Analysis of hydrogen bonding and weak interactions in the crystal structure of (E)-N-(4-ethylphenyl)-2-(4-hydroxybenzylidene)thiosemicarbazone: experimental and theoretical studies

Hydrogen-bonding interactions play an important role in the rational design of crystal systems with desirable architectures. The novel thiosemicarbazone derivative described herein, namely (E)-N-(4-ethylphenyl)-2-(4-hydroxybenzylidene)thiosemicarbazone, C₁₆H₁₇N₃OS, (I), was prepared and characterised by ¹H NMR, IR and single-crystal X-ray crystallography techniques. The compound is arranged in the lattice by O–H···S and N–H···S bonded polymeric ribbons that extend along the crystal b-axis, and the intermolecular N–H···S hydrogen bonds formed R2 2(8) ring motifs. More importantly, C–H···π interaction stabilises the supramolecular structure of (I). Hirshfeld surface and their associated two-dimensional fingerprint plot analyses are presented to illustrate the supramolecular connectivity in the solid state. The result shows that the short H···H contacts is dominated in the total Hirshfeld surface. As well as we report on n→π* interactions in thiosemicarbazone derivatives by using the reduced density gradient function and natural bond orbital analyses. Besides, molecular electrostatic potential (MEP) and frontier molecular orbital (FMO) analysis of the title compound are also investigated by theoretical calculations.     

Crystal structure of ethyl (2Z)-2-(3-methoxy-4-acetyloxy benzylidene)-7-methyl-3-oxo-5-phenyl-2,3-dihydro-5H-[1,3]thiazolo[3,2-a]pyrimidine-6-carboxylate

The title compound, C₂₆H₂₄N₂O₆S, (I), crystallizes in the monoclinic space group, P2₁/c, with cell parameters a = 16.248(1), b = 7.927(1), c = 19.371(4) ?, β = 105.295(2)°, Z = 4. The central pyrimidine ring in the compound (I) is significantly puckered, assuming a screw-boat conformation. The C11–C16 benzene ring stands vertical while thiazole and C18–C23 benzene rings are coplanar to the mean plane of pyrimidine ring having dihedral angles of 87.48(12), 3.63(11) and 0.94(12)°, respectively. In the absence of potential hydrogen bonding interaction, the crystal packing is influenced by intramolecular C-H…S interaction and intermolecular C-H…π interactions.     

New thiourea and urea derivatives containing trifluoromethyl- and bis-triflouromethyl-4H-chromen-3-yl substituents

Two new thiourea (1) and urea (2) derivatives, substituted with 2-trifluoromethyl-4H-chromen-3-yl moieties at defined positions, were obtained by convenient synthetic methodologies. The pure compounds were studied in solid state by vibrational spectroscopy (FT-IR and Raman) and in solution by NMR and UV–Vis spectroscopy. The crystal structure of the urea derivative (compound 2) was also determined by X-ray diffraction. The crystal packing is governed by N–H···O intramolecular interactions of moderate strength in a self-assembled dimer of the terminal amide fragment (C(=O)–NH₂). Hirshfeld surface and 2D-fingerprint plots were also performed to characterise the role in the packing stabilisation of all contacts, including weak C–H···F hydrogen bonds and π–π stacking interactions. For both compounds, the tentative assignment of vibrational and electronic spectra was assisted by theoretical calculations. Besides, to evaluate the influence on the pharmacokinetic and pharmacodynamic properties of molecules with –CF₃ groups, the anti-microbial activity of the title compounds was tested against the standard strains of various Gram-positive and Gram-negative organisms with noteworthy antimicrobial effect over Staphylococcus aureus, Klebsiella pneumoniae and Salmonella typhi.     

Vibrational Spectroscopic Investigation and Theoretical Calculations of (E)-3-Phenyl-N-[4-(Phenyl-Amino) Quinazoline-7-yl] Acrylamide

ABSTRACT

Optimized geometrical structure and harmonic vibration frequencies of prior synthesized (E)-3-phenyl-N-[4-(phenyl-amino) quinazoline-7-yl] acrylamide were computed by ab initio HF and DFT/B3LYP methods using both 6-31G* and 6-311G** basis sets and the Moller–Plesset second-order perturbation (MP2) method merely at the 6-31G* level. The infrared (IR) spectrum of the title compound has been measured in the range of 400–4000 cm^?1. Complete vibrational assignments of the IR spectra were proposed. Moreover, the calculated wavenumbers of the title compound were compared with the experimental data. The correlation analyses indicate that good linearity relationships exist between the scaled theoretical vibration frequencies and the experimental values. Additionally, the atoms in molecules (AIM) method was applied to explore the possible intramolecular interactions in the title compound.     

