An unusual conformation of gabapentin (Gpn) in Pyr‐Gpn‐NH‐NH‐Pyr stabilized by weak interactions

The crystal structure of N‐[(1‐{2‐oxo‐2‐[2‐(pyrazin‐2‐ylcarbonyl)hydrazin‐1‐yl]ethyl}cyclohexyl)methyl]pyrazine‐2‐carboxamide monohydrate (Pyr‐Gpn‐NN‐NH‐Pyr·H₂O), C₁₉H₂₃N₇O₃·H₂O, reveals an unusual trans–gauche (tg⁻) conformation for the gabapentin (Gpn) residue around the C^γ—C^β (θ₁) and C^β—C^α (θ₂) bonds. The molecular conformation is stabilized by intramolecular N—H...N hydrogen bonds and weak C—H...O interactions. The packing of the molecules in the crystal lattice shows a network of strong N—H...O and O—H...O hydrogen bonds together with weak C—H...O and π–π inteactions.     

Vibrational spectra and structure of some oxalic acid/substituted pyridine (methyl-, amino-, and dihalogeno-) complexes: Hydrogen bond features

The Raman and infrared spectra of some polycrystalline substituted pyridine/oxalic acid complexes have been investigated and assignments in terms of group frequencies are given. Various hydrogen bonds (NH?O, OH?O, OH?N) are distinguished and crystal structures are proposed. For the stronger bases (methyl- or aminopyridines with pk_a ≈ 6) proton transfer occurs. The 1/1 complex contains infinite chains of hydrogen oxalate ions linked by strong OH?O hydrogen bonds with vOH between 2000 and 800 cm⁻¹. R_OH?O distances are 2.47–2.62 Å). The substituted pyridinium cations are linked to the chain backbone by medium NH?O hydrogen bonds with NH?O lengths of 2.71–2.81 Å. The 3,5-dichloropyridine forms a 2/1 adduct without proton transfer, in accordance with its pk_a (0.6), and strong OH?N hydrogen bonds occur (vOH about 2000 cm⁻¹ and ). Finally, the 2,6-dihalogenopyridine derivatives do not form complex with oxalic acid, presumably because of steric hindrance.     

Preparation and X-Ray Study of Inclusion Complexes of (4Z,5E)-Pyrimidine-2,4,5,6(1 H,3H)-Tetraone 4,5-Dioxime and the Product of Its Cyclization, (1,2,5)-Oxadiazolo(3,4-d)-Pyrimidine-5,7(4 H,6H)-Dione with Two 18-Membered Macrocycles

The novel dioxime, (4Z,5E)-pyrimidine-2,4,5,6(1H,3H)-tetraone 4,5-dioxime (H₂-PTD) was obtained by the interaction of 6-amino-5-nitrosopyrimidine-2,4(1H,3H)-dione with hydroxylamine hydrochloride. X-ray structural analysis determined the 4Z,5E-configuration of the corresponding monoanion, pyrimidine-2,6(1H,3H)-dione-4-iminole-5-iminolate in the inclusion complexes with diazonia-18-crown-6 (1,4,10,13-tetraoxa-7,16-diazoniacyclooctadecane) (H₂-DA18C6)²⁺ (complex (1), stoichiometry 2 : 1), and its ammonium salt in the complex with the cis-syn-cis isomer of dicyclohexano-18-crown-6(DCHA) (cis-syn-cis-2,5,8,15,18,21-hexaoxatricyclo (20.4.0.0^9,14)hexacosane) (complex (2), stoichiometry 1 : 1). X-ray data were also obtained for the complex of the product of (H₂-PTD) cyclization, (1,2,5)-oxadiazolo(3,4-d)pyrimidine-5,7(4H,6H)-dione (OPD) with diaqua diaza-18-crown-6 (complex (3), stoichiometry 2 : 2 : 1).In (1) the (H-PTD)^- anions are joined into dimers through the bifurcated OH...N and OH...O hydrogen bonds and alternate with diazonia-18-crown-6 cations in the chains sustained by the NH(crown) ... O and NH(crown) ...N interactions. The chains are further combined into the 3D network via NH...O(crown) hydrogen bonds. In (2) the self-complementarity of the (H-PTD)^- anions facilitates their assembly into the chain via OH...N, NH...O and OH...O interactions. The ammonium cations bridge each anion and the DCHA macrocycle with the formation of a ribbon developed along the [101] direction in the unit cell. Ternary complex (3) is built of the neutral species, diaza-18-crown-6, water molecules and dimers of OPD alternated in the chains and held together by OH...O and NH...O hydrogen bonds.     

