两种1,2,3-三唑衍生物的配合物合成策略:晶体结构和表面分析

在不同反应条件下反应得到了两种1,2,3-三唑衍生物的配合物[Co（H₂O）₆][Co（L¹）₃]₂·4H₂O（1）和Cu（L²）₂（2）（HL¹=5-methyl-1-phenyl-1H-1,2,3-triazole-4-carboxylic acid;HL²=1-（4-iodophenyl）-5-methyl-1H-1,2,3-triazole-4-carboxylic acid）。通过X射线单晶衍射和红外光谱确定了晶体结构,同时对配合物1和2进行了表面作用分析（Hirshfeld surface analysis）,在二维指纹图谱中可以清楚的看到配合物中的主要分子间作用。     

QSAR Studies on the COX-2 Inhibition by 3,4-Diarylcycloxazolones Based on MEDV Descriptor

Selective inhibition of cyclooxygenase-2 (COX-2) might avoid the side effects of current available nonsteroidal antiinflammatory drugs while retaining their therapeutic efficacy. A novel variable selection and modeling method based on prediction is developed to construct the quantitative structure-activity relationships (QSAR) between the molecular electronegativity distance vector (MEDV) based on 13 atomic types and the biological activities of a set of selective cyclooxygenase-2 inhibitory molecules, 3,4-diarylcycloxazolones (DAA) plus indomethacin,naproxen, and celecoxib. Using multiple linear regression, a 5-variable linear model is developed with the calibrated correlation coefficient of 0.9271 and root mean square error of 0.17 in modeling stage and the validated correlation coefficient of 0.9030 and root mean square error of 0.20 in leave-one-out validation step, respectively. To further test the predictive ability of the model, 20 DAA compounds are picked up to construct a training set which is used to build a QSAR model and then the model is employed to predict the biological activities of the balance compounds. The predicted correlation coefficient and root mean square error are 0.9332 and 0.19, respectively.     

Design of Novel Enantiopure Dispirooxindolopyrrolidine-Piperidones as Promising Candidates toward COVID-19: Asymmetric Synthesis,Crystal Structure and In Silico Studies

Despite the effectiveness of COVID-19 vaccines, there is still an urgent need for discovering new anti-viral drugs to address the awful spread and transmission of the rapidly modifiable virus. In this study, the ability of a small library of enantiomerically pure spirooxindolopyrrolidine-grafted piperidones to inhibit the main protease of SARS-CoV-2 (M^pro) is evaluated. These spiroheterocycles were synthesized by 1,3-dipolar cycloaddition of various stabilized azomethine ylides with chiral dipolarophiles derived from N-[(S)-(-)-methylbenzyl]-4-piperidone. The absolute configuration of contiguous carbons was confirmed by a single crystal X-ray diffraction analysis. The binding of these compounds to SARS-CoV-2 M^pro was investigated using molecular docking and molecular dynamics simulation. Three compounds 4a, 4b and 4e exhibited stable binding modes interacting with the key subsites of the substrate-binding pocket of SARS-CoV-2 M^pro. The synthesized compounds represent potential leads for the development of novel inhibitors of SARS-CoV-2 main protease protein for COVID-19 treatment.     

The Theoretical and Experimental Investigation of the Fluorinated Palladium β-Diketonate Derivatives: Structure and Physicochemical Properties

To search for new suitable Pd precursors for MOCVD/ALD processes, the extended series of fluorinated palladium complexes [Pd(CH₃CXCHCO(R))₂] with β-diketone [tfa−1,1,1-trifluoro-2,4-pentanedionato (1); pfpa−5,5,6,6,6-pentafluoro-2,4-hexanedionato (3); hfba−5,5,6,6,7,7,7-heptafluoro-2,4-heptanedionato (5)] and β-iminoketone [i-tfa−1,1,1-trifluoro-2-imino-4-pentanonato (2); i-pfpa−5,5,6,6,6-pentafluoro-2-imino-4-hexanonato (4); i-hfba-5,5,6,6,7,7,7-heptafluoro-2-imino-4-heptanonato (6)] ligands were synthesized with 70–80% yields and characterized by a set of experimental (SXRD, XRD, IR, NMR spectroscopy, TG) and theoretical (DFT, Hirshfeld surface analysis) methods. Solutions of Pd β-diketonates contained both cis and trans isomers, while only trans isomers were detected in the solutions of Pd β-iminoketonates. The molecules 2–6 and new polymorphs of complexes 3 and 5 were arranged preferentially in stacks, and the distance between molecules in the stack generally increased with elongation of the fluorine chain in ligands. The H…F contacts were the main ones involved in the formation of packages of molecules 1–2, and C…F, F…F, NH…F contacts appeared in the structures of complexes 4–6. The stability of complexes and their polymorphs in the crystal phases were estimated from DFT calculations. The TG data showed that the volatility differences between Pd β-iminoketonates and Pd β-diketonates were minimized with the elongation of the fluorine chain in the ligands.     

