3‐Nitrophenol–4,4′‐bipyridyl N,N′‐dioxide (2/1): a DFT study and CSD analysis of DPNO molecular complexes

The title 2:1 complex of 3‐nitrophenol (MNP) and 4,4′‐bipyridyl N,N′‐dioxide (DPNO), 2C₆H₅NO₃·C₁₀H₈N₂O₂ or 2MNP·DPNO, crystallizes as a centrosymmetric three‐component adduct with a dihedral angle of 59.40 (8)° between the planes of the benzene rings of MNP and DPNO (the DPNO moiety lies across a crystallographic inversion centre located at the mid‐point of the C—C bond linking its aromatic rings). The complex owes its formation to O—H...O hydrogen bonds [O...O = 2.605 (3) Å]. Molecules are linked by intermolecular C—H...O and C—H...N interactions forming R₂¹(6) and R₂²(10) rings, and R₆⁶(34) and R₄⁴(26) macro‐rings, all of which are aligned along the [01] direction, and R₂²(10) and R₂¹(7) rings aligned along the [010] direction. The combination of chains of rings along the [01] and [010] directions generates the three‐dimensional structure. A total of 27 systems containing the DNPO molecule and forming molecular complexes of an organic nature were analysed and compared with the structural characteristics of the dioxide reported here. The N—O distance [1.325 (2) Å] depends not only on the interactions involving the O atom at the N—O group, but also on the structural ordering and additional three‐dimensional interactions in the crystal structure. A density functional theory (DFT) optimized structure at the B3LYP/6‐311G(d,p) level is compared with the molecular structure in the solid state.     

2,2,2‐Trinitroethanol

2,2,2‐Trinitroethanol, C₂H₃N₃O₇, at 100 (2) K has Z′ = 2 in the space group P2₁/c. The structure displays intramolecular O—H...O hydrogen bonds, as well as intermolecular O—H...O and C—H...O hydrogen bonding; the O—H...O hydrogen bonds, forming R₄⁴(8) rings, and dipolar nitro–nitro interactions account for the high density of 1.839 Mg m⁻³.     

(E)‐2‐[(4‐Chlorophenyl)iminomethyl]‐5‐methoxyphenol and (E)‐2‐[(2‐chlorophenyl)iminomethyl]‐5‐methoxyphenol: X‐ray and DFT‐calculated structures

The crystal structures of the title 4‐chlorophenyl, (I), and 2‐chlorophenyl, (II), compounds, both C₁₄H₁₂ClNO₂, have been determined using X‐ray diffraction techniques and the molecular structures have also been optimized at the B3LYP/6‐31 G(d,p) level using density functional theory (DFT). The X‐ray study shows that the title compounds both have strong intramolecular O—H...N hydrogen bonds and that the crystal networks are primarily determined by weak C—H...π and van der Waals interactions. The strong intramolecular O—H...N hydrogen bond is evidence of the preference for the phenol–imine tautomeric form in the solid state. The IR spectra of the compounds were recorded experimentally and also calculated for comparison. The results from both the experiment and theoretical calculations are compared in this study.     

rac‐(Z)‐2‐(2‐Thienylmethylene)‐1‐azabicyclo[2.2.2]octan‐3‐ol

The asymmetric unit of the racemic form of the title compound, C₁₂H₁₅NOS, contains four crystallographically independent molecules. The olefinic bond connecting the 2‐thienyl and 1‐azabicyclo[2.2.2]octan‐3‐ol moieties has Z geometry. Strong hydrogen bonding occurs in a directed co‐operative O—H...O—H...O—H...O—H R₄⁴(8) pattern that influences the conformation of the molecules. Co‐operative C—H...π interactions between thienyl rings are also present. The average dihedral angle between adjacent thienyl rings is 87.09 (4)°.     

