The stereochemistry of organosulfur compounds. XX. The x-ray crystal and molecular structures of two tetrathiaspiroalkanes

The X-ray crystal structures of 1,4,6,9-tetrathiaspiro[4.4]nonane (4) and 1,5,7,11-tetrathiaspiro[5.5]undecane (3) have been determined. Crystals of4 are tetragonal, space groupI4₁ cd, with eight molecules in a unit cell of dimensionsa=9.521 (2) andc=19.052(5) Å. Crystals of3 are orthorhombic,Pbca, with eight moleucles in a cell havinga=8.955(3),b=12.356(4), andc=18.425(4) Å. Compound4 was solved from the Patterson map and3 by use ofMultan, and they refined to finalR values of 6.4 and 2.5%, respectively. Compound4 consists of two 1,3-dithiolane rings connected via C(2), both of which appear to be somewhat disordered at room temperature. The uncorrected C-C distance is 1.476 Å and the average S-C distance is 1.786 Å. Compound3 consists of two 1,3-dithiane rings connected at C(2), both in chair conformations. In both compounds there appear to be electronic repulsions between S lone pairs and axial hydrogens of the opposite ring system. Analysis of endocyclic torsion angles in3 indicates that the ring conformations themselves are not significantly altered by the positional shift caused by the repulsion.     

Methods,Syntheses and Characterization of Diaryl,Aryl Benzyl,and Dibenzyl Sulfides

Twenty-four aryl benzyl sulfides, diaryl sulfides and dibenzyl sulfides were synthesized by four methods and characterized by ¹H NMR, FT-IR and Gas chromatography. The reaction conditions of different synthesis methods were studied from the aspects of time, solvent, base and dispersant. The molecular structures of benzylphenyl sulfide (2S), (4-tert-butylbenzyl)(4-methylphenyl) sulfide (4S), (4-methylbenzyl)(4-methylphenyl) sulfide (9S), di(4-methylphenyl) sulfide (11S), (3,5-dimethylphenyl)(4-methyl phenyl) sulfide (15S), and dibenzyl sulfide (19S) [22] have been determined by single-crystal X-ray crystallography. Compounds 2S and 15S crystallize in the monoclinic space group P2₁/c, with a?=?12.278(3), b?=?15.894(3), c?=?5.6056(11) Å, β?=?94.532(2)°, and Z?=?4 for 2S, and a?=?9.800(9), b?=?7.950(7), c?=?16.690(15) Å, β?=?100.890(12)°, and Z?=?4 for 15S. The unit cell of 4S has a triclinic Pī symmetry with the cell parameters a?=?6.0436(10), b?=?8.7871(14), c?=?15.535(2) Å, α?=?81.921(2)°, β?=?81.977(2)°, γ?=?80.889(2)°, and Z?=?2. Compounds 9S and 11S both crystallize in the orthorhombic space group P2₁2₁2₁, with a?=?6.188(3), b?=?8.041(4), c?=?26.005(14) Å, and Z?=?4 for 9S, and a?=?5.835(2), b?=?8.010(3), c?=?25.131(9) Å, and Z?=?4 for 11S.

Graphic Abstract

Twenty-four aryl sulfide compounds with different substituents were synthesized and characterized, and the molecular structures of six different sulfide compounds have been determined by single-crystal X-ray crystallography.

     

An X-ray Crystallographic Study of the Related Triazenes, 1,4-Di[(<Emphasis Type="Italic">E</Emphasis>)-2-(2-nitrophenyl)-1-diazenyl]piperazine and Methyl 4-{(E)-2-(4-methylpiperazino)-1-diazenyl}benzoate

