Crystal structure analysis of two terpene derivatives

The crystal structures of two terpene derivatives, 2,4,5,6,7,7a-hexahydro-7a-hydroxy-3,6-dimethyl-2-benzofuranone (compound I) and β-cyclolavandulic acid (compound II), were determined by single-crystal diffractometry. Compound I, C₁₀H₁₄O₃, crystallizes in the orthorhombic space group P2₁2₁2₁ with the unit cell parameters a = 6.715(1) Å, b = 7.043(1) Å, c = 20.292(3) Å, and Z = 4. The six-membered ring has an ideal chair conformation. The five-membered ring is planar. Compound II, C₁₀H₁₆O₂, crystallizes in the monoclinic space group P2₁/n with the unit cell parameters a = 8.446(1) Å, b = 12.156(1) Å, c = 9.901(1) Å, β = 106.29(1)°, and Z = 4. The cyclohexene ring exhibits a half-chair conformation. Both the crystal structures are stabilized by intermolecular O-H?O hydrogen bonds.     

C–H...O,C–H...π and π–π stacking interactions in 3-(2,4-dimethylphenyloxymethyl)-3,4-dihydroisocoumarin

3-(2,4-Dimethylphenyloxymethyl)-3,4-dihydroisocoumarin (C₁₈H₁₈O₃) was prepared by the alkylation of o-lithio N-methyl benzamide with 2-(2,4-dimethylphenoxy)methyl oxirane, followed by alkaline hydrolysis. The compound crystallizes in the orthorhombic space group Pbca with unit cell parameters : a = 8.239(2) Å, b = 14.918(5) Å, c = 24.831(9) Å, Z = 8. The crystal structure was solved by direct methods and refined to R = 0.0514 for 1564 observed reflections. The heterocyclic ring adopts a distorted half-chair conformation. Molecules are connected by π–π interactions between phenyl rings of the isocoumarin nucleus forming dimers. Dimers are connected via C–H...O hydrogen bonds forming chains. Further intermolecular C–H...π hydrogen bonds link the dimer chains to form supramolecular structure.     

Crystal structure analysis of 4-phenylquinolin-2-(1<Emphasis Type="Italic">H</Emphasis>)-one

The crystal structure of 4-phenylquinolin-2-(1H)-one (C₁₅H₁₁NO) is determined by X-ray diffraction. The compound crystallizes in the orthorhombic crystal system (space group Pbca) with the unit cell parameters a = 7.382(2) Å, b = 21.795(3) Å, c = 14.066(5) Å, and Z = 8. The structure is solved by direct methods and refined to an R-value of 0.0398 for 1360 observed reflections [F₀ > 4σ (F₀)]. The quinoline moiety and the substituted phenyl ring are nearly planar. The dihedral angle between these two moieties is 64.65(6)°. The crystal structure is stabilized by two intermolecular N-H?O and C-H?O interactions.     

X-ray diffraction investigation of <Emphasis Type="Italic">trans</Emphasis>-2,8-dihydroxy-2,4,4′, 6,6′,8,10,10′,12,12′-decamethyl-5,11-dicarbacyclohexasiloxane and <Emphasis Type="Italic">trans</Emphasis>-1,4-dihydroxy-1,4-dimethyl-1,4-disilacyclohexane