Hydrogen‐bonding patterns in 3‐alkyl‐3‐hydroxyindolin‐2‐ones

The molecules of racemic 3‐benzoylmethyl‐3‐hydroxyindolin‐2‐one, C₁₆H₁₃NO₃, (I), are linked by a combination of N—H...O and O—H...O hydrogen bonds into a chain of centrosymmetric edge‐fused R₂²(10) and R₄⁴(12) rings. Five monosubstituted analogues of (I), namely racemic 3‐hydroxy‐3‐[(4‐methylbenzoyl)methyl]indolin‐2‐one, C₁₇H₁₅NO₃, (II), racemic 3‐[(4‐fluorobenzoyl)methyl]‐3‐hydroxyindolin‐2‐one, C₁₆H₁₂FNO₃, (III), racemic 3‐[(4‐chlorobenzoyl)methyl]‐3‐hydroxyindolin‐2‐one, C₁₆H₁₂ClNO₃, (IV), racemic 3‐[(4‐bromobenzoyl)methyl]‐3‐hydroxyindolin‐2‐one, C₁₆H₁₂BrNO₃, (V), and racemic 3‐hydroxy‐3‐[(4‐nitrobenzoyl)methyl]indolin‐2‐one, C₁₆H₁₂N₂O₅, (VI), are isomorphous in space group P. In each of compounds (II)–(VI), a combination of N—H...O and O—H...O hydrogen bonds generates a chain of centrosymmetric edge‐fused R₂²(8) and R₂²(10) rings, and these chains are linked into sheets by an aromatic π–π stacking interaction. No two of the structures of (II)–(VI) exhibit the same combination of weak hydrogen bonds of C—H...O and C—H...π(arene) types. The molecules of racemic 3‐hydroxy‐3‐(2‐thienylcarbonylmethyl)indolin‐2‐one, C₁₄H₁₁NO₃S, (VII), form hydrogen‐bonded chains very similar to those in (II)–(VI), but here the sheet formation depends upon a weak π–π stacking interaction between thienyl rings. Comparisons are drawn between the crystal structures of compounds (I)–(VII) and those of some recently reported analogues having no aromatic group in the side chain.     

Supramolecular hydrogen‐bonding patterns in two cocrystals of the N(7)–H tautomeric form of N6‐benzoyladenine: N6‐benzoyladenine–3‐hydroxypyridinium‐2‐carboxylate (1/1) and N6‐benzoyladenine–DL‐tartaric acid (1/1)

Two novel cocrystals of the N(7)—H tautomeric form of N⁶‐benzoyladenine (BA), namely N⁶‐benzoyladenine–3‐hydroxypyridinium‐2‐carboxylate (3HPA) (1/1), C₁₂H₉N₅O·C₆H₅NO₃, (I), and N⁶‐benzoyladenine–DL‐tartaric acid (TA) (1/1), C₁₂H₉N₅O·C₄H₆O₆, (II), are reported. In both cocrystals, the N⁶‐benzoyladenine molecule exists as the N(7)—H tautomer, and this tautomeric form is stabilized by intramolecular N—H...O hydrogen bonding between the benzoyl C=O group and the N(7)—H hydrogen on the Hoogsteen site of the purine ring, forming an S(7) motif. The dihedral angle between the adenine and phenyl planes is 0.94 (8)° in (I) and 9.77 (8)° in (II). In (I), the Watson–Crick face of BA (N6—H and N1; purine numbering) interacts with the carboxylate and phenol groups of 3HPA through N—H...O and O—H...N hydrogen bonds, generating a ring‐motif heterosynthon [graph set R₂²(6)]. However, in (II), the Hoogsteen face of BA (benzoyl O atom and N7; purine numbering) interacts with TA (hydroxy and carbonyl O atoms) through N—H...O and O—H...O hydrogen bonds, generating a different heterosynthon [graph set R₂²(4)]. Both crystal structures are further stabilized by π–π stacking interactions.     