Abstract The crystal structures of methyl 4-{(E)-2-(4-methylpiperazino)-1-diazenyl}benzoate (2a) and 1,4-di[(E)-2-(2-nitrophenyl)-1-diazenyl]piperazine (3a) have been determined by single crystal X-ray diffraction analysis. The bis-triazene (3a) adopts an unusual pseudo-boat conformation in the piperazine ring, with a dihedral angle of 52.20(0.06)° between the two planes defined within the piperazine ring. The crystal structures of 2a and 3a are compared with the structure of the triazene (4) and the closely related bis-triazene (5). The piperazine ring of 2a adopts a typical chair conformation, whereas the piperazine ring of 3a adopts an unusual boat conformation. Crystal data: 2a C₁₃H₁₈N₄O₂, monoclinic, space group P2₁ /n, a = 13.849(3) ?, b = 6.577(1) ?, c = 14.904(3) ?, α = 90°, β = 96.098(3)°, γ = 90° and V = 1,349.8(4) ?³, for Z = 4. 3a C₁₆H₁₆N₈O₄, triclinic, space group P-1, a = 7.6066(6) ?, b = 8.3741(7) ?, c = 14.507(1) ?, α = 78.673(1)°, β = 81.877(1)°, γ = 73.445(1)° and V = 865.0(1) ?³, for Z = 2. Index abstract The crystal structures of methyl 4-{(E)-2-(4-methylpiperazino)-1-diazenyl}benzoate (2a) and 1,4-di[(E)-2-(2-nitrophenyl)-1-diazenyl]piperazine (3a) have been determined by single crystal X-ray diffraction analysis.     

Synthesis and Molecular Structures of Carboxylic Acid Group Bearing Two Ketoimines that Exist in Enaminone Form

Abstract  

Condensation reaction involving substituted aminobenzoic acids (2-aminobenzoic acid and 4-aminobenzoic acid) and acetylacetone results in the formation of ketoimines [CH₃C(= O)CH₂C(CH₃)(= NAr)] (Ar = C₆H₄COOH-4; 1 and C₆H₄COOH-2 2). Compounds 1 and 2 have been characterized by spectroscopic techniques and by single crystal X-ray diffraction studies. The absorption, emission and life-time measurement studies have also been performed for the new compounds. While compound 1 forms a linear chain type of aggregation though intermolecular hydrogen bonding, compound 2 forms a discrete dimer in the solid state.     

Two novel two-dimensional frameworks with channels built from hydrogen bonds: Structures and properties study on copper(II) and nickle (II) complexes of the macrocyclic ligand 1,4,7-triazacyclodecane (tacd)

Two novel supramolecular complexes [Cu(tacd)₂](C₄H₃O₄)₂ (1) and [Ni(tacd)₂]Cl₂·4H₂O (2) were synthesized and their structures were characterized by elemental analysis, IR spectrum, TGA and single-crystal X-ray analysis. The results indicated that the complexes 1 and 2 assemble into different 2D supramolecular net-work structures with channels via hydrogen bonds interaction. TGA curves showed the steps of weight-loss for 1 and 2.     

Synthesis,structures, and luminescent properties of a series of coordination compounds based on O,N-donor ligands

Four novel coordination compounds, namely, [Cd₂(pydc)₂(bpp)₂(H₂O)₂]? bpp?2H₂O (1), [Zn(Hpydc)₂]?3H₂O (2), [Cd(dhb)₂(phen)₂] (3), and [Zn(L)(phen) (H₂O)] (4) (H₂pydc?=?2,6-pyridinedicarboxylic acid, Hdhb?=?2,6-dihydroxybenzoic acid, H₂L?=?5-((2'-cyano-1,1'-biphenyl-4-yl) methoxy)isophthalic acid, bpp?=?1,3-bis(4-pyridyl)propane, and phen?=?1,10-phenanthroline) have been hydrothermally synthesized and characterized by IR spectroscopy, thermogravimetric analysis and X-ray single crystal diffraction analyses. Compounds 1, 2 and 3 feature zero-dimensional (0D) structures and 1 is further extended to one-dimensional (1D) chain structure through C-H???O hydrogen bonding interactions. Compound 4 exhibits 1D chain structure. The luminescent properties of compounds 3 and 4 have also been studied.     

