Synthesis, Crystal Structure and DNA-Binding Study of a New Copper(II) Complex Containing Mixed-Ligand of Iminodiacetate Dianion and 6-Nitro-1H-benzimidazole

Abstract  A mixed-ligand complex Cu(IDA)(NBZIM)(H₂O) (IDA = iminodiacetate dianion, NBZIM = 6-nitro-1H-benzimidazole) has been synthesized and characterized by elementary analysis, IR, UV-Vis, molar conductivity and single crystal X-ray diffraction. It crystallizes in the triclinic system, space group P with a = 6.9423(14), b = 9.3100(19), c = 11.754(2) ?, α = 69.61(3), β = 85.87(3), γ = 83.87(3)°, Z = 2, R ₁ = 0.0463 and ωR ₂ = 0.0987. The single crystal X-ray analysis reveals that the Cu(II) atom is coordinated by one tridentate iminodiacetate dianion, one monodentate nitrobenzimidazole molecule and one water molecule, in a distorted square base pyramidal coordination geometry. The iminodiacetate dianion chelates the Cu(II) atom in the meridional mode. A three-dimensional network is formed by hydrogen bonds and stabilized by NBZIM π-π stacking interactions. The interaction of the complex with Fish sperm DNA has also been studied using absorption spectra. Index Abstract  In the crystal of Cu(IDA)(NBZIM)(H₂O), each molecule is linked to other six neighbouring ones by ‘eight’ hydrogen bonds in four cases by means of the ‘symmetry related’ linkage.      

Synthesis,Characterization and Crystal Structure of Bis(isothiocyanato)-bis(pyridine) Zinc(II) Crystal

Abstract  Bis(isothiocyanato)-bis(pyridine) zinc(II) crystal has been prepared at room temperature and characterized by elemental analysis, IR spectrum and X-ray single crystal determination. The complex crystallizes in monoclinic space group P2₁/m with unit cell parameters: a = 5.5786(3), b = 11.0587(5), c = 12.1616(6) ?, β = 96.776(3)°, V = 745.03(6) ?³, Z = 2, D _x  = 1.514 g cm⁻³. The X-ray structure determination has revealed that the crystal is centered-symmetrical and the crystallographic symmetry face runs the two isothiocyanate ligands and the Zn(II) cation. Index Abstract  The title compound, bis(isothiocyanato)-bis(pyridine) zinc(II), was synthesized by zinc compound, KSCN and C₅H₅N (pyridine) and its crystal structure was determined. Single crystal X-ray structure determination reveals that the crystal is centered-symmetrical, and the crystallographic symmetry face runs the two isothiocyanate ligands and the Zn(II) cation.      

Crystallographic and Conformational Analysis of [(Z)-2-ethoxy-6-[(2-hydroxyphenylamino)methylene]cyclohexa-2,4-dienone]

Abstract  The single crystal X-ray diffraction analysis of the title compound, C₁₅H₁₅NO₃, shows that the structure is adopted to its NH tautomeric form and crystallizes in the orthorhombic space group P bcn with a = 21.2424(15) ?, b = 12.7696(9) ?, c = 9.3605(10) ?, Z = 8, V = 2539.1(4) ?³, D _c  = 1.346 g/cm³. The molecular conformation in the crystal is stabilized by an intramolecular H-bond and the crystal structure is stabilized by the bifurcated O–H···O type intermolecular H-bonds. In order to understand the effects on conformational flexibility of the title molecule, molecular energy profile was calculated as a function of the selected torsion angle by means of AM1 semi-empirical method. Index Abstract  Molecular and crystal structure of [(Z)-2-ethoxy-6-[(2-hydroxyphenylamino)methylene]cyclohexa-2,4-dienone], C₁₅H₁₅NO₃, have been determined by single crystal X-ray diffraction study, and conformational analysis of the title molecule with respect to the selected torsion angle has been achieved by AM1 semi-empirical calculations.      

