Hydrogen‐bonded networks in 5‐chloropyridin‐2‐amine–fumaric acid (2/1) and 2‐aminopyridinium dl‐malate

Crystals of 5‐chloropyridin‐2‐amine–(2E)‐but‐2‐enedioate (2/1), 2C₅H₅ClN₂·C₄H₄O₄, (I), and 2‐aminopyridinium dl ‐3‐carboxy‐2‐hydroxypropanoate, C₅H₇N₂⁺·C₄H₅O₅⁻, (II), are built from the neutral 5‐chloropyridin‐2‐amine molecule and fumaric acid in the case of (I) and from ring‐N‐protonated 2‐aminopyridinium cations and malate anions in (II). The fumaric acid molecule lies on an inversion centre. In (I), the neutral 5‐chloropyridin‐2‐amine and fumaric acid molecules interact via hydrogen bonds, forming two‐dimensional layers parallel to the (100) plane, whereas in (II), oppositely charged units interact via ionic and hydrogen bonds, forming a three‐dimensional network.     

A concise synthesis of a highly substituted 6‐(1H‐benzimidazol‐1‐yl)‐5‐nitrosopyrimidin‐2‐amine: synthetic sequence and the molecular and supramolecular structures of one product and two intermediates

A concise and efficient synthesis of 6‐benzimidazolyl‐5‐nitrosopyrimidines has been developed using Schiff base‐type intermediates derived from N⁴‐(2‐aminophenyl)‐6‐methoxy‐5‐nitrosopyrimidine‐2,4‐diamine. 6‐Methoxy‐N⁴‐{2‐[(4‐methylbenzylidene)amino]phenyl}‐5‐nitrosopyrimidine‐2,4‐diamine, (I), and N⁴‐{2‐[(ethoxymethylidene)amino]phenyl}‐6‐methoxy‐5‐nitrosopyrimidine‐2,4‐diamine, (III), both crystallize from dimethyl sulfoxide solution as the 1:1 solvates C₁₉H₁₈N₆O₂·C₂H₆OS, (Ia), and C₁₄H₁₆N₆O₃·C₂H₆OS, (IIIa), respectively. The interatomic distances in these intermediates indicate significant electronic polarization within the substituted pyrimidine system. In each of (Ia) and (IIIa), intermolecular N—H…O hydrogen bonds generate centrosymmetric four‐molecule aggregates. Oxidative ring closure of intermediate (I), effected using ammonium hexanitratocerate(IV), produced 4‐methoxy‐6‐[2‐(4‐methylphenyl‐1H‐benzimidazol‐1‐yl]‐5‐nitrosopyrimidin‐2‐amine, C₁₉H₁₆N₆O₂, (II) [Cobo et al. (2018). Private communication (CCDC 1830889). CCDC, Cambridge, England], where the extent of electronic polarization is much less than in (Ia) and (IIIa). A combination of N—H…N and C—H…O hydrogen bonds links the molecules of (II) into complex sheets.     

Tetra‐ and hexahydrates of bis(adeninium) zoledronate

The present paper reports the structures of bis(adeninium) zoledronate tetrahydrate {systematic name: bis(6‐amino‐7H‐purin‐1‐ium) hydrogen [1‐hydroxy‐2‐(1H‐imidazol‐3‐ium‐1‐yl)‐1‐phosphonatoethyl]phosphonate tetrahydrate}, 2C₅H₆N₅⁺·C₅H₈N₂O₇P₂²⁻·4H₂O, (I), and bis(adeninium) zoledronate hexahydrate {systematic name: a 1:1 cocrystal of bis(6‐amino‐7H‐purin‐1‐ium) hydrogen [1‐hydroxy‐2‐(1H‐imidazol‐3‐ium‐1‐yl)‐1‐phosphonatoethyl]phosphonate hexahydrate and 6‐amino‐7H‐purin‐1‐ium 6‐amino‐7H‐purine dihydrogen [1‐hydroxy‐2‐(1H‐imidazol‐3‐ium‐1‐yl)ethane‐1,1‐diyl]diphosphonate hexahydrate}, 2C₅H₆N₅⁺·C₅H₈N₂O₇P₂²⁻·6H₂O, (II). One of the adenine molecules and one of the phosphonate groups of the zoledronate anion of (II) are protonated on a 50% basis. The zoledronate group displays its usual zwitterionic character, with a protonated imidazole ring; however, the ionization state of the phosphonate groups of the anion for (I) and (II) are different. In (I), the anion has both singly and doubly deprotonated phosphonate groups, while in (II), it has one singly deprotonated phosphonate group and a partially deprotonated phosphonate group. In (I), the cations form an R₂²(10) base pair, while in (II), they form R₂²(8) and R₂²(10) base pairs. Two water molecules in (I) and five water molecules in (II) are involved in water–water interactions. The presence of an additional two water molecules in the structure of (II) might influence the different ionization state of the anion as well as the different packing mode compared to (I).     