Synthesis and Structural Characterization of Pyridine-2,6-dicarboxamide and Furan-2,5-dicarboxamide Derivatives

Derivatives based on pyridine-2-6- and furan-2,5-dicarboxamide scaffolds reveal numerous chemical properties and biological activities. This fact makes them an exciting research topic in supramolecular and coordination chemistry and in discovering new pharmacologically-active compounds. This work aimed to obtain a series of symmetrical pyridine-2-6- and furan-2,5-dicarboxamides through a condensation reaction of the appropriate acyl chlorides and aromatic amides. Successful syntheses were confirmed with NMR spectroscopy. We solved their crystal structures for seven compounds; two pyridine and five furan derivatives. Based on our crystallographic studies, we were able to indicate supramolecular features of the crystals under investigation. Additionally, Hirshfeld surface analysis allowed us to calculate a distribution of intermolecular contacts in the dicarboxamide crystals.     

Novel 1,2,3-Triazole Derivatives as Mimics of Steroidal System—Synthesis,Crystal Structures Determination,Hirshfeld Surfaces Analysis and Molecular Docking

Herein, we present the synthesis and crystal structures determination of five 4-(1-phenyl-1H-1,2,3-triazol-4-yl)phenol derivatives containing halogen atoms, 6a–e, which may be used as an excellent mimic of steroids in the drug development process. Good quality crystals obtained for all of the synthesized compounds allowed the analysis of their molecular structures. Subsequently, the determined crystal structures were used to calculate the Hirshfeld surfaces for each of the synthesized compounds. Furthermore, results of our docking studies indicated that synthesized derivatives are able to bind effectively to the active sites of selected enzymes and receptors involved in the hormone biosynthesis and signaling pathways, analogously to the native steroids.     

吲哚并喹啉衍生物与G-四链体相互作用的分子模拟研究

G-四链体是富含鸟嘌呤碱基的DNA序列通过氢键相互作用形成的四链螺旋结构. 通过小分子化合物诱导与稳定端粒G-四链体从而抑制端粒酶活性是一种新的抗癌策略. 为了研究一系列吲哚并喹啉衍生物与端粒G-四链体的相互作用, 探究其相互作用模式, 从而为实现基于G-四链体结构的药物合理设计提供依据, 使用分子对接的方法构建了吲哚并喹啉衍生物与G-四链体复合物结构, 在此基础上进行分子动力学模拟, 并使用线性相互作用能(LIE)方法计算了化合物与G-四链体的结合自由能. 结果表明: 化合物与G-四链体的主要相互作用方式由氢键、静电与π-π堆积作用构成, 侧链末端基团类型和侧链的长短是影响相互作用强弱的重要因素. 通过LIE方法计算的结合自由能与实验结果基本吻合, 相关度达到r²＝0.79. 并且, 基于预测的结合模式, 总结了拥有更高活性的新型吲哚并喹啉衍生物应具有的几个结构特征.     