An X-Ray Crystallographic Study of the Novel Aminal bis-(<Emphasis Type="Italic">p</Emphasis>-Ethoxycarbonylphenylamino-)methane

Abstract  The crystal structure of bis-(p-Ethoxycarbonylphenylamino-)methane (1) has been determined by single crystal X-ray diffraction analysis. The bis-aminal (1) molecule is V-shaped and situated on a twofold axis passing through C1 with the phenyl rings forming a dihedral angle of 70.2(1)°. The carboxylate and phenyl groups are coplanar. The crystal structure of 1 is compared with the structure of the closely related aminals, 2–5. Crystal data: 1 C₁₉H₂₂N₂O₄, tetragonal, space group I4 ₁ cd (N.110), a = 20.4760(7) Ǻ, b = 20.4760(7) Ǻ, c = 8.2984(3) ?, and V = 3477.7(2) ?³, for Ζ = 8. Index Abstract  The crystal structure of bis-(p-ethoxycarbonylphenylamino-)methane (1) has been determined by single crystal X-ray diffraction analysis.      

Solid State Annular Tautomerism in a Molecule Containing Two Imidazole Moieties

Abstract  The X-ray crystal structure of the 1:2 condensate (1) of hydrazine hydrate and 4-methyl-imidazole-5-carboxaldehyde has been determined. The molecule is centrosymmetric crystallising in the space group Fddd with cell dimensions: a = 10.557(14), b = 17.062(22), c = 24.759(27) ?. Fourier map shows that the NH hydrogen atom of each imidazole moiety has equal possibility of occupying any of its two ring N atoms. This poses the possibility of finding three tautomers in 1 in the solid state. Consideration of the H-bonding pattern observed in 1 and related B3LYP/6-311+G(2d,p) calculations show that only two tautomers are present in the solid state. The situation is compared with that in the structure of 4(5)-nitro-5(4)-methoxy-imidazole reported previously by Kubicki. Graphical Abstract   The inherent disorder of the ring N–H hydrogen atoms in the shown centrosymmetric molecule (blue, C; deep blue, N; grey, H) which contains two imidazole moieties, poses the possibility of the coexistence of three tautomers in the solid state. The observed and theoretical [from B3LYP/6-311+G(2d,p) calculations] H-bonding pattern indicate that only two tautomers are present in the solid state.      

Crystal Structure of Meso-tetrakis[4-(pentyloxy)phenyl]porphyrin

Abstract  The crystal structure of the title compound, C₆₄H₇₀N₄O₄, has been determined by single crystal X-ray diffraction methods. The title compound crystallizes in the monoclinic space group P2(1)/c with cell dimensions a = 13.8946(3) ?, b = 16.1069(3) ?, c = 12.1974(2) ?, β = 93.4050(10)°, Z = 2. The porphyrin core to be composed of four pyrrole rings linked through methane carbon bridges. Each molecule lies across a crystallographic inversion center. The porphyrin core is planar, which facilitates π-electron delocalization. The inner nitrogen H atoms are found localized on opposite pyrrole rings and these rings differ structurally from the other two pyrrole rings. The imino H atoms form bifurcated intramolecular hydrogen bonds with the adjacent unprotonated N atoms due to the contract porphyrin core. Graphical Abstract  The crystal structure of meso-tetrakis[4-(pentyloxy)phenyl]porphyrin is reported in this paper.      

Crystal and Molecular Structure of Diterpenoid Alkaloid 3-Acetylaconitine

Abstract  3-Acetylaconitine (1), C₃₆H₄₉NO₁₂, was isolated from the ammonium hydroxide wetted root of A. szechenyianum Gay. X-ray diffraction analysis demonstrated that it consists of four-six-membered rings A, B, C, D and two-five-membered rings E, F. The fused-ring system A, B, C and D are in chair, chair, chair and boat conformations, respectively; ring E is in a half-chair; and ring F is in an envelope confirmation. The crystal of 3-acetylaconitine is in orthorhombic crystal system with space group P2₁2₁2₁, lattice constants: a = 9.2002(8) ?, b = 11.06454(9) ?, and c = 33.072(3) ?, V = 3543.3(5) ?³, Z = 4. Index Abstract  3-Acetylaconitine, C₃₆H₄₉NO₁₂, was isolated from the ammonium hydroxide wetted root of A. szechenyianum Gay, and its crystal and molecular structure was determined by X-ray diffraction analysis.      

