Pseudopolymorphs of chelidamic acid and its dimethyl ester

Different tautomeric and zwitterionic forms of chelidamic acid (4‐hydroxypyridine‐2,6‐dicarboxylic acid) are present in the crystal structures of chelidamic acid methanol monosolvate, C₇H₅NO₅·CH₄O, (Ia), dimethylammonium chelidamate (dimethylammonium 6‐carboxy‐4‐hydroxypyridine‐2‐carboxylate), C₂H₈N⁺·C₇H₄NO₅⁻, (Ib), and chelidamic acid dimethyl sulfoxide monosolvate, C₇H₅NO₅·C₂H₆OS, (Ic). While the zwitterionic pyridinium carboxylate in (Ia) can be explained from the pK_a values, a (partially) deprotonated hydroxy group in the presence of a neutral carboxy group, as observed in (Ib) and (Ic), is unexpected. In (Ib), there are two formula units in the asymmetric unit with the chelidamic acid entities connected by a symmetric O—H...O hydrogen bond. Also, crystals of chelidamic acid dimethyl ester (dimethyl 4‐hydroxypyridine‐2,6‐dicarboxylate) were obtained as a monohydrate, C₉H₉NO₅·H₂O, (IIa), and as a solvent‐free modification, in which both ester molecules adopt the hydroxypyridine form. In (IIa), the solvent water molecule stabilizes the synperiplanar conformation of both carbonyl O atoms with respect to the pyridine N atom by two O—H...O hydrogen bonds, whereas an antiperiplanar arrangement is observed in the water‐free structure. A database study and ab initio energy calculations help to compare the stabilities of the various ester conformations.     

Five pseudopolymorphs of 6‐amino‐2‐thiouracil: absence of N—H...S hydrogen bonds

In order to study the preferred hydrogen‐bonding pattern of 6‐amino‐2‐thiouracil, C₄H₅N₃OS, (I), crystallization experiments yielded five different pseudopolymorphs of (I), namely the dimethylformamide disolvate, C₄H₅N₃OS·2C₃H₇NO, (Ia), the dimethylacetamide monosolvate, C₄H₅N₃OS·C₄H₉NO, (Ib), the dimethylacetamide sesquisolvate, C₄H₅N₃OS·1.5C₄H₉NO, (Ic), and two different 1‐methylpyrrolidin‐2‐one sesquisolvates, C₄H₅N₃OS·1.5C₅H₉NO, (Id) and (Ie). All structures contain R₂¹(6) N—H...O hydrogen‐bond motifs. In the latter four structures, additional R₂²(8) N—H...O hydrogen‐bond motifs are present stabilizing homodimers of (I). No type of hydrogen bond other than N—H...O is observed. According to a search of the Cambridge Structural Database, most 2‐thiouracil derivatives form homodimers stabilized by an R₂²(8) hydrogen‐bonding pattern, with (i) only N—H...O, (ii) only N—H...S or (iii) alternating pairs of N—H...O and N—H...S hydrogen bonds.     

Pseudopolymorphs of 2,6‐diaminopyrimidin‐4‐one and 2‐amino‐6‐methylpyrimidin‐4‐one: one or two tautomers present in the same crystal

The derivatives of pyrimidin‐4‐one can adopt either a 1H‐ or a 3H‐tautomeric form, which affects the hydrogen‐bonding interactions in cocrystals with compounds containing complementary functional groups. In order to study their tautomeric preferences, we crystallized 2,6‐diaminopyrimidin‐4‐one and 2‐amino‐6‐methylpyrimidin‐4‐one. During various crystallization attempts, four structures of 2,6‐diaminopyrimidin‐4‐one were obtained, namely solvent‐free 2,6‐diaminopyrimidin‐4‐one, C₄H₆N₄O, (I), 2,6‐diaminopyrimidin‐4‐one–dimethylformamide–water (3/4/1), C₄H₆N₄O·1.33C₃H₇NO·0.33H₂O, (Ia), 2,6‐diaminopyrimidin‐4‐one dimethylacetamide monosolvate, C₄H₆N₄O·C₄H₉NO, (Ib), and 2,6‐diaminopyrimidin‐4‐one–N‐methylpyrrolidin‐2‐one (3/2), C₄H₆N₄O·1.5C₅H₉NO, (Ic). The 2,6‐diaminopyrimidin‐4‐one molecules exist only as 3H‐tautomers. They form ribbons characterized by R²₂(8) hydrogen‐bonding interactions, which are further connected to form three‐dimensional networks. An intermolecular N—H...N interaction between amine groups is observed only in (I). This might be the reason for the pyramidalization of the amine group. Crystallization experiments on 2‐amino‐6‐methylpyrimidin‐4‐one yielded two isostructural pseudopolymorphs, namely 2‐amino‐6‐methylpyrimidin‐4(3H)‐one–2‐amino‐6‐methylpyrimidin‐4(1H)‐one–dimethylacetamide (1/1/1), C₅H₇N₃O·C₅H₇N₃O·C₄H₉NO, (IIa), and 2‐amino‐6‐methylpyrimidin‐4(3H)‐one–2‐amino‐6‐methylpyrimidin‐4(1H)‐one–N‐methylpyrrolidin‐2‐one (1/1/1), C₅H₇N₃O·C₅H₇N₃O·C₅H₉NO, (IIb). In both structures, a 1:1 mixture of 1H‐ and 3H‐tautomers is present, which are linked by three hydrogen bonds similar to a Watson–Crick C–G base pair.     