趋化因子CCR2的同源模建,分子对接和3D-QSAR研究

趋化因子CCR2参与炎症反应、免疫移植排斥和肿瘤的发生,已成为新的研究热点。本文以CCR5的晶体结构为模板,同源模建CCR2的结构,并用CCR2小分子抑制剂与其进行分子对接以得到小分子的最优构象。在对接叠合的基础上建立了QSAR模型,采用比较分子场分析(Co MFA)以及比较分子相似性分析(Co MSIA)研究得到Co MFA和Co MSIA模型最佳评价参数分别为q2=0.743,r2=0.968和q2=0.68,r2=0.978。3D-QSAR模型的等势图分析表明,改造配体R3基团可提高化合物活性。所建模型稳定性好、预测性强,对基于CCR2的小分子抑制剂的设计、优化和改造提供了参考。     

Two novel trinuclear cluster-based coordination polymers with 2,6-Di-imidazol-1-yl-pyridine: solvothermal syntheses,crystal structures,properties and Hirshfeld surface analysis

Two novel trinuclear cluster-based coordination polymers {[M₃(dip)(AcO)₆]·(X)}_n (1, M = Cu, X = CH₃OH; 2, M = Co, X = 2H₂O) (dip is 2,6-Di-imidazol-1-yl-pyridine), have been synthesised and structurally determined by single crystal X-ray diffraction, element analysis. Crystallographic unit of 1 consists of three Cu(II), six acetic ions, one dip ligand and one methanol molecule, which formed 1D chain through acetic bridges. The 1D chain further constructed 2-D network through dip ligand bridge which formed 3-D network through π···π interaction. Crystallographic unit of 2 consists of three Co(II), six acetic ions, one dip ligand and two water molecules. The trinuclear unit further formed a dimmer through dip ligand bridge which constructed 1-D through dip ligand bridge. The 1D chain further constructed 2-D network through π···π interaction. IR and UV–vis spectrum properties of 1 and 2 were studied. In addition, Hirshfeld surface analysis was also studied for 1.     

Synthesis, Biological Activity Evaluation and Molecular Modeling Study on the New Isoconessimine Derivatives as Acetylcholinesterase Inhibitors

New isoconessimine derivatives were synthesized from conessine （1） and evaluated as acetylcholinesterase （ACHE） inhibitors. The derivatives were prepared via two reaction steps, N-demethylation and nuc]eophilic substi- tution. All of the synthesized derivatives exhibited more potential anti-acetylcholinesterase activities than conessine （1） （IC50=16μmol·L^-1） and isoconessimine （2） （IC50〉300 μmol·L ^-1）. Compound 7b （3fl-[methyl-[2-（4-nitro- phenoxy）ethyl]amino]con-5-enine） showed the most potent inhibitory activity with an IC50 of 110 μmol/L which is close to that of reference compound huperzine A （IC50= 70 μmol/L）. The mode of AChE inhibition by 7h was re- versible and non-competitive. In addition, molecular modeling was performed to explore the binding mode of in- hibitor 7b at the active site of AChE and the results showed that 7b could be docked into the acetylcholinesterase active site and compound 7h had hydrophobic interactions with Trp279 and Leu282.     

Efficient Synthesis of 2-Aminopyridine Derivatives: Antibacterial Activity Assessment and Molecular Docking Studies

A new and suitable multicomponent one-pot reaction was developed for the synthesis of 2-amino-3-cyanopyridine derivatives. Background: This synthesis was demonstrated by the efficient and easy access to a variety of substituted 2-aminopyridines using enaminones as key precursors under solvent-free conditions. Methods: A range of spectroscopic techniques was used to determine and confirm the chemical structures (FTIR, ¹H NMR, ¹³C NMR). The antimicrobial potency of synthesized compounds (2a–d) was tested using disk diffusion assays, and the Minimum Inhibitory Concentration (MIC) for the active compounds was determined against a panel of microorganisms, including Gram-positive and Gram-negative bacteria and yeasts. Moreover, a docking analysis was conducted by Molecular Operating Environment (MOE) software to provide supplementary information about the potential, as well as an ADME-T prediction to describe the pharmacokinetic properties of the best compound and its toxicity. Results: The results of the antimicrobial activity indicated that compound 2c showed the highest activity against Gram-positive bacteria, particularly S. aureus and B. subtilis whose MIC values were 0.039 ± 0.000 µg·mL⁻¹. The results of the theoretical study of compound 2c were in line with the experimental data and exhibited excellent antibacterial potential. Conclusions: On the basis of the obtained results, compound 2c can be used as an antibacterial agent model with high antibacterial potency.     