Synthesis and Crystal Structure of Heptyl 3-(3,4-dihydroxyphenyl)-2-propenoate

Abstract  The title compound, C₁₆H₂₂O₄, synthesized by modified Knoevenagel condensation of protocatechualdehyde with monoheptyl-malonate and recrystallized from benzene, was confirmed by single-crystal X-ray diffraction (CCDC 272827). The compound crystallizes in triclinic space group Pī with cell parameters a = 5.296(3) ?, b = 10.711(13) ?, c = 13.870(4) ?, α = 98.84(7)°, β = 90.97(4)°, γ = 96.77(7)° and Z = 2. The structure is the E isomer and its packing is stabilized by intermolecular O–H···O and C–H···O hydrogen bonds. Index Abstract  The title compound, C₁₆H₂₂O₄, synthesized by modified Knoevenagel condensation, was confirmed by single-crystal X-ray diffraction showing its structure is in E isomer and its packing is stabilized by hydrogen bonds.      

Synthesis, Crystal Structure and Fluorescence Property of a Binuclear Zn(II) Complex: [Zn2(μ-N3)2(N3)2(L)2] [L?=?1-(1,10-phenanthrolin-2-yl)-2-pyridone]

Abstract  Hydrated zinc perchlorate reacted with sodium azide and 1-(1,10-phenanthrolin-2-yl)-2-pyridone (L) in methanol solution and resulted in the formation of a new binuclear complex: [Zn₂(μ-N₃)₂(N₃)₂(L)₂]. The complex has been characterized by elemental analysis and IR spectrum, and its crystal structure determined by X-ray crystallography and the complex crystallizes in the monoclinic system with space group P2₁/c and a = 11.409(2), b = 8.0733(15), c = 18.163(3) Ǻ, β = 99.095(3)°. In the complex two azide anions act as bridge ligand and another two azide anion and two 1-(1,10-phenanthrolin-2-yl)-2-pyridone function as terminal ligands, and Zn(II) ion lies in a distorted triangle bipyramid geometry. Index Abstract  The title binuclear Zn(II) complex was synthesized by zinc perchlorate, sodium azide and 1-(1,10-phenanthrolin-2-yl)-2-pyridone and its crystal structure determined. Single crystal X-ray diffraction analysis reveals that azide anion function as both bridge ligand and terminal ligand, and 1-(1,10-phenanthrolin-2-yl)-2-pyridone only acts as a terminal ligand.      

Synthesis and Crystal Structure of Benzoyloxymethyl (4α,8β,13β)-13-methyl-16-oxo-17-norkauran-18-carbonate Ester

Abstract  Isosteviol derivative: benzoyloxymethyl (4α,8β,13β)-13-methyl-16-oxo-17-norkauran-18-carbonate ester was synthesized by esterification of isosteviol with chloromethyl benzoate and its crystal structure was determined by X-ray diffraction method. The compound crystallizes in the triclinic space group P1 with unit cell parameters: a = 8.784(3) ?, b = 9.079(3) ?, c = 15.950(6) ?, α = 79.343(6)°, β = 79.061(5)°, γ = 89.849(5)°, Z= 2. The conformation of rings A and B is chair, whereas the conformation of ring C is unsymmetrical twist chair. The carbonyl group at the C20 is coplanar with the benzene ring. The fragment of the ester group occupying the pseudoaxial site of C1 position adopts a zigzag conformation. Index Abstract  Isosteviol derivative: benzoyloxymethyl (4α,8β,13β)-13-methyl-16-oxo-17-norkauran -18-carbonate ester was synthesized and its crystal structure was determined by X-ray diffraction method.      