3‐Cyano‐6‐hydroxy‐4‐methyl‐2‐pyridone: two new pseudopolymorphs and two cocrystals with products of an in situ nucleophilic aromatic substitution

Four crystal structures of 3‐cyano‐6‐hydroxy‐4‐methyl‐2‐pyridone (CMP), viz. the dimethyl sulfoxide monosolvate, C₇H₆N₂O₂·C₂H₆OS, (1), the N,N‐dimethylacetamide monosolvate, C₇H₆N₂O₂·C₄H₉NO, (2), a cocrystal with 2‐amino‐4‐dimethylamino‐6‐methylpyrimidine (as the salt 2‐amino‐4‐dimethylamino‐6‐methylpyrimidin‐1‐ium 5‐cyano‐4‐methyl‐6‐oxo‐1,6‐dihydropyridin‐2‐olate), C₇H₁₃N₄⁺·C₇H₅N₂O₂⁻, (3), and a cocrystal with N,N‐dimethylacetamide and 4,6‐diamino‐2‐dimethylamino‐1,3,5‐triazine [as the solvated salt 2,6‐diamino‐4‐dimethylamino‐1,3,5‐triazin‐1‐ium 5‐cyano‐4‐methyl‐6‐oxo‐1,6‐dihydropyridin‐2‐olate–N,N‐dimethylacetamide (1/1)], C₅H₁₁N₆⁺·C₇H₅N₂O₂⁻·C₄H₉NO, (4), are reported. Solvates (1) and (2) both contain the hydroxy group in a para position with respect to the cyano group of CMP, acting as a hydrogen‐bond donor and leading to rather similar packing motifs. In cocrystals (3) and (4), hydrolysis of the solvent molecules occurs and an in situ nucleophilic aromatic substitution of a Cl atom with a dimethylamino group has taken place. Within all four structures, an R₂²(8) N—H...O hydrogen‐bonding pattern is observed, connecting the CMP molecules, but the pattern differs depending on which O atom participates in the motif, either the ortho or para O atom with respect to the cyano group. Solvents and coformers are attached to these arrangements via single‐point O—H...O interactions in (1) and (2) or by additional R₄⁴(16) hydrogen‐bonding patterns in (3) and (4). Since the in situ nucleophilic aromatic substitution of the coformers occurs, the possible Watson–Crick C–G base‐pair‐like arrangement is inhibited, yet the cyano group of the CMP molecules participates in hydrogen bonds with their coformers, influencing the crystal packing to form chains.     

Conformational studies of hydantoin‐5‐acetic acid and orotic acid

Hydantoin‐5‐acetic acid [2‐(2,5‐dioxoimidazolidin‐4‐yl)acetic acid] and orotic acid (2,6‐dioxo‐1,2,3,6‐tetrahydropyrimidine‐4‐carboxylic acid) each contain one rigid acceptor–donor–acceptor hydrogen‐bonding site and a flexible side chain, which can adopt different conformations. Since both compounds may be used as coformers for supramolecular complexes, they have been crystallized in order to examine their conformational preferences, giving solvent‐free hydantoin‐5‐acetic acid, C₅H₆N₂O₄, (I), and three crystals containing orotic acid, namely, orotic acid dimethyl sulfoxide monosolvate, C₅H₄N₂O₄·C₂H₆OS, (IIa), dimethylammonium orotate–orotic acid (1/1), C₂H₈N⁺·C₅H₃N₂O₄⁻·C₅H₄N₂O₄, (IIb), and dimethylammonium orotate–orotic acid (3/1), 3C₂H₈N⁺·3C₅H₃N₂O₄⁻·C₅H₄N₂O₄, (IIc). The crystal structure of (I) shows a three‐dimensional network, with the acid function located perpendicular to the ring. Interestingly, the hydroxy O atom acts as an acceptor, even though the carbonyl O atom is not involved in any hydrogen bonds. However, in (IIa), (IIb) and (IIc), the acid functions are only slightly twisted out of the ring planes. All H atoms of the acidic functions are directed away from the rings and, with respect to the carbonyl O atoms, they show an antiperiplanar conformation in (I) and synperiplanar conformations in (IIa), (IIb) and (IIc). Furthermore, in (IIa), (IIb) and (IIc), different conformations of the acid O=C—C—N torsion angle are observed, leading to different hydrogen‐bonding arrangements depending on their conformation and composition.     