Promising Antidiabetic and Antimicrobial Agents Based on Fused Pyrimidine Derivatives: Molecular Modeling and Biological Evaluation with Histopathological Effect

Diabetes is the most common metabolic disorder in both developing and non-developing countries, and a well-recognized global health problem. The WHO anticipates an increase in cases from 171 million in 2000 to 366 million by 2030. In the present study, we focus on the preparation of pyrimidine derivatives as potential antidiabetic and antimicrobial agents. Thein vivoeffect on total serum glucose concentration, cholesterol and antioxidant activity was assessed in adult male albino Wister rats and compared to the reference drug glimperide. Promising results were observed for compound 5. The histopathological study confirms that compound 5 results in significant activity with liver maintenance. The antimicrobial activities were evaluated against several bacterial strains such as Salmonella typhimurium ATCC 25566, Bacillus cereus, Escherichia coli NRRN 3008, Pseudomonas aeruginosa ATCC 10145, Staphylococcus aureus ATCC 6538and fungi such as Rhizopus oligosporus, Mucor miehei and Asperillus niger. Compounds 4 and 5 showed a good inhibition of the bacterial zone compared to the reference drug cephradine. Finally, we suggest protein targets for these drugs based on computational analysis, and infer their activities from their predicted modes of binding using molecular modeling. The molecular modeling for compounds 4 and 5 resulted in improved docking scores and hydrogen bonding. The docking studies are in good agreement with the in vitro and in vivo studies.     

Investigation of Isomerization of 2—Seleno—1,3,2—diazaphospholidine Derivatives

For the first time the isomerization of 1,3,2-diazaphospholidine-2-sclenide dervatives in refluxing benzene in the presence of trace water was observed. The structures of isomerized products were determined by IR, ^1H NMR,^31P NMR, elemental analysis and X-ray crystallography. The mechanism of isomerization was also proposed.     

Structural characterization,gelation ability,and energy‐framework analysis of two bis(long‐chain ester)‐substituted 4,4′‐biphenyl compounds

There are few examples of single‐crystal structure determinations of gelators, as gel formation requires that the dissolved gelator self‐assemble into a three‐dimensional network structure incorporating solvent via noncovalent interactions rather than self‐assembly followed by crystallization. In the solid‐state structures of the isostructural compounds 4,4′‐bis[5‐(methoxycarbonyl)pentyloxy]biphenyl (BBO6‐Me), C₂₆H₃₄O₆, and 4,4′‐bis[5‐(ethoxycarbonyl)pentyloxy]biphenyl (BBO6‐Et), C₂₈H₃₈O₆, the molecules sit on a crystallographically imposed center of symmetry, resulting in strictly coplanar phenyl rings. BBO6‐Me behaves as an organogelator in various alcohol solvents, whereas BBO6‐Et does not. The extended structure reveals bundles of molecules that form a columnar superstructure. Framework‐energy calculations reveal much stronger interaction energies within the columns (−52 to −78 kJ mol⁻¹) than between columns (−2 to −16 kJ mol⁻¹). The intracolumnar interactions are dominated by a dispersion component, whereas the intercolumnar interactions have a substantial electrostatic component.     

Crystal growth,structural, spectral,optical, DFT analysis and Z-scan analysis of pyridine-1-ium-2-carboxylatehydrogenbromide (PHBr) for optoelectronic and nonlinear optical applications

A single crystal of Pyridine-1-ium-2-carboxylatehydrogenbromide (PHBr) was grown using the Slow Evaporation Solution Technique. Using Single Crystal X-Ray Diffraction analysis, the crystal lattice characteristics and molecular structure of the grown crystal of PHBr were found and it corresponds to the Triclinic crystal system with space group Pī. Intra and intermolecular interactions were visualized using Hirshfeld surface analysis. The theoretical calculation conducted by Density Functional Theory (DFT) and it is well agreed with the experimental results. The Molecular optimized geometry, FT-IR and HOMO-LUMO energy gap were computed using the B3LYP level of theory with a 6-31 + G (d,p) basis set. The FT-IR spectrum studies are given here to look at the modes of vibration of numerous functional groups found in the PHBr crystal. The measurements of UV–visible NIR transmittance show that the crystal has a high transmittance over the whole visible spectrum. The Z-scan approach is used to perform third-order nonlinear optical (NLO) investigations on a PHBr crystal and optical properties such as linear and nonlinear refractive index are computed.     