Synthesis,crystal structures and magnetic and electrochemiluminescence properties of three manganese(II) complexes

Three novel complexes, namely, penta‐μ‐acetato‐bis(μ₂‐2‐{[2‐(6‐chloropyridin‐2‐yl)hydrazinylidene]methyl}‐6‐methoxyphenolato)‐μ‐formato‐tetramanganese(II), [Mn₄(C₁₃H₁₁ClN₃O₂)₂(C₂H₃O₂)_5.168(CHO₂)_0.832], 1 , hexa‐μ₂‐acetato‐bis(μ₂‐2‐{[2‐(6‐bromopyridin‐2‐yl)hydrazinylidene]methyl}‐6‐methoxyphenolato)tetramanganese(II), [Mn₄(C₁₃H₁₁BrN₃O₂)₂(C₂H₃O₂)₆], 2 , and catena‐poly[[μ₂‐acetato‐acetatoaqua(μ₂‐2‐{[2‐(6‐chloropyridin‐2‐yl)hydrazinylidene]methyl}‐6‐methoxyphenolato)dimanganese(II)]‐μ₂‐acetato], [Mn₂(C₁₃H₁₁ClN₃O₂)(C₂H₃O₂)₃(H₂O)]_n, 3 , have been synthesized using solvothermal methods. Complexes 1 – 3 were characterized by IR spectroscopy, elemental analysis and single‐crystal X‐ray diffraction. Complexes 1 and 2 are tetranuclear manganese clusters, while complex 3 has a one‐dimensional network based on tetranuclear Mn₄(L¹)₂(CH₃COO)₆(H₂O)₂ building units (L¹ is 2‐{[2‐(6‐chloropyridin‐2‐yl)hydrazinylidene]methyl}‐6‐methoxyphenolate). Magnetic studies reveal that complexes 1 – 3 display dominant antiferromagnetic interactions between Mn^II ions through μ₂‐O bridges. In addition, 1 – 3 also display favourable electrochemiluminescence (ECL) properties.     

Structure determination of three furan‐substituted benzimidazoles and calculation of π–π and C—H...π interaction energies

The synthesis and structural characterization of 2‐(furan‐2‐yl)‐1‐(furan‐2‐ylmethyl)‐1H‐benzimidazole [C₁₆H₁₂N₂O₂, (I)], 2‐(furan‐2‐yl)‐1‐(furan‐2‐ylmethyl)‐1H‐benzimidazol‐3‐ium chloride monohydrate [C₁₆H₁₃N₂O₂⁺·Cl⁻·H₂O, (II)] and the hydrobromide salt 5,6‐dimethyl‐2‐(furan‐2‐yl)‐1‐(furan‐2‐ylmethyl)‐1H‐benzimidazol‐3‐ium bromide [C₁₈H₁₇N₂O₂⁺·Br⁻, (III)] are described. Benzimidazole (I) displays two sets of aromatic interactions, each of which involves pairs of molecules in a head‐to‐tail arrangement. The first, denoted set (Ia), exhibits both intermolecular C—H...π interactions between the 2‐(furan‐2‐yl) (abbreviated as Fn) and 1‐(furan‐2‐ylmethyl) (abbreviated as MeFn) substituents, and π–π interactions involving the Fn substituents between inversion‐center‐related molecules. The second, denoted set (Ib), involves π–π interactions involving both the benzene ring (Bz) and the imidazole ring (Im) of benzimidazole. Hydrated salt (II) exhibits N—H...OH₂...Cl hydrogen bonding that results in chains of molecules parallel to the a axis. There is also a head‐to‐head aromatic stacking of the protonated benzimidazole cations in which the Bz and Im rings of one molecule interact with the Im and Fn rings of adjacent molecules in the chain. Salt (III) displays N—H...Br hydrogen bonding and π–π interactions involving inversion‐center‐related benzimidazole rings in a head‐to‐tail arrangement. In all of the π–π interactions observed, the interacting moieties are shifted with respect to each other along the major molecular axis. Basis set superposition energy‐corrected (counterpoise method) interaction energies were calculated for each interaction [DFT, M06‐2X/6‐31+G(d)] employing atomic coordinates obtained in the crystallographic analyses for heavy atoms and optimized H‐atom coordinates. The calculated interaction energies are −43.0, −39.8, −48.5, and −55.0 kJ mol⁻¹ for (Ia), (Ib), (II), and (III), respectively. For (Ia), the analysis was used to partition the interaction energies into the C—H...π and π–π components, which are 9.4 and 24.1 kJ mol⁻¹, respectively. Energy‐minimized structures were used to determine the optimal interplanar spacing, the slip distance along the major molecular axis, and the slip distance along the minor molecular axis for 2‐(furan‐2‐yl)‐1H‐benzimidazole.     

