Dynamic Supramolecular Polymers Based on Benzene‐1,3,5‐tricarboxamides: The Influence of Amide Connectivity on Aggregate Stability and Amplification of Chirality

N‐Centred benzene‐1,3,5‐tricarboxamides (N‐BTAs) composed of chiral and achiral alkyl substituents were synthesised and their solid‐state behaviour and self‐assembly in dilute alkane solutions were investigated. A combination of differential scanning calorimetry (DSC), polarisation optical microscopy (POM) and X‐ray diffraction revealed that the chiral N‐BTA derivatives with branched 3,7‐dimethyloctanoyl chains were liquid crystalline and the mesophase was assigned as Col_ho. In contrast, N‐BTA derivatives with linear tetradecanoyl or octanoyl chains lacked a mesophase and were obtained as crystalline compounds. Variable‐temperature infrared spectroscopy showed the presence of threefold, intermolecular hydrogen bonding between neighbouring molecules in the mesophase of the chiral N‐BTAs. In the crystalline state at room temperature a more complicated packing between the molecules was observed. Ultraviolet and circular dichroism spectroscopy on dilute solutions of N‐BTAs revealed a cooperative self‐assembly behaviour of the N‐BTA molecules into supramolecular polymers with preferred helicity when chiral alkyl chains were present. Both the sergeants‐and‐soldiers as well as the majority‐rules principles were operative in stacks of N‐BTAs. In fact, the self‐assembly of N‐BTAs resembles closely that of their carbonyl (C?O)‐centred counterparts, with the exception that aggregation is weaker and amplification of chirality is less pronounced. The differences in the self‐assembly of N‐ and C?O‐BTAs were analysed by density functional theory (DFT) calculations. These reveal a substantially lower interaction energy between the monomeric units in the supramolecular polymers of N‐BTAs. The lower interaction energy is due to the higher energy penalty for rotation around the Ph? NH bond compared to the Ph? CO bond and the diminished magnitude of dipole–dipole interactions. Finally, we observed that mixed stacks are formed in dilute solution when mixing N‐BTAs and C?O BTAs.     

1,3‐Bis(ethylamino)‐2‐nitrobenzene, 1,3‐bis(n‐octylamino)‐2‐nitrobenzene and 4‐ethylamino‐2‐methyl‐1H‐benzimidazole

1,3‐Bis(ethylamino)‐2‐nitrobenzene, C₁₀H₁₅N₃O₂, (I), and 1,3‐bis(n‐octylamino)‐2‐nitrobenzene, C₂₂H₃₉N₃O₂, (II), are the first structurally characterized 1,3‐bis(n‐alkylamino)‐2‐nitrobenzenes. Both molecules are bisected though the nitro N atom and the 2‐C and 5‐C atoms of the ring by twofold rotation axes. Both display intramolecular N—H...O hydrogen bonds between the amine and nitro groups, but no intermolecular hydrogen bonding. The nearly planar molecules pack into flat layers ca 3.4 Å apart that interact by hydrophobic interactions involving the n‐alkyl groups rather than by π–π interactions between the rings. The intra‐ and intermolecular interactions in these molecules are of interest in understanding the physical properties of polymers made from them. Upon heating in the presence of anhydrous potassium carbonate in dimethylacetamide, (I) and (