A new polymorph and two pseudopolymorphs of pyrimethamine

Due to its donor–acceptor–donor site, the antimalarial drug pyrimethamine [systematic name: 5‐(4‐chlorophenyl)‐6‐ethylpyrimidine‐2,4‐diamine] is a potential component of a supramolecular synthon. During a cocrystallization screen, one new polymorph of solvent‐free pyrimethamine, C₁₂H₁₃ClN₄, (I), and two pseudopolymorphs, pyrimethamine dimethyl sulfoxide monosolvate, C₁₂H₁₃ClN₄·C₂H₆OS, (Ia), and pyrimethamine N‐methylpyrrolidin‐2‐one monosolvate, C₁₂H₁₃ClN₄·C₅H₉NO, (Ib), were obtained. In (I), (Ia), (Ib) and the previously reported polymorph, the pyrimethamine molecules exhibit similar conformations and form R²₂(8) dimers stabilized by a pair of N—H...N hydrogen bonds. However, the packing arrangements are completely different. In (I), the dimers are connected by two additional N—H...N hydrogen bonds to form ribbons and further connected into a two‐dimensional network parallel to (100), while layers containing N—H...Cl hydrogen‐bonded pyrimethamine ribbons are observed in the packing of the known polymorph. In the two pseudopolymorphs, two pyrimethamine molecules are linked to form R²₂(8) dimers and the solvent molecules are connected to the dimers by R²₃(8) interactions involving two N—H...O hydrogen bonds. These arrangements are connected to form zigzag chains by N—H...Cl interactions in (Ia) and to form ribbons by N—H...N interactions in (Ib). Unexpectedly, a reaction between pyrimethamine and N‐methylpyrrolidin‐2‐one occurred during another cocrystallization experiment from a solvent mixture of N‐methylpyrrolidin‐2‐one and dimethyl sulfoxide, yielding solvent‐free 5,5′‐{[5‐(4‐chlorophenyl)‐6‐ethylpyrimidine‐2,4‐diyl]bis(azanediyl)}bis(1‐methylpyrrolidin‐2‐one), C₂₂H₂₇ClN₆O₂, (II). In the packing of (II), the pyrimethamine derivatives are N—H...O hydrogen bonded to form ribbons. A database study was carried out to compare the molecular conformations and hydrogen‐bonding interactions of pyrimethamine.     

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.     

Cocrystals of 2,6‐dichloroaniline and 2,6‐dichlorophenol plus three new pseudopolymorphs of their coformers

The structures of cocrystals of 2,6‐dichlorophenol with 2,4‐diamino‐6‐methyl‐1,3,5‐triazine, C₆H₄Cl₂O·C₄H₇N₅, (III), and 2,6‐dichloroaniline with 2,6‐diaminopyrimidin‐4(3H)‐one and N,N‐dimethylacetamide, C₆H₅Cl₂N·C₄H₆N₄O·C₄H₉NO, (V), plus three new pseudopolymorphs of their coformers, namely 2,4‐diamino‐6‐methyl‐1,3,5‐triazine–N,N‐dimethylacetamide (1/1), C₄H₇N₅·C₄H₉NO, (I), 2,4‐diamino‐6‐methyl‐1,3,5‐triazine–N‐methylpyrrolidin‐2‐one (1/1), C₄H₇N₅·C₅H₉NO, (II), and 6‐aminoisocytosine–N‐methylpyrrolidin‐2‐one (1/1), C₄H₆N₄O·C₅H₉NO, (IV), are reported. Both 2,6‐dichlorophenol and 2,6‐dichloroaniline are capable of forming definite synthon motifs, which usually lead to either two‐ or three‐dimensional crystal‐packing arrangements. Thus, the two isomorphous pseudopolymorphs of 2,4‐diamino‐6‐methyl‐1,3,5‐triazine, i.e. (I) and (II), form a three‐dimensional network, while the N‐methylpyrrolidin‐2‐one solvate of 6‐aminoisocytosine, i.e. (IV), displays two‐dimensional layers. On the basis of these results, attempts to cocrystallize 2,6‐dichlorophenol with 2,4‐diamino‐6‐methyl‐1,3,5‐triazine, (III), and 2,6‐dichloroaniline with 6‐aminoisocytosine, (V), yielded two‐dimensional networks, whereby in cocrystal (III) the overall structure is a consequence of the interaction between the two compounds. By comparison, cocrystal–solvate (V) is mainly built by 6‐aminoisocytosine forming layers, with 2,6‐dichloroaniline and the solvent molecules arranged between the layers.     