Two Novel Three-dimensional Networks Constructed by Mn or Cd Ion and Tartrate: Syntheses,Structures and Properties

Abstract  

Two coordination polymers with the same ligand but different metal ion [Cd(C₄H₄O₆)] _n (1) and [Mn₂(C₄H₄O₆)₂(H₂O)] _n (2) (C₄H₄O₆ = tartrate dianion) have been synthesized. Compound 1 exhibits novel (4, 4)-connected 3-D network with (4.6.8⁴)₄(4.6².8².10)(4.6².8³)(4.6³.8²)₄(4.8⁵)₂ topology, Cd centers are connected by η⁶, μ⁴-mode tartrate ligands. For compound 2, Mn centers are link by η⁶, μ⁴-mode and η⁵, μ³-mode tartrate ligands to form (4, 3)-connected 3-D network with (4.8²)(4.8⁴.10) topology. Additionally, 1 displays an intense luminescent emission and 2 displays weak antiferromagnetic coupling.     

Diels-Alder reactions of 2,3-bis-(phenylthio)-1,3-butadiene: X-ray and NMR structural investigations ofcis andtrans-1,2-bis-(phenylthio)-4,5-dimethoxycarbonyl-1-cyclohexene

The Diels-Alder reaction of 2,3-bis-(phenylthio)-1,3-butadiene (4), derivedin situ by thermal extrusion of sulfur dioxide from 3,4-bis-(phenylthio)-2,5-dihydrothiophene-1,1-dioxide (3), with dimethyl fumarate gavetrans-1,2-bis-(phenylthio)-4,5-dimethoxycarbonyl-1-cyclohexene (1). Similarly, the reaction of4 with maleic anhydride gavecis-4,5-bis-(phenylthio)-4-cyclohexene-1,2-dicarboxylic anhydride(5), which was converted intocis-1,2-bis-(phenylthio)-4,5-dimethoxycarbonyl-1-cyclohexene (2). The characterization of1 and2 included a single-crystal X-ray diffraction study of 1, simulations of portions of their¹H NMR spectra, and homonuclear decoupling experiments. The cyclohexene rings of1 and2 are in half-chair conformations with diequatorial and axial-equatorial diester groups, respectively.     

X-ray diffraction study of p -(alkoxybenzylidene)- p ′-toluidines C2H5O-C6H4-CH=N-C6H4-CH3 and C4H9O-C6H4-CH=N-C6H4-CH3

The molecular and crystal structures of two p-alkoxybenzylidene)-p′-toluidines C₂H₅O-C₆H₄-CH=N-C₆H₄-CH₃ (1) and C₄H₉O-C₆H₄-CH=N-C₆H₄-CH₃ (2) are determined by X-ray diffraction. Crystals 1 and 2 contain four and two crystallographically independent molecules, respectively. In 1, the geometry of the independent molecules is almost identical. In 2, the independent molecules differ in the conformation of the alkyl chain, which is disordered in one of them. An analysis of the crystal packing of 2 reveals the alternation of spacious layers formed by loosely packed aliphatic fragments of molecules and layers of closely packed aromatic fragments, which ensures the formation of the mesogenic phase in the course of melting of crystals 2. In crystal 1, loose aliphatic layers are absent. Original Russian Text ? L.G. Kuz’mina, N.S. Kucherepa, M.N. Rodnikova, 2008, published in Kristallografiya, 2008, Vol. 53, No. 6, pp. 1072–1078.     

Crystal structure and vibrational spectra of polyamine-copper(II) complexes

The structures of [Cu(en)(H₂O)₂]SO₄ (I), [Cu(en)₂](NO₃)₂ (II) and [Cu(trien)I]I (III) have been determined by single crystal X-ray diffraction. ComplexI is monoclinic, space group C2/c, with unit cell parametera=7.232(1),b=11.725(2),c=9.768(1), =105.50(1)°, andZ=4. ComplexII is also monoclinic, space group P2₁/a, witha=7.978(2),b=9.982(4),c=8.218(3), =111.11(2)°, andZ=2. ComplexIII is orthorhombic, space group P2₁2₁2₁, witha=8.098(1),b=11.902(1),c=13.682(2), andZ=4. The structures were solved by direct methods and refined by full-matrix least-squares to finalR values of 0.031, 0.043 and 0.036 for complexesI, II, andIII, respectively. ComplexesI andII show an octahedral coordination geometry. ComplexIII shows a square pyramidal coordination geometry. ComplexI forms infinite monodimensional chains where the SO ₄ ^2– ions acts as a bridge between two neighboringen molecules. The vibrational spectra of these complexes agree well with their crystal structures. Structure and stability of seven other related Cu(II) complexes of (trien), (dien)₂, (en)₂ and (en) are inferred in this study.     