X-ray Crystal Structure of Grandiflorenic Acid [(−)-kaura-9(11)-16-dien-19-oic Acid] Methyl Ester,a Compound Formerly Considered as an Oily Derivative

Abstract  Grandiflorenic acid [(−)-kaura-9(11)-16-dien-19-oic acid] methyl ester (2), C₂₁H₃₀O₂, was synthesized from grandiflorenic acid, isolated from the plant Montanoa tomentosa. Compound (2) was formerly described as an oily derivative. X-ray diffraction analysis of (2) demonstrated that it consists of four rings, three six-membered rings (I, II and III) and one five-membered ring (IV). I, II and III rings occur in chair, twist, and envelope conformations, respectively. Ring IV occurs in a conformation between envelope and half-chair. The crystal of grandiflorenic acid methyl ester is in monoclinic crystal system with space group P2₁, lattice constants: a = 7.2170(10), b = 11.4170(10), c = 11.2850(10) ?, β = 98.700(10)°, V = 919.1(2) ?³ and Z = 2. Index Abstract  Grandiflorenic acid [(−)-kaura-9(11)-16-dien-19-oic acid] methyl ester (2) was synthesized. This compound was formerly considered as an oily derivative. The crystal structure of (2) was obtained by determination of X-ray diffraction from suitable single crystals.      

A 2D In(III) Coordination Polymer with Extended In–OH–In Chains

Abstract  A new indium(III) coordination polymer [In(OH)(Hpdc)(H₂O)] _n (1) H₃pdc = 3,5-pyrazole-dicarboxylic acid) has been synthesized under hydrothermal condition and characterized by the elemental analysis and single crystal X-ray diffraction. X-ray diffraction analysis reveals that 1 (C₅H₅InN₂O₆) crystallizes in the monoclinic space group P2₁/n, and features an interesting 2D layer constructed by 1D In–Hpdc chains and μ ₂-OH ligands. Unit cell parameters for 1: a = 10.406(2), b = 6.326(2), c = 11.631(2) ?, β = 104.0(1)°, and Z = 4. Index Abstract  The title compound, [In(OH)(Hpdc)(H₂O)] _n (H₃pdc = 3,5-pyrazole-dicarboxylic acid), was synthesized under hydrothermal condition by the treatment of InCl₃·4H₂O with 3,5-pyrazole-dicarboxylic acid and its crystal structure determined. Single crystal X-ray diffraction analysis reveals that the molecular structure of the title compound is an interesting 2D layer constructed by 1D In–Hpdc chains and μ2-OH ligands.      

Synthesis and Crystal Structure of a New Mo(V) Complex of Cyano Ligands

Abstract  A new complex, [H₃teta][Mo(CN)₈] · H₂O, (teta = 5,7,7,12,14,14-hexamethyl-1,4,8,11-tetra-azacyocloteradeca-4,11-diene), has been synthesized and characterized by IR spectrum, element analysis and single crystal X-ray diffraction: monoclinic, space group P2(1)/c with a = 10.8553(8) ?, b = 12.4854(8) ?, c = 22.6348(15) ?, α = 90.00°, β = 97.3080(10)°, γ = 90.00°, Mr = 609.63, v = 3042.8(4), Z = 4. There are one [H₃teta]³⁺, one [Mo(CN)₈]³⁻ and one water molecule in the asymmetric unit. The complex is interconnected through hydrogen bond and formed into a 3D porous network. Graphical Abstract  A new complex, [H₃teta][Mo(CN)₈] · H₂O, has been synthesized and characterized by IR spectrum, element analysis and single crystal X-ray diffraction. And it shows a 3D porous network through hydrogen bonds.      