The crystal structures of two organosilicon compounds are studied by X-ray diffraction. Crystals of trans-2,8-dihydroxy-2,4,4′,6,6′,8,10,10′,12,12′-decamethyl-5,11-dicarbacyclohexasiloxane, C₁₂H₃₆O₆Si₆, (I) are studied at 293 K [a = b = 16.310(4) Å, c = 9.849(3) Å, V = 2620(1) ų, d_calcd = 1.128 g/cm³, space group P4(2)/n, Z = 4, 3370 reflections, wR2 = 0.1167, R1 = 0.0472 for 2291 reflections with F > 4σ(F)]. Crystals of trans-1,4-dihydroxy-1,4-dimethyl-1,4-disilacyclohexane, C₆H₁₆O₂Si₂, (II) are studied at 110 K [a = 6.8253(5) Å, b = 9.5495(8) Å, c = 12.0064(10) Å, α = 101.774(2)°, β = 102.203(2)°, γ = 95.068(2)°, V = 741.8(1) ų, d_calcd = 1.184 g/cm³, space group \(P\bar 1\), Z = 3, 6267 reflections, wR2 = 0.1052, R1 = 0.0421 for 3299 reflections with F > 4σ(F)]. It is found that the conformation of the ring in compound I, which contains two methylene groups in the cyclohexasiloxane ring, differs from those in its analogues containing only oxygen atoms or one methylene group in the ring. The noticeable difference between the SiCSi angle [123.0(2)°] and the tetrahedral angle is characteristic of cyclohexasiloxanes. Structure II contains three independent molecules with very close conformations. The cyclohexane rings adopt a chair conformation. The methylene groups in II, in distinction to those in I, are characterized by a standard tetrahedral coordination.     

New data on vlasovite: Refinement of the crystal structure and the radiation damage of the crystal during the x-ray diffraction experiment

The crystal structure of vlasovite obtained from the Kipawa alkaline complex in Quebec is refined to R _F = 0.053 for 1515 unique reflections with |F| > 4σ(F). The parameters of the monoclinic unit are as follows: a = 11.063(8) Å, b = 10.15(1) Å, c = 8.60(1) Å, β = 100.3(1)°, space group C2/c, and Z = 4. The X-ray diffraction, electron microprobe, and IR spectroscopic data indicate that, under X-ray radiation, the specimen suffers radiation damage, which is accompanied by a partial removal of Na atoms, incorporation of H₂O molecules into the structure, and, possibly, a change in the configuration of the (Si,O) framework.     

Synthesis,characterization, and crystal structure of 5,5″-Difluoro-1<Emphasis Type="Italic">H</Emphasis>,1″<Emphasis Type="Italic">H</Emphasis>-[3,3′:3′,3″-terindol]-2′(1′<Emphasis Type="Italic">H</Emphasis>)-one

The new indole derivative, 5,5′′-Difluoro-1H,1′′H-[3,3′:3′,3′′-terindol]-2′(1′H)-one C₂₄H₁₅F₂N₃O, is synthesized in 87% yield, and its crystal structure is determined by X-ray structure analysis. The crystals are monoclinic, sp. gr. P2₁/n, a = 15.4563(7), b = 10.8340(6), c = 16.4718(6) Å, β = 102.403(4)°, Z = 4. Bicyclic indole moieties form dihedral angle of 61.92(5)° with each other; the oxindole ring is twisted with respect to them at angles of 85.70(5)° and 75.62(5)°. The crystal structure is stabilized by N–H···O and C–H···O hydrogen bonds involving both the DMSO solvent molecules. In addition, one C–H···π interaction is observed.     

Structural characteristics of a new cation-deficient representative of the labuntsovite group

The crystal structure of a new representative of the labuntsovite group from the Khibiny massif (the Kola Peninsula) has been refined. The unit-cell parameters are a = 14.298(7) Å, b = 13.816(7) Å, c = 7.792(3) Å, β = 116.85(5)°, V = 1373.3 ų, sp. gr. C2/m, R^aniso = 0.047, 1084 reflections with F > 4σ (F). The mineral differs from lemmleinite-Ba and other members of the group by the predominance of the vacancies in two key cationic positions—C position is occupied by Ba cations (37%) and D position is occupied mainly by Mn cations (47%).     

Crystal structure of low-symmetry rondorfite

The crystal structure of an aluminum-rich variety of the mineral rondorfite with the composition Ca₁₆[Mg₂(Si₇Al)(O₃₁OH)]Cl₄ from the skarns of the Verkhne-Chegemskoe plateau (the Kabardino-Balkarian Republic, the Northern Caucasus Region, Russia) was solved in the triclinic space group with the unit-cell parameters a = 15.100(2) Å, b = 15.110(2) Å, c = 15.092(2) Å, α = 90.06(1)°, β = 90.01(1)°, γ = 89.93(1)°, Z = 4, sp. gr. P1. The structural model consisting of 248 independent atoms was determined by the phase-correction method and refined to R = 3.8% with anisotropic displacement parameters based on all 7156 independent reflections with 7156 F > 3σ(F). The crystal structure is based on pentamers consisting of four Si tetrahedra linked by the central Mg tetrahedron. The structure can formally be refined in the cubic space group (a = 15.105 Å, sp. gr. Fd \(\overline 3 \), seven independent positions) with anisotropic displacement parameters to R = 2.74% based on 579 reflections with F > 3σ(F) without accounting for more than 1000 observed reflections, which are inconsistent with the cubic symmetry of the crystal structure.     