The inner‐salt zwitterion,the dihydrochloride dihydrate and the dimethyl sulfoxide disolvate of 3,6‐bis(pyridin‐2‐yl)pyrazine‐2,5‐dicarboxylic acid

In the inner‐salt zwitterion of 3,6‐bis(pyridin‐2‐yl)pyrazine‐2,5‐dicarboxylic acid, (I), namely 5‐carboxy‐3‐(pyridin‐1‐ium‐2‐yl)‐6‐(pyridin‐2‐yl)pyrazine‐2‐carboxylate, [C₁₆H₁₀N₄O₄, (Ia)], the pyrazine ring has a twist–boat conformation. The opposing pyridine and pyridinium rings are almost perpendicular to one another, with a dihedral angle of 80.24 (18)°, and are inclined to the pyrazine mean plane by 36.83 (17) and 43.74 (17)°, respectively. The carboxy and carboxylate groups are inclined to the mean plane of the pyrazine ring by 43.60 (17) and 45.46 (17)°, respectively. In the crystal structure, the molecules are linked via N—H...O and O—H...O hydrogen bonds, leading to the formation of double‐stranded chains propagating in the [010] direction. On treating (Ia) with aqueous 1 M HCl, the diprotonated dihydrate form 2,2′‐(3,6‐dicarboxypyrazine‐2,5‐diyl)bis(pyridin‐1‐ium) dichloride dihydrate [C₁₆H₁₂N₄O₄²⁺·2Cl⁻·2H₂O, (Ib)] was obtained. The cation lies about an inversion centre. The pyridinium rings and carboxy groups are inclined to the planar pyrazine ring by 55.53 (9) and 19.8 (2)°, respectively. In the crystal structure, the molecules are involved in N—H...Cl, O—H...O_water and O_water—H...Cl hydrogen bonds, leading to the formation of chains propagating in the [010] direction. When (Ia) was recrystallized from dimethyl sulfoxide (DMSO), the DMSO disolvate 3,6‐bis(pyridin‐2‐yl)pyrazine‐2,5‐dicarboxylic acid dimethyl sulfoxide disolvate [C₁₆H₁₀N₄O₄·2C₂H₆OS, (Ic)] of (I) was obtained. Here, the molecule of (I) lies about an inversion centre and the pyridine rings are inclined to the planar pyrazine ring by only 23.59 (12)°. However, the carboxy groups are inclined to the pyrazine ring by 69.0 (3)°. In the crystal structure, the carboxy groups are linked to the DMSO molecules by O—H...O hydrogen bonds. In all three crystal structures, the presence of nonclassical hydrogen bonds gives rise to the formation of three‐dimensional supramolecular architectures.     

2,5‐Diaryl‐1,3,4‐selenadiazoles prepared from Woollins' reagent

Two polymorphs of 2,5‐diphenyl‐1,3,4‐selenadiazole, C₁₄H₁₀N₂Se, denoted (Ia) and (Ib), and a new polymorph of 2,5‐bis(thiophen‐2‐yl)‐1,3,4‐selenadiazole, C₁₀H₆N₂S₂Se, (IIb), form on crystallization of the compounds, prepared using Woollins' reagent (2,4‐diphenyl‐1,3‐diselenadiphosphetane 2,4‐diselenide). These compounds, along with 2‐(4‐chlorophenyl)‐5‐phenyl‐1,3,4‐selenadiazole, C₁₄H₉ClN₂Se, (III), and 2‐(furan‐2‐yl)‐5‐(p‐tolyl)‐1,3,4‐selenadiazole, C₁₃H₁₀N₂OSe, (IV), show similar intermolecular interactions, with π–π stacking, C—H...π interactions and weak hydrogen bonds typically giving rise to molecular chains. However, the combination of interactions differs in each case, giving rise to different packing arrangements. In polymorph (Ib), the molecule lies across a crystallographic twofold rotation axis, and (IV) has two independent molecules in the asymmetric unit.     