Solvent‐mediated pseudo‐quadruple hydrogen‐bond motifs in three lamotrigine–carboxylic acid complexes

Lamotrigine, an antiepileptic drug, has been complexed with three aromatic carboxylic acids. All three compounds crystallize with the inclusion of N,N‐dimethylformamide (DMF) solvent, viz. lamotriginium [3,5‐diamino‐6‐(2,3‐dichlorophenyl)‐1,2,4‐triazin‐2‐ium] 4‐iodobenzoate N,N‐dimethylformamide monosolvate, C₉H₈Cl₂N₅⁺·C₇H₄IO₂⁻·C₃H₇NO, (I), lamotriginium 4‐methylbenzoate N,N‐dimethylformamide monosolvate, C₉H₇Cl₂N₅⁺·C₈H₈O₂⁻·C₃H₇NO, (II), and lamotriginium 3,5‐dinitro‐2‐hydroxybenzoate N,N‐dimethylformamide monosolvate, C₉H₈Cl₂N₅⁺·C₇H₃N₂O₇⁻·C₃H₇NO, (III). In all three structures, proton transfer takes place from the acid to the lamotrigine molecule. However, in (I) and (II), the acidic H atom is disordered over two sites and there is only partial transfer of the H atom from O to N. In (III), the corresponding H atom is ordered and complete proton transfer has occurred. Lamotrigine–lamotrigine, lamotrigine–acid and lamotrigine–solvent interactions are observed in all three structures and they thereby exhibit isostructurality. The DMF solvent extends the lamotrigine–lamotrigine dimers into a pseudo‐quadruple hydrogen‐bonding motif.     

Three solvates of a bis‐mesoionic fluorescent yellow pigment

p‐Phenylenebis(2‐oxo‐3‐phenyl‐1,2‐dihydropyrido[1,2‐a]pyrimidin‐5‐ium‐4‐olate), C₃₄H₂₂N₄O₄, is a bis‐mesoionic yellow pigment that shows fluorescence in the solid state. During a polymorph screening, single crystals of three solvates were grown and their crystal structures determined. Solvent‐free crystals were not obtained. A solvate with N‐methylpyrrolidone (NMP) and propan‐2‐ol, C₃₄H₂₂N₄O₄·2C₅H₉NO·C₃H₈O, (Ia), and an NMP trisolvate, C₃₄H₂₂N₄O₄·3C₅H₉NO, (Ib), crystallize with pigment molecules on inversion centres. The NMP/propan‐2‐ol mixed solvate (Ia) forms O—H...O hydrogen bonds between the different solvent molecules. In both structures, at least one of the solvent molecules is disordered. A third solvate structure, C₃₄H₂₂N₄O₄·0.5C₅H₉NO·C₄H₁₀O, (Ic), was obtained by crystallization from NMP and butan‐1‐ol. In this case, there are two symmetry‐independent pigment molecules, both situated on inversion centres. The solvent molecules are heavily disordered and their contribution to the scattering was suppressed. This solvate displays a channel structure, whereas the other two solvates form layer structures.     

Eight new crystal structures of 5‐(hydroxymethyl)uracil, 5‐carboxyuracil and 5‐carboxy‐2‐thiouracil: insights into the hydrogen‐bonded networks and the predominant conformations of the C5‐bound residues

In order to examine the preferred hydrogen‐bonding pattern of various uracil derivatives, namely 5‐(hydroxymethyl)uracil, 5‐carboxyuracil and 5‐carboxy‐2‐thiouracil, and for a conformational study, crystallization experiments yielded eight different structures: 5‐(hydroxymethyl)uracil, C₅H₆N₂O₃, (I), 5‐carboxyuracil–N,N‐dimethylformamide (1/1), C₅H₄N₂O₄·C₃H₇NO, (II), 5‐carboxyuracil–dimethyl sulfoxide (1/1), C₅H₄N₂O₄·C₂H₆OS, (III), 5‐carboxyuracil–N,N‐dimethylacetamide (1/1), C₅H₄N₂O₄·C₄H₉NO, (IV), 5‐carboxy‐2‐thiouracil–N,N‐dimethylformamide (1/1), C₅H₄N₂O₃S·C₃H₇NO, (V), 5‐carboxy‐2‐thiouracil–dimethyl sulfoxide (1/1), C₅H₄N₂O₃S·C₂H₆OS, (VI), 5‐carboxy‐2‐thiouracil–1,4‐dioxane (2/3), 2C₅H₄N₂O₃S·3C₆H₁₂O₃, (VII), and 5‐carboxy‐2‐thiouracil, C₁₀H₈N₄O₆S₂, (VIII). While the six solvated structures, i.e. (II)–(VII), contain intramolecular S(6) O—H…O hydrogen‐bond motifs between the carboxy and carbonyl groups, the usually favoured R₂²(8) pattern between two carboxy groups is formed in the solvent‐free structure, i.e. (VIII). Further R₂²(8) hydrogen‐bond motifs involving either two N—H…O or two N—H…S hydrogen bonds were observed in three crystal structures, namely (I), (IV) and (VIII). In all eight structures, the residue at the ring 5‐position shows a coplanar arrangement with respect to the pyrimidine ring which is in agreement with a search of the Cambridge Structural Database for six‐membered cyclic compounds containing a carboxy group. The search confirmed that coplanarity between the carboxy group and the cyclic residue is strongly favoured.     