On the structural basis of the presence of two optical axes in α-HIO<Subscript>3</Subscript> crystal

An X-ray diffraction study of α-HIO₃ crystal has been performed with the following results: sp. gr. P2₁2₁2₁, Z = 4, a = 5.5360(3) Å, b = 5.8723(6) Å, c = 7.7291(5) Å, and R factors R(F)/wR(F) = 0.86/0.69%. Disordering of iodine site is revealed, which is described in terms of anharmonic atomic displacements. Packing (likely unique) of all structure atoms over two systems of planes rotated by an angle close to the rotation of optical axes (47°) is revealed. The rotation of the plane of polarization of light based on the structural data is calculated for the first time for the α-HIO₃ crystal.     

Crystal structure of <Emphasis Type="Italic">p</Emphasis>-carboxyphenylhydrazone benzoylacetone

The crystal structure of p-carboxyphenylhydrazone benzoylacetone is determined. The crystals are monoclinic, a = 13.614(4) Å, b = 11.388(2) Å, c = 20.029(6) Å, β = 104.82(2)°, V = 2339(9) ų, Z = 8, space group C2/c, and R = 0.038 for 1622 reflections with I > 2σ(I). The crystal is built of C₁₇H₁₄N₂O₄ neutral molecules that are linked by O-H?O hydrogen bonds between the carboxyl groups into centrosymmetric pseudodimers. The effect of carboxylation of the phenylhydrazone fragment and the position of the carboxyl group on the molecular packing in the crystal is determined. The N(1)-H(1N)?O(1) intramolecular hydrogen bond (N-H, 0.94 Å; H?O, 1.87 Å; N?O, 2.59 Å; and the N-H?O angle, 133°) is formed in the molecule.     

Investigation of the crystallization features,atomic structure,and microstructure of chromium-doped monticellite

A series of Cr⁴⁺:CaMgSiO₄ single crystals is grown using floating zone melting, and their microstructure, composition, and crystal structure are investigated. It is shown that regions with inclusions of second phases, such as forsterite, akermanite, MgO, and Ca₄Mg₂Si₃O₁₂, can form over the length of the sample. The composition of the single-phase regions of the single crystals varies from the stoichiometric monticellite CaMgSiO₄ to the solid solution Ca_{(1 ? x)}Mg_{(1 + x)}SiO₄(x = 0.22). The Cr:(Ca_0.88Mg_0.12)MgSiO₄ crystal is studied using X-ray diffraction. It is revealed that, in this case, the olivine-like orthorhombic crystal lattice is distorted to the monoclinic lattice with the parameters a = 6.3574(5) Å, b = 4.8164(4) Å, c = 11.0387(8) Å, β = 90.30(1)^o, Z = 4, V = 337.98 ų, and space group P2₁/c. In the monoclinic lattice, the M(1) position of the initial olivine structure is split into two nonequivalent positions with the center of symmetry, which are occupied only by Mg²⁺ cations with the average length of the Mg-O bond R _av = 2.128 Å. The overstoichiometric Mg²⁺ cations partially replace Ca²⁺ cations (in the M(2) position of the orthorhombic prastructure) with the average bond length of 2.347 Å in the [(Ca,Mg)-O₆] octahedron. The average distance in SiO₄ distorted tetrahedra is 1.541 Å.     