Weak and strong hydrogen bonds conducting the supramolecular framework of 1-butyl-3-(1-naphthoyl)thiourea: crystal structure,vibrational studies,DFT methods,Pixel energies and Hirshfeld surface analysis

A detailed structural and spectroscopic study of a new thiourea derivative 1-butyl-3-(1-naphthoyl)thiourea (1) is presented with the assistance of theoretical calculations. The X-ray diffraction structure analysis reveals a planar carbonylthiourea group, favoured by intra-molecular NH···O bond. The compound is arranged in the lattice as NH···O and NH···S bonded polymeric ribbons, that extend along the crystal b-axis. Molecular pairs involving N–H···S hydrogen bonds are a dominant contribution to packing stabilisation coming from coulombic component. Hirshfeld surfaces and two-dimensional-fingerprint plots show different intermolecular contacts and its relative contributions to total surface in each compound. The AIM approach shows the nature and strength of the strong and weak intramolecular interactions and the solvent effect, while NBO analysis reveals that the sulphur atom is responsible for the higher hyperconjugative stabilising energy.     

ESR studies of Cl2- (VK) centre trapped in irradiated Ca(ClO3)2 . 2H2O single crystals

A Cl₂- centre has been trapped in X or γ-irradiated Ca(ClO₃)₂. 2H₂O single crystals at 298 K, when the irradiated crystals were illuminated with ultra-violet light (360 nm). This centre is formed at the expense of ClO₂ centres in this crystal. This Cl₂ ^- centre is trapped at two magnetically inequivalent sites in the crystal lattice and these sites become equivalent when the static magnetic field is parallel or perpendicular to the b axis. At many orientations this centre reveals ‘super-hyperfine’ interaction with a proton (I = 1/2) of the water of crystallization. The magnetic parameters are close to those observed in alkali chlorides and the E.S.R. spectrum has been fitted to an orthorhombic spin hamiltonian. The principal g values are g_xx = 2·035, g_yy = 2·033 and g_zz = 2·000 and those of the A values are A_xx = 15·0, A_yy = 31·0 and A_zz = 109·0 G. The shfs parameters are A _‖' = 5·0 A _⊥' = 1·0 G. The V_K centre trapped in this lattice is exceptionally stable at room temperature.     

DFT studies on a high-energy density cage compound 1, 3, 5, 7, 9, 11-hexo(N(CH3)NO2)-2, 4, 6, 8, 10, 12-hexaazatetracyclo[5, 5, 0, 0, 0] dodecane

The infrared and Raman spectra, heat of formation (HOF) and thermodynamic properties were investigated by B3LYP/6-31G^** method for a new designed polynitro cage compound 1,3,5,7,9,11-hexo(N(CH₃)NO₂)-2,4,6,8,10,12-hexaazatetracyclo[5,5,0,0,0]dodecane. The detonation velocity (D) and pressure (P) were predicted by the Kamlet–Jacobs equations based on the theoretical density and condensed HOF. The bond dissociation energies and bond orders for the weakest bonds were analysed to investigate the thermal stability of the title compound. The computational result shows that the detonation velocity and pressure of the title compound are superior to those of hexahydro-1,3,5-trinitro-1,3,5-triazine (RDX), but inferior to those of 1,3,5,7-tetranitro-1,3,5,7-tetraazacyclooctane (HMX) and hexanitrohexaazaisowurtzitane (HNIW). And the analysis of thermal stability shows that the first step of pyrolysis is the rupture of the N₇–NO₂ bond. The crystal structure obtained by molecular mechanics belongs to the P2₁ space group, with the lattice parameters Z = 2, a = 11.8246 Å, b = 10.4632 Å, c = 15.9713 Å, ρ = 1.98 g cm^?3.     

