QSAR,docking studies of 1,3-thiazinan-3-yl isonicotinamide derivatives for antitubercular activity

The enzyme – enoyl acyl carrier protein reductase (enoyl ACP reductase) is a validated target for antitubercular activity. Inhibition of this enzyme interferes with mycolic acid synthesis which is crucial for Mycobacterium tuberculosis cell growth. In the present work 2D and 3D quantitative structure activity relationship (QSAR) studies were carried out on a series of thiazinan–Isoniazid pharmacophore to design newer analogues. For 2D QSAR, the best statistical model was generated using SA-MLR method (r² = 0.958, q² = 0.922) while 3D QSAR model was derived using the SA KNN method (q² = 0.8498). These studies could guide the topological, electrostatic, steric, hydrophobic substitutions around the nucleus based on which the NCEs were designed. Furthermore, molecular docking was performed to gauze the binding affinity of the designed analogues for enoyl ACP reductase enzyme. Amongst all the designed analogues the binding energies of SKS 01 and SKS 05 were found to be −5.267 kcal/mol and −5.237 kcal/mol respectively which was comparable with the binding energy of the standard Isoniazid (−6.254 kcal/mol).     

Computational Analysis of CRTh2 receptor antagonist: A Ligand-based CoMFA and CoMSIA approach

CRTh2 receptor is an important mediator of inflammatory effects and has attracted much attention as a therapeutic target for the treatment of conditions such as asthma, COPD, allergic rhinitis and atopic dermatitis. In pursuit of better CRTh2 receptor antagonist agents, 3D-QSAR studies were performed on a series of 2-(2-(benzylthio)-1H-benzo[d]imidazol-1-yl) acetic acids. There is no crystal structure information available on this protein; hence in this work, ligand-based comparative molecular field analysis (CoMFA) and comparative molecular similarity indices analysis (CoMSIA) were performed by atom by atom matching alignment using systematic search and simulated annealing methods. The 3D-QSAR models were generated with 10 different combinations of test and training set molecules, since the robustness and predictive ability of the model is very important. We have generated 20 models for CoMFA and 100 models for CoMSIA based on two different alignments. Each model was validated with statistical cut off values such as q² > 0.4, r² > 0.5 and r²_pred > 0.5. Based on better q² and r²_pred values, the best predictions were obtained for the CoMFA (model 5 q² = 0.488, r²_pred = 0.732), and CoMSIA (model 45 q² = 0.525, r²_pred = 0.883) from systematic search conformation alignment. The high correlation between the cross-validated/predicted and experimental activities of a test set revealed that the CoMFA and CoMSIA models were robust. Statistical parameters from the generated QSAR models indicated the data is well fitted and have high predictive ability. The generated models suggest that steric, electrostatic, hydrophobic, H-bond donor and acceptor parameters are important for activity. Our study serves as a guide for further experimental investigations on the synthesis of new CRTh2 antagonist.     

Comparative QSAR studies using HQSAR,CoMFA, and CoMSIA methods on cyclic sulfone hydroxyethylamines as BACE1 inhibitors

The inhibition of β-secretase (BACE1) is currently the main pharmacological strategy available for Alzheimer’s disease (AD). 2D QSAR and 3D QSAR analysis on some cyclic sulfone hydroxyethylamines inhibitors against β-secretase (IC₅₀: 0.002–2.75 μM) were carried out using hologram QSAR (HQSAR), comparative molecular field analysis (CoMFA), and comparative molecular similarity indices analysis (CoMSIA) methods. The best model based on the training set was generated with a HQSAR q² value of 0.693 and r² value of 0.981; a CoMFA q² value of 0.534 and r² value of 0.913; and a CoMSIA q² value of 0.512 and r² value of 0.973. In order to gain further understand of the vital interactions between cyclic sulfone hydroxyethylamines and the protease, the analysis was performed by combining the CoMFA and CoMSIA field distributions with the active sites of the BACE1. The final QSAR models could be helpful in the design and development of novel active BACE1 inhibitors.     