4‐Hydroxy‐2‐vinyl‐2,3,4,5‐tetrahydro‐1‐benzazepine and its 7‐fluoro and 7‐chloro analogues are isomorphous but not strictly isostructural

4‐Hydroxy‐2‐vinyl‐2,3,4,5‐tetrahydro‐1‐benzazepine, C₁₂H₁₅NO, (I), and its 7‐fluoro and 7‐chloro analogues, namely 7‐fluoro‐4‐hydroxy‐2‐vinyl‐2,3,4,5‐tetrahydro‐1‐benzazepine, C₁₂H₁₄FNO, (II), and 7‐chloro‐4‐hydroxy‐2‐vinyl‐2,3,4,5‐tetrahydro‐1‐benzazepine, C₁₂H₁₄ClNO, (III), are isomorphous, but with variations in the unit‐cell dimensions which preclude in compound (III) one of the weaker intermolecular interactions found in compounds (I) and (II). Thus the compounds are not strictly isostructural in terms of the structurally significant intermolecular interactions, although the corresponding atomic coordinates are very similar. The azepine rings adopt chair conformations. The molecules are linked by a combination of N—H...O and O—H...N hydrogen bonds into chains of edge‐fused R³₃(10) rings, which in compounds (I) and (II) are further linked into sheets by a single C—H...π(arene) hydrogen bond. The significance of this study lies in its observation of isomorphism in compounds (I)–(III), and its observation of a sufficient variation in one of the cell dimensions effectively to alter the range of significant hydrogen bonds present in the crystal structures.     

trans‐Diaquabis(3‐hydroxybenzoato‐κO1)bis(nicotinamide‐κN1)copper(II)

The title compound, [Cu(C₇H₅O₃)₂(C₆H₆N₂O)₂(H₂O)₂], is a two‐dimensional hydrogen‐bonded supramolecular complex. The Cu^II ion resides on a centre of symmetry and is in an octahedral coordination environment comprising two pyridine N atoms, two carboxylate O atoms and two O atoms from water molecules. Intermolecular N—H...O and O—H...O hydrogen bonds produce R₂²(4), R₂²(8) and R₂²(15) rings which lead to one‐dimensional polymeric chains. An extensive two‐dimensional network of N—H...O and O—H...O hydrogen bonds and C—H...π interactions are responsible for crystal stabilization.     

4‐Iodo­anilinium 3‐nitro­phthalate(1–): tripartite sheets built from O—H...O and N—H...O hydrogen bonds

In the title compound, 4‐iodoanilinium 2‐carboxy‐6‐nitrobenzoate, C₆H₇IN⁺·C₈H₄NO₆⁻, the anions are linked by an O—H...O hydrogen bond [H...O = 1.78 Å, O...O = 2.614 (3) Å and O—H...O = 171°] into C(7) chains, and these chains are linked by two two‐centre N—H...O hydrogen bonds [H...O = 1.86 and 1.92 Å, N...O = 2.700 (3) and 2.786 (3) Å, and N—H...O = 153 and 158°] and one three‐centre N—H...(O)₂ hydrogen bond [H...O = 2.02 and 2.41 Å, N...O = 2.896 (3) and 2.789 (3) Å, N—H...O = 162 and 105°, and O...H...O = 92°], thus forming sheets con­taining R(6), R(8), R(13) and R(18) rings.     

2‐Ethyl‐1‐[5‐(4‐methylphenyl)pyrazol‐3‐yl]‐3‐(thiophene‐2‐carbonyl)isothiourea: molecular ribbons containing three types of hydrogen‐bonded ring

The title compound, C₁₈H₁₈N₄OS₂, was prepared by reaction of S,S‐diethyl 2‐thenoylimidodithiocarbonate with 5‐amino‐3‐(4‐methylphenyl)‐1H‐pyrazole using microwave irradiation under solvent‐free conditions. In the molecule, the thiophene unit is disordered over two sets of atomic sites, with occupancies of 0.814 (4) and 0.186 (4), and the bonded distances provide evidence for polarization in the acylthiourea fragment and for aromatic type delocalization in the pyrazole ring. An intramolecular N—H...O hydrogen bond is present, forming an S(6) motif, and molecules are linked by N—H...O and N—H...N hydrogen bonds to form a ribbon in which centrosymmetric R₂²(4) rings, built from N—H...O hydrogen bonds and flanked by inversion‐related pairs of S(6) rings, alternate with centrosymmetric R₂²(6) rings built from N—H...N hydrogen bonds.     