3D Solid-State Network from Hierarchical Supramolecular Self-Assembly of Transition Metal Complexes of Pyridine Based Ligand

Abstract  The crystal structures of [Cu(py)₄(ClO₄)](ClO₄) (1), [V(pic)₂(OH)](NO₃)₂ · H₂O (2) and [Ni(H₂O)₆][Ni(dpa)₂] · 2H₂O (3) [py = Pyridine, picH = Pyridine-2-carboxylic acid, dpaH₂ = Pyridine-2,6-dicarboxylic acid] was determined by single-crystal X-ray diffraction techniques. Solid-state structural analysis shows that all these complexes from extensive 3D network structure via supramolecular self-assembly. The crystal structures are stabilized by extended hydrogen bonding interactions. The complex 2 forms orange V₂O₅ micro spheroids when heated at ~400 °C for 6 h. Graphical Abstract  Hierarchical supramolecular self-assembly of transition metal complexes of pyridine based ligands in crystal. Electronic supplementary material  The online version of this article (doi:) contains supplementary material, which is available to authorized users.     

Crystal Structure of<Emphasis Type="SmallCaps"> D</Emphasis>(−)-amino-(4-hydroxyphenyl)acetate,the Zwitter Ionic Form of Biologically Active<Emphasis Type="SmallCaps"> D</Emphasis>(−)-4-hydroxyphenylglycine

Abstract  Crystals of D(−)-amino-(4-hydroxyphenyl)acetate were analyzed by single crystal X-ray diffraction. The compound crystallizes in the chiral space group, P2₁ (No. 4) with one molecule in the asymmetric unit and a = 5.0994(10) ?, b = 9.3169(19) ?, c = 8.6960(17) ?, β = 91.50(3)°. The intermolecular interactions in the crystal have been visualised by plotting the Hirshfeld surface of the molecule. Graphical Abstract  The extensive hydrogen bonding network in D(−)-amino-(4-hydroxyphenyl)acetate has been described and visualised by plotting its Hirshfeld surface.      

New Toluene Hemi Solvate of the Proton Pump Inhibitor Piperazinium Esomeprazolate

Abstract  The new toluene hemisolvate of the piperazinium salt of esomeprazole, ((S)-5-methoxy-2-[(4-methoxy-3,5-dimethyl-pyridin-2-yl)methylsulfinyl]-3H-benzimidazole, C₁₇H₁₉N₃O₃S) has the composition piperazinium esomeprazolate 0.5 toluene. The unit cell has monoclinic P2₁ symmetry with the cell parameters a = 10.0903(16) ?, b = 16.234(3) ?, c = 15.316(2) ?, β = 92.746(12)°, V = 2,506.0(7) ?³. It contains four piperazinium, four esomeprazolate and two toluene molecules. The crystal structure exhibits intermolecular hydrogens bonds within the layers and Van der Waals contacts between the layers. Additionally, three new crystal phases of solvent-free piperazinium esomeprazolate were found. Index Abstract  The title compound is a toluene hemisolvate of the piperazinium salt of esomeprazole, ((S)-5-methoxy-2-[(4-methoxy-3,5-dimethyl-pyridin-2-yl)methylsulfinyl]-3H-benzimidazole. Single crystal X-ray diffraction analysis reveals that the molecules crystallize in layers. In a layer the molecules are held together by classical hydrogen bonds whereas the layers on the other hand are connected by vdW contacts.      

Synthesis and Crystal Structure of a 1D Coordination Polymer [Cd(pydc)(phen)]<Subscript>n</Subscript> (H<Subscript>2</Subscript>pydc = pyridine-2,3-dicarboxylic acid,phen = 1,10-phenanthroline)

Abstract  A new 1D coordination polymer, [Cd(pydc)(phen)]_n (1) (pydc = pyridine-2,3-dicarboxylic acid, phen = 1,10-phenanthroline), has been hydrothermally synthesized and characterized by the elemental analysis, IR spectroscopy and single crystal X-ray diffraction. X-ray diffraction analysis reveals that 1 (C₁₉H₁₁CdN₃O₄) crystallizes in triclinic space group P-1, features an interesting 3D zipper-like network constructed from 1D ribbons via π–π stacking interactions. Unit cell parameters for 1: a = 7.681(1) ?, b = 10.546(2) ?, c = 11.358(2) ?, α = 107.12(2)°, β = 99.50(2)°, γ = 109.12 (2)° and Z = 2. Index Abstract  The title compound, [Cd(pydc)(phen)]n (1) (pydc = pyridine-2,3-dicarboxylic acid, phen = 1,10-phenanthroline), has been hydrothermally synthesized and characterized. X-ray diffraction analysis reveals that 1 features an interesting 3D zipper-like networks constructed by 1D ribbons via π–π stacking interactions.      