One Novel Three-dimensional Network Constructed from [Mn(4,4′-bip)<Subscript>2</Subscript>(OH<Subscript>2</Subscript>)<Subscript>4</Subscript>]<Superscript>2+</Superscript> Cations and DBA<Superscript>2−</Superscript> Anions via Hydrogen-bonding and π–π Interactions

Abstract One new mononuclear manganese complex of [Mn(4,4′-bip)₂(OH₂)₄](DBA) · 4H₂O (1) (4,4′-bipyridine, 4,4′-bip; H₂DBA, benzene-1,3-dicarboxylic acid) has been obtained from the hydrothermal reaction of MnCl₂ · 4H₂O, 4,4′-bipyridine and H₂DBA in the solvent of H₂O at 140 °C for 3 days, characterized by X-ray analysis, spectroscopic methods, and thermal analysis. Packing diagram shows that the three-dimensional network was formed via hydrogen bonds and strong π–π interactions. Graphical abstract One Novel Three-dimensional Network Constructed from [Mn(4,4′-bip) ₂ (OH ₂ ) ₄ ] ²⁺ Cations and DBA ²⁻ Anions via Hydrogen-bonding and π–π Interactions Ying Liu, Bao Zhang, Jian-min Dou, Da-qi Wang, Da-cheng Li, Lei Zhou One new mononuclear manganese complex of [Mn(4,4’-bip)₂(OH₂)₄](DBA) · 4H₂O (1) (4,4’-bipyridine, 4,4’-bip; H₂DBA, benzene-1, 3-dicarboxylic acid) has been obtained and haracterized by X-ray analysis, spectroscopic methods, and thermal analysis. Packing diagram shows that the three-dimensional network was formed via hydrogen bonds and strong π-π interactions.      

Syntheses,Structural Characterization and Thermoanalysis of Transition-Metal Compounds Derived from 3,5-Dinitropyridone

Abstract  

Nine metal compounds of Mn(II), Zn(II) and Cd(II) derived from dinitropyridone ligands (3,5-dinitropyrid-2-one, 2HDNP; 3,5-dinitropyrid-4-one, 4HDNP and 3,5-dinitropyrid-4-one-N- hydroxide, 4HDNPO) were characterized by elemental analysis, FT-IR and partly by TG-DSC. Three of which were further structurally characterized by X-ray single-crystal diffraction analysis. The structures of the three compounds, Mn(4DNP)₂(H₂O)₄, 4, Zn(4DNPO)₂(H₂O)₄, 8, and Cd(4DNPO)₂(H₂O)₄, 9, crystallize in the monoclinic space group P2(1)/n and Z = 2, with a = 8.9281(9), b = 9.1053(9), c = 10.6881(11) Å, β = 97.9840(10)° for 4; a = 8.4154(7), b = 9.9806(8), c = 10.5695(8) Å, β = 97.3500(10)° for 8; a = 8.5072(7), b = 10.2254(8), c = 10.5075(8) Å, β = 96.6500(10)° for 9. All three complexes are octahedral consisting of four equatorial water molecules, and two nitrogen or oxygen donor ligands (DNP or DNPO). The abundant hydrogen-bonding and π-π stacking interactions seem to contribute to stabilization of the crystal structures of the compounds. The TG-DTG results revealed that the complexes showed a weight loss sequence corresponding to all coordinated water molecules, nitro groups, the breaking of the pyridine rings and finally the formation of metal oxides.     

