New insights into the aggregation of silver pyrazolides using sterically hindered bidentate pyrazole ligands

Recrystallisation of Ag[L(1)] (HL(1) = 3{5}-[pyrid-2-yl]-5{3}-tert-butylpyrazole) in the presence of halide anions leads to two polymorphs of [Ag(3)(μ-Br)(μ-L(1))(2)], which differ in their mode of supramolecular association, and the cluster [Ag(10)(μ-L(1))(8)]Cl(2). In contrast, Ag[L(2)] (HL(2) = 3{5}-[isoquinol-1-yl]-5{3}-tert-butyl-pyrazole) crystallises as a cyclic tetrameric molecule.     

Flexible matching of test ligands to a 3D pharmacophore using a molecular superposition force field: Comparison of predicted and experimental conformations of inhibitors of three enzymes

Summary A computer procedure TFIT, which uses a molecular superposition force field to flexibly match test compounds to a 3D pharmacophore, was evaluated to find out whether it could reliably predict the bioactive conformations of flexible ligands. The program superposition force field optimizes the overlap of those atoms of the test ligand and template that are of similar chemical type, by applying an attractive force between atoms of the test ligand and template which are close together and of similar type (hydrogen bonding, charge, hydrophobicity). A procedure involving Monte Carlo torsion perturbations, followed by torsional energy minimization, is used to find conformations of the test ligand which cominimize the internal energy of the ligand and the superposition energy of ligand and template. The procedure was tested by applying it to a series of flexible ligands for which the bioactive conformation was known experimentally. The 15 molecules tested were inhibitors of thermolysin, HIV-1 protease or endothiapepsin for which X-ray structures of the bioactive conformation were available. For each enzyme, one of the molecules served as a template and the others, after being conformationally randomized, were fitted. The fitted conformation was then compared to the known binding geometry. The matching procedure was successful in predicting the bioactive conformations of many of the structures tested. Significant deviation from experimental results was found only for parts of molecules where it was readily apparent that the template did not contain sufficient information to accurately determine the bioactive conformation.     

Mechanistic studies on a sulfoxide transfer reaction mediated by diphenyl sulfoxide/triflic anhydride

Sulfoxides are frequently used in organic synthesis as chiral auxiliaries and reagents to mediate a wide variety of chemical transformations. For example, diphenyl sulfoxide and triflic anhydride can be used to activate a wide range of glycosyl donors including hemiacetals, glycals and thioglycosides. In this way, an alcohol, enol or sulfide is converted into a good leaving group for subsequent reaction with an acceptor alcohol. However, reaction of diphenyl sulfoxide and triflic anhydride with oxathiane-based thioglycosides, and other oxathianes, leads to a different process in which the thioglycoside is oxidised to a sulfoxide. This unexpected oxidation reaction is very stereoselective and proceeds under anhydrous conditions in which the diphenyl sulfoxide acts both as oxidant and as the source of the oxygen atom. Isotopic labelling experiments support a reaction mechanism that involves the formation of oxodisulfonium (S-O-S) dication intermediates. These intermediates undergo oxygen-exchange reactions with other sulfoxides and also allow interconversion of axial and equatorial sulfoxides in oxathiane rings. The reversibility of the oxygen-exchange reaction suggests that the stereochemical outcome of the oxidation reaction may be under thermodynamic control, which potentially presents a novel strategy for the stereoselective synthesis of sulfoxides.     

Hydrogen bond donors and acceptors are generally depolarized in α-helices as revealed by a molecular tailoring approach

Hydrogen-bond (H-bond) interaction energies in α-helices of short alanine peptides were systematically examined by precise density functional theory calculations, followed by a molecular tailoring approach. The contribution of each H-bond interaction in α-helices was estimated in detail from the entire conformation energies, and the results were compared with those in the minimal H-bond models, in which only H-bond donors and acceptors exist with the capping methyl groups. The former interaction energies were always significantly weaker than the latter energies, when the same geometries of the H-bond donors and acceptors were applied. The chemical origin of this phenomenon was investigated by analyzing the differences among the electronic structures of the local peptide backbones of the α-helices and those of the minimal H-bond models. Consequently, we found that the reduced H-bond energy originated from the depolarizations of both the H-bond donor and acceptor groups, due to the repulsive interactions with the neighboring polar peptide groups in the α-helix backbone. The classical force fields provide similar H-bond energies to those in the minimal H-bond models, which ignore the current depolarization effect, and thus they overestimate the actual H-bond energies in α-helices. © 2019 The Authors. Journal of Computational Chemistry published by Wiley Periodicals, Inc.     

