of bis-chelate azomethine complexes of Ni(II), Pd(II), and Pt(II) with the MN2Y2 (Y = O, S, Se) coordination core

Kharabayev N., Starikov A., Minkin V.

摘要

Within density functional theory the experimentally observed stereoeffects of the ligand environment in low-spin bis-chelates of Ni(II), Pd(II), and Pt(II) with aromatic azomethines is modeled. It is shown that complexes with the MN2O2 coordination core are characterized by the trans-configuration and in complexes with MN2S2 or MN2Se2 cores the stabilization of the cis-configuration occurs. The relationship is found between the composition of metal cycles and their conformation (an inflection along the donor atom line), the degree of steric hindrances in the cis-configuration due to the interligand interaction of R substituents at azomethine nitrogen atoms and the relative stability of cis- and trans-isomers of the complex.

Journal of Structural Chemistry. 2016;57(3):431-436
pages 431-436 views

Prediction of enthalpies of vaporization based on modified Randič indices. Esters

Krasnykh E., Portnova S.

摘要

In the work a prediction method based on modified Randič indices to estimate the enthalpies of vaporization under standard conditions ΔvapH0(298.2) is proposed for esters with different structures and numbers of ester groups. It is shown that the proposed method enables the prediction of enthalpies of vaporization of esters with an accuracy as good as experimental.

Journal of Structural Chemistry. 2016;57(3):437-445
pages 437-445 views

Structure and electronic properties of 3,3′-diamino-4,4′-azo-1,2,4-triazole nitrate and perchlorate

Korabel’nikov D., Zhuravlev Y.

摘要

Based on density functional theory with regard to the dispersion interaction the crystal structure and electronic properties of C4H8N12O6 and C4H8N10Cl2O8 are studied. Atomic structural parameters, bond populations, atomic charges, energy and spatial electron distributions are calculated. Differences in the studied characteristics caused by the non-equivalence of atoms are shown. A partially covalent nature of anion-cation bonds is revealed. The cationic nature of the lower unoccupied states is established, which results in a small band gap of ~1.7 eV as compared to other nitrates and perchlorates.

Journal of Structural Chemistry. 2016;57(3):446-453
pages 446-453 views

Design of a new rotary molecular machine based on nitrogen inversion: a DFT investigation

Gorgani S., Samadizadeh M.

摘要

Ab initio calculations are employed to investigate nitrogen inversion as a configuration change that can supply an extremely useful switchable control mechanism for some complex systems. In this paper, the design of a new artificial rotary molecular machine based on nitrogen inversion is discussed. The introduced design of a molecular rotator is based on the reciprocating motion of a substituent due to the inversion phenomenon, leading to the rotary motion in the molecule. Since simple secondary amines easily face the inversion process at room temperature, aziridine is selected as the initial driver for the molecular motion. The most obvious finding from this study is that, following the displacement of the substituent attached to the aziridine nitrogen atom, two rotary motions occurr in the molecule, one clockwise and another counterclockwise with a 39.52° to 150.09° angle domain.

Journal of Structural Chemistry. 2016;57(3):454-458
pages 454-458 views

Structure and properties of Li2–2xMg2+x(MoO4)3 crystals activated by copper ions

Ryadun A., Trifonov V., Nadolinny V., Pavlyuk A., Rakhmanova M.

摘要

By the low-gradient Čzochralski method, both undoped and copper ion activated Li2–2xMg2+x(MoO4)3 crystals are grown. The charge state and structural position of impurity copper ions are determined using EPR. Investigations of the luminescence properties reveal that luminescence with a maximum at λ = 520 nm is observed for Li2–2xMg2+x(MoO4)3 crystals. A decrease in the temperature increases the intensity of this luminescence. It is found that the doping of Li2–2xMg2+x(MoO4)3 crystals with copper ions also increases the luminescence intensity with a maximum at λ = 520 nm. It is supposed that cation vacancies, which provide the charge compensation when copper ions substitute for lithium ions, are responsible for the luminescence.