6‐Propyl‐2‐thiouracil versus 6‐methoxymethyl‐2‐thiouracil: enhancing the hydrogen‐bonded synthon motif by replacement of a methylene group with an O atom

The understanding of intermolecular interactions is a key objective of crystal engineering in order to exploit the derived knowledge for the rational design of new molecular solids with tailored physical and chemical properties. The tools and theories of crystal engineering are indispensable for the rational design of (pharmaceutical) cocrystals. The results of cocrystallization experiments of the antithyroid drug 6‐propyl‐2‐thiouracil (PTU) with 2,4‐diaminopyrimidine (DAPY), and of 6‐methoxymethyl‐2‐thiouracil (MOMTU) with DAPY and 2,4,6‐triaminopyrimidine (TAPY), respectively, are reported. PTU and MOMTU show a high structural similarity and differ only in the replacement of a methylene group (–CH₂–) with an O atom in the side chain, thus introducing an additional hydrogen‐bond acceptor in MOMTU. Both molecules contain an ADA hydrogen‐bonding site (A = acceptor and D = donor), while the coformers DAPY and TAPY both show complementary DAD sites and therefore should be capable of forming a mixed ADA/DAD synthon with each other, i.e. N—H…O, N—H…N and N—H…S hydrogen bonds. The experiments yielded one solvated cocrystal salt of PTU with DAPY, four different solvates of MOMTU, one ionic cocrystal of MOMTU with DAPY and one cocrystal salt of MOMTU with TAPY, namely 2,4‐diaminopyrimidinium 6‐propyl‐2‐thiouracilate–2,4‐diaminopyrimidine–N,N‐dimethylacetamide–water (1/1/1/1) (the systematic name for 6‐propyl‐2‐thiouracilate is 6‐oxo‐4‐propyl‐2‐sulfanylidene‐1,2,3,6‐tetrahydropyrimidin‐1‐ide), C₄H₇N₄⁺·C₇H₉N₂OS⁻·C₄H₆N₄·C₄H₉NO·H₂O, (I), 6‐methoxymethyl‐2‐thiouracil–N,N‐dimethylformamide (1/1), C₆H₈N₂O₂S·C₃H₇NO, (II), 6‐methoxymethyl‐2‐thiouracil–N,N‐dimethylacetamide (1/1), C₆H₈N₂O₂S·C₄H₉NO, (III), 6‐methoxymethyl‐2‐thiouracil–dimethyl sulfoxide (1/1), C₆H₈N₂O₂S·C₂H₆OS, (IV), 6‐methoxymethyl‐2‐thiouracil–1‐methylpyrrolidin‐2‐one (1/1), C₆H₈N₂O₂S·C₅H₉NO, (V), 2,4‐diaminopyrimidinium 6‐methoxymethyl‐2‐thiouracilate (the systematic name for 6‐methoxymethyl‐2‐thiouracilate is 4‐methoxymethyl‐6‐oxo‐2‐sulfanylidene‐1,2,3,6‐tetrahydropyrimidin‐1‐ide), C₄H₇N₄⁺·C₆H₇N₂O₂S⁻, (VI), and 2,4,6‐triaminopyrimidinium 6‐methoxymethyl‐2‐thiouracilate–6‐methoxymethyl‐2‐thiouracil (1/1), C₄H₈N₅⁺·C₆H₇N₂O₂S⁻·C₆H₈N₂O₂S, (VII). Whereas in (I) only an AA/DD hydrogen‐bonding interaction was formed, the structures of (VI) and (VII) both display the desired ADA/DAD synthon. Conformational studies on the side chains of PTU and MOMTU also revealed a significant deviation for cocrystals (VI) and (VII), leading to the desired enhancement of the hydrogen‐bond pattern within the crystal.     

Hydrogen‐bonded assemblies of 5,10,15,20‐tetrakis(4‐hydroxyphenyl)porphyrin with dimethylformamide,dimethylacetamide and water

The title free base porphyrin compound forms hydrogen‐bonded adducts with N,N‐dimethylformamide, C₄₄H₃₀N₄O₄·4C₃H₇NO, (I), a mixture of N,N‐dimethylformamide and water, C₄₄H₃₀N₄O₄·4C₃H₇NO·H₂O, (II), and a mixture of N,N‐dimethylacetamide and water, C₄₄H₃₀N₄O₄·6C₃H₇NO·2H₂O, (III). Total solvation of the four hydroxy functions of the porphyrin molecules characterizes all three compounds, thus preventing its supramolecular association into extended network architectures. In (I), the asymmetric unit consist of two five‐component adduct species, while in (III), the nine‐component entities reside on centres of inversion. This report provides the first structural characterizations of the free base tetra(hydroxyphenyl)porphyrin. It also demonstrates that the presence of strong Lewis bases, such as dimethylformamide or dimethylacetamide, in the crystallization mixture prevents direct supramolecular networking of the porphyrin ligands via O—H...O—H hydrogen bonds, due to their competing O—H...N(base) interaction with the hydroxy functions. The crystal packing of compounds (I)–(III) resembles that of other hydrogen‐bonding‐assisted tetraarylporphyrin clathrates.     