HIV-1逆转录酶抑制剂的3D-QSAR研究及分子设计

采用Topomer Co MFA方法对24个二芳基苯胺衍生物进行三维定量构效关系研究,建立了3DQSAR模型,所得优化模型的非交叉相关系数、交互验证系数以及外部验证的复相关系数分别为0.928,0.654和0.940,结果表明该模型具有良好的稳定性和预测能力。采用分子对接技术对药物与受体的作用机制进行了研究,结果显示,药物与HIV-1逆转录酶的LYS172,GLU138,LYS101等位点作用明显。运用这些信息进行分子设计,在理论上获得了一些具有较高活性的新的二芳基苯胺类抗艾滋病药物,该QSAR的研究结果可为新药合成提供理论参考。     

New Pyrimidine-5-Carbonitriles as COX-2 Inhibitors: Design,Synthesis, Anticancer Screening,Molecular Docking,and In Silico ADME Profile Studies

Two series of cyanopyrimidine hybrids were synthesized bearing either benzo[d]imidazole, benzo[d]oxazole, benzo[d]thiazole, and benzo[b]thiophene derivatives via methylene amino linker 3a–3d (Formula A) or various sulphonamide phenyl moieties 5a–5d (Formula B) at the C-2 position. All compounds’ cyclooxygenase COX-2 inhibitory activities were evaluated, and all synthesized compounds demonstrated potent activity at minimal concentrations, with IC₅₀ values in the submicromolar range. Compounds 3b, 5b, and 5d were discovered to be the most active pyrimidine derivatives, with the highest COX-2 percent inhibition and IC₅₀ values being nearly equal to Celecoxib and approximately 4.7-, 9.3-, and 10.5-fold higher than Nimesulide. Furthermore, the pyrimidine derivatives 3b, 5b, and 5d demonstrated anticancer activity comparable to or better than doxorubicin against four cell lines, i.e., MCF-7, A549, A498, and HepG2, with IC₅₀ values in nanomolar in addition to low cytotoxicity on the normal W38-I cell line. The effect of compound 5d on cell cycle progression and apoptosis induction was investigated, and it was found that compound 5d could seize cell growth at the sub-G1 and G2/M phases, as well as increase the proportion of early and late apoptotic rates in MCF-7 cells by nearly 13- and 60-fold, respectively. Moreover, in silico studies for compounds 3b, 5b, and 5d revealed promising findings, such as strong GIT absorption, absence of BBB permeability, nil-to-low drug–drug interactions, good oral bioavailability, and optimal physicochemical properties, indicating their potential as promising therapeutic candidates.     

Chemistry of transition‐metal complexes containing functionalized phosphines: synthesis and structural analysis of rhodium(I) complexes containing allyl and cyanoalkylphosphines