Journal of Structural Chemistry. 2016;57(3):459-463
pages 459-463 views

Crystal structure and NMR study of 4-amino-1,2,4-triazolium hexafluoridoniobate(V) and hexafluoridotantalate(V)

Davidovich R., Udovenko A., Kavun V., Logvinova V., Tkachev V.

摘要

4-Amino-1,2,4-triazolium hexafluoridoniobate(V) and hexafluoridotantalate(V) (C2H5N4)MF6 (M = Nb, Ta) crystallizing in the monoclinic system (space group P21/n) are synthesized for the first time and their crystal structures and spectroscopic features are studied by single crystal X-ray diffraction and 1H and 19F NMR spectroscopy. The crystal structures of isostructural (C2H5N4)MF6 compounds are formed of octahedral complex [MF6] anions (M = Nb, Ta) and monoprotonated heterocyclic 4-amino-1,2,4-triazolium cations (C2H5N4)+ organized in a three-dimensional structure via N–H···F and N–H···N hydrogen bonds. The character and types of ion motions in the fluoride sublattice of (C2H5N4)MF6 are determined in a wide temperature range.

Journal of Structural Chemistry. 2016;57(3):464-470
pages 464-470 views

Structure and spin crossover in an iron(II) compound with tris(pyrazol-1-yl)methane and the complex Eu(dipic)2(Hdipic)]2– anion

Shakirova O., Lavrenova L., Korotaev E., Kuratieva N., Kolokolov F., Burdukov A.

摘要

An iron(II) complex with tris(pyrazol-1-yl)methane (HC(Pz)3) of the composition [Fe(HC(Pz)3))2]·[Eu(dipic)2(Hdipic)]·2H2O, containing an outer-sphere complex anion, is synthesized. The compound is examined by single crystal and powder X-ray diffraction, UV-Vis and IR spectroscopies, and static magnetic susceptibility. The investigation of the temperature dependence χ(T) in the temperature range 80-470 K reveals that the polycrystalline phase of the compound undergoes spin-crossover 1А15Т2. The transition is accompanied by thermochromism (color change pink ⇔ white).

Journal of Structural Chemistry. 2016;57(3):471-477
pages 471-477 views

Structure and phase transitions of azomethine biligand complexes of iron(III) based on 3,4,5-tri(tetradecyloxy)benzoyloxy-4-salicylidene-N′-ethyl-N-ethylenediamine

Chervonova U., Gruzdev M., Kolker A., Akopova O.

摘要

New biligand complexes of iron(III) are synthesized based on 3,4,5-tri(tetradecyloxy)benzoyloxy-4-salicylidene-N′-ethyl-N-ethylenediamine azomethine with the outer sphere NO3, PF6, Cl, BF4, ClO4, and CNS anions. All the target compounds are characterized by gel exclusion chromatography, elemental analysis, and electron, IR, and NMR spectroscopy. The presence of complex-forming ions is confirmed by FT-IR spectra in the far region. The formation of biligand polychelate complexes with an octahedral packing of the iron ion is observed. Phase transitions in the resulting coordination compounds are studied by differential scanning calorimetry and optical polarizing thermomicroscopy. The presence of several polymorphic crystalline modifications, as well as mesophases, is established. Mesomorphic properties are found for complexes with chloride and tetrafluoroborate anions.

Journal of Structural Chemistry. 2016;57(3):478-490
pages 478-490 views

In silico study of the atomic and electronic structure of quantum dots of the CdTe family doped with atoms of rare earth elements

Kravtsova A., Suchkova S., Fayn M., Soldatov A.

摘要

An in silico study of semiconductor quantum dots of the CdTe family doped with atoms of rare earth elements is performed based of density functional theory. An ab initio computer design of quantum dots based on CdTe nanoparticles doped with Eu и Gd atoms is carried out. Partial densities of states of CdTe:Eu and CdTe:Gd quantum dots are calculated and analyzed. X-ray absorption near edge (XANES) spectra near the Eu K-, L1-, and L3- and Gd K-, L1-, and L3-edges of CdTe:Eu and CdTe:Gd quantum dots are calculated. The sensitivity of XANES spectroscopy for the verification of parameters of a nanosized atomic structure of quantum dots based on CdTe particles doped with atoms of rare earth elements and the determination of the local atomic structure around the atoms of rare earth elements in quantum dots is demonstrated.

