From small structural modifications to adjustment of structurally dependent properties: 1‐methyl‐3,5‐bis[(E)‐2‐thienylidene]‐4‐piperidone and 3,5‐bis[(E)‐5‐bromo‐2‐thienylidene]‐1‐methyl‐4‐piperidone

The molecules of the title compounds, C₁₆H₁₅NOS₂, (I), and C₁₆H₁₃Br₂NOS₂, (II), are E,E‐isomers and consist of an extensive conjugated system, which determines their molecular geometries. Compound (I) crystallizes in the monoclinic space group P2₁/c. It has one thiophene ring disordered over two positions, with a minor component contribution of 0.100 (3). Compound (II) crystallizes in the noncentrosymmetric orthorhombic space group Pca2₁ with two independent molecules in the unit cell. These molecules are related by a noncrystallographic pseudo‐inversion center and possess very similar geometries. The crystal packings of (I) and (II) have a topologically common structural motif, viz. stacks along the b axis, in which the molecules are bound by weak C—H...O hydrogen bonds. The noncentrosymmetric packing of (II) is governed by attractive intermolecular Br...Br and Br...N interactions, which are also responsible for the very high density of (II) (1.861 Mg m⁻³).     

Solvatomorphism in (E)‐2‐(2,6‐dichloro‐4‐hydroxybenzylidene)hydrazinecarboximidamide

The structures of orthorhombic (E)‐4‐(2‐{[amino(iminio)methyl]amino}vinyl)‐3,5‐dichlorophenolate dihydrate, C₈H₈Cl₂N₄O·2H₂O, (I), triclinic (E)‐4‐(2‐{[amino(iminio)methyl]amino}vinyl)‐3,5‐dichlorophenolate methanol disolvate, C₈H₈Cl₂N₄O·2CH₄O, (II), and orthorhombic (E)‐amino[(2,6‐dichloro‐4‐hydroxystyryl)amino]methaniminium acetate, C₈H₉Cl₂N₄O⁺·C₂H₃O₂⁻, (III), all crystallize with one formula unit in the asymmetric unit, with the molecule in an E configuration and the phenol H atom transferred to the guanidine N atom. Although the molecules of the title compounds form extended chains via hydrogen bonding in all three forms, owing to the presence of different solvent molecules, those chains are connected differently in the individual forms. In (II), the molecules are all coplanar, while in (I) and (III), adjacent molecules are tilted relative to one another to varying degrees. Also, because of the variation in hydrogen‐bond‐formation ability of the solvents, the hydrogen‐bonding arrangements vary in the three forms.     

2‐Ammonio‐5‐chloro‐4‐methylbenzenesulfonate,its 1‐methyl‐2‐pyrrolidone and dimethyl sulfoxide monosolvates and a corrected structure of 2,2′‐(1,4‐phenylene)di(4,5‐dihydroimidazolium) bis(4‐aminobenzenesulfonate) dihydrate

2‐Ammonio‐5‐chloro‐4‐methylbenzenesulfonate, C₇H₈ClNO₃S, (Ia), is an intermediate in the synthesis of lake red azo pigments. The present structure determination from single‐crystal data confirms the results of a previous powder diffraction determination [Bekö, Thoms, Brüning, Alig, van de Streek, Lakatos, Glaubitz & Schmidt (2010). Z. Kristallogr. 225 , 382–387]. The zwitterionic tautomeric form is confirmed. During a polymorph screening, two additional pseudopolymorphs were obtained, viz. 2‐ammonio‐5‐chloro‐4‐methylbenzenesulfonate 1‐methyl‐2‐pyrrolidone monosolvate, C₇H₈ClNO₃S·C₅H₉NO, (Ib), and 2‐ammonio‐5‐chloro‐4‐methylbenzenesulfonate dimethyl sulfoxide monosolvate, C₇H₈ClNO₃S·C₂H₆OS, (Ic). The molecules of (Ib) have crystallographic m symmetry. The 1‐methyl‐2‐pyrrolidone solvent molecule has an envelope conformation and is disordered around the mirror plane. The structure shows hydrogen‐bonded ladders of molecules [graph‐set notation C₂²(6)R₂²(12)] in the [010] direction. The benzene groups of adjacent ladders are also stacked in this direction. A different type of hydrogen‐bonded ladder [graph‐set notation C(6)R₂²(4)R₄⁴(12)] occurs in (Ic). In (Ia), (Ib) and (Ic), the molecules correspond to the zwitterionic tautomer. The structure of the cocrystal of 4‐aminobenzenesulfonic acid with 1,4‐bis(4,5‐dihydroimidazol‐2‐yl)benzene [Shang, Ren, Wang, Lu & Yang (2009). Acta Cryst. E 65 , o2221–o2222] is corrected; it actually contains 4‐aminobenzenesulfonate anions and 2,2′‐(1,4‐phenylene)di(dihydroimidazolium) dications, i.e. 2,2′‐(1,4‐phenylene)di(4,5‐dihydroimidazolium) bis(4‐aminobenzenesulfonate) dihydrate, C₁₂H₁₆N₄²⁺·2C₆H₆NO₃S⁻·2H₂O. Hence, all known structures of aminobenzenesulfonic acid complexes contain ionic or zwitterionic molecules; there is no known structure with a neutral aminobenzenesulfonic acid molecule.     