Crystal Chemistry of 1:1 Molecular Complexes of Carbamate Salts Formed by Slow Aerial Carbonation of Amines

Abstract  Amines do have rare tendency to undergo aerial carbonation to form carbamic acid. Four different 1:1 molecular complex of carbamate salts reported herein obtained by the aerial carbonation of cyclic amines. X-ray crystal structures show a systematic change in the molecular structure did bring some gradual supramolecular change from one structural motif to another. Index Abstract  Amines do have rare tendency to undergo aerial carbonation to form carbamic acid. Four different 1:1 molecular complexes of carbamate salts reported herein obtained by the aerial carbonation of cyclic amines. X-ray crystal structures show a systematic change in the molecular structure did bring some gradual supramolecular change from one structural motif to another.      

Synthesis and Crystal Structure of [Mn(H2O)(tptz)(CH3COO)][N(CN)2] · 2H2O (tptz = 2,4,6-tris-(2-pyridyl)-1,3,5-triazine)

Abstract  The manganese complex [Mn(H₂O)(tptz)(CH₃COO)][N(CN)₂] · 2H₂O 1 (tptz = 2,4,6-tris-(2-pyridyl)-1,3,5-triazine) has been synthesized and structurally characterized by X-ray diffraction, element analysis and IR spectrum. It crystallizes in the monoclinic space group C2/c, a = 14.6898(1) ?, b = 13.4002(9) ?, c = 26.865(2) ?, β = 99.672(3)°, V = 5213.0(7) ?³, Z = 8. The number of coordination around Mn(II) atom is seven; it is coordinated equatorially by three nitrogen atoms from tptz, and two oxygen atoms from acetate, and axially by one nitrogen atom of dicyanamide and one coordinated water molecule. The crystal structure is stabilized through hydrogen bonds. Index Abstract  The title compound, [Mn(H₂O)(tptz)(CH₃COO)][N(CN)₂] · 2H₂O was synthesized by the treatment of 2,4,6-tris(2-pyridyl)-1,3,5-triazine (tptz) and Mn(OAc)₂ · 4H₂O, with NaN(CN)₂ and its crystal structure determined. Single crystal X-ray diffraction analysis reveals that the number of coordination around Mn(II) atom is seven.      

Synthesis and Crystal Structure a Two-Dimensional Coordination Polymer: [Cd( μ -N3)( μ -HL)(H2O)]n [HL?=?Monodeprotonated 2,2′-bypyridine-3,3′-diol]

Abstract  Hydrated cadmium perchlorate reacted with sodium azide and 2,2′-bypyridine-3,3′-diol (H₂L) in ethanol solution and resulted in the formation of a two-dimensional coordination polymer: [Cd(μ-N₃)(μ-HL)(H₂O)]_n. The complex has been characterized by elemental analysis and IR spectrum, and its crystal structure determined by X-ray crystallography and the complex crystallizes in the monoclinic system with space group P2₁/c and a = 7.2849(14), b = 9.9568(19), c = 17.058(3) Ǻ, β = 102.254(2)°. In the complex both azide anion and monodepronated 2,2′-bypyridine-3,3′-diol anion (HL) act as bridge ligands and led to the formation of a two-dimensional sheet structure on (100) plane, and the O–H⋯N hydrogen bond made the sheets pile up along [100] direction, which forms a supramolecular three-dimensional structure. Graphical Abstract  The title two-dimensional Cd(II) coordination polymer was synthesized by cadmium perchlorate, sodium azide and 2,2′-bypyridine-3,3′-diol and its crystal structure determined. Single crystal X-ray diffraction analysis reveals that the two-dimensional coordination polymer was fabricated with azide anion and monodeprotonated 2,2′-bypyridine-3,3′-diol as mixed bridge ligands.