Water clusters in supramolecular inclusion hydrates. Crystal structure of decaazatricyclo[28.2.2.213.16]tetratriacontane nanohydrate

Inclusion compounds of solvate water molecules in a crystal matrix are investigated by X-ray diffraction analysis of a macrocyclic polyamine decaazatricyclo[28.2.2.2^13.16]tetratriacontane nanohydrate (I). When included in a crystal, water molecules are bonded by water-water (O-H...O) and water—macrocycle (0-H...N and N-H...O) hydrogen bonds, forming a linear cluster. Translated fromZhurnal Strukturnoi Khimii, Vol. 40, No. 5, pp. 993–1001, September–October, 1999.     

dl‐Cysteinium semioxalate

Two chiral counterparts (l ‐ and d ‐cysteinium cations related by an inversion centre) are present in the structure of the title compound, C₃H₈NO₂S⁺·C₂HO₄⁻, with a 1:1 cation–anion ratio. The carboxy group of the cysteinium cation is protonated in the trans position relative to the amino group. The crystal structure is built up of double layers, in which dimers of cysteinium cations are connected to each other not directly, but via bridges of twisted semioxalate anions linked to each other via O—H...O hydrogen bonds forming infinite chains. An interesting feature of the crystal structure is the absence of either S—H...S or S—H...O hydrogen bonds.     

A novel framework of N—H...Br hydrogen bonds forming Br(4,4′‐bipyridinium)4 supramolecular synthons: bis(4,4′‐bipyridinium) tris[tetrabromidoferrate(III)] bromide

In the asymmetric unit of the title compound, (C₁₀H₁₀N₂)₂[FeBr₄]₃Br, the Fe atoms are in a distorted tetrahedral environment. The crystal structure contains a novel arrangement of Br(4,4′‐bipyridinium)₄ supramolecular synthons assembled via short N—H...Br hydrogen bonds (H...Br = 2.55, 2.40, 2.38 and 2.55 Å), where four cations surround one nonbonded bromide ion in a tetrahedral arrangement. These synthons are further connected by hydrogen bonds using the remaining terminal NH hydrogens in each cation and the Br⁻ ions to form an adamantoid‐like network and thus produce a three‐dimensional supramolecular architecture with the [FeBr₄]⁻ ions located in the cavities. The structure shows no significant intermolecular Br...Br, Br...aryl or aryl–aryl interactions.     

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.     

Probing the relationships between molecular conformation and intermolecular contacts in N,N‐dibenzyl‐N′‐(furan‐2‐carbonyl)thiourea

In the crystal structure of the title compound, C₂₀H₁₈N₂O₂S, molecules are linked by bifurcated C—H...O hydrogen‐bond interactions, giving rise to chains whose links are composed of alternating centrosymmetrically disposed pairs of molecules and characterized by R₂²(10) and R₂²(20) hydrogen‐bonding motifs. Also, N—H...S hydrogen bonds form infinite zigzag chains along the [010] direction, which exhibit the C(4) motif. Hirshfeld surface and fingerprint plots were used to explore the intermolecular interactions in the crystal structure. This analysis confirms the important role of C—H...O hydrogen bonds in the molecular conformation and in the crystal structure, providing a potentially useful tool for a full understanding of the intermolecular interactions in acylthiourea derivatives.     

Intra- and intermolecular interactions in crystals ofN′-furfurylideneisonicotinic hydrazide and related compounds. IR spectroscopic and X-ray diffraction studies

The reaction of isonicotinic hydrazide with furfural yieldedN′-furfurylideneisonicotinic hydrazide. IR spectroscopic studies demonstrated that crystallization from different solvents afforded products with an intermolecular NH...O=C hydrogen bond. Conditions of crystallization were chosen under which single crystals with the NH...N_Py intermolecular hydrogen bond (1) were grown. X-ray diffraction analysis demonstrated that the molecular and crystal structure of1 is identical to that ofN′-thienylideneisonicotinic hydrazide (2). The crystal structure consists of layers. The molecules in the layers are linked in zigzag chains through NH...N_Py intermolecular hydrogen bonds. The molecules of the adjacent chains (in the layer) are linked through C=O...H?C intermolecular hydrogen bonds between the O atom of the carbonyl group and the α-H atom of the furan ring. (In the structure of2, the chains are linked through specific intermolecular interactions of different nature but with approximately identical energy.) The replacement of the thiophene fragment (2) by the furan ring (1) is accompanied by a change in the intramolecular electronic effects, which is reflected both in the geometric and spectral characteristics of the molecules in the crystal.     