Three AgI,CuI and CdII coordination polymers based on the new asymmetrical ligand 2‐{4‐[(1H‐imidazol‐1‐yl)methyl]phenyl}‐5‐(pyridin‐4‐yl)‐1,3,4‐oxadiazole: syntheses,characterization and emission properties

The new asymmetrical organic ligand 2‐{4‐[(1H‐imidazol‐1‐yl)methyl]phenyl}‐5‐(pyridin‐4‐yl)‐1,3,4‐oxadiazole ( L , C₁₇H₁₃N₅O), containing pyridine and imidazole terminal groups, as well as potential oxdiazole coordination sites, was designed and synthesized. The coordination chemistry of L with soft Ag^I, Cu^I and Cd^II metal ions was investigated and three new coordination polymers (CPs), namely, catena‐poly[[silver(I)‐μ‐2‐{4‐[(1H‐imidazol‐1‐yl)methyl]phenyl}‐5‐(pyridin‐4‐yl)‐1,3,4‐oxadiazole] hexafluoridophosphate], {[Ag( L )]PF₆}_n, catena‐poly[[copper(I)‐di‐μ‐iodido‐copper(I)‐bis(μ‐2‐{4‐[(1H‐imidazol‐1‐yl)methyl]phenyl}‐5‐(pyridin‐4‐yl)‐1,3,4‐oxadiazole)] 1,4‐dioxane monosolvate], {[Cu₂I₂( L )₂]·C₄H₈O₂}_n, and catena‐poly[[[dinitratocopper(II)]‐bis(μ‐2‐{4‐[(1H‐imidazol‐1‐yl)methyl]phenyl}‐5‐(pyridin‐4‐yl)‐1,3,4‐oxadiazole)]–methanol–water (1/1/0.65)], {[Cd( L )₂(NO₃)₂]·2CH₄O·0.65H₂O}_n, were obtained. The experimental results show that ligand L coordinates easily with linear Ag^I, tetrahedral Cu^I and octahedral Cd^II metal atoms to form one‐dimensional polymeric structures. The intermediate oxadiazole ring does not participate in the coordination interactions with the metal ions. In all three CPs, weak π–π interactions between the nearly coplanar pyridine, oxadiazole and benzene rings play an important role in the packing of the polymeric chains.     

Three structures containing (E)‐1,2‐bis­(benzimidazol‐2‐yl)ethene groups

Two of the title compounds, namely (E)‐1,2‐bis­(1‐methyl­benzimidazol‐2‐yl)ethene, C₁₈H₁₆N₄, (Ib), and (E)‐1,2‐bis­(1‐ethyl­benzimidazol‐2‐yl)ethene, C₂₀H₂₀N₄, (Ic), consist of centrosymmetric trans‐bis­(1‐alkyl­benzimidazol‐2‐yl)ethene mol­ecules, while 3‐eth­yl‐2‐[(E)‐2‐(1‐ethyl­benzimidazol‐2‐yl)­ethen­yl]benzimidazol‐1‐ium perchlorate, C₂₀H₂₁N₄⁺·ClO₄⁻, (II), contains the monoprotonated analogue of compound (Ic). In the three structures, the benzimidazole and benzimidazolium moieties are essentially planar; the geometric parameters for the ethene linkages and their bonds to the aromatic groups are consistent with double and single bonds, respectively, implying little, if any, conjugation of the central C=C bonds with the nitro­gen‐containing rings. The C—N bond lengths in the N=C—N part of the benzimidazole groups differ and are consistent with localized imine C=N and amine C—N linkages in (Ib) and (Ic); in contrast, the corresponding distances in the benzimidazolium cation are equal in (II), consistent with electron delocalization resulting from protonation of the amine N atom. Crystals of (Ib) and (Ic) contain columns of parallel mol­ecules, which are linked by edge‐over‐edge C—H⋯π overlap. The columns are linked to one another by C—H⋯π inter­actions and, in the case of (Ib), C—H⋯N hydrogen bonds. Crystals of (II) contain layers of monocations linked by π–π inter­actions and separated by both perchlorate anions and the protruding eth­yl groups; the cations and anions are linked by N—H⋯O hydrogen bonds.     