Journal of Structural Chemistry. 2016;57(3):491-496
pages 491-496 views

Proper and improper hydrogen bonds in liquid water

Voloshin V., Naberukhin Y.

摘要

The total lifetime distributions for hydrogen bonds in snapshots of molecular dynamics simulations of water serve as a basis to identify a class of proper hydrogen bonds. Proper bonds emerge and break up when restructuring the surrounding area of the hydrogen bond networkwhich weakly depend on the properties of this individual bond, i.e., almost randomly. Therefore, the distribution of the bond lifetimes is described by an exponential function similar to the distribution of the mean free path time in gas. It is shown that proper hydrogen bonds are strong, long-lived, and tetrahedrally oriented bonds. They account for about 80% of the bonds in each snapshot. Thus, these bonds form the basis or framework of the hydrogen bond network of water. The other, improper bonds have a substantially shorter lifetime; these are weak, bifurcated, and quickly switching bonds.

Journal of Structural Chemistry. 2016;57(3):497-506
pages 497-506 views

X-ray diffraction and positron annihilation life-time spectroscopy studies of polymetalloorganosiloxanes

Gardionov S., Shapkin N., Balanov M., Vasilieva V., Razov V., Trukhin V.

摘要

X-ray diffractometry and positron annihilation life-time spectroscopy are applied to study the structural features of polymetallophenylsiloxane (PMOS) samples with the Si/M ratio corresponding to the metal valence state, namely, interplanar spacings (d001), coherentscattering region (CSR) sizes, cross-section areas of polymer chains (s) calculated by the Miller-Boyer method, and the degree of amorphousness (β). It is demonstrated that the direct proportional dependence between the logarithm of the interplanar spacing d001 and the logarithm of the cross-section area s is observed for PMOSs. This is an inverse dependence relative to changes in the crystal chemical ion radius. The extraction of the iron ion from polyferrophenylsiloxane leads to a sharp decrease in the interplanar spacing, which turns out to be less than d001 in polyphenylsiloxanes, and also CSR increases due to a decrease in the diameter of the polymer chain. The positron annihilation life-time spectroscopy data show the observed direct dependence of the annihilation intensity (I3), the annihilation rate (K3), the degree of amorphousness on the PMOS cross-section area.

Journal of Structural Chemistry. 2016;57(3):507-511
pages 507-511 views

Structural role of large cations in sulfides with Cs+ and Tl+

Borisov S., Magarill S., Pervukhina N.

摘要

The results of a crystallographic analysis of the structures of CsFe2S3, Tl2PbZrS4, and Tl2PbGeS4 with a 1:1 cation–anion ratio are used to identify a joint F sublattice for Cs and S in the first compound and two separate F sublattices for cations and anions in the second compound (the PbS structural type). The substitution of the small Ge4+ (with its tetrahedral coordination by sulfur) for Zr4+ in the composition results in an increase in the unit cell volume, i.e., a decrease in the packing density for both cations and anions in the structure of the third compound. In the absence of regular F sublattices, there are “two-dimensional” orderings, typical of the PbS type, for the atomic positions in the projections of this structure.

Journal of Structural Chemistry. 2016;57(3):512-518
pages 512-518 views

Crystallographic analysis of structures associated with a number of Tl- and Ag-containing sulfides: the composition–symmetry correlation

Borisov S., Magarill S., Pervukhina N.