Synthesis, crystal structure, EPR and electrochemical studies of copper(II) dipicolinate complex with 2,2′-dipyridylamine ligand

The (2,2′-dipyridylamine)(pyridine-2,6-dicarboxylato)copper(II) trihydrate complex was synthesized and characterized by spectroscopic (IR, UV-vis, EPR), X-ray diffraction technique and electrochemical methods. The copper(II) center is surrounded by one bidentate 2,2′-dipyridylamine (dpa) and one tridentate dipicolinate (dpc) ligand, and exhibits a distorted square-pyramidal geometry. The crystal packing involves both hydrogen-bonding and π-π interactions. The solvent water molecules link monomers to one another through hydrogen-bonding interactions, forming ladder-type chains in the ab plane. π-π interactions also occur between the dpa rings of neighboring molecules and are responsible for interchain packing. Based on EPR and optical absorption studies, spin-Hamiltonian and bonding parameters have been calculated. The g-values, calculated for title complex in polycrystalline state at 298 K and in frozen DMF (110 K), indicate the presence of the unpaired electron in the d_x²-y² orbital. The evaluated metal-ligand bonding parameters showed strong in-plane σ- and π-bonding. The cyclic voltammogram of the title complex investigated in DMF (dimethylformamide) solution exhibits only metal centered electroactivity in the potential range ±1.25 V versus Ag/AgCl reference electrode.     

Structure of 5-Allyl-2-hydroxy-3-methoxyazobenzene

Abstract

5-allyl-2-hydroxy-3-methoxyazobenzene was preperad by the reaction of 4-allyl-2-methoxyfenol and benzenediazoniumchloride and crystallized from dimethylsulphoxide to yield crystals suitable for analysis. The molecular structure was identified by UV-VIS, IR, ¹H-NMR, ¹³C-NMR and elemental analysis. The crystal structure of the title compound was determined as monoclinic by by single crystal X-Ray diffraction technique. The crystal parameters of this compound are as follows: monoclinic P 2 1/n, a=5.559(2) Å,b=14.900(2) Å, c= 17.573(29 Å, P = 98.58(1)?, V = 1439.3(2) ų, Z = 2, Dx = 0.610 g/cm³, F(OOO) = 284, λ (MoKα) = 0.71070 Å, μ = 0.041 mm^?1. The structure was solved by SHELXS-86 and refined by SHELXL-93. R = 0.09 for 1107 observed reflections with I > 2σ (I).     

Synthesis,crystal structure and electrical properties of (C5H13NCl)2 SnCl6

In this work, a novel compound Bis(2-chloropropyl-N,N-dimethyl-1-ammonium) hexachloridostannate(IV) was synthesized and characterized by; single X-ray diffraction, Hirshfeld surface analysis, differential scanning calorimetric and dielectric measurement. The crystal structure refinement at room temperature reveled that this later belongs to the monoclinic compound with P2₁/n space group with the following unit cell parameters a = 7.2894(7) Å, b = 12.9351(12) Å, c = 12.2302(13) Å and β = 93.423 (6) °. The structure consists of isolated (SnCl₆)^2? octahedral anions connected together into layers via hydrogen bonds N–H….Cl between the chlorine atoms of the anions and the hydrogen atoms of the NH groups of the [C₅H₁₃NCl]⁺ cations. Hirschfeld surface analysis has been performed to gain insight into the behavior of these interactions. The differential scanning calorimetry spectrum discloses phase transitions at 367 and 376.7 K. The electrical properties of this compound have been measured in the temperature range 300–420 K and the frequency range 209 Hz–5 MHz. The Cole–Cole (Z′ versus Z″) plots are well fitted to an equivalent circuit model. The transition phase observed in the calorimetric study is confirmed by the change as function of temperature of electrical parameter such as the conductivity of grain (σ_g) and the σ_dc.     

Structure of bis(4-Methyl Pyridine) Cadmium Tetracyanonickelate

Abstract

The structure, C₁₆H₁₄CdN₆Ni, consist of corrugated polymeric networks made up of tetracyanonickelate ions coordinated to Cd. The 4-methyl pyridine molecules bound to Cd in trans positions are located on both sides of the network. The bonding in the networks occurs because of a departure of the Ni-C-N-Cd sequence of atoms from linearity at the C and N positions. The crystal structure of the title compound was determined as monoclinic by single crystal X-Ray diffraction technique. The crystal parameters of this compound are as follows: monoclinic C2/m, a=18.156(2) Å, b=7.581(2) Å. c= 6.983(2) Å, β = 110.09(2)°, V = 902.6(5) ų Z=2, Dx = 1.698 g/cm³, F(000) - 456, λ (MoKα) = 0.71070 Å, μ = 2.121 mm^?1. The structure was solved by SHELXS-86 and refined by SHELXL-93. R = 0.02 for 1074 observed reflections with I > 2[sgrave] (I).     