A series of two‐dimensional lanthanide coordination polymers: synthesis,structures, magnetism and selective luminescence detection for heavy metal ions and toxic solvents

A series of two‐dimensional (2D) coordination polymers (CPs), namely poly[[bis(μ‐acetato)diaqua(μ₆‐biphenyl‐3,3′,5,5′‐tetracarboxylato)bis(N,N‐dimethylacetamide)digadolinium(III)] N,N‐dimethylacetamide monosolvate], {[Gd₂(C₁₆H₆O₈)(C₂H₃O₂)₂(C₄H₉NO)₂(H₂O)₂]·C₄H₉NO}_n ( CP1 ), poly[[bis(μ‐acetato)diaqua(μ₆‐biphenyl‐3,3′,5,5′‐tetracarboxylato)bis(N,N‐dimethylacetamide)didysprosium(III)] N,N‐dimethylacetamide monosolvate], {[Dy₂(C₁₆H₆O₈)(C₂H₃O₂)₂(C₄H₉NO)₂(H₂O)₂]·C₄H₉NO}_n ( CP2 ), poly[bis(μ‐acetato)diaqua(μ₆‐biphenyl‐3,3′,5,5′‐tetracarboxylato)bis(N,N‐dimethylacetamide)dineodymium(III)], [Nd₂(C₁₆H₆O₈)(C₂H₃O₂)₂(C₄H₉NO)₂(H₂O)₂]_n ( CP3 ), poly[bis(μ‐acetato)diaqua(μ₆‐biphenyl‐3,3′,5,5′‐tetracarboxylato)bis(N,N‐dimethylacetamide)disamarium(III)], [Sm₂(C₁₆H₆O₈)(C₂H₃O₂)₂(C₄H₉NO)₂(H₂O)₂]_n ( CP4 ), has been synthesized from rigid biphenyl‐3,3′,5,5′‐tetracarboxylic acid under solvothermal conditions. Their structures have been determined by single‐crystal X‐ray diffraction analyses, elemental analyses, IR spectra, powder X‐ray diffraction and thermogravimetric analyses, and CP1 – CP4 crystallize in the monoclinic space group P2₁/n. CP1 – CP4 are isomorphous and feature similar 2D double layers, which are further extended via interlayer hydrogen‐bonding interactions into a three‐dimensional (3D) supramolecular structure. Hydrogen‐bonding interactions between N,N‐dimethylacetamide molecules and carboxylate O atoms strengthen the packing of the layers. The organic ligands interconnect with metal ions to generate 2D layered structures with a (4,4)‐connected net having {4⁴.6²} topology. CP1 has been investigated for its magnetic properties and magnetic susceptibility measurements were carried out in the range 2.0–300 K. The results of the magnetic measurements show weak antiferromagnetic coupling between the Gd^III ions in CP1 . Moreover, the strong luminescence of CP2 and CP4 can be selectively quenched by the Fe³⁺ ion and toxic solvents (e.g. acetone).     

A concise and efficient synthesis of amino‐substituted (1H‐benzo[d]imidazol‐1‐yl)pyrimidine hybrids: synthetic sequence and the molecular and supramolecular structures of six examples

A concise and efficient synthesis of a series of amino‐substituted benzimidazole–pyrimidine hybrids has been developed, starting from the readily available N⁴‐(2‐aminophenyl)‐6‐methoxy‐5‐nitrosopyrimidine‐2,4‐diamine. In each of N⁵‐benzyl‐6‐methoxy‐4‐(2‐phenyl‐1H‐benzo[d]imidazol‐1‐yl)pyrimidine‐2,5‐diamine, C₂₅H₂₂N₆O, (I), 6‐methoxy‐N⁵‐(4‐methoxybenzyl)‐4‐[2‐(4‐methoxyphenyl)‐1H‐benzo[d]imidazol‐1‐yl]pyrimidine‐2,5‐diamine, C₂₇H₂₆N₆O₃, (III), 6‐methoxy‐N⁵‐(4‐nitrobenzyl)‐4‐[2‐(4‐nitrophenyl)‐1H‐benzo[d]imidazol‐1‐yl]pyrimidine‐2,5‐diamine, C₂₅H₂₀N₈O₅, (IV), the molecules are linked into three‐dimensional framework structures, using different combinations of N—H…N, N—H…O, C—H…O, C—H…N and C—H…π hydrogen bonds in each case. Oxidative cleavage of 6‐methoxy‐N⁵‐(4‐methylbenzyl)‐4‐[2‐(4‐methylphenyl)‐1H‐benzo[d]imidazol‐1‐yl]pyrimidine‐2,5‐diamine, (II), with diiodine gave 6‐methoxy‐4‐[2‐(4‐methylphenyl)‐1H‐benzo[d]imidazol‐1‐yl]pyrimidine‐2,5‐diamine, which crystallized as a monohydrate, C₁₉H₁₈N₆O·H₂O, (V), and reaction of (V) with trifluoroacetic acid gave two isomeric products, namely N‐{5‐amino‐6‐methoxy‐6‐[2‐(4‐methylphenyl)‐1H‐benzo[d]imidazol‐1‐yl]pyrimidin‐2‐yl}‐2,2,2‐trifluoroacetamide, which crystallized as an ethyl acetate monosolvate, C₂₁H₁₇F₃N₆O₂·C₄H₈O₂, (VI), and N‐{2‐amino‐6‐methoxy‐4‐[2‐(4‐methylphenyl)‐1H‐benzo[d]imidazol‐1‐yl]pyrimidin‐5‐yl}‐2,2,2‐trifluoroacetamide, which crystallized as a methanol monosolvate, C₂₁H₁₇F₃N₆O₂·CH₄O, (VIIa). For each of (V), (VI) and (VIIa), the supramolecular assembly is two‐dimensional, based on different combinations of O—H…N, N—H…O, N—H…N, C—H…O and C—H…π hydrogen bonds in each case. Comparisons are made with some related structures.     