摘要

A crystallographic analysis is conducted of the structures of orthorhombic mineral sicherite TlAg2(As,Sb)3S6, monoclinic synthetic sulfide Tl3Ag3Sb2S6, and triclinic mineral raberite Tl5Ag4As6SbS15. In the first two structures, the large and heavy Tl+ cation forms, together with the other cations, ordered “skeletal” frameworks with F and I cation sublattices that are close to cubic ones. In the structure of raberite, the Tl and Ag cations undergo, together with the sulfur anions, two-dimensional ordering by a zone of closely packed crystallographic planes, which generate a pseudohexagonal symmetry. The deviations from the 1 cation/anion stoichiometry are compensated: in the second structure, by a local consolidation of cations (to a distance Tl–Ag = 2.96 Å) and, in the third structure, through the formation of a dumbbell pair As–Ag (2.68 Å), which occupies one position in the sublattice.

Journal of Structural Chemistry. 2016;57(3):519-527
pages 519-527 views

Synthesis and crystal structure of a trinuclear nickel(II) ONO pincer complex [Ni(pydc)2]2[Ni(H2O)5]·2H2O·2(C6H15N)

Jerome P., Bhuvanesh N., Karvembu R.

摘要

A novel trinuclear nickel(II) ONO pincer complex [Ni(pydc)2]2[Ni(H2O)5]·2H2O·2(C6H15N) (1) (H2pydc = 2,6-pyridinedicarboxylic acid) is synthesized by the reaction between Ni(OAc)2 and H2pydc in acetonitrile in the presence of triethylamine. A detailed study through single crystal XRD reveals that the compound crystallizes in the triclinic space group P-1 with cell parameters a = 11.6646(3) Å, b = 14.0999(4) Å, c = 16.4633(5) Å, α = 80.189(2)°, β = 75.539(2)°, γ = 67.017(2)°. Both terminal Ni(II) centers are coordinated to two ONO pincer ligands (pydc) bridged by the nickel penta aqua unit. Further, triethyl ammonium neutralizes the trinuclear complex.

Journal of Structural Chemistry. 2016;57(3):528-533
pages 528-533 views

Crystal structure of palladium(II) complex with 2,2′-dipyridylamine and 4-toluenesulfonyl-L-serine

Mehdipour E., Bahrami H., Shamaei S., Amani V.

摘要

The [Pd(dpa)(tsser)] complex (1) is prepared from the reaction of PdCl2 and 2,2′-dipyridylamine (dpa) with 4-toluenesulfonyl-L-serine (tsserH2). This complex is characterized by spectral methods (IR, UV-Vis, 1H NMR, and luminescence), elemental analysis, thermal analysis (TG, DTA), and single crystal X-ray diffraction. X-ray structure determinations show that in this complex, PdII atoms are four-coordinated in a distorted square-planar configuration by two N atoms from a bidentate 2,2′-dipyridylamine ligand and one N atom and one O atom from a bidentate tsser2– ligand.

Journal of Structural Chemistry. 2016;57(3):534-541
pages 534-541 views

Crystal structure of a new complex bis(4,4,10,10-tetramethyl-1,3,7,9-tetraazospiro[5.5]undecane-2,8-dione-O)-diaquat-ris(nitrato-O,O′)-lanthanum

Netreba E.

摘要

For the first time, a mononuclear biligand complex of lanthanum nitrate with bicyclic bisurea (4,4,10,10-tetramethyl-1,3,7,9-tetraazospiro[5.5]undecane-2,8-dione, or spirocarbon, Sk) [La(C11H20N4O2)2(H2O)2··(NO3)3] (I) is synthesized and its structure is determined by direct single crystal XRD. The crystals of I are monoclinic: space group P21/c, a = 11.1989(15) Å, b = 13.015(2) Å, c = 24.153(2) Å, β = 101.129(12)°, V = 3454.3(8) Å3, dcalc = 1.618 g/cm3, Z = 4, CCDC 985760. The structure is molecular. The lanthanum cation is coordinated by two oxygen atoms of two organic ligand molecules, two water molecules, and three bidentate nitrate anions. The coordination number of lanthanum is ten; the coordination polyhedron is an irregular 10-vertex polyhedron. The crystal of I represents a non-merohedral twin with the components turned by 180° along the a axis; the relative weights of the components are 0.76:0.24. To confirm the purity of the sample of I, the powder XRD pattern was refined using the Rietveld method; the unit cell parameters at room temperature are as follows: a = 11.2777(4) Å, b = 13.0774(5) Å, c = 24.3453(9) Å, β = 101.129(3)°, V = 3523.0(2) Å3.