N‐tert‐Butyl‐N′‐[5‐cyano‐2‐(4‐methylphenoxy)phenylsulfonyl]urea,a new TXA2 receptor antagonist

The title compound, C₁₉H₂₁N₃O₄S, crystallizes in the space group P2/c with two molecules in the asymmetric unit. The conformation of both molecules is very similar and is mainly determined by an intramolecular N—H...O hydrogen bond between a urea N atom and a sulfonyl O atom. The O and second N atom of the urea groups are involved in dimer formation via N—H...O hydrogen bonds. The intramolecular hydrogen‐bonding motif and conformation of the C—SO₂—NH(C=O)—NH—C fragment are explored and compared using the Cambridge Structural Database and theoretical calculations. The crystal packing is characterized by π–π stacking between the 5‐cyanobenzene rings.     

Coulombic interactions,hydrogen bonding and supramolecular chirality in pyridinium trifluoromethanesulfonate

The title compound, C₅H₆N⁺·CF₃SO₃⁻, was serendipitously crystallized in the chiral space group P4₃2₁2. The component entities associate into hydrogen‐bonded helical chains, which propagate along the a and b axes of the crystal, with an alternating disposition of the cations and anions along the chain. N—H...O charge‐assisted hydrogen bonds, from each pyridinium cation to two adjacent trifluoromethanesulfonate anions and from every anion to two different cations, direct the formation of the supramolecular chiral arrays. The crystal packing exhibits nonconventional C—H...O and C—H...F hydrogen bonds between the components. The observed structure demonstrates induction of supramolecular chirality by a combination of Coulombic attractions and intermolecular hydrogen bonds.     

Unusual hydrogen bonding in L‐cysteine hydrogen fluoride

L‐Cysteine hydrogen fluoride, or bis(L‐cysteinium) difluoride–L‐cysteine–hydrogen fluoride (1/1/1), 2C₃H₈NO₂S⁺·2F⁻·C₃H₇NO₂S·HF or L‐Cys⁺(L‐Cys...L‐Cys⁺)F⁻(F⁻...H—F), provides the first example of a structure with cations of the `triglycine sulfate' type, i.e.A⁺(A...A⁺) (where A and A⁺ are the zwitterionic and cationic states of an amino acid, respectively), without a doubly charged counter‐ion. The salt crystallizes in the monoclinic system with the space group P2₁. The dimeric (L‐Cys...L‐Cys⁺) cation and the dimeric (F⁻...H—F) anion are formed via strong O—H...O or F—H...F hydrogen bonds, respectively, with very short O...O [2.4438 (19) Å] and F...F distances [2.2676 (17) Å]. The F...F distance is significantly shorter than in solid hydrogen fluoride. Additionally, there is another very short hydrogen bond, of O—H...F type, formed by a L‐cysteinium cation and a fluoride ion. The corresponding O...F distance of 2.3412 (19) Å seems to be the shortest among O—H...F and F—H...O hydrogen bonds known to date. The single‐crystal X‐ray diffraction study was complemented by IR spectroscopy. Of special interest was the spectral region of vibrations related to the above‐mentioned hydrogen bonds.     

Problems of unusual hydrogen bonds between proton donors and transition metal hydrides and borohydrides

The results of experimental and theoretical studies of intermolecular MH...HX and BH...HX hydrogen bonds with the hydride hydrogen atom acting as a proton accepting site are analyzed. Spectral (IR and NMR) criteria for their formation are presented. The spectral, structural, and thermodynamic characteristics of these unusual hydrogen bonds obey the regularities found for classical hydrogen bonds. It was shown that the MH...HX bonds participate in the proton transfer with the formation of nonclassical cationic hydrides and the |M(η²-H₂|⁺ hydrogen bonds are formed in low-polarity media. Problems arising in this new line of investigations are discussed. Translated fromIzvestiya Akademii Nauk. Seriya Khimicheskaya, No. 5, pp. 846–851, May, 1998.     

Rearrangement of the crystal structure during solid-phase elimination of solvate acetic acid fromN′-(5-nitrofurfurylidene)isonicotinic hydrazide monohydrate

A new crystal modification ofN-(5-nitrofurfurylidene)isonicotinic hydrazide (1) was studied by IR spectroscopy and X-ray structural analysis. The compound studied is the product of solid-phase desolvation of solvate hydrate1 of the composition [MeCOOH · 1 · H₂O]. Spontaneous elimination of solvate acetic acid results in complex overall rearrangement of the crystal structure and formation of a new system of intermolecular hydrogen bonds. The crystal hydrate of 1 : 1 composition (1c) was formed from compound1. In the crystal structure of1c molecules1 are linked in infinite chains through intermolecular C=O...W...H-N hydrogen bonds. The second hydrogen atom of the molecule of the crystallization water is involved in formation of an intermolecular O-H...N(Py) hydrogen bond with the nitrogen atom of the pyridine ring of the molecule of the adjacent chain.Translated fromIzvestiya Akademii Nauk. Seriya Khimicheskaya, No. 10, pp. 2501–2505, October, 1996.     