Hydrogen‐bonded sheet structures in neutral,anionic and hydrated 6‐amino‐2‐(morpholin‐4‐yl)‐5‐nitrosopyrimidines

In each of 6‐amino‐3‐methyl‐2‐(morpholin‐4‐yl)‐5‐nitrosopyrimidin‐4(3H)‐one, C₉H₁₃N₅O₃, (I), morpholin‐4‐ium 4‐amino‐2‐(morpholin‐4‐yl)‐5‐nitroso‐6‐oxo‐1,6‐dihydropyrimidin‐1‐ide, C₄H₁₀NO⁺·C₈H₁₀N₅O₃⁻, (II), and 6‐amino‐2‐(morpholin‐4‐yl)‐5‐nitrosopyrimidin‐4(3H)‐one hemihydrate, C₈H₁₁N₅O₃·0.5H₂O, (III), the bond distances within the pyrimidine components are consistent with significant electronic polarization, which is most marked in (II) and least marked in (I). Despite the high level of substitution, the pyrimidine rings are all effectively planar, and in each of the pyrimidine components, there are intramolecular N—H...O hydrogen bonds. In each compound, the organic components are linked by multiple N—H...O hydrogen bonds to form sheets of widely differing construction, and in compound (III) adjacent sheets are linked by the water molecules, so forming a three‐dimensional hydrogen‐bonded framework. This study also contains the first direct geometric comparison between the electronic polarization in a neutral aminonitrosopyrimidine and that in its ring‐deprotonated conjugate anion in a metal‐free environment.     

Two phosphonodehydrotripeptides: Boc0–Gly1–Δ(Z)Phe2–α‐Abu3PO3Me2 and Boc0–Gly1–Δ(Z)Phe2–α‐Nva3PO3Et2

The present paper reports the crystal structures of two short phosphonotripeptides (one in two crystal forms) containing one ΔPhe (dehydrophenylalanine) residue, namely dimethyl (3‐{[tert‐butoxycarbonylglycyl‐α,β‐(Z)‐dehydrophenylalanyl]amino}propyl)phosphonate, Boc⁰–Gly¹–Δ(Z)Phe²–α‐Abu³PO₃Me₂, C₂₁H₃₂N₃O₇P, (I), and diethyl (4‐{[tert‐butoxycarbonylglycyl‐α,β‐(Z)‐dehydrophenylalanyl]amino}butyl)phosphonate, Boc⁰–Gly¹–Δ(Z)Phe²–α‐Nva³PO₃Et₂, as the propan‐2‐ol monosolvate 0.122‐hydrate, C₂₄H₃₈N₃O₇P·C₃H₈O·0.122H₂O, (II), and the ethanol monosolvate 0.076‐hydrate, C₂₄H₃₈N₃O₇P·C₂H₆O·0.076H₂O, (III). The crystals of (II) and (III) are isomorphous but differ in the type of solvent. The phosphono group is linked directly to the last C_α atom in the main chain for all three peptides. All the amino acids are trans linked in the main chains. The crystal structures exhibit no intramolecular hydrogen bonds and are stabilized by intermolecular hydrogen bonds only.     

1‐Carboxymethyl‐3‐methyl‐1H‐imidazol‐3‐ium chloride 2‐(3‐methyl‐1H‐imidazol‐3‐ium‐1‐yl)acetate monohydrate: a crystal stabilized by imidazolium zwitterions

The title compound, C₆H₉N₂O₂⁺·Cl⁻·C₆H₈N₂O₂·H₂O, contains one 2‐(3‐methyl‐1H‐imidazol‐3‐ium‐1‐yl)acetate inner salt molecule, one 1‐carboxymethyl‐3‐methyl‐1H‐imidazol‐3‐ium cation, one chloride ion and one water molecule. In the extended structure, chloride anions and water molecules are linked via O—H...Cl hydrogen bonds, forming an infinite one‐dimensional chain. The chloride anions are also linked by two weak C—H...Cl interactions to neighbouring methylene groups and imidazole rings. Two imidazolium moieties form a homoconjugated cation through a strong and asymmetric O—H...O hydrogen bond of 2.472 (2) Å. The IR spectrum shows a continuous D‐type absorption in the region below 1300 cm⁻¹ and is different to that of 1‐carboxymethyl‐3‐methylimidazolium chloride [Xuan, Wang & Xue (2012). Spectrochim. Acta Part A, 96 , 436–443].     