Journal of Structural Chemistry. 2016;57(3):542-548
pages 542-548 views

Molecular and crystal structure of 1-(2-hydroxyethyl)-1,2-dihydro-3,4,6-trimethyl-2-oxopyrimidinium iodide: the N-alkylation product of xymedone

Litvinov I., Voronina Y., Galyametdinova I., Shashin M., Semenov V., Reznik V.

摘要

The structure of xymedone iodo methylate is determined by X-ray crystallography. The molecular and crystal structure of the compound is analyzed in comparison with xymedone whose X-ray crystallographic data have been obtained previously. The molecular and electronic structures of both compounds and noncovalent interactions in the ionic pair of xymedone iodo methylate are analyzed using the data of the quantum topological calculations. It is shown that the presence of the iodine anion results in an increase in the delocalization of the π electron density inside the heterocyclic moiety, the charge redistribution inside the molecule, and consequently, in significant distinctions in crystal packings.

Journal of Structural Chemistry. 2016;57(3):549-556
pages 549-556 views

Small-angle X-ray scattering of the gadolinium triacetate–undecane–water system

Mirgorod Y.

摘要

By small-angle X-ray scattering a gadolinium triacetate–undecane–water system is studied at hydrotrope concentrations of 0.05-0.5 М on the line of saturation with undecane at 298 K. In the ternary system mixed hydrotrope/undecane lamellar micelles form with lateral dimensions of hydrophilic and hydrophobic plates of 0.4 nm. It is shown that the Gibbs energy of the hydrophobic interaction and the micelle shape are determined by a joint (cooperative) effect of the hydrotrope and hydrocarbon on water.

Journal of Structural Chemistry. 2016;57(3):557-562
pages 557-562 views

Applications of nuclear magnetic resonance to study the structure of platinum-group metal complexes in aqueous solutions

Fedotov M.

摘要

The review includes comprehensive NMR data on platinum metals (99,101Ru, 103Rh, 105Pd, 187Os, 195Pt) and ligand donor atoms (1H, 13C, 14,15N, 17O, 19F, 31P) of metal complexes in aqueous solutions. A systematic analysis of NMR spectroscopy techniques is presented with focus on the measurements of NMR parameters in these systems. A novel concept referred to as coordinate shift is introduced, allowing interpretation of NMR spectra of platinum metal complexes. The review contains an encyclopedic NMR database covering a period of over 50 years from the first measured NMR spectra of platinum metals to 2014.

Journal of Structural Chemistry. 2016;57(3):563-613
pages 563-613 views

Brief Communications

A comparative study of the radial distribution of hydrogen on C20, C19Si, and C19B cage fullerenes: a Monte Carlo simulation

Nikmaram F.

摘要

The radial distribution of hydrogen on C20(cage) and C19Si(cage), and C19B(cage) fullerene structures is investigated at different temperatures (273 K, 293 K, 320 K, and 400 K) for the pressure range between 1 MPa and 30 MPa using the (N,V,T) Monte Carlo simulation. The gravimetric storage capacity and radial distribution function parameters show that, under the identical temperature and pressure conditions, the magnitude of the hydrogen radial distribution on the C19B surface is larger than that on C19Si and C20. The calculated maximum of the gravimetric storage capacity for C19B at 273 K and 30 MPa is 7.6%.

Journal of Structural Chemistry. 2016;57(3):614-617
pages 614-617 views

Development of a procedure of X-ray study of thin layers by the example of cobalt phthalocyanine

Sukhikh A., Basova T., Gromilov S.

摘要

A procedure of the X-ray diffraction study of thin layers using a single crystal X-ray diffractometer equipped with a microfocus tube is described. It is demonstrated that α-cobalt phthalocyanine layers deposited by thermal vacuum evaporation onto polished surfaces of substrates (glass, quartz) have a perfectly oriented polycrystalline structure. The (00l) planes of all crystallites are oriented along the surface of the substrate. The structural organization of layers is analyzed.