New three-dimensional (3,4)-net zincophosphites templated by linear diammonium cations: H3N(CH2)5NH3·Zn3(HPO3)4 and β-H3N(CH2)6NH3·Zn3(HPO3)4

The mild-condition syntheses, single-crystal structures and properties of H₃N(CH₂)₅NH₃·Zn₃(HPO₃)₄ and β-H₃N(CH₂)₆NH₃·Zn₃(HPO₃)₄ are reported. Both are constructed from (3,4)-nets of ZnO₄ tetrahedra and HPO₃ pyramids, sharing vertices to result in three-dimensional anionic open-frameworks. In both materials, the organic species interacts with the framework by way of N–H⋯O bonds. Crystal data: H₃N(CH₂)₅NH₃·Zn₃(HPO₃)₄, M_r = 620.22, orthorhombic, Pccn (No. 56), a = 9.5364 (9) Å, b = 21.8015 (19) Å, c = 9.1118 (7) Å, V = 1894.4 (3) Å³, Z = 4, R(F) = 0.044, wR(F²) = 0.111. β-H₃N(CH₂)₆NH₃·Zn₃(HPO₃)₄, M_r = 634.25, monoclinic, P2₁/n (No. 14), a = 8.7627 (1) Å, b = 13.8117 (2) Å, c = 16.6187 (3) Å, β = 92.680 (1)°, V = 2009.12 (5) Å³, Z = 4, R(F) = 0.072, wR(F²) = 0.187.     

Thorocene adducts of the neutral 2,2′-bipyridine and its radical anion. Synthesis and crystal structures of [Th(η8-C8H8)2(κ2-bipy)] and [Th(μ-η8:η5-C8H8)2(κ2-bipy)K(py)2]∞

Thorocene [Th(Cot)₂] (Cot = η⁸-C₈H₈) readily reacts with 2,2′-bipyridine to give [Th(Cot)₂(κ²-bipy)], which has an unusual bent geometry. This compound is rapidly reduced by KC₈ into the anionic derivative [(Th(Cot)₂(κ²-bipy)]⁻. X-ray diffraction studies suggest the latter to be a Th(IV) compound with the bipyridyl radical anion. These complexes are rare examples of bent actinocene [An(Cot)₂(L)]^q− (q = 0, 1; An = actinide) and bipyridine-containing thorium species.     

Potential energy surface and rate constant of the inversion substitution reactions CH3X + O2 → CH3O2• + X• (X = SH,NO2)

The temperature dependence of the rate constant of the inversion substitution reactions CH₃X + O₂ → CH₃O₂^? + X^? (X = SH, NO₂), can be expressed as k = 6.8 × 10^–12(T/1000)^1.49exp(–62816 cal mol^–1/RT) cm³ s^–1 (X = SH) and k = 6.8 × 10^–12(T/1000)^1.26 × × exp(–61319 cal mol^–1/RT) cm³ s^–1 (X = NO₂), as found with the use of high-level quantum chemical methods and the transition state theory.     

Synthesis and structure of a new scorpionate-dithio carboxyl oxovanadium complex and an organic dithio carboxyl compound

A new complex of oxovanadium(IV), V₂O₂[(HB(pz)₃)₂(pyrro)₂ (1) and a dimer-dithio carboxyl compound (C₅H₈NS₂)₂ (2) have been synthesized by the reaction of VOSO₄·nH₂O with NaHB(pz)₃ and pyrrolidine dithio carboxylic acid ammonium salt. They were characterized by element analysis, IR spectra, UV–vis spectra and X-ray diffraction. Structural analyses of 1 and 2 gave the following parameters: 1, triclinic, P-1, a = 7.732(4) Å, b = 14.285(8) Å, c = 17.802(9) Å, α = 101.314(8)°, β = 92.682(9)°, γ = 92.228(9)°, V = 1923.6(18) Å³, and Z = 4; 2, monoclinic, C2/c, a = 13.857(2) Å, b = 10.4213(18) Å, c = 9.436(2) Å, β = 97.099(2), V = 1352.1(4) Å³, and Z = 4. In complex 1, vanadium atom adopts a distorted tetragonal bipyramid structure, which is typical for oxovanadium(IV) complexes. Compound 2 is a dimer-dithio carboxyl compound with S–S bond. In addition, thermal analysis was performed for analyzing the stabilization of the complexes.     

A time-resolved study of the multiphase chemistry of excited carbonyls: Imidazole-2-carboxaldehyde and halides

Imidazole-2-carboxaldehyde (IC) reactivity in the presence of halide anions (Cl^–, Br^–, I^–) has been studied by laser flash photolysis in aqueous solution at room temperature. The absorption spectrum of the triplet state of IC has been measured with a maximum absorption at 330 nm and a weaker absorption band around 650 nm. Iodide anions proved to be efficient quenchers of the triplet state IC, with a rate coefficient k_q of (5.33 ± 0.25) × 10⁹ M⁻¹ s⁻¹. Quenching by bromide and chloride anions was less efficient, with k_q values of (6.27 ± 0.53) × 10⁶ M⁻¹ s⁻¹ and (1.31 ± 0.16) × 10⁵ M⁻¹ s⁻¹, respectively. The halide (X^–) quenches the triplet state; the resulting transient absorption feature matches that of the corresponding radical anion (X₂^–). We suggest that this type of quenching reactions is a driving force of oxidation reactions in the oceanic surface microlayer (SML) and a source of halogen atoms in the atmosphere.     

