[1,2-Bis(diphenylphosphanyl)ethane-κ2 P,P]chlorido(isonicotinamide-κN)palladium(II) nitrate acetonitrile monosolvate

The PdII central atom in the title complex, [PdCl(C26H24P2)(C6H6N2O)]NO3·CH3CN or [PdCl(dppe)(INAM)]NO3·CH3CN, where dppe is 1,2-bis(diphenylphosphanyl)ethane and INAM is isonicotinamide, exists in a slightly distorted square-planar environment defined by the two P atoms of the dppe ligand, a chloride ligand and the N atom of the isonicotinamide pyridyl ring. The crystal packing in the structure is held together by hydrogen bonds between the amide of the INAM ligand and the nitrate ions that complete the outer coordination sphere. A molecule of acetonitrile is also found in the asymmetric unit of the title complex.

Novel Trifluoromethyl Pyrimidinone Compounds With Activity Against Mycobacterium tuberculosis

The identification and development of new anti-tubercular agents are a priority research area. We identified the trifluoromethyl pyrimidinone series of compounds in a whole-cell screen against Mycobacterium tuberculosis. Fifteen primary hits had minimum inhibitory concentrations (MICs) with good potency IC90 is the concentration at which M. tuberculosis growth is inhibited by 90% (IC90 < 5 μM). We conducted a structure–activity relationship investigation for this series. We designed and synthesized an additional 44 molecules and tested all analogs for activity against M. tuberculosis and cytotoxicity against the HepG2 cell line. Substitution at the 5-position of the pyrimidinone with a wide range of groups, including branched and straight chain alkyl and benzyl groups, resulted in active molecules. Trifluoromethyl was the preferred group at the 6-position, but phenyl and benzyl groups were tolerated. The 2-pyridyl group was required for activity; substitution on the 5-position of the pyridyl ring was tolerated but not on the 6-position. Active molecules from the series demonstrated low selectivity, with cytotoxicity against eukaryotic cells being an issue. However, there were active and non-cytotoxic molecules; the most promising molecule had an MIC (IC90) of 4.9 μM with no cytotoxicity (IC50 > 100 μM). The series was inactive against Gram-negative bacteria but showed good activity against Gram-positive bacteria and yeast. A representative molecule from this series showed rapid concentration-dependent bactericidal activity against replicating M. tuberculosis bacilli with ~4 log kill in <7 days. Overall the biological properties were promising, if cytotoxicity could be reduced. There is scope for further medicinal chemistry optimization to improve the properties without major change in structural features.

Electron density of a nanohoop [2]rotaxane based on invariom refinement

Rotaxanes as well as catenanes are known as potential building blocks of molecular machines. The nanohoop [2]rotaxane investigated is composed of a macrocycle derived from a [6]cycloparaphenylene (CCP, designated as a carbon nanohoop), where one of the six para-linked phenyl rings is replaced by a 2,6-substituted pyridyl ring. This macrocycle is mechanically interlocked with a thread, a linear rod-shaped diyne fragment sitting in the cavity of the macrocycle. Two bulky 3,5-di-t-butyl-phenyl rests as end groups keep the thread fixed. The interplay between macrocycle and thread was examined by means of the electron density distribution (EDD) obtained by application of the invariom formalism, relying on X-ray diffraction data collected earlier. The so-obtained EDD was subjected to topological analysis using the QTAIM formalism. Moreover, molecular Hirshfeld and electrostatic potential (ESP) surfaces were calculated. The 73 C–C bonds were analysed in terms of bond topological properties. For the 46 single and the 22 aromatic bonds, the analysis gave average bond orders of 1.03 and 1.61. The five C–C bonds in the diyne fragment can clearly be distinguished into three types: formal triple bonds with bond orders above 3.0, arene bonds with bond orders of 1.6 and finally bond orders of 1.3 in the adjacent C–C bonds, which indicate a considerable electron delocalization in this fragment. Mapping the ED onto the Hirshfeld surfaces of the macrocycle and the thread does not show strong signals. This shows that in between the molecules only weak non-covalent interactions are present. The electrostatic potentials (ESPs) were mapped onto molecular EDD isosurfaces. For all phenyl rings, small regions of negative ESP are visible on the delocalized π systems. A potential gradient between the mostly positive ESP of the macrocycle and the diyne region of the thread exist, which can be considered the dominant force to hold this rotaxane together.

А singe isomer rotary switch demonstrating anti-Kasha behaviour: Does acidity function matter?

A novel rotary switch, overcoming the disadvantages of the hydrazone based switches with competitive proton acceptor sub-rotors, has been designed. The new compound contains pyridyl ring and COOH group as...