Crystal structures of the anhydrous and two solvated forms of methyl 4‐(4‐fluorophenyl)‐6‐methyl‐2‐oxo‐1,2,3,4‐tetrahydropyrimidine‐5‐carboxylate

Methyl 4‐(4‐fluorophenyl)‐6‐methyl‐2‐oxo‐1,2,3,4‐tetrahydropyrimidine‐5‐carboxylate, ( I ), was found to exhibit solvatomorphism. The compound was prepared using a classic Biginelli reaction under mild conditions, without using catalysts and in a solvent‐free environment. Single crystals of two solvatomorphs and one anhydrous form of ( I ) were obtained through various crystallization methods. The anhydrous form, C₁₃H₁₃FN₂O₃, was found to crystallize in the monoclinic space group C2/c. It showed one molecule in the asymmetric unit. The solvatomorph with included carbon tetrachloride, C₁₃H₁₃FN₂O₃·0.25CCl₄, was found to crystallize in the monoclinic space group P2/n. The asymmetric unit revealed two molecules of ( I ) and one disordered carbon tetrachloride solvent molecule that lies on a twofold axis. A solvatomorph including ethyl acetate, C₁₃H₁₃FN₂O₃·0.5C₄H₈O₂, was found to crystallize in the triclinic space group P with one molecule of ( I ) and one solvent molecule on an inversion centre in the asymmetric unit. The solvent molecules in the solvatomorphs were found to be disordered, with a unique case of crystallographically induced disorder in ( I ) crystallized with ethyl acetate. Hydrogen‐bonding interactions, for example, N—H…O=C, C—H…O=C, C—H…F and C—H…π, contribute to the crystal packing with the formation of a characteristic dimer through N—H…O=C interactions in all three forms. The solvatomorphs display additional interactions, such as C—F…N and C—Cl…π, which are responsible for their molecular arrangement. The thermal properties of the forms were analysed through differential scanning calorimetry (DSC), hot stage microscopy (HSM) and thermogravimetric analysis (TGA) experiments.     

Wave‐like structure in 3‐(4,6‐diamino‐1,3,5‐triazin‐2‐yl)‐2‐naphthonitrile

In the title compound, C₁₄H₁₀N₆, which crystallizes with Z′ = 2 in the C2/c space group, the molecules are linked by N—H...N hydrogen bonds into chains, which are arranged in a wave‐like form stabilized by aromatic π–π stacking interactions. This work demonstrates the usefulness of aromatic triazine derivatives in crystal engineering.     

(Aqua‐2κO)bis(2,2′‐bipyridine‐1κ2N,N′){μ‐N‐[3‐(dimethylamino)propyl]‐N′‐(2‐oxidophenyl)oxamidato(3−)‐1:2κ2O,O′:κ4O′′,N,N′,N′′}copper(II)nickel(II) perchlorate

The title complex, [CuNi(C₁₃H₁₆N₃O₃)(C₁₀H₈N₂)₂(H₂O)]ClO₄, has a cis‐oxamide‐bridged heterobinuclear cation, with a Cu...Ni separation of 5.3297 (6) Å, counterbalanced by a disordered perchlorate anion. The Cu^II and Ni^II cations are located in square‐pyramidal and octahedral coordination environments, respectively. The complex molecules are assembled into a three‐dimensional supramolecular structure through hydrogen bonds and π–π stacking interactions. The influence of the two types of metal cation on the supramolecular structure is discussed.     