Crystal structure and spectral characteristics of 2,4,7-trinitro-9-fluorenone

The crystal structure of 2,4,7-trinitro-9-fluorenone C₁₃H₅N₃O₇ is determined by X-ray diffraction analysis. The crystals are monoclinic, a = 4.024(1) Å, b = 16.763(3) Å, c = 18.250(4) Å, β = 96.32(3)°, V = 1223.6(5) ų, Z = 4, space group P2₁/c, and R = 0.0640 for 605 reflections with I > 2σ(I). The crystal is built of planar isolated molecules. The compound is characterized using IR and electronic absorption spectroscopy.     

Synthesis and Crystal Structure Studies of a Novel Bioactive Heterocycle: 1-Benzhydryl-4-phenylmethane Sulfonyl Piperazine

1-Benzhydryl-4-phenylmethane sulfonyl piperazine was synthesized from 1-benzhydryl piperazine with phenylmethane sulfonyl chloride. The product obtained was characterized by ¹H NMR, MS and IR techniques and finally confirmed by X-ray crystallography. The title compound C₂₄H₂₆N₂O₂S, M _r   =   406.53, crystallizes in the orthorhombic crystal class in the space group Pbca with unit cell parameters a  =  11.1240(10)Å, b  =   9.4940(15)Å, c  =  40.239(4)Å, Z  =  8 and V = 4249.7(9)ų. The structure was solved by direct methods and refined to R ₁=0.0561 for 2,445 reflections with [I > 2 σ(I)]. The piperazine ring adopts a chair conformation. The sulfonyl moiety is in a distorted tetrahedral configuration.     

X-ray structure analysis of 4-cyano-4′-<Emphasis Type="Italic">n</Emphasis>-undecyloxybiphenyl

The structure of a liquid crystal of 4-cyano-4′-n-undecyloxybiphenyl (C₂₄H₃₁NO) is determined by X-ray diffraction. The compound crystallizes in the monoclinic crystal system (space group C2/c) with the unit cell parameters a = 84.108(7) Å, b = 7.159(2) Å, c = 6.922(2) Å, and β = 91.6(4)°. The structure has been solved by direct methods and refined to the residual index R₁ = 0.067. Both phenyl rings are almost planar, and the dihedral angle between these rings is 31.5(6)°.     

Crystal and molecular structures of [Co(<Emphasis Type="Italic">D</Emphasis>H)(<Emphasis Type="Italic">o-phen</Emphasis>)<Subscript>2</Subscript>][BF<Subscript>4</Subscript>]<Subscript>2</Subscript> · 2H<Subscript>2</Subscript>O

The crystal structure of a new mixed-ligand complex [Co(DH)(o-phen)₂][BF₄]₂ · 2H₂O is determined by X-ray diffraction. The crystal is monoclinic, a = 12.2081(11) Å, b = 14.3474(9) Å, c = 17.7393(16) Å, β = 104.95(1)°, and space group P2₁/c. The coordination octahedron of Co³⁺ is formed by two nitrogen atoms of the dimethylglyoxime molecule and four nitrogen atoms of o-phenanthroline molecules. The dimethylglyoxime molecule is singly deprotonated and acts as DH^?. The mean Co-N distances for dioxime and o-phenanthroline are 1.911 and 1.964 Å, respectively. The key role in the formation of the crystal structure is played by [BF₄]^? outer-sphere anions and crystallization water molecules, which form an extended hydrogen-bond system.     

Crystal Structure of Liguzinediol, 2,5-Dimethylol-3,6-dimethylpyrazine

The 2,5-dimethylol-3,6-dimethylpyrazine, C₈H₁₂N₂O₂, liguzinediol, has been recently discovered as a potential agent for the treatment of heart failure with low safety risk. The crystal structure of liguzinediol, which has been determined by single-crystal X-ray diffraction analysis, is reported for the first time. The liguzinediol crystal may be obtained from 50% ethanol or ethyl acetate. The compound crystallizes in the monoclinic system with the sp. gr. P2₁/n and the unit cell parameters a = 4.0560(8) Å, b = 12.280(3) Å, c = 8.5370(17) Å, β = 96.93(3)°, Z = 2. The molecule forms S₂-symmetric conformation in the crystal. The hydroxyl H atom forms short intermolecular contacts with the neighbouring pyrazine N atom, which forms the weak hydrogen bonds in the crystal.     