Journal of Structural Chemistry. 2016;57(3):618-621
pages 618-621 views

Molecular structure of 5,7-di(tert-butyl)-2-(6,8-dimethyl-4-chloroquinoline-2-yl)-3-hydroxytropone with two tautomeric forms

Tkachev V., Sayapin Y., Shilov G., Komissarov V., Aldoshin S., Minkin V.

摘要

The structure of 5,7-di(tert-butyl)-2-(6,8-dimethyl-4-chloroquinoline-2-yl)-3-hydroxytropone with a hydrogen atom, possibly equally distributed over two N and O centers and involved in the intramolecular hydrogen bond, is determined by the single crystal X-ray diffraction analysis.

Journal of Structural Chemistry. 2016;57(3):622-624
pages 622-624 views

Crystal structure of [Pb3(OH)4Co(NO2)3](NO3)(NO2)·2H2O

Khranenko S., Kuratieva N., Korolkov I., Gromilov S.

摘要

The structure of [Pb3(OH)4Co(NO2)3](NO3)(NO2)·2H2O is determined by single crystal X-ray diffraction. The crystallographic characteristics are as follows: a = 8.9414(4) Å, b = 14.5330(5) Å, c = 24.9383(9) Å, V = 3240.6(2) Å3, space group Pbca, Z = 8. The Co(III) atoms have a slightly distorted octahedral coordination formed by three nitrogen atoms belonging to nitro groups (Co–Nav is 1.91 Å) and three oxygen atoms belonging to hydroxyl groups (Co–Oav is 1.93 Å). The hydroxyl groups act as μ3-bridges between the metal atoms. The geometric characteristics are analyzed and the packing motif is determined.

Journal of Structural Chemistry. 2016;57(3):625-627
pages 625-627 views

New polymorph of CaHPO4 (monetite): synthesis and crystal structure

Ouerfelli N., Zid M.

摘要

A novel form of anhydrous dicalcium phosphate CaHPO4 (monetite) is synthesized hydrothermally and characterized by single crystal X-ray diffraction. It crystallizes in the orthorhombic space group Ccm21 with a = 6.242(1) Å, b = 6.994(2) Å, c = 7.003(3) Å, V = 305.73(16) Å3 and it has four independent unit formulas in the unit cell (Z = 4). A three-dimensional crystal structure can be described by {HPO4}n infinite zigzag chains linked by Ca–O bonds. The comparison to the crystal structures of other polymorphs is given.

Journal of Structural Chemistry. 2016;57(3):628-631
pages 628-631 views

Crystal structure of 1-cyclohexylpiperazine-1,4-diium dichromate(VI)

Chebbi H., Ben Smail R., Zid M.

摘要

Single crystals of 1-cyclohexylpiperazine-1,4-diium dichromate(VI), (C10H22N2)[Cr2O7], were obtained by slow evaporation at room temperature from an aqueous solution of potassium dichromate, hydrochloric acid and 1-cyclohexylpiperazine. (C10H22N2)[Cr2O7] is triclinic (P\(\bar 1\)) with a = 10.351(2) Å, b = 12.766(3) Å, c = 6.111(1) Å, α = 91.50(2)°, β = 104.26(3)°, γ = 94.91(2)°, V = 778.8(3) Å3, and Z = 2. The structure determination performed from single crystal X-ray diffraction data leads to R1/wR2 reliability factors of 0.032/0.078. The asymmetric unit of the title salt C10H22N22+·Cr2O72−, consists of one 1-cyclohexylpiperazine-1,4-diium dication and one dichromate dianion. These entities are linked together by N–H···O hydrogen bonds to form {(C10H22N2)[Cr2O7]}n infinite chains lying parallel to the (100) plane and running along the c axis. The intermolecular N–H···O hydrogen bonds link these chains into a two-dimensional network structure consolidated through C–H···O weak interactions.

Journal of Structural Chemistry. 2016;57(3):632-635
pages 632-635 views
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