Synthesis,structural characterization,spectroscopic, thermal,dielectric and Hirshfeld surface analysis of 1-(2-methoxyphenyl)piperazinium chloranilate

The new compound 1-(2-methoxyphenyl)piperazinium chloranilate (MPP.CA) was synthesized and studied by the single crystal X-ray diffraction method. Its structure was confirmed by infrared spectroscopy. The crystal structure consists of ribbons of chloranilate anions and 1-(2-methoxyphenyl)piperazinium cations linked together by NH…O hydrogen bonds. Two protons are transferred from a chloranilic acid molecule to the nitrogen of the piperazine in this structure. Measurements of AC conductivity as a function of frequency at different temperatures indicated the hopping conduction mechanism; in addition, the variation of dielectric constant as a function of T confirmed the transition phase indicated by the differential scanning calorimetry (DSC). The physico-chemical properties, UV-Vis, DSC and dielectric properties are described. Hirshfeld surface analyzes all the intermolecular interactions involved within the structure, which are important to stabilize the structure.     

Lattice potential energy and standard molar enthalpy in the formation of 1-dodecylamine hydrobromide (1-C12H25NH3 ·Br)（s）

This paper reports that 1-dodecylamine hydrobromide (1--C₁₂H₂₅NH₃·Br)(s) has been synthesized using the liquid phase reaction method. The lattice potential energy of the compound 1--C₁₂H₂₅NH₃·Br and the ionic volume and radius of the 1--C₁₂H₂₅NH₃⁺ cation are obtained from the crystallographic data and other auxiliary thermodynamic data. The constant-volume energy of combustion of 1--C₁₂H₂₅NH₃·Br(s) is measured to be Δ_c U_m^o(1--C₁₂H₂₅NH₃·Br, s) =--(7369.03±3.28) kJ·mol^-1 by means of an RBC-II precision rotating-bomb combustion calorimeter at T=(298.15±0.001) K. The standard molar enthalpy of combustion of the compound is derived to be Δ_c H_m^o(1--C₁₂H₂₅NH₃·Br, s)=--(7384.52±3.28) kJ·mol ^{- 1} from the constant-volume energy of combustion. The standard molar enthalpy of formation of the compound is calculated to be Δ_f H_m^o(1--C₁₂H₂₅NH₃·Br, s)=--(1317.86±3.67) kJ·mol^-1 from the standard molar enthalpy of combustion of the title compound and other auxiliary thermodynamic quantities through a thermochemical cycle.     

Vibrational spectroscopic studies,conformations and ab initio calculations of 1,2‐bis(trifluorosilyl)ethane (SiF3CH2CH2SiF3)

Infrared spectra of 1,2‐bis(trifluorosilyl)ethane (SiF₃CH₂CH₂SiF₃) were obtained in the vapour and liquid phases, in argon matrices and in the solid phase. Raman spectra of the compound as a liquid were recorded at various temperatures between 293 and 270 K and spectra of an apparently crystalline solid were observed. The spectra revealed the existence of two conformers (anti and gauche) in the vapour, liquid and in the matrix. When the vapour was chock‐frozen on a cold finger at 78 K and annealed to 150 K, certain weak Raman bands vanished in the crystal. The vibrational spectra of the crystal demonstrated mutual exclusion between IR and Raman bands in accordance with C_2h symmetry. Intensity variations between 293 and 270 K of pairs of various Raman bands gave ΔH(gauche—anti) = 5.6 ± 0.5 kJ mol⁻¹ in the liquid, suggesting 85% anti and 15% gauche in equilibrium at room temperature. Annealing experiments indicate that the anti conformer also has a lower energy in the argon matrices, is the low‐energy conformer in the liquid and is also present in the crystal. The spectra of both conformers have been interpreted, and 34 anti and 17 gauche bands were tentatively identified. Ab initio and density functional theory (DFT) calculations were performed giving optimized geometries, infrared and Raman intensities and anharmonic vibrational frequencies for both conformers. The conformational energy difference derived in CBS‐QB3 and in G3 calculations was 5 kJ mol⁻¹. Copyright © 2009 John Wiley & Sons, Ltd.     