Synthesis and crystallographic studies of two new 1,3,5‐triazines

The synthesis and characterization of two new 1,3,5‐triazines containing 2‐(aminomethyl)‐1H‐benzimidazole hydrochloride as a substituent are reported, namely, 2‐{[(4,6‐dichloro‐1,3,5‐triazin‐2‐yl)amino]methyl}‐1H‐benzimidazol‐3‐ium chloride, C₁₁H₉Cl₂N₆⁺·Cl^? ( 1 ), and bis(2,2′‐{[(6‐chloro‐1,3,5‐triazine‐2,4‐diyl)bis(azanediyl)]bis(methylene)}bis(1H‐benzimidazol‐3‐ium)) tetrachloride heptahydrate, 2C₁₉H₁₈ClN₉²⁺·4Cl^?·7H₂O ( 2 ). Both salts were characterized using single‐crystal X‐ray diffraction analysis and IR spectroscopy. Moreover, the NMR (¹H and ¹³C) spectra of 1 were obtained. Salts 1 and 2 have triclinic symmetry (space group P) and their supramolecular structures are stabilized by hydrogen bonding and offset π–π interactions. In hydrated salt 2 , the noncovalent interactions yield pseudo‐nanotubes filled with chloride anions and water molecules, which were modelled in the refinement with substitutional and positional disorder.     

Six closely related 4,6‐disubstituted 2‐amino‐5‐formylpyrimidines: different ring conformations,polarized electronic structures,and hydrogen‐bonded assembly in zero,one, two and three dimensions

In each of ethyl N‐{2‐amino‐5‐formyl‐6‐[methyl(phenyl)amino]pyrimidin‐4‐yl}glycinate, C₁₆H₁₉N₅O₃, (I), N‐{2‐amino‐5‐formyl‐6‐[methyl(phenyl)amino]pyrimidin‐4‐yl}glycinamide, C₁₄H₁₆N₆O₂, (II), and ethyl 3‐amino‐N‐{2‐amino‐5‐formyl‐6‐[methyl(phenyl)amino]pyrimidin‐4‐yl}propionate, C₁₇H₂₁N₅O₃, (III), the pyrimidine ring is effectively planar, but in each of methyl N‐{2‐amino‐6‐[benzyl(methyl)amino]‐5‐formylpyrimidin‐4‐yl}glycinate, C₁₆H₁₉N₅O₃, (IV), ethyl 3‐amino‐N‐{2‐amino‐6‐[benzyl(methyl)amino]‐5‐formylpyrimidin‐4‐yl}propionate, C₁₈H₂₃N₅O₃, (V), and ethyl 3‐amino‐N‐[2‐amino‐5‐formyl‐6‐(piperidin‐4‐yl)pyrimidin‐4‐yl]propionate, C₁₅H₂₃N₅O₃, (VI), the pyrimidine ring is folded into a boat conformation. The bond lengths in each of (I)–(VI) provide evidence for significant polarization of the electronic structure. The molecules of (I) are linked by paired N—H...N hydrogen bonds to form isolated dimeric aggregates, and those of (III) are linked by a combination of N—H...N and N—H...O hydrogen bonds into a chain of edge‐fused rings. In the structure of (IV), molecules are linked into sheets by means of two hydrogen bonds, both of N—H...O type, in the structure of (V) by three hydrogen bonds, two of N—H...N type and one of C—H...O type, and in the structure of (VI) by four hydrogen bonds, all of N—H...O type. Molecules of (II) are linked into a three‐dimensional framework structure by a combination of three N—H...O hydrogen bonds and one C—H...O hydrogen bond.     

3‐[5‐(4‐Chlorophenyl)‐1‐(4‐methoxyphenyl)‐1H‐pyrazol‐3‐yl]propionic acid and the corresponding methyl ester

The synthesis of 3‐[5‐(4‐chlorophenyl)‐1‐(4‐methoxyphenyl)‐1H‐pyrazol‐3‐yl]propionic acid, C₁₉H₁₇ClN₂O₃, (I), and its corresponding methyl ester, methyl 3‐[5‐(4‐chlorophenyl)‐1‐(4‐methoxyphenyl)‐1H‐pyrazol‐3‐yl]propionate, C₂₀H₁₉ClN₂O₃, (II), is regiospecific. However, correct identification of the regioisomer formed by spectroscopic techniques is not trivial and single‐crystal X‐ray analysis provided the only means of unambiguous structure determination. Compound (I) crystallizes with Z′ = 2. The propionic acid groups of the two crystallographically unique molecules form a hydrogen‐bonded dimer, as is typical of carboxylic acid groups in the solid state. Conformational differences between the methoxybenzene and pyrazole rings give rise to two unique molecules. The structure of (II) features just one molecule in the asymmetric unit and the crystal packing makes greater use than (I) of weak C—H...A interactions, despite the lack of any functional groups for classical hydrogen bonding.     