The crystal and molecular structures of rac-threo-ifenprodil and two other 4-benzylpiperidinyl derivatives

The crystal structures of threo-ifenprodil [threo-2-(4-benzyl-piperidin-1-yl)-1-(4-hydroxyphenyl)-propan-1-ol] (1), potent NMDA receptor antagonist, and two related, biologically active compounds: threo-2-(4-benzyl-piperidin-1-yl)-1-(4-fluorophenyl)-propan-1-ol (2) and 4-benzyl-1-phenethyl-piperidinium chloride (3) have been determined by X-ray structure analysis of single crystals. Compound 1 crystallizes in an orthorhombic system, with a space group Pna2₁ (a = 34.843(3) Å, b = 6.0261(13) Å, c = 8.9343(9) Å), compound 2 – in a monoclinic space group P2₁/c (a = 14.194(1) Å, b = 6.2831(6) Å, c = 20.948(1) Å, = 101.762(6)), and compound 3 – in an orthorhombic space group Pbca (a = 10.4627(8) Å, b = 11.2166(6) Å, c = 31.669(2) Å). The piperidine rings are close to ideal chair conformations, the substituents are in equatorial positions. Overall shapes of the molecules, defined by the dihedral angles between the terminal aromatic rings, are very similar in all three cases. In 1 and 3 the crystal packing is mainly determined by the hydrogen bonds, while in case of 2 – by weak van der Waals interactions. The molecules of 1 and 3 are disordered, and the disorder is caused by a rotation around the N–C bond.     

Structure of 2-[(Phenyl)-(3,5-Dimethyl-Pyrazol-1-yl)-Methyl]-Malonic Acid Diethyl Ester

Abstract  

The titled new functionalized ligand of type 2-[(phenyl)-(3,5-dimethyl-pyrazol-1-yl)-methyl]-malonic acid diethyl ester (4) is prepared in good yield through condensation of 3,5-dimethyl-pyrazole, with 2-arylidene-malonic acid diethyl esters 3. The structure of 4 was determined by spectral (IR, ¹H and ¹³C NMR), elemental analyses and X-ray diffraction data. The title compound (4) crystallizes in the monoclinic space group P2₁/a, with a = 7.9253 (2), b = 17.1299 (5), c = 13.4522 (4) ?, β = 90.220 (2)°, V = 1,826.25 (9) ?³, Z = 4 and with R _int = 0.021. The molecular conformation shows two possible pockets ready to coordinate two metal atoms. The crystal structure of (4) is stabilized by inter-molecular C–H⋯O and C–H⋯N hydrogen bonding.     

Solid State Structures of Anhydrous 1-Aminoethylidenediphosphonic Acid

Abstract  

The 1-aminoethylidenediphosphonic acid (AEDPH₄) is anhydrous when it is synthesized according to the U.S. Patent 4239695. It crystallizes in water to form hydrous crystal AEDPH₃·H₃O (1). With the help of a simple low-temperature, low-pressure hydrothermal method and template 2,2′-bidpyridyl (2,2′-bipy), single crystals with the same structure of the anhydrous AEDPH₄ (2) is obtained. Compound 2 were characterized by elemental analysis (EA), infrared spectrometry (IR), thermogravimetric analysis (TGA) and X-ray single crystal diffraction. In compounds 2, the AEDPH₄ molecules are linked into 3D supramolecules by various hydrogen bonds.     