Design and Synthesis of Imidazole and Triazole Pyrazoles as Mycobacterium Tuberculosis CYP121A1 Inhibitors

The emergence of untreatable drug-resistant strains of Mycobacterium tuberculosis is a major public health problem worldwide, and the identification of new efficient treatments is urgently needed. Mycobacterium tuberculosis cytochrome P450 CYP121A1 is a promising drug target for the treatment of tuberculosis owing to its essential role in mycobacterial growth. Using a rational approach, which includes molecular modelling studies, three series of azole pyrazole derivatives were designed through two synthetic pathways. The synthesized compounds were biologically evaluated for their inhibitory activity towards M. tuberculosis and their protein binding affinity (K_D). Series 3 biarylpyrazole imidazole derivatives were the most effective with the isobutyl ( 10 f ) and tert-butyl ( 10 g ) compounds displaying optimal activity (MIC 1.562 μg/mL, K_D 0.22 μM ( 10 f ) and 4.81 μM ( 10 g )). The spectroscopic data showed that all the synthesised compounds produced a type II red shift of the heme Soret band indicating either direct binding to heme iron or (where less extensive Soret shifts are observed) putative indirect binding via an interstitial water molecule. Evaluation of biological and physicochemical properties identified the following as requirements for activity: LogP >4, H-bond acceptors/H-bond donors 4/0, number of rotatable bonds 5–6, molecular volume >340 ų, topological polar surface area <40 Ų.     

Preparation and properties of polyurethane networks based on α,ω-difunctional poly(hexafluoropropylene oxide)

Poly(hexafluoropropylene oxide), poly(HFPO), networks were prepared from functional polymers by end linking via urethane groups. The prepolymers were characterized by NMR spectroscopy and GPC. The networks were characterized by determination of the number of network chains from the shear modulus, and were snown to contain both trifunctional crosslinks and difunctional links. The properties of the networks were investigated by a range of techniques. Compared with fully-fluorinated networks formed via triazine cross-links, investigated previously, the urethane-linked networks were more readily prepared but were poorer elastomers, were less thermally stable, and were less resistant to swelling by common polar solvents. © 1995 John Wiley & Sons, Inc.     

Synthesis and application of a recyclable ionic liquid-supported imidazolidinone catalyst in enantioselective 1,3-dipolar cycloaddition

The synthesis of recyclable ionic liquid-supported imidazolidinone catalyst I and its application in 1,3-dipolar cycloaddition of nitrone with α,β-unsaturated aldehyde with high performance were described. Most importantly, the catalyst I can be recovered and recycled for up to five runs without observing significant decrease in catalytic activity.     

Hydrogen in La2MgNi9D13: the role of magnesium

Reversible hydrogen storage capacity of the La(3-x)Mg(x)Ni(9) alloys, charged by gaseous hydrogen or by electrochemical methods, reaches its maximum at composition La(2)MgNi(9). As (La,Mg)Ni(3-3.5) alloys are the materials used in advanced metal hydride electrodes in Ni-MH batteries, this raises interest in the study of the structure-properties interrelation in the system La(2)MgNi(9)-H(2) (D(2)). In the present work, this system has been investigated by use of in situ synchrotron X-ray and neutron powder diffraction in H(2)/D(2) gas and by performing pressure-composition-temperature measurements. The saturated La(2)MgNi(9)D(13.1) hydride forms via an isotropic expansion and crystallizes with a trigonal unit cell (space group R3m (No.166); a = 5.4151(1) ?; c = 26.584(2) ?; V = 675.10(6) ?(3)). The studied hybrid structure is composed of a stacking of two layers resembling existing intermetallic compounds LaNi(5) (CaCu(5) type) and LaMgNi(4) (Laves type). These are occupied by D to form LaNi(5)D(5.2) and LaMgNi(4)D(7.9). The LaNi(5)D(5.2) slab has a typical structure observed for all reported LaNi(5)-containing hybrid structures of the AB(5) + Laves phase types. However, the Laves type slab LaMgNi(4)D(7.9) is different from the characterized individual LaMgNi(4)D(4.85) hydride. This results from the filling of a greater variety of interstitial sites in the La(2)MgNi(9)D(13)/LaMgNi(4)D(7.9), including MgNi(2), Ni(4), (La/Mg)(2)Ni(2), and (La/Mg)Ni(3), in contrast with individual LaMgNi(4)D(4.85) where only La(2)MgNi(2) and Ni(4) interstitials are occupied. Despite a random distribution of La and Mg in the structure, a local hydrogen ordering takes place with H atoms favoring occupation of two Mg-surrounded sites, triangles MgNi(2) and tetrahedra LaMgNi(2). A directional bonding between Ni, Mg, and hydrogen is observed and is manifested by a formation of the NiH(4) tetrahedra and MgH(6) octahedra, which are connected to each other by sharing H vertexes to form a spatial framework.