Fluxional dynamics of terpyridine ligand in [Ru(bpy-d8)2(η2-tpy)]2+ complex

Herein, we report the fluxional dynamic behaviour of terpyridineligand in [Ru(bpy-d8)(η2-tpy)]2+ 1. Reaction of Ru(bpy-d8)2Cl2·2H2O with 2,2′:6′,2′′-terpyridine in refluxing methanol afforded 1. Complex 1 has been characterized by 1H NMR spectroscopic analysis. Variable temperature 1H NMR data reveals that the pendant pyridine ring of the tpy ligand in Ru(bpy-d8)2(tpy)]2+ rotates which effects the adjacent ring protons. Moreover, protonation of 1 with trifluoroacetic acid (TFA) confirms that peripheral N on the pendant pyridyl ring of the tpy ligand affects the chemical shifts of protons on the tpy pendant pyridyl ring. Bangladesh J. Sci. Ind. Res.55(4), 253-260, 2020

Synthesis and Structure of [Fe(TPA)Cl2](ClO4) and [{Fe(TPA)Cl}2O](ClO4)2 Where TPA = Tris-(2-pyridylmethyl)amine

[Fe(TPA)Cl2](ClO4), where TPA is tris-(2-pyridylmethyl)amine, crystallizes in the orthorhombic space group P212121 with Z = 4, a = 8.6264(10) Å, b = 15.459(3) Å, and c = 16.008(3) Å. The structure was determined at 110 K from 4333 reflections (3520 observed) with R = 0.041 (Rw = 0.082). The iron is pseudo-octahedral with the two chloride ions cis. The Fe-Cl bond trans to the tertiary amine is shorter. [{Fe(TPA)Cl}2O](ClO4)2 exhibits two polymorphic monoclinic forms, and the monohydrate also crystallizes in a monoclinic form. For the P21/c polymorph, Z = 2, a = 10.839(2) Å, b = 15.956(3) Å, c = 12.416(2) Å, β = 107.024(10)°, and the structure was determined at 95 K from 6514 reflections (3974 observed) with R = 0.052 (Rw = 0.099). For the C2/c polymorph, Z = 4, a = 20.5023(17) Å, b = 15.2711(13) Å, c = 16.1069(11) Å, β = 124.465(4)°, and the structure was determined at 161 K from 6250 reflections (3130 observed) with R = 0.0632 (Rw = 0.1229). For the hydrate, P21/n, Z = 4, a = 16.201(2) Å, b = 16.980(3), c = 16.451(3), β = 112.234(5)°, and the structure was determined at 100 K from 12,745 reflections (6600 observed) with R = 0.097 (Rw = 0.190). In each of the [{Fe(TPA)Cl}2O]2+ units, each iron is pseudo-octahedral with the chloride and oxide ions cis. The oxide bridge is linear, and the two chlorides are anti. The Fe-N distance for the pyridyl ring trans to the oxide bridge is quite long due to the trans influence of the oxide. Graphic Abstract The X-ray structures of [Fe(TPA)Cl2](ClO4), where TPA is tris-(2-pyridylmethyl)amine, and three polymorphs of dimeric [{Fe(TPA)Cl}2O](ClO4)2 are presented and discussed.

Tetrel Bonding and Other Non-Covalent Interactions Assisted Supramolecular Aggregation in a New Pb(II) Complex of an Isonicotinohydrazide