Proton N.M.R. study of the dynamics of the ammonium ion in ferroelectric langbeinite, (NH4)2Cd2(SO4)3

The proton N.M.R. lineshape of polycrystalline Langbeinite, (NH₄)₂Cd₂(SO₄)₃, has been studied in the temperature range 300 K to 1·8 K. The resonance line is motionally narrowed over the entire temperature range, and the low temperature proton line shows clear evidence for tunnelling motion of the ammonium ion between spin-symmetry states. From a computer simulation of the lineshape, we obtain an estimate for the tunnelling splitting parameter, J, of the torsional ground state of the ammonium ion, as 375 ± 125 gauss. For an undistorted tetrahedral crystal field this corresponds to a tunnelling splitting Δ = 4J = 6·3 ± 2·1 MHz.

Pulsed proton N.M.R. studies have also been carried out on the above compound at 30·8 MHz and 48·2 MHz and the spin-lattice relaxation time (T ₁) has been measured by the π - t - π/2 pulse sequence as a function of temperature down to 77 K. At 30·8 MHz, a T ₁ minimum of 13 ms occurs at 105·8 K, and is ascribed to random reorientations of the NH₄ ⁺ ion. An activational energy barrier of 0·74 ± 0·1 kcal/mole and an associated pre-exponential factor of 8·0 × 10^-13 s are calculated for the above motional process, and the value of the activation energy is correlated with the tunnelling splitting of the torsional ground state.

An anomaly in T ₁ has been observed at the ferroelectric Curie point (95 K), indicating the order-disorder nature of the transition. This is the first experimental evidence relating to the nature of the transition in Langbeinite.     

Ultrasound-assisted synthesis of two novel [CuBr(diamine)2·H2O]Br complexes: Solvatochromism,crystal structure,physicochemical, Hirshfeld surface thermal,DNA/binding,antitumor and antibacterial activities

Two new hydrated monocationic Cu(II) complexes with 1,3-propylenediamine and 1,2-ethylenediamine of general formula [CuBr(N-N)₂·H₂O]Br were prepared. The complexes were identified by means of several spectroscopic tools (Uv-visible, IR and MS), thermally (TG/DTA) and CHN-elemental analysis. The three dimensional structure for complex A and B was provide by X-ray diffraction studies and showed the Cu(II) ion as 4 + 1 + 1 coordinated, four nitrogen atoms of the diamine ligands, one bromide ion and one H₂O semi-coordinated to the Cu(II) center, a typical trans effect is clearly observed in the two complexes. The molecular crystal structures are linked via several H-bonds like N_H…Br and N_H…O. Additionally, intra-molecular H-bonds of kind C_H…Br is observed; these interactions lead to crystal structure three dimensional architecture packing. Hirshfeld surfaces (HSA) analysis was served to figure out the inter-contacts and fingerprints atoms percentage. DNA-binding, antitumor and antibacterial effectiveness of the desired complexes were evaluated.     

Structure of 4,4′-butane-(1,4,7-three-p-tolylsulphonyl-1,4,7-three amine) diphthalonitrile

Abstract

The crystal structure of the title compound, C₄₁ H₃₅ N₇ O₆ S₃ was determined as monoclinic by single crystal X-Ray diffraction technique. The molecular structure was identified by IR, ¹H-NMR, ¹³C-NMR and elemental analysis. The crystal parameters of this compound are as follows: monoclinic P 2 1/n, a = 12.694(2) Å, b = 26.204(2) Å, c = 13.005(2) Å, β = 102.95(2)°, V = 4216.02(1) Å.³, Z = 4, Dx = 1.289 g/cm³, F(000) = 1704, λ (MoKα) = 0.71070 Å, μ = 0.2 mm^?1. The structure was solved by SHELXS-97 and refined by SHELXL-97. R = 0.06 for 3178 observed reflections with I > 2σ (I).     

Observation of stimulated Raman scattering in polar tetragonal crystals of barium antimony tartrate trihydrate,Ba[Sb2((+)C4H2O6)2]·3H2O

The non‐centrosymmetric polar tetragonal (P 4₁) barium antimony tartrate trihydrate, Ba[Sb₂((+)C₄H₂O₆)₂]·3H₂O, was found to be an attractive novel semi‐organic crystal manifesting numerous χ ⁽²⁾‐ and χ ⁽³⁾‐nonlinear optical interactions. In particular, with picosecond single‐ and dual‐wavelength pumping SHG and THG via cascaded parametric four‐wave processes were observed. High‐order Stokes and anti‐Stokes lasing related to two SRS‐promoting vibration modes of the crystal, with ω_SRS1 ≈ 575 cm^?1 and ω_SRS2 ≈ 2940 cm^?1, takes place. Basing on a spontaneous Raman investigation an assignment of the two SRS‐active vibration modes is discussed.