Interaction of thiamine with anions in the triclinic form of thiamine iodide: 3‐[(4‐amino‐2‐methylpyrimidin‐5‐yl)methyl]‐5‐(2‐hydroxyethyl)‐4‐methyl‐1,3‐thiazol‐3‐ium iodide 1.25‐hydrate

The asymmetric unit of the title compound, C₁₂H₁₇N₄OS⁺·I⁻·1.25H₂O, contains two crystallographically independent molecules. Both formula units assume the usual F conformation and have the hydroxyethyl group disordered over two sites, each with half occupation. Two thiamine cations are linked by hydrogen bonds into a cyclic dimer. These dimers are further connected by base‐pairing hydrogen bonds into a chain along [010]. The stacked dimers form channels, which are occupied by iodide anions. The cations and anions are associated by N—H...I hydrogen bonds, C—H...I interactions and I...thiazolium ring close contacts. The interactions between thiamine and the iodide anions are similar to those observed in monoclinic thiamine iodide 1.5‐hydrate [Hu & Zhang (1993). J. Inclusion Phenom. Mol. Recognit. Chem. 16 , 273–281].     

Synthesis of 2‐(2‐hydroxyethyl)‐1‐(2‐hydroxyphenyl)‐6,7‐dimethoxy‐1,2,3,4‐tetrahydroisoquinoline and pseudosymmetry in its crystal structure

Natural and synthetic isoquinoline alkaloids display a wide variety of potent biological activities. The title 1‐aryl‐2‐hydroxyethyl‐1,2,3,4‐tetrahydroisoquinoline, C₁₉H₂₃NO₄, crystallizes with two molecules in the asymmetric unit related by pseudo‐translation but differing only slightly in conformation. The pseudosymmetry is also reflected in the diffraction pattern. The subset of reflections corresponding to the smaller cell and average structure are on average twice as intense as those subtending the larger cell. Tentative refinement in the subcell leads to a disordered structural model with satisfactory agreement factors and, after appropriate use of restraints, acceptable molecular geometry but significantly larger and more anisotropic displacement parameters. In the correct unit cell, the independent molecules differ with respect to the orientation of the hydroxyethyl group. Intramolecular hydrogen bonding occurs between the hydroxyphenyl group and the N atom.     

3‐Benzyl‐2‐(4‐fluorophenyl)‐1,3‐thiazolidin‐4‐one

The title compound, C₁₆H₁₄FNOS, crystallizes with Z′ = 2 in the space group P2₁/c. In one of the two independent molecules, the heterocyclic ring is effectively planar, but in the other molecule this ring adopts an envelope conformation. The molecules are weakly linked by two C—H...O hydrogen bonds to form C₂²(14) chains. Comparisons are made with some symmetrically substituted 2‐aryl‐3‐benzyl‐1,3‐thiazolidin‐4‐ones.     

The correct assignment of stereochemistry in di‐μ‐dichlorido‐bis{bis[2‐(5‐benzylsulfonyl)‐3‐fluoro‐2‐(pyridin‐2‐yl)phenyl‐κ2N,C1]iridium(III)} toluene monosolvate

The title complex, [Ir₂(C₁₈H₁₃FNO₂S)₄Cl₂]·C₇H₈, was crystallized from dichloromethane solution under a toluene atmosphere. It is a dimeric complex in which each of the two Ir^III centres is octahedrally coordinated by two bridging chloride ligands and by two chelating cyclometalated 2‐(4‐benzylsulfonyl‐2‐fluorophenyl)pyridine ligands. The crystal structure analysis unequivocally establishes the trans disposition of the two cyclometalated ligands bound to each Ir^III centre, contrary to our previous hypothesis of a cis disposition. The latter was based on the ¹H NMR spectra of a series of dimeric benzylsulfonyl‐functionalized dichloride‐bridged iridium complexes, including the compound described in the present work [Ragni et al. (2009). Chem. Eur. J. 15 , 136–148]. The toluene solvent molecules, embedded in cavities in the crystal structure, are highly disordered and could not be modelled successfully; their contribution was removed from the refinement using the SQUEEZE routine in the program PLATON [Spek (2009). Acta Cryst. D 65 , 148–155].     