Conformations and resulting hydrogen‐bonded networks of hydrogen {phosphono[(pyridin‐1‐ium‐3‐yl)amino]methyl}phosphonate and related 2‐chloro and 6‐chloro derivatives

In the crystal structures of the conformational isomers hydrogen {phosphono[(pyridin‐1‐ium‐3‐yl)amino]methyl}phosphonate monohydrate (pro‐E), C₆H₁₀N₂O₆P₂·H₂O, (Ia), and hydrogen {phosphono[(pyridin‐1‐ium‐3‐yl)amino]methyl}phosphonate (pro‐Z), C₆H₁₀N₂O₆P₂, (Ib), the related hydrogen {[(2‐chloropyridin‐1‐ium‐3‐yl)amino](phosphono)methyl}phosphonate (pro‐E), C₆H₉ClN₂O₆P₂, (II), and the salt bis(6‐chloropyridin‐3‐aminium) [hydrogen bis({[2‐chloropyridin‐1‐ium‐3‐yl(0.5+)]amino}methylenediphosphonate)] (pro‐Z), 2C₅H₆ClN₂⁺·C₁₂H₁₆Cl₂N₄O₁₂P₄²⁻, (III), chain–chain interactions involving phosphono (–PO₃H₂) and phosphonate (–PO₃H⁻) groups are dominant in determining the crystal packing. The crystals of (Ia) and (III) comprise similar ribbons, which are held together by N—H...O interactions, by water‐ or cation‐mediated contacts, and by π–π interactions between the aromatic rings of adjacent zwitterions in (Ia), and those of the cations and anions in (III). The crystals of (Ib) and (II) have a layered architecture: the former exhibits highly corrugated monolayers perpendicular to the [100] direction, while in the latter, flat bilayers parallel to the (001) plane are formed. In both (Ib) and (II), the interlayer contacts are realised through N—H...O hydrogen bonds and weak C—H...O interactions involving aromatic C atoms.     

Sulfapyridine (polymorph III), sulfapyridine dioxane solvate,sulfapyridine tetrahydrofuran solvate and sulfapyridine piperidine solvate,all at 173 K

The X‐ray crystal structures of solvates of sulfapyridine have been determined to be conformational polymorphs. 4‐Amino‐N‐(1,2‐dihydropyridin‐2‐ylidene)benzenesulfonamide (polymorph III), C₁₁H₁₁N₃O₂S, (1), 4‐amino‐N‐(1,2‐dihydropyridin‐2‐ylidene)benzenesulfonamide 1,3‐dioxane monosolvate, C₁₁H₁₁N₃O₂S·C₄H₈O₂, (2), and 4‐amino‐N‐(1,2‐dihydropyridin‐2‐ylidene)benzenesulfonamide tetrahydrofuran monosolvate, C₁₁H₁₁N₃O₂S·C₄H₈O, (3), crystallized as the imide form, while piperidin‐1‐ium 4‐amino‐N‐(pyridin‐2‐yl)benzenesulfonamidate, C₅H₁₂N⁺·C₁₁H₁₀N₃O₂S⁻, (4), crystallized as the piperidinium salt. The tetrahydrofuran and dioxane solvent molecules in their respective structures were disordered and were refined using a disorder model. Three‐dimensional hydrogen‐bonding networks exist in all structures between at least one sulfone O atom and the aniline N atom.     