The Crystal Structures of Some 1-Aryl-5-methyl-1,2,3-triazole Derivatives

Abstract  The two 1-aryl-5-methyl-1,2,3-triazole derivatives were prepared by the 1-aryl-5-methyl-1,2,3-triazol-4-carboxylic acids 3. The yielded products 4a–b were confirmed by NMR, MS, IR spectra. We investigated the crystalline structure of compounds 4a and 4b. Compound 4a, C₉H₈BrN₃, Mr = 238.09, crystallizes in the monoclinic space group P2(1)/n with unit cell parameters a = 11.660(2), b = 7.668(2), c = 11.818(2) ?, α = 90.00, β = 116.01(3), γ = 90.00o. V = 949.6(3) ?³, Z = 4, Dx = 1.665 Mg m⁻³. The final R was 0.0477. Compound 4b, C₁₃H₁₁N₃, Mr = 209.25, crystallized in the orthorhombic space group Pbca with unit cell parameters a = 10.373(2) ?, b = 11.691(2) ?, c = 17.579(4) ?, α = 90.00o, β = 90.00o, γ = 90.00o, V = 2131.8(7) ?³, Z = 8, D _m = 1.304 Mg m⁻³. The final R was 0.0565. Index Abstract  The two 1-aryl-5-methyl-1,2,3-triazole derivatives were prepared by the 1-aryl-5-methyl-1,2,3-triazol-4-carboxylic acids 3. The yielded products 4a–b were confirmed by NMR, MS, IR spectra. We investigated the crystalline structure of compounds 4a and 4b. Compound 4a, C9H8BrN3, Mr = 238.09, crystallizes in the monoclinic space group P2(1)/n with unit cell parameters a = 11.660(2), b = 7.668(2), c = 11.818(2)  ?, α = 90.00, β = 116.01(3), γ =90.00o. V = 949.6(3) ?³, Z = 4, Dx = 1.665 Mg m⁻³. The final R was 0.0477. Compound 4b, C13H11N3, Mr = 209.25, crystallized in the orthorhombic space group Pbca with unit cell parameters a = 10.373(2) ?, b = 11.691(2) ?, c = 17.579(4) ?, α = 90.00o, β = 90.00o, γ = 90.00o, V = 2131.8(7) ?³, Z = 8, D _m = 1.304 Mg m⁻³. The final R was 0.0565.      

Crystal structure of two oximes incis-pinane series

The structures of racemic 2-hydroxy-4-hydroxyiminopinan-3-one (1) and 3-hydroxyimino-cis-pinan-4-one monohydrate (2) have been determined by X-ray diffraction. The crystals of1 are monoclinic:P2₁/c, a=7.838(2),b=10.776(3),c=12.025(3) Å, =105.09(1)°,Z=4, room temp.; the crystals of2 are orthorhombic;P2₁2₁2₁,a=8.181(3),b=9.250(3),c=14.085(6)Å,Z=4, T=80K. Both structures were solved by direct methods, and refined toR=0.037 for 1920 reflections (1) and 0.032 for 1776 reflections (2). The absolute configuration of2 was not established. The hydroxyimine groups in both crystals and water molecules in2 participate in the network O–H...O of hydrogen bonds.     

syn,E-1-cyclopentano-4-ethyl-3-thiosemicarbazone and syn,E-1-cyclopentano-4-phenyl-3-thiosemicarbazone

The structures of two thiosemicarbazones are described: syn,E-1-cyclopentano-4-ethyl-3-thiosemicarbazone (1) and syn,E-1-cyclopentano-4-phenyl-3-thiosemicarbazone (2). Crystal data: for 1: tetragonal, P4₃ (#78), a = b = 8.922(7) Å, c = 12.899(13) Å, and Z = 4; for 2: monoclinic a = 15.163(18) Å, b = 7.482(5) Å, c = 12.467(15) Å, = 119.04(7)°, and Z = 4. In 1, molecules are linked by hydrogen-bonding into infinite chains with non-planar 9-ring subunits in which thioamides interact with the H—N—C—N—N groups of neighbors. Thioamide groups in 2 form dimers linked by N—B···HS hydrogen-bonds with a planar 8-ring as in solid state structures of carboxylic acids. The semicarbazide syn conformation fosters formation of N—H···N intramolecular hydrogen-bonding in each structure. The solid state structures are consistent with their infrared and proton nuclear magnetic resonance spectra.     

Crystal Structure of Diethyl[(4chlorophenyl)(dibenzylamino)methyl]propanedioate

Abstract  

The titled new functionalized N,O,O-ligand of type diethyl[(4-chlorophenyl)(dibenzylamino)methyl]propanedioate (4) is prepared in good yield through condensation of dibenzylamine, with 2-arylidene-malonic acid diethyl esters 3. The structure of 4 was determined by spectral (IR, ¹H NMR), elemental analyses and X-ray diffraction data. The molecular conformation shows two possible pockets ready to coordinate two metal atoms.