Conformational study of (Z)‐5‐(4‐chlorobenzylidene)‐2‐[4‐(2‐hydroxyethyl)piperazin‐1‐yl]‐3H‐imidazol‐4(5H)‐one in different environments: insight into the structural properties of bacterial efflux pump inhibitors

The 2‐amine derivatives of 5‐arylidene‐3H‐imidazol‐4(5H )‐one are a new class of bacterial efflux pump inhibitors, the chemical compounds that are able to restore antibiotic efficacy against multidrug resistant bacteria. 5‐Arylidene‐3H‐imidazol‐4(5H )‐ones with a piperazine ring at position 2 reverse the mechanisms of multidrug resistance (MDR) of the particularly dangerous Gram‐negative bacteria E. coli by inhibition of the efflux pump AcrA/AcrB/TolC (a main multidrug resistance mechanism in Gram‐negative bacteria, consisting of a membrane fusion protein, AcrA, a Resistant‐Nodulation‐Division protein, AcrB, and an outer membrane factor, TolC). In order to study the influence of the environment on the conformation of (Z )‐5‐(4‐chlorobenzylidene)‐2‐[4‐(2‐hydroxyethyl)piperazin‐1‐yl]‐3H‐imidazol‐4(5H )‐one, ( 3 ), two different salts were prepared, namely with picolinic acid {systematic name: 4‐[(Z )‐4‐(4‐chlorobenzylidene)‐5‐oxo‐3,4‐dihydro‐1H‐imidazol‐2‐yl]‐1‐(2‐hydroxyethyl)piperazin‐1‐ium pyridine‐2‐carboxylate, C₁₆H₂₀ClN₄O₂⁺·C₆H₄NO₂⁻, ( 3 a )} and 4‐nitrophenylacetic acid {systematic name: 4‐[(Z )‐4‐(4‐chlorobenzylidene)‐5‐oxo‐3,4‐dihydro‐1H‐imidazol‐2‐yl]‐1‐(2‐hydroxyethyl)piperazin‐1‐ium 2‐(4‐nitrophenyl)acetate, C₁₆H₂₀ClN₄O₂⁺·C₈H₆NO₄⁻, ( 3 b )}. The crystal structures of the new salts were determined by X‐ray diffraction. In both crystal structures, the molecule of ( 3 ) is protonated at an N atom of the piperazine ring by proton transfer from the corresponding acid. The carboxylate group of picolinate engages in hydrogen bonds with three molecules of the cation of ( 3 ), whereas the carboxylate group of 4‐nitrophenylacetate engages in hydrogen bonds with only two molecules of ( 3 ). As a consequence of these interactions, different orientations of the hydroxyethyl group of ( 3 ) are observed. The crystal structures are additionally stabilized by both C—H…N [in ( 3 a )] and C—H…O [in ( 3 a ) and ( 3 b )] intermolecular interactions. The geometry of the imidazolone fragment was compared with other crystal structures possessing this moiety. The tautomer observed in the crystal structures presented here, namely 3H‐imidazol‐4(5H )‐one [systematic name: 1H‐imidazol‐5(4H )‐one], is also that most frequently observed in other structures containing this heterocycle.     

Four oxoindole‐linked α‐alkoxy‐β‐amino acid derivatives

Four structures of oxoindolyl α‐hydroxy‐β‐amino acid derivatives, namely, methyl 2‐{3‐[(tert‐butoxycarbonyl)amino]‐1‐methyl‐2‐oxoindolin‐3‐yl}‐2‐methoxy‐2‐phenylacetate, C₂₄H₂₈N₂O₆, (I), methyl 2‐{3‐[(tert‐butoxycarbonyl)amino]‐1‐methyl‐2‐oxoindolin‐3‐yl}‐2‐ethoxy‐2‐phenylacetate, C₂₅H₃₀N₂O₆, (II), methyl 2‐{3‐[(tert‐butoxycarbonyl)amino]‐1‐methyl‐2‐oxoindolin‐3‐yl}‐2‐[(4‐methoxybenzyl)oxy]‐2‐phenylacetate, C₃₁H₃₄N₂O₇, (III), and methyl 2‐[(anthracen‐9‐yl)methoxy]‐2‐{3‐[(tert‐butoxycarbonyl)amino]‐1‐methyl‐2‐oxoindolin‐3‐yl}‐2‐phenylacetate, C₃₈H₃₆N₂O₆, (IV), have been determined. The diastereoselectivity of the chemical reaction involving α‐diazoesters and isatin imines in the presence of benzyl alcohol is confirmed through the relative configuration of the two stereogenic centres. In esters (I) and (III), the amide group adopts an anti conformation, whereas the conformation is syn in esters (II) and (IV). Nevertheless, the amide group forms intramolecular N—H...O hydrogen bonds with the ester and ether O atoms in all four structures. The ether‐linked substituents are in the extended conformation in all four structures. Ester (II) is dominated by intermolecular N—H...O hydrogen‐bond interactions. In contrast, the remaining three structures are sustained by C—H...O hydrogen‐bond interactions.     