Refinement of the crystal structure of Zn-containing greifensteinite

The crystal structure of Zn-containing greifensteinite from the Pirineus Mine (Minas Gerais, Brazil) was refined (R = 0.045, 562 reflections with |F| > 2σ(F)). The unit-cell parameters are a = 15.941(3) Å, b = 11.877(3) Å, c = 6.625(2) Å, β = 95.09(2)°; V = 1249.4 ų; sp. gr. C2/c; and Z = 2. The idealized formula is [Mn(Fe²⁺, Zn)₄]Ca₂Be₄(PO₄)₆(OH)₄ · 6H₂O. The mineral is isostructural with the previously studied monoclinic representatives of the roscherite group from different deposits and differs from these representatives in that it contains Zn in one of two octahedral positions.     

Crystal structure of the molecular complex of 3-[1-(4-nitrophenyl)-3-oxobutyl]-4-hydroxychromen-2-one with ethanol

The crystal structure of 2,3H-2-methyl-4-(4-nitrophenyl)-5-oxobenzopyrano[3,4-e]dihydropyran-2-ol is investigated using X-ray diffraction. The unit cell contains an ethanol molecule that forms hydrogen bonds with O-H and C-O groups of two molecules of the main compound and acts as a proton donor and a proton acceptor in these hydrogen bonds. Owing to these interactions, infinite chains are formed in the crystal. The crystallographic data for the structure of C₁₉H₁₅NO₆·C₂H₅OH (M = 399.39) are as follows: the crystals are triclinic, space group P1, a = 5.5340(3) Å, b = 8.0109(4) Å, c = 11.0112(5) Å, α = 88.773(2)°, β = 84.788(2)°, γ = 79.958(2)°, and Z = 1.     

X-ray crystallography of methyl (6-amino-5-cyano-2-methyl-4-(2-nitrophenyl)-4<Emphasis Type="Italic">H</Emphasis>-pyran)-3-carboxylate

The organic carbonitrile namely methyl (6-amino-5-cyano-2-methyl-4-(2-nitrophenyl)-4H-pyran)- 3-carboxylate is synthesized via one-pot multi-component reaction at room temperature using commercially available urea as inexpensive and environmentally benign organo-catalyst and its crystal structure is determined by X-ray technique. The crystals are monoclinic, sp. gr. C2/c, a = 12.3069(8) Å, b = 9.7023(7) Å, c = 24.812(2) Å, β = 94.862(6)°, Z = 8. The dihedral angle between pyran and phenyl rings is 87.8(1)°; the pyran ring is almost planar The dihedral angle between the mean planes of phenyl ring and nitro group is 44.4(2)°. The crystal structure is stabilized by N?H···N and N?H···O hydrogen bonds. In addition, C?H···π interactions are also observed in the crystal structure.     

Crystal Structure of 3′-(4-Methoxyphenyl)-2-Phenyl-4′-(4-Ethoxyphenyl)-1,2-Dihydro-4H,4′H-Spiro [Isoquinoline-3,5′-Isoxazol]-4-One

The title compound, 3′-(4-methoxyphenyl)-2-phenyl-4′-(4-ethoxyphenyl)-1,2-dihydro-4H,4′H-spiro[isoquinoline-3,5′-isoxazol]-4-one was synthesized from the reaction of dipolarophile with p-methoxybenzadoxime in the presence of sodium hypochlorite in chloroform solution. The structure of the synthesized compound was determined by IR, ¹H NMR, mass spectroscopic data, ¹³C NMR spectroscopy, elemental analysis and X-ray crystallography. The structure was solved in monoclinic, space group C2/c with a = 21.941 (4), b = 17.233 (3), c = 15.404 (3) Å, β = 122.193 (2), V = 4928.9 (16) Å³, Z = 8 and with R_int = 0.154. The geometry of the title compound showed that the piperidine ring adopts a half-chair conformation. In the crystal structure, molecules are linked by C–H···O and C–H···N contacts. Weak C–H···π interactions plays an important role in stabilizing the supramolecular structure.