A new supramolecular Pb(II) complex [PbL(NO2)]n was synthesized from Pb(NO3)2, N’-(1-(pyridin-2-yl)ethylidene)isonicotinohydrazide (HL) and NaNO2. [PbL(NO2)]n is constructed from discrete [PbL(NO2)] units with an almost ideal N2O3 square pyramidal coordination environment around Pb(II). The ligand L− is coordinated through the 2-pyridyl N-atom, one aza N-atom, and the carbonyl O-atom. The nitrite ligand binds in a κ2-O,O coordination mode through both O-atoms. The Pb(II) center exhibits a hemidirected coordination geometry with a pronounced coordination gap, which allows a close approach of two additional N-atoms arising from the N=C(O) N-atom of an adjacent molecule and from the 4-pyridyl N-atom from the another adjacent molecule, yielding a N4O3 coordination, constructed from two Pb–N and three Pb–O covalent bonds, and two Pb⋯N tetrel bonds. Dimeric units in the structure of [PbL(NO2)]n are formed by the Pb⋯N=C(O) tetrel bonds and intermolecular electrostatically enforced π+⋯π− stacking interactions between the 2- and 4-pyridyl rings and further stabilized by C–H⋯π intermolecular interactions, formed by one of the methyl H-atoms and the 4-pyridyl ring. These dimers are embedded in a 2D network representing a simplified uninodal 3-connected fes (Shubnikov plane net) topology defined by the point symbol (4∙82). The Hirshfeld surface analysis of [PbL(NO2)] revealed that the intermolecular H⋯X (X = H, C, N, O) contacts occupy an overwhelming majority of the molecular surface of the [PbL(NO2)] coordination unit. Furthermore, the structure is characterized by intermolecular C⋯C and C⋯N interactions, corresponding to the intermolecular π⋯π stacking interactions. Notably, intermolecular Pb⋯N and, most interestingly, Pb⋯H interactions are remarkable contributors to the molecular surface of [PbL(NO2)]. While the former contacts are due to the Pb⋯N tetrel bonds, the latter contacts are mainly due to the interaction with the methyl H-atoms in the π⋯π stacked [PbL(NO2)] molecules. Molecular electrostatic potential (MEP) surface calculations showed marked electrostatic contributions to both the Pb⋯N tetrel bonds and the dimer forming π+⋯π− stacking interactions. Quantum theory of atoms in molecules (QTAIM) analyses underlined the tetrel bonding character of the Pb⋯N interactions. The manifold non-covalent interactions found in this supramolecular assembly are the result of the proper combination of the polyfunctional multidentate pyridine-hydrazide ligand and the small nitrito auxiliary ligand.

Crystal structure, Hirshfeld surface analysis and computational study of the 1:2 co-crystal formed between N,N′-bis[(pyridin-4-yl)methyl]ethanediamide and 3-chlorobenzoic acid

The asymmetric unit of the title 1:2 co-crystal, C14H14N4O2·2C7H5ClO2, comprises a half-molecule of oxalamide (4 LH2), being located about a centre of inversion, and a molecule of3-chlorobenzoic acid (3-ClBA) in a general position. From symmetry, the 4 LH2 molecule has a (+)antiperiplanar conformation with the 4-pyridyl residues lying to either side of the central, planar C2N2O2 chromophore with the dihedral angle between the core and pyridyl ring being 74.69 (11)°; intramolecular amide-N—H...O(amide) hydrogen bonds are noted. The 3-ClBA molecule exhibits a small twist as seen in the C6/CO2 dihedral angle of 8.731 (12)°. In the molecular packing, three-molecule aggregates are formed via carboxylic acid-O—H...N(pyridyl) hydrogen bonding. These are connected into a supramolecular tape along [111] through amide-N—H...O(carbonyl) hydrogen bonding. Additional points of contact between molecules include pyridyl and benzoic acid-C—H...O(amide), methylene-C—H...O(carbonyl) and C—Cl...π(pyridyl) interactions so a three-dimensional architecture results. The contributions to the calculated Hirshfeld surface are dominated by H...H (28.5%), H...O/O...H (23.2%), H...C/C...H (23.3%), H...Cl/Cl...H (10.0%) and C...Cl/C...Cl (6.2%) contacts. Computational chemistry confirms the C—Cl...π interaction is weak, and the importance of both electrostatic and dispersion terms in sustaining the molecular packing despite the strong electrostatic term provided by the carboxylic acid-O—H...N(pyridyl) hydrogen bonds.

A new photoluminescent coordination polymer constructed with an N-donor ligand having extended coordination capabilities derived from quinoline and pyridine

Employment of the organic 2-(pyridin-4-yl)quinoline-4-carboxylic acid ligand with extended coordination capabilities leads to the formation of the one-dimensional copper(II) coordination polymer catena-poly[[diaquacopper(II)]-bis[μ-2-(pyridin-4-yl)quinoline-4-carboxylato]-κ2 N 2:O;κ2 O:N], {[Cu(C15H9N2O2)2(H2O)2]·2H2O} n , under hydrothermal conditions. The ligand, isolated as its hydrochloride salt, namely, 4-(4-carboxyquinolin-2-yl)pyridinium chloride monohydrate, C15H11N2O2 +·Cl−·H2O, reveals a pseudosymmetry element (translation a/2) in its crystal structure. The additional pyridyl N atom, in comparison with the previously reported analogues with an arene ring instead of the pyridyl ring in the present ligand molecule, promotes the formation of a one-dimensional coordination polymer, rather than discrete molecules. This polymer shows photoluminescent properties with bathochromic/hypsochromic shifts of the ligand absorption bands, leading to a single band at 479 nm. The CuII ions are involved in weak antiferromagnetic interactions within dimeric units, as evidenced by SQUID magnetometry.