Different cyclic motifs in phosphoric triamides containing a C(O)NHP(O)(NH)2 skeleton and an R22(10) graph set in three new compounds: a database analysis of hydrogen‐bond strengths based on motifs

In the crystal networks of N,N′‐bis(2‐chlorobenzyl)‐N′′‐(2,6‐difluorobenzoyl)phosphoric triamide, C₂₁H₁₈Cl₂F₂N₃O₂P, (I), N‐(2,6‐difluorobenzoyl)‐N′,N′′‐bis(4‐methoxybenzyl)phosphoric triamide, C₂₃H₂₄F₂N₃O₄P, (II), and N‐(2‐chloro‐2,2‐difluoroacetyl)‐N′,N′′‐bis(4‐methylphenyl)phosphoric triamide, C₁₆H₁₇ClF₂N₃O₂P, (III), C=O...H—N_C(O)NHP(O) and P=O...H—N_amide hydrogen bonds are responsible for the aggregation of the molecules. This is the opposite result from that commonly observed for carbacylamidophosphates, which show a tendency for the phosphoryl group, rather than the carbonyl counterpart, to form hydrogen bonds with the NH group of the C(O)NHP(O) skeleton. This hydrogen‐bond pattern leads to cyclic R₂²(10) motifs in (I)–(III), different from those found for all previously reported compounds of the general formula RC(O)NHP(O)[NR¹R²]₂ with the syn orientation of P=O versus NH [R₂²(8)], and also from those commonly observed for RC(O)NHP(O)[NHR¹]₂ [a sequence of alternate R₂²(8) and R₂²(12) motifs]. In these cases, the R₂²(8) and R₂²(12) graph sets are formed through similar kinds of hydrogen bond, i.e. a pair of P=O...H—N_C(O)NHP(O) hydrogen bonds for the former and two C=O...H—N_amide hydrogen bonds for the latter. This article also reviews 102 similar structures deposited in the Cambridge Structural Database and with the International Union of Crystallography, with the aim of comparing hydrogen‐bond strengths in the above‐mentioned cyclic motifs. This analysis shows that the strongest N—H...O hydrogen bonds exist in the R₂²(8) rings of some molecules. The phosphoryl and carbonyl groups in each of compounds (I)–(III) are anti with respect to each other and the P atoms are in a tetrahedral coordination environment. In the crystal structures, adjacent molecules are linked via the above‐mentioned hydrogen bonds in a linear arrangement, parallel to [010] for (I) and (III) and parallel to [100] for (II). Formation of the N_C(O)NHP(O)—H...O=C instead of the N_C(O)NHP(O)—H...O=P hydrogen bond is reflected in the higher N_C(O)NHP(O)—H vibrational frequencies for these molecules compared with previously reported analogous compounds.     

2,4‐Dimethyl‐1,3‐thiazole‐5‐carboxylic acid: an X‐ray structural study at 100 K and Hirshfeld surface analysis

The crystal structure of the title thiazolecarboxylic acid derivative, C₆H₇NO₂S, (I), has been determined from single‐crystal X‐ray analysis at 100 K. In the crystal packing, an interplay of O—H...N and C—H...O hydrogen bonds connects the molecules to form C(6)R₂²(8) polymeric chains, which are further linked via weak C—H...O hydrogen bonds into a two‐dimensional supramolecular framework. The relative contributions of different interactions to the Hirshfeld surface in (I) and a few related thiazolecarboxylic acid derivatives indicate that the H...H, N...H and O...H contacts can account for about 50–70% of the total Hirshfeld surface area in this class of compound.     