1‐(β‐d‐Erythrofuranosyl)adenosine

The title compound, also known as β‐erythroadenosine, C₉H₁₁N₅O₃, (I), a derivative of β‐adenosine, (II), that lacks the C5′ exocyclic hydroxymethyl (–CH₂OH) substituent, crystallizes from hot ethanol with two independent molecules having different conformations, denoted (IA) and (IB). In (IA), the furanose conformation is ^OT₁–E₁ (C1′‐exo, east), with pseudorotational parameters P and τ_m of 114.4 and 42°, respectively. In contrast, the P and τ_m values are 170.1 and 46°, respectively, in (IB), consistent with a ²E–²T₃ (C2′‐endo, south) conformation. The N‐glycoside conformation is syn (+sc) in (IA) and anti (−ac) in (IB). The crystal structure, determined to a resolution of 2.0 Å, of a cocrystal of (I) bound to the enzyme 5′‐fluorodeoxyadenosine synthase from Streptomyces cattleya shows the furanose ring in a near‐ideal ^OE (east) conformation (P = 90° and τ_m = 42°) and the base in an anti (−ac) conformation.     

Hydrogen‐bonded chains of rings in 1‐(4‐chloroanilinomethyl)‐5‐(4‐chlorophenyl)‐1,3,5‐triazinane‐2‐thione and hydrogen‐bonded sheets in 1‐anilinomethyl‐5‐phenyl‐1,3,5‐triazinane‐2‐thione

In 1‐(4‐chloroanilinomethyl)‐5‐(4‐chlorophenyl)‐1,3,5‐triazinane‐2‐thione, C₁₆H₁₆Cl₂N₄S, there are two independent molecules in the asymmetric unit which form inversion dimers via two weak N—H...S hydrogen bonds. The dimers are then linked into C(9)C(14) chains by a C—H...S hydrogen bond and a C—H...Cl contact. In 1‐(anilinomethyl)‐5‐phenyl‐1,3,5‐triazinane‐2‐thione, C₁₆H₁₈N₄S, molecules are linked into complex sheets via a combination of N—H...S and C—H...π hydrogen bonds.     

Tris[2‐(1,3‐thiazol‐2‐yl‐κN)‐1H‐benzimidazole‐κN3]zinc(II) dinitrate ethanol hemisolvate monohydrate at 100 K

The Zn^II center in the dicationic complex of the title compound, [Zn(C₁₀H₇N₃S)₃](NO₃)₂·0.5C₂H₅OH·H₂O, is in a distorted octahedral environment with imperfect noncrystallographic C₃ symmetry. Each 2‐(1,3‐thiazol‐2‐yl)‐1H‐benzimidazole ligand coordinates in a bidentate manner, with the Zn—N(imidazole) bond lengths approximately 0.14 Å shorter than the Zn—N(thiazole) bond lengths. Charge‐assisted hydrogen bonds connect cations, anions and water molecules. A lattice void is occupied by an ethanol solvent molecule disordered about a crystallographic inversion center and π‐stacking is observed between one type of symmetry‐related benzene 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.     

Methanol[1‐(methoxymethanimidoyl)‐2‐(pyridin‐2‐ylmethyl)guanidine]bis(perchlorato)copper(II)

The title complex, [Cu(ClO₄)₂(C₉H₁₃N₅O)(CH₃OH)], was synthesized from a methanolysis reaction of N‐(methylpyridin‐2‐yl)cyanoguanidine (L³) and copper(II) perchlorate hexahydrate in a 1:1 molar ratio. The Cu^II ion is six‐coordinated by an N₃O₃ donor set which confers a highly distorted and asymmetric octahedral geometry. Three N‐donor atoms from the chelating 1‐(methoxymethanimidoyl)‐2‐(pyridin‐2‐ylmethyl)guanidine (L^3m) ligand and one O atom from the methanol molecule define the equatorial plane, with two perchlorate O atoms in the apical sites, one of which has a long Cu—O bond of 2.9074 (19) Å. The dihedral angle between the five‐ and six‐membered chelate rings is 8.21 (8)°. Two molecules are associated into a dimeric unit by intermolecular N—H...O(perchlorate) hydrogen bonds. Additionally, the weakly coordinated perchlorate anions also link adjacent [Cu(ClO₄)₂(L^3m)(CH₃OH)] dimers by hydrogen‐bonding interactions, resulting in a two‐dimensional layer in the (100) plane. Further C—H...O hydrogen bonds link the two‐dimensional layers along [100] to generate a three‐dimensional network.     