Synthesis and asymmetric catalytic application of chiral imidazolium–phosphines derived from (1R,2R)-trans-diaminocyclohexane

Reaction between a chiral imidazole–amine precursor derived from (1R,2R)-trans-diaminocyclohexane and P¹Cl (where P¹ = PPh₂, P(1,3,5-Me₃C₆H₃)₂, P(2,2′-O,O′-(1,1′-biphenyl), P((R)-(2,2′-O,O′-(1,1′-binaphthyl))) and P((S)-(2,2′-O,O′-(1,1′-binaphthyl)))) followed by RX (where R = ⁿPr, ⁱPr, CHPh₂, X = Br; R = ⁱPr, X = I), respectively, gives a selection of chiral imidazolium–phosphine compounds. Deprotonation of the imidazolium salt gives the corresponding NHC–P ligands that can be used in metal-mediated asymmetric catalytic applications. Catalytic reactions show that NHC–P ligands give a significantly greater rate of reaction for a palladium catalysed allylic substitution reaction in comparison to analogous di-NHC or NHC–imine ligands and that NHC–P hybrids are also effective for iridium catalysed transfer hydrogenation.     

Photophysical and photochemical studies of thifensulfuron-methyl herbicide in aqueous solution

The photophysical and photochemical studies of a sulfonylurea herbicide, thifensulfuron-methyl (THM), have been investigated in a buffered aqueous solution. In the first part, the influence of pH on the spectroscopic properties was studied. This allowed the determination of the ground and excited state acidity constants, pK_a = 4 and 4.4, respectively, thus exhibiting the potential existence of a photoinduced protonation in the singlet state. In the second part, the photolysis kinetics was studied at different pH and varying oxygen concentrations, using an HPK 125 W lamp and followed up by the identification of photoproducts formed under continuous photo-irradiation. The kinetics results suggest that the photolysis process is faster in acidic (k = 3 × 10^?4 s^?1) than in basic medium (k = 9.8 × 10^?5 s^?1). The photolysis products were identified by high performance liquid chromatography HPLC-DAD, HPLC–MS and HPLC–MS–MS. In order to obtain a better understanding of the photodegradation mechanism, a laser flash photolysis study was performed. By comparing the quenching rate constant (k_q = 9.64 × 10⁸ mol^?1 l s^?1) obtained from triplet state quenching by molecular oxygen and from the Stern–Volmer relation (k_q = 0.41 × 10⁸ mol^?1 l s^?1), the role of the singlet state in the photodegradation process was demonstrated. The photoproducts originating from both singlet and triplet excited states have been identified and hypothetical photodegradation pathways of the thifensulfuron-methyl in aqueous solution are proposed.     

High-throughput investigation and characterization of strontium-phosphonatoethanesulfonates

Using the polyfunctional ligand 2-phosphonethanesulfonic acid (H₃L) a high-throughput (HT) study was started for the systematic investigation of the system SrCl₂/H₃L/NaOH/H₂O. The HT experiment comprising 48 individual reactions were performed to systematically investigate the influence of pH of the starting mixture as well as the molar ratio Sr²⁺:H₃L. Two new compounds SrH(O₃P–C₂H₄–SO₃) (1) and Sr₃(O₃P–C₂H₄–SO₃)₂(H₂O)₂ (2) were obtained and structurally characterized by single-crystal X-ray diffraction. The reaction products synthesized under hydrothermal conditions always contain traces of SrSO₄, which are due to the decomposition of small amounts of the ligand. While compound 2 could only be obtained under hydrothermal conditions, the synthesis of 1 could be accomplished under milder reaction conditions and a reaction scale-up could be performed. Compound 1 crystallizes in a monoclinic system with space group C2/c (no. 15), a = 534.73(11) pm, b = 1648.7(3) pm, c = 825.43(17) pm, β = 105.34(3)°, V = 701.8(2)–10⁶ pm³, Z = 4, R1 = 0.0268, and wR₂ = 0.0642 for I > 2σ(I). Compound 2 crystallizes in a triclinic system with space group P-1 (no. 2), a = 700.97(14) pm, b = 1008.5(2) pm, c = 1274.8(3) pm, α = 97.63(3)°, β = 92.03(3)°, γ = 92.03(3)°, V = 843.7(3)–10⁶ pm³, Z = 2, R1 = 0.0360, and wR₂ = 0.0896 for I > 2σ(I). In the structure of compound 1 the phosphorous and sulfur atoms cannot be distinguished due to identical crystallographic positions. Thus, an averaged structure was obtained which is built up by edge-sharing SrO₈ polyhedra that form infinite M–O–M chains. Compound 2 contains corner-, edge-, and face-sharing SrO₈ polyhedra which form inorganic M–O–M layers. These M–O–M chains (1) and layers (2) are connected to a three-dimensional network by the –CH₂CH₂– group of the ligand, respectively. Additional characterization by thermogravimetric analysis and IR-spectroscopy for compound 1 is also presented.     