A series of related acetylacetonate–carbonyl–rhodium compounds substituted by functionalized phosphines has been prepared in good to excellent yields by the reaction of [Rh(acac)(CO)₂] (acac is acetylacetonate) with the corresponding allyl‐, cyanomethyl‐ or cyanoethyl‐substituted phosphines. All compounds were fully characterized by ³¹P, ¹H, ¹³C NMR and IR spectroscopy. The X‐ray structures of (acetylacetonato‐κ²O,O′)(tert‐butylphosphanedicarbonitrile‐κP)carbonylrhodium(I), [Rh(C₅H₇O₂)(CO)(C₈H₁₃N₂)] or [Rh(acac)(CO)(^tBuP(CH₂CN)₂}] ( 2b ), (acetylacetonato‐κ²O,O′)carbonyl[3‐(diphenylphosphanyl)propanenitrile‐κP]rhodium(I), [Rh(C₅H₇O₂)(C₁₅H₁₄N)(CO)] or [Rh(acac)(CO){Ph₂P(CH₂CH₂CN)}] ( 2h ), and (acetylacetonato‐κ²O,O′)carbonyl[3‐(di‐tert‐butylphosphanyl)propanenitrile‐κP]rhodium(I), [Rh(C₅H₇O₂)(C₁₁H₂₂N)(CO)] or [Rh(acac)(CO){^tBu₂P(CH₂CH₂CN)}] ( 2i ), showed a square‐planar geometry around the Rh atom with a significant trans influence over the acetylacetonate moiety, evidenced by long Rh—O bond lengths as expected for poor π‐acceptor phosphines. The Rh—P distances displayed an inverse linear dependence with the coupling constants J_P‐Rh and the IR ν(C[triple‐bond]O) bands, which accounts for the Rh—P electronic bonding feature (poor π‐acceptors) of these complexes. A combined study from density functional theory (DFT) calculations and an evaluation of the intramolecular H…Rh contacts from X‐ray diffraction data allowed a comparison of the conformational preferences of these complexes in the solid state versus the isolated compounds in the gas phase. For 2b , 2h and 2i , an energy‐framework study evidenced that the crystal structures are mainly governed by dispersive energy. In fact, strong pairwise molecular dispersive interactions are responsible for the columnar arrangement observed in these complexes. A Hirshfeld surface analysis employing three‐dimensional molecular surface contours and two‐dimensional fingerprint plots indicated that the structures are stabilized by H…H, C…H, H…O, H…N and H…Rh intermolecular interactions.     

Hydrothermal Synthesis,Structural Investigation and Characterization of an Organic-inorganic Hybrid, [Co(BⅡM)_3]_2H[BW_(12)O_(40)]·7H_2O

An organic-inorganic hybrid based on α-Keggin-typed [BW12O40]5- anionic cluster, [Co(BⅡM)3]2H[BW12O40]·7H2O(BⅡM = 2,2′-biimidazole), was hydrothermally synthesized and structurally characterized by thermogravimetric analysis, IR and UV spectra. The title compound crystallizes in monoclinic, space group P21/n with a = 12.3490(10), b = 33.270(3), c = 18.9660(16) β = 105.9950(10)°, V = 7490.5(11) 3, C36H50BCo2N24O47W12, Mr = 3905.80, Dc = 3.451g/cm3, μ(MoKα) = 18.886 mm-1, F(000) = 6972, Z = 4, S = 1.004, the final R = 0.0404 and wR = 0.0914 for 14683 observed reflections(I 2σ(I)). The compound consists of two isolated [Co(BⅡM)3]2+ cations and one [BW12O40]5- anion, in which each Co2+ ion is coordinated by six N atoms from three BⅡM ligands displaying a regular CoN6 octahedron. These components are finally linked together via N–H···O(polyoxometalate and water) hydrogen bonds into a two-dimensional framework. Full investigation of the intermolecular interactions by Hirshfeld surface and fingerprint plots clearly indicates that there are rare W–Oterminal···πimidazole ring interactions which cooperate with the classical N–H···O hydrogen bonds to stabilize the structural packing.     

Synthesis of Organic Chloride Nitrate (C6H8N)2ClNO3, Molecular Structure,and Impact of Anion Disorder on Theoretical Studies

A new organic chloride nitrate compound, (C₆H₈N)₂ClNO₃ ( 1 ) was obtained from reacting Bi(NO₃)₃ · 2H₂O with aniline and HCl. Crystals of X‐ray diffraction quality were grown from aqueous solution. The molecular structure [space group P1 ; unit cell constants: a = 8.4176(14) Å, b = 9.6482(18) Å, c = 10.0363(16) Å, α = 62.993(7)°, β = 86.798(7)°, γ = 72.999(8)°], derived by single‐crystal X‐ray diffraction, comprises of two aniline protonated cations, one chlorine anion, and one disordered nitrate anion. The study of intermolecular interactions using Hirshfeld Surface analysis confirmed that the hydrogen bonds: Cl ··· H, O ··· H/O ··· H, O ··· O and H ··· H contacts play dominant role in the formation of the crystal structure. The analysis of electronic structure and the molecular modelling of four different disorder configurations classify this compound as semiconductors and confirms its good nucleophilic reactivity.