2,3:4,6‐Di‐O‐isopropylidene‐α‐l‐sorbofuranose and 2,3‐O‐isopropylidene‐α‐l‐sorbofuranose

In the title compounds, C₁₂H₂₀O₆, (I), and C₉H₁₆O₆, (II), the five‐membered furanose ring adopts a ⁴T₃ conformation and the five‐membered 1,3‐dioxolane ring adopts an E₃ conformation. The six‐membered 1,3‐dioxane ring in (I) adopts an almost ideal ^OC₃ conformation. The hydrogen‐bonding patterns for these compounds differ substantially: (I) features just one intramolecular O—H...O hydrogen bond [O...O = 2.933 (3) Å], whereas (II) exhibits, apart from the corresponding intramolecular O—H...O hydrogen bond [O...O = 2.7638 (13) Å], two intermolecular bonds of this type [O...O = 2.7708 (13) and 2.7730 (12) Å]. This study illustrates both the similarity between the conformations of furanose, 1,3‐dioxolane and 1,3‐dioxane rings in analogous isopropylidene‐substituted carbohydrate structures and the only negligible influence of the presence of a 1,3‐dioxane ring on the conformations of furanose and 1,3‐dioxolane rings. In addition, in comparison with reported analogs, replacement of the –CH₂OH group at the C1‐furanose position by another group can considerably affect the conformation of the 1,3‐dioxolane ring.     

2,5‐Dicarboxy­anilinium chloride monohydrate

The title compound, C₈H₈NO₄⁺·Cl⁻·H₂O, is the chloro­hydrated form of 2‐amino­benzene‐1,4‐dicarboxylic acid, the basic crystal structure of which is still not known. Mol­ecules are linked by classical N—H⋯O, O—H⋯O, N—H⋯Cl and O—H⋯Cl hydrogen bonds, mainly along the mol­ecular plane, into sheets built by unusual R₆⁴(26), R₆⁴(22) and R₄³(22) rings. The stacking between layers is stabilized by another N—H⋯Cl hydrogen bond and by π–π inter­actions between aromatic rings facing each other.     

N,N′‐Dicyclohexyl‐N‐[4‐(1H‐indol‐3‐yl)butanoyl]urea

The title compound, C₂₅H₃₅N₃O₂, is a novel urea derivative. Pairs of intermolecular N—H...O hydrogen bonds join the molecules into centrosymmetric R₂²(12) and R₂²(18) dimeric rings, which are alternately linked into one‐dimensional polymeric chains along the [010] direction. The parallel chains are connected via C—H...O hydrogen bonds to generate a two‐dimensional framework structure parallel to the (001) plane. The title compound was also modelled by solid‐state density functional theory (DFT) calculations. A comparison of the molecular conformation and hydrogen‐bond geometry obtained from the X‐ray structure analysis and the theoretical study clearly indicates that the DFT calculation agrees closely with the X‐ray structure.     