Synthesis,crystal structure and thermal behaviour of [La(hfa)3(Phen)2] (hfa = hexafluoroacetylacetonate,Phen = o-phenanthroline)

The mixed ligand complex [La(hfa)₃(Phen)₂] (I) was obtained by the interaction of La(hfa)₃ and Phen; its composition does not depend on the stoichiometry of the reagents. According to the X-ray single crystal analysis data, complex I crystallizes in the monoclinic space group P2₁/n, with a = 13.583(3) Å, b = 16.959(3) Å, c = 18.860(4) Å, β = 94.71(3)° and Z = 4. The structure of I consists of isolated mononuclear molecules, the coordination number of La being 10. Thermal behaviour and composition of the vapor phase have been studied for I by thermal analysis and mass-spectrometry using a Knudsen cell. The mixed ligand complex I was found to sublime congruently in the temperature range 370–460 K: [La(hfa)₃(Phen)₂]_(s) = [La(hfa)₃(Phen)]_(g) + Phen_(g), Δ_rH⁰(T) = 316.2 ± 1.8 kJ/mol.     

Thermodynamic properties of multicomponent electrolyte solutions in mixed solvents {HCl + NaCl-tert-C4H9OH + H2O} at (278.15 to 318.15) K

The thermodynamic properties of (HCl (m_A) + NaCl (m_B)-tert-C₄H₉OH + H₂O) system were studied by means of e.m.f. measurements in the cell without liquid junction at constant total ionic strength I=1.00 mol · kg⁻¹ from 278.15 K to 318.15 K. The standard electrode potential of Ag–AgCl and activity coefficient of HCl in the mixed solvents have been determined. The results show that the activity coefficient of HCl in HCl–NaCl solution still obeys Harned’s Rule and the logarithm of HCl activity coefficient, lgγ_A, is a linear function reciprocal of temperature at constant composition of the mixture. The standard transfer Gibbs free energy of HCl was calculated.     

Buffer standards for the physiological pH of N-[2-hydroxy-1,1-bis(hydroxymethyl)ethyl]glycine (TRICINE) from T = (278.15 to 328.15) K

The pH values of two buffer solutions without NaCl and seven buffer solutions with added NaCl, having ionic strengths (I = 0.16 mol · kg⁻¹) similar to those of physiological fluids, have been evaluated at 12 temperatures from T = (278.15 to 328.15) K by way of the extended form of the Debye–Hückel equation of the Bates–Guggenheim convention. The residual liquid junction potentials (δE_j) between the buffer solutions of TRICINE and saturated KCl solution of the calomel electrode at T = (298.15 and 310.15) K have been estimated by measurement with a flowing junction cell. For the buffer solutions with the molality of TRICINE(m₁) = 0.06 mol · kg⁻¹, NaTRICINE(m₂) = 0.02 mol · kg⁻¹, and NaCl(m₃) = 0.14 mol · kg⁻¹, the pH values at T = 310.15 K obtained from the extended Debye–Hückel equation and the inclusion of the liquid junction correction are 7.342 and 7.342, respectively. These are in excellent agreement. The zwitterionic buffer TRICINE is recommended as a secondary pH standard in the region for clinical application.     

Modulations in the onoratoite system

The iodide form of the mineral onoratoite was synthesized, and like the Cl and Br based analogues, it displays super structure ordering, but for the iodide, the super structure is clearly incommensurate. Due to the poor quality of crystals attainable, the structure was solved by converting the solution of the Cl analogue to a super space formalism, and then using the structural elements from this solution to model the iodide. The structure is triclinic, crystallizing in the 3+1d super space group P-1(αβγ) with the (pseudomonoclinic) cell parameters a = 19.066(8) Å, b = 4.102(2) Å, c = 10.82(6) Å, β = 108.9(2)° and the modulation wave vector q = (0.4716a¹ + 0.25b¹ + 0.1679c¹) been changed accordingly.