Impact of the anion and chalcogen on the crystal structure and properties of 4,6‐dimethyl‐2‐pyrimido(thio)nium halides

By the reaction of urea or thiourea, acetylacetone and hydrogen halide (HF, HBr or HI), we have obtained seven new 4,6‐dimethyl‐2‐pyrimido(thio)nium salts, which were characterized by single‐crystal X‐ray diffraction, namely, 4,6‐dimethyl‐2‐oxo‐2,3‐dihydropyrimidin‐1‐ium bifluoride, C₆H₉N₂O⁺·HF₂^? or (dmpH)F₂H, 4,6‐dimethyl‐2‐oxo‐2,3‐dihydropyrimidin‐1‐ium bromide, C₆H₉N₂O⁺·Br^? or (dmpH)Br, 4,6‐dimethyl‐2‐oxo‐2,3‐dihydropyrimidin‐1‐ium iodide, C₆H₉N₂O⁺·I^? or (dmpH)I, 4,6‐dimethyl‐2‐oxo‐2,3‐dihydropyrimidin‐1‐ium iodide–urea (1/1), C₆H₉N₂O⁺·I^?·CH₄N₂O or (dmpH)I·ur, 4,6‐dimethyl‐2‐sulfanylidene‐2,3‐dihydropyrimidin‐1‐ium bifluoride–thiourea (1/1), C₆H₉N₂S⁺·HF₂^?·CH₄N₂S or (dmptH)F₂H·tu, 4,6‐dimethyl‐2‐sulfanylidene‐2,3‐dihydropyrimidin‐1‐ium bromide, C₆H₉N₂S⁺·Br^? or (dmptH)Br, and 4,6‐dimethyl‐2‐sulfanylidene‐2,3‐dihydropyrimidin‐1‐ium iodide, C₆H₉N₂S⁺·I^? or (dmptH)I. Three HCl derivatives were described previously in the literature, namely, 4,6‐dimethyl‐2‐oxo‐2,3‐dihydropyrimidin‐1‐ium chloride, (dmpH)Cl, 4,6‐dimethyl‐2‐sulfanylidene‐2,3‐dihydropyrimidin‐1‐ium chloride monohydrate, (dmptH)Cl·H₂O, and 4,6‐dimethyl‐2‐sulfanylidene‐2,3‐dihydropyrimidin‐1‐ium chloride–thiourea (1/1), (dmptH)Cl·tu. Structural analysis shows that in 9 out of 10 of these compounds, the ions form one‐dimensional chains or ribbons stabilized by hydrogen bonds. Only in one compound are parallel planes present. In all the structures, there are charge‐assisted N⁺—H…X^? hydrogen bonds, as well as weaker C_Ar⁺—H…X^? and π⁺…X^? interactions. The structures can be divided into five types according to their hydrogen‐bond patterns. All the compounds undergo thermal decomposition at relatively high temperatures (150–300 °C) without melting. Four oxopyrimidinium salts containing a π⁺…X^?…π⁺ sandwich‐like structural motif exhibit luminescent properties.     

Nimustine hydrochloride: the first crystal structure determination of a 2‐chloroethyl‐N‐nitrosourea hydrochloride derivative by X‐ray powder diffraction and solid‐state NMR

Nimustine hydrochloride [systematic name: 4‐amino‐5‐({[N‐(2‐chloroethyl)‐N‐nitrosocarbamoyl]amino}methyl)‐2‐methylpyrimidin‐1‐ium chloride], C₉H₁₄ClN₆O₂⁺·Cl⁻, is a prodrug of CENU (chloroethylnitrosourea) and is used as a cytostatic agent in cancer therapy. Its crystal structure was determined from laboratory X‐ray powder diffraction data. The protonation at an N atom of the pyrimidine ring was established by solid‐state NMR spectroscopy.