Hydroxonium hydrate tris(2,4,6‐triamino‐1,3,5‐triazin‐1‐ium) bis[bis(pyridine‐2,6‐dicarboxylato)manganate(II/III)] hydroxide pyridine‐2,6‐dicarboxylic acid solvate pentahydrate

For charge balance in the title compound, (H₅O₂)(C₃H₇N₆)₃[Mn(C₇H₃NO₄)₂]₂(OH)·C₇H₅NO₄·5H₂O, it is assumed that the metal atom site is disordered Mn^II/Mn^III, probably due to partial air oxidation of the starting Mn^II species. The formula unit of the complex contains a hydroxonium hydrate cation, H₅O₂⁺, also known as the Zundel cation, with twofold symmetry. The O...O [2.445 (10) Å] and O...H distances [1.24 (2) Å] in the H₅O₂⁺ cation indicate a strong hydrogen bond. In addition, there is a hydroxide ion that is disordered with respect to a twofold rotation axis. One of the melaminium groups and the pyridine‐2,6‐dicarboxylate (pydc) ligand also reside on crystallographic twofold axes. The coordination environment of the Mn ion is distorted octahedral. Three intermolecular C=O...π interactions are observed, with distances of 3.536 (4), 3.262 (4) and 3.750 (4) Å between carboxylate C=O groups and the centroids of the aromatic rings of pydc and melaminium. There are numerous O—H...O, O—H...N, N—H...O, N—H...N and C—H...O hydrogen bonds. Most of the components of the structure are organized into one plane.     

Comparison of the hydrogen‐bond patterns in 2‐amino‐1,3,4‐thiadiazolium hydrogen oxalate, 2‐amino‐1,3,4‐thiadiazole–succinic acid (1/2), 2‐amino‐1,3,4‐thiadiazole–glutaric acid (1/1) and 2‐amino‐1,3,4‐thiadiazole–adipic acid (1/1)

The X‐ray single‐crystal structure determinations of the chemically related compounds 2‐amino‐1,3,4‐thiadiazolium hydrogen oxalate, C₂H₄N₃S⁺·C₂HO₄⁻, (I), 2‐amino‐1,3,4‐thiadiazole–succinic acid (1/2), C₂H₃N₃S·2C₄H₆O₄, (II), 2‐amino‐1,3,4‐thiadiazole–glutaric acid (1/1), C₂H₃N₃S·C₅H₈O₄, (III), and 2‐amino‐1,3,4‐thiadiazole–adipic acid (1/1), C₂H₃N₃S·C₆H₁₀O₄, (IV), are reported and their hydrogen‐bonding patterns are compared. The hydrogen bonds are of the types N—H...O or O—H...N and are of moderate strength. In some cases, weak C—H...O interactions are also present. Compound (II) differs from the others not only in the molar ratio of base and acid (1:2), but also in its hydrogen‐bonding pattern, which is based on chain motifs. In (I), (III) and (IV), the most prominent feature is the presence of an R₂²(8) graph‐set motif formed by N—H...O and O—H...N hydrogen bonds, which are present in all structures except for (I), where only a pair of N—H...O hydrogen bonds is present, in agreement with the greater acidity of oxalic acid. There are nonbonding S...O interactions present in all four structures. The difference electron‐density maps show a lack of electron density about the S atom along the S...O vector. In all four structures, the carboxylic acid H atoms are present in a rare configuration with a C—C—O—H torsion angle of ∼0°. In the structures of (II)–(IV), the C—C—O—H torsion angle of the second carboxylic acid group has the more common value of ∼|180|°. The dicarboxylic acid molecules are situated on crystallographic inversion centres in (II). The Raman and IR spectra of the title compounds are presented and analysed.     

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].     

6‐Chloro‐2‐oxindole: X‐ray and DFT‐calculated study

The molecule of the title compound (systematic name: 6‐chloroindolin‐2‐one), C₈H₆ClNO, is almost planar, with a dihedral angle of 1.13 (9)° between the planes of the constituent pyrrolidine and benzene rings. Centrosymmetric dimers are formed in the crystal structure by N—H...O hydrogen bonds, and these dimers are additionally linked by Cl...Cl and C—H...O interactions. Density functional theory (DFT) calculations at the B3LYP/6‐31 G(d,p) level of theory were used to optimize the molecular structure and the geometry was best reproduced by optimization of two interacting molecules. The bond orders in the molecule, estimated using the natural bond orbitals (NBO) formalism, are consistent with the observed bond lengths. In particular, the contribution of the lone pair of electrons on the N atom to the N—C bond in the N—C=O group is revealed. The measured IR spectrum of the compound shows a red shift of the N—H stretching frequency compared with the free molecule, due to the formation of the hydrogen bonds.     