Cocrystals of 6‐methyl‐2‐thiouracil: presence of the acceptor–donor–acceptor/donor–acceptor–donor synthon

The results of seven cocrystallization experiments of the antithyroid drug 6‐methyl‐2‐thiouracil (MTU), C₅H₆N₂OS, with 2,4‐diaminopyrimidine, 2,4,6‐triaminopyrimidine and 6‐amino‐3H‐isocytosine (viz. 2,6‐diamino‐3H‐pyrimidin‐4‐one) are reported. MTU features an ADA (A = acceptor and D = donor) hydrogen‐bonding site, while the three coformers show complementary DAD hydrogen‐bonding sites and therefore should be capable of forming an ADA/DAD N—H...O/N—H...N/N—H...S synthon with MTU. The experiments yielded one cocrystal and six cocrystal solvates, namely 6‐methyl‐2‐thiouracil–2,4‐diaminopyrimidine–1‐methylpyrrolidin‐2‐one (1/1/2), C₅H₆N₂OS·C₄H₆N₄·2C₅H₉NO, (I), 6‐methyl‐2‐thiouracil–2,4‐diaminopyrimidine (1/1), C₅H₆N₂OS·C₄H₆N₄, (II), 6‐methyl‐2‐thiouracil–2,4‐diaminopyrimidine–N,N‐dimethylacetamide (2/1/2), 2C₅H₆N₂OS·C₄H₆N₄·2C₄H₉NO, (III), 6‐methyl‐2‐thiouracil–2,4‐diaminopyrimidine–N,N‐dimethylformamide (2/1/2), C₅H₆N₂OS·0.5C₄H₆N₄·C₃H₇NO, (IV), 2,4,6‐triaminopyrimidinium 6‐methyl‐2‐thiouracilate–6‐methyl‐2‐thiouracil–N,N‐dimethylformamide (1/1/2), C₄H₈N₅⁺·C₅H₅N₂OS⁻·C₅H₆N₂OS·2C₃H₇NO, (V), 6‐methyl‐2‐thiouracil–6‐amino‐3H‐isocytosine–N,N‐dimethylformamide (1/1/1), C₅H₆N₂OS·C₄H₆N₄O·C₃H₇NO, (VI), and 6‐methyl‐2‐thiouracil–6‐amino‐3H‐isocytosine–dimethyl sulfoxide (1/1/1), C₅H₆N₂OS·C₄H₆N₄O·C₂H₆OS, (VII). Whereas in cocrystal (I) an R₂²(8) interaction similar to the Watson–Crick adenine/uracil base pair is formed and a two‐dimensional hydrogen‐bonding network is observed, the cocrystals (II)–(VII) contain the triply hydrogen‐bonded ADA/DAD N—H...O/N—H...N/N—H...S synthon and show a one‐dimensional hydrogen‐bonding network. Although 2,4‐diaminopyrimidine possesses only one DAD hydrogen‐bonding site, it is, due to orientational disorder, triply connected to two MTU molecules in (III) and (IV).     

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.     

Pentazol‐Derivate und daraus entstehende Azide: [O3S—p‐C6H4—N5]— und [O3S—p‐C6H4—N3]— als Kalium‐Kronenether‐Salze

Pentazole Derivates and Azides Formed from them: Potassium‐Crown‐Ether Salts of [O₃S—p‐C₆H₄—N₅]^— and [O₃S—p‐C₆H₄—N₃]^{— —}O₃S—p‐C₆H₄—N₂⁺ was reacted with sodium azide at —50 °C in methanol, yielding a mixture of 4‐pentazolylbenzenesulfonate and 4‐azidobenzenesulfonate (amount‐of‐substance ratio 27:73 according to NMR). By addition of KOH in methanol at —50 °C a mixture of the potassium salts K[O₃S—p‐C₆H₄—N₅] and K[O₃S—p‐C₆H₄—N₃] was precipitated (ratio 60:40). A solution of this mixture along with 18‐crown‐6 in tetrahydrofurane yielded the crystalline pentazole derivate [THF‐K‐18‐crown‐6][O₃S—p‐C₆H₄—N₅]·THF by addition of petrol ether at —70 °C. From the same solution upon evaporation and redissolution in THF/petrol ether the crystalline azide [THF‐K‐18‐crown‐6][O₃S—p‐C₆H₄—N₃]·THF was obtained. A solution of the latter in chloroform/toluene under air yielded [K‐18‐crown‐6][O₃S—p‐C₆H₄—N₃]·1/3H₂O. According to their X‐ray crystal structure determinations [THF‐K‐18‐crown‐6][O₃S—p‐C₆H₄—N₅]·THF and [THF‐K‐18‐crown‐6][O₃S—p‐C₆H₄—N₃]·THF have the same kind of crystal packing. Differences worth mentioning exist only for the atomic positions of the pentazole ring as compared to the azido group and for one THF molecule which is coordinated to the potassium ion; different orientations of the THF molecule take account for the different space requirements of the N₅ and the N₃ group. In [K‐18‐crown‐6][O₃S—p‐C₆H₄—N₃]·1/3H₂O there exists one unit consisting of one [K‐18‐crown‐6]⁺ and one [O₃S‐C₆H₄—N₃]^— ion and another unit consisting of two [O₃S‐C₆H₄—N₃]^— ions joined via two [K‐18‐crown‐6]⁺ ions and one water molecule. The rate constants for the decomposition [O₃S‐C₆H₄—N₅]^— → [O₃S‐C₆H₄—N₃]^— + N₂ in methanol were determined at 0 °C and —20 °C.