dl‐Alaninium semi‐oxalate monohydrate

The structure of the title compound, C₃H₈NO₂⁺·C₂HO₄⁻·H₂O, is formed by two chiral counterparts (l ‐ and d ‐alaninium cations), semi‐oxalate anions and water molecules, with a 1:1:1 cation–anion–water ratio. The structure is compared with that of the previously known anhydrous dl ‐alaninium semi‐oxalate [Subha Nandhini, Krishnakumar & Natarajan (2001). Acta Cryst. E 57 , o666–o668] in order to investigate the role of water molecules in the crystal packing. The structure of the hydrate resembles that of anhydrous alaninium semi‐oxalate, with the water molecule incorporated into the general three‐dimensional network of hydrogen bonds where it forms four hydrogen bonds with neighbours disposed tetrahedrally about it. Although the main structural motifs in the hydrate and in the anhydrous form are topologically similar, the incorporation of water molecules in the network results in significant geometric distortion. There are several types of hydrogen bond in the crystal structure of the hydrate, two of which (O—H...O bonds between the semi‐oxalate anions and O—H...O hydrogen bonds between water and alaninium cations) are very short. Such hydrogen bonds between semi‐oxalate anions are also present in the anhydrous form of this compound. Short distances between semi‐oxalate anions in neighbouring chains in the hydrate alternate with longer ones, whereas in the anhydrous structure they are equidistant. Despite the similarity of these compounds, dehydration of the hydrate on storage is not of a single‐crystal to single‐crystal type, but gives a polycrystalline pseudomorph, preserving the crystal habit. This transformation proceeds through the formation of an intermediate compound, presumably a hemihydrate.     

Solution and solid-state models of peptide CH...O hydrogen bonds

Fumaramide derivatives were analyzed in solution by (1)H NMR spectroscopy and in the solid state by X-ray crystallography in order to characterize the formation of CH...O interactions under each condition and to thereby serve as models for these interactions in peptide and protein structure. Solutions of fumaramides at 10 mM in CDCl(3) were titrated with DMSO-d(6), resulting in chemical shifts that moved downfield for the CH groups thought to participate in CH...O=S(CD(3))(2) hydrogen bonds concurrent with NH...O=S(CD(3))(2) hydrogen bonding. In this model, nonparticipating CH groups under the same conditions showed no significant change in chemical shifts between 0.0 and 1.0 M DMSO-d(6) and then moved upfield at higher DMSO-d(6) concentrations. At concentrations above 1.0 M DMSO-d(6), the directed CH...O=S(CD(3))(2) hydrogen bonds provide protection from random DMSO-d(6) contact and prevent the chemical shifts for participating CH groups from moving upfield beyond the original value observed in CDCl(3). X-ray crystal structures identified CH...O=C hydrogen bonds alongside intermolecular NH...O=C hydrogen bonding, a result that supports the solution (1)H NMR spectroscopy results. The solution and solid-state data therefore both provide evidence for the presence of CH...O hydrogen bonds formed concurrent with NH...O hydrogen bonding in these structures. The CH...O=C hydrogen bonds in the X-ray crystal structures are similar to those described for antiparallel beta-sheet structure observed in protein X-ray crystal structures.     

Two isomorphous azastilbene derivatives: 1‐(2‐chlorobenzyl)‐4‐[(E)‐2‐(4‐hydroxyphenyl)ethenyl]pyridinium chloride and 1‐(2‐bromobenzyl)‐4‐[(E)‐2‐(4‐hydroxyphenyl)ethenyl]pyridinium bromide

The crystal structures of the two title (E)‐stilbazolium halogenates, C₂₀H₁₇ClNO⁺·Cl⁻ and C₂₀H₁₇BrNO⁺·Br⁻, are isomorphous, with an isostructurality index of 0.985. The azastyryl fragments are almost planar, with dihedral angles between the benzene and pyridine rings of ca 4.5°. The rings of the benzyl groups are, in turn, almost perpendicular to the azastyryl planes, with dihedral angles larger than 80°. The cations and anions are connected by O—H...X⁻ (X = halogen) hydrogen bonds. The halide anions are `sandwiched' between the charged pyridinium rings of neighbouring molecules, and weak C—H...O hydrogen bonds and C—H...X and C—H...π interactions also contribute to the crystal structures.     

Hydrogen‐bonding motifs in 3‐carboxyanilinium bromide and iodide

In the title compounds, C₇H₈NO₂⁺·Br⁻, (I), and C₇H₈NO₂⁺·I⁻, (II), the asymmetric unit contains a discrete 3‐carboxyanilinium cation, with a protonated amine group, and a halide anion. The compounds are not isostructural, and the crystal structures of (I) and (II) are characterized by different two‐dimensional hydrogen‐bonded networks. The ions in (I) are connected into ladder‐like ribbons via N—H...Br hydrogen bonds, while classic cyclic O—H...O hydrogen bonds between adjacent carboxylic acid functions link adjacent ribbons to give three characteristic graph‐set motifs, viz. C₂¹(4), R₄²(8) and R₂²(8). The ions in (II) are connected via N—H...I, N—H...O and O—H...I hydrogen bonds, also with three characteristic graph‐set motifs, viz. C(7), C₂¹(4) and R₄²(18), but an O—H...O interaction is not present.