Channel‐forming solvates of 6‐chloro‐2,5‐dihydroxypyridine and its solvent‐free tautomer 6‐chloro‐5‐hydroxy‐2‐pyridone

On crystallization from CHCl₃, CCl₄, CH₂ClCH₂Cl and CHCl₂CHCl₂, 6‐chloro‐5‐hydroxy‐2‐pyridone, C₅H₄ClNO₂, (I), undergoes a tautomeric rearrangement to 6‐chloro‐2,5‐dihydroxypyridine, (II). The resulting crystals, viz. 6‐chloro‐2,5‐dihydroxypyridine chloroform 0.125‐solvate, C₅H₄ClNO₂·0.125CHCl₃, (IIa), 6‐chloro‐2,5‐dihydroxypyridine carbon tetrachloride 0.125‐solvate, C₅H₄ClNO₂.·0.125CCl₄, (IIb), 6‐chloro‐2,5‐dihydroxypyridine 1,2‐dichloroethane solvate, C₅H₄ClNO₂·C₂H₄Cl₂, (IIc), and 6‐chloro‐2,5‐dihydroxypyridine 1,1,2,2‐tetrachloroethane solvate, C₅H₄ClNO₂·C₂H₂Cl₄, (IId), have I4₁/a symmetry, and incorporate extensively disordered solvent in channels that run the length of the c axis. Upon gentle heating to 378 K in vacuo, these crystals sublime to form solvent‐free crystals with P2₁/n symmetry that are exclusively the pyridone tautomer, (I). In these sublimed pyridone crystals, inversion‐related molecules form R²₂(8) dimers via pairs of N—H...O hydrogen bonds. The dimers are linked by O—H...O hydrogen bonds into R⁴₆(28) motifs, which join to form pleated sheets that stack along the a axis. In the channel‐containing pyridine solvate crystals, viz. (IIa)–(IId), two independent host molecules form an R²₂(8) dimer via a pair of O—H...N hydrogen bonds. One molecule is further linked by O—H...O hydrogen bonds to two 4₁ screw‐related equivalents to form a helical motif parallel to the c axis. The other independent molecule is O—H...O hydrogen bonded to two related equivalents to form tetrameric R⁴₄(28) rings. The dimers are π–π stacked with inversion‐related dimers, which in turn stack the R⁴₄(28) rings along c to form continuous solvent‐accessible channels. CHCl₃, CCl₄, CH₂ClCH₂Cl and CHCl₂CHCl₂ solvent molecules are able to occupy these channels but are disordered by virtue of the site symmetry within the channels.     

2‐Chloro‐6‐(2‐furyl)‐9‐(4‐methoxybenzyl)‐9H‐purine

The title compound, C₁₇H₁₃ClN₄O₂, displays profound and selective activity against Mycobacterium tuberculosis. In the crystal structure, there are two independent molecules in the asymmetric unit. Intermolecular hydrogen bonding between a CH group of the purine ring and the O atom of the furan ring, and also π–π stacking in another direction, builds the three‐dimensional network.     

2‐[2‐(Pyrrolidin‐2‐yl)propan‐2‐yl]‐1H‐pyrrole and its amide derivative 1‐{2‐[2‐(1H‐pyrrol‐2‐yl)propan‐2‐yl]pyrrolidin‐1‐yl}ethanone

In the title compounds, C₁₁H₁₈N₂, (II), and C₁₃H₂₀N₂O, (III), the pyrrolidine rings have twist conformations. Compound (II) crystallizes with two independent molecules (A and B) in the asymmetric unit. The mean planes of the pyrrole and pyrrolidine rings are inclined to one another by 89.99 (11) and 89.35 (10)° in molecules A and B, respectively. In (III), the amide derivative of (II), the same dihedral angle is much smaller, at only 13.42 (10)°. In the crystal structure of (II), the individual molecules are linked via N—H...N hydrogen bonds to form inversion dimers, each with an R²₂(12) graph‐set motif. In the crystal structure of (III), the molecules are linked via N—H...O hydrogen bonds to form inversion dimers with an R²₂(16) graph‐set motif.     

N,N′‐Dithiobisphthalimide–1,4‐dioxan (1/0.6): a C2/c solvate with disordered solvent molecules localized in channels

N,N′‐Di­thio­bisphthal­imide crystallizes from 1,4‐dioxan solution as a solvate, 3C₁₆H₈N₂O₄S₂·1.8C₄H₈O₂, having space group C2/c. Four of the 12 C₁₆H₈N₂O₄S₂ mol­ecules in the unit cell lie on twofold rotation axes, while the other eight lie in general positions. These mol­ecules are linked by aromatic π–π‐stacking interactions and by C—H?O hydrogen bonds to form a framework enclosing continuous channels running parallel to the [101] direction, which account for ca 20% of the unit‐cell volume. The dioxan mol­ecules lie in these channels disordered across two sets of sites, with one set across an inversion centre and the other across a twofold rotation axis.     

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)°.