Polymorphism in 2‐(4‐hydroxy‐2,6‐dimethylanilino)‐5,6‐dihydro‐4H‐1,3‐thiazin‐3‐ium chloride

Details of the structures of two conformational polymorphs of the title compound, C₁₂H₁₇N₂OS⁺·Cl⁻, are reported. In form (I) (space group P), the two N—H groups of the cation are in a trans conformation, while in form (II) (space group P2₁/c), they are in a cis arrangement. This results in different packing and hydrogen‐bond arrangements in the two forms, both of which have extended chains lying along the a direction. In form (I), these chains are composed of centrosymmetric R₄²(18) (N—H...Cl and O—H...Cl) hydrogen‐bonded rings and R₂²(18) (N—H...O) hydrogen‐bonded rings. In form (II), the chains are formed by centrosymmetric R₄²(18) (N—H...Cl and O—H...Cl) hydrogen‐bonded rings and by R₄²(12) (N—H...Cl) hydrogen‐bonded rings.     

2‐Ethyl‐6‐methylpyridin‐3‐ol and its salt bis(2‐ethyl‐3‐hydroxy‐6‐methylpyridinium) succinate

The title compounds, C₈H₁₁NO, (I), and 2C₈H₁₂NO⁺·C₄H₄O₄²⁻, (II), both crystallize in the monoclinic space group P2₁/c. In the crystal structure of (I), intermolecular O—H...N hydrogen bonds combine the molecules into polymeric chains extending along the c axis. The chains are linked by C—H...π interactions between the methylene H atoms and the pyridine rings into polymeric layers parallel to the ac plane. In the crystal structure of (II), the succinate anion lies on an inversion centre. Its carboxylate groups interact with the 2‐ethyl‐3‐hydroxy‐6‐methylpyridinium cations via intermolecular N—H...O hydrogen bonds with the pyridine ring H atoms and O—H...O hydrogen bonds with the hydroxy H atoms to form polymeric chains, which extend along the [01] direction and comprise R₄⁴(18) hydrogen‐bonded ring motifs. These chains are linked to form a three‐dimensional network through nonclassical C—H...O hydrogen bonds between the pyridine ring H atoms and the hydroxy‐group O atoms of neighbouring cations. π–π interactions between the pyridine rings and C—H...π interactions between the methylene H atoms of the succinate anion and the pyridine rings are also present in this network.     

An unusual two‐dimensional hydrogen‐bonding network in bis(2,9‐dimethyl‐1,10‐phenanthrolin‐1‐ium) peroxodisulfate dihydrate

The title compound, 2C₁₄H₁₃N₂⁺·S₂O₈²⁻·2H₂O, is a protonated amine salt which is formed from two rather uncommon ionic species, namely a peroxodisulfate (pds²⁻) anion, which lies across a crystallographic inversion centre, and a 2,9‐dimethyl‐1,10‐phenanthrolin‐1‐ium (Hdmph⁺) cation lying in a general position. Each pds²⁻ anion binds to two water molecules through strong water–peroxo O—H...O interactions, giving rise to an unprecedented planar network of hydrogen‐bonded macrocycles which run parallel to (100). The atoms of the large R₈⁸(30) rings are provided by four water molecules bridging in fully extended form (...H—O—H...) and four pds²⁻ anions alternately acting as long (...O—S—O—O—S—O...) and short (...O—S—O...) bridges. The Hdmph⁺ cations, in turn, bind to these units through hydrogen bonds involving their protonated N atoms. In addition, the crystal structure also contains π–π and aromatic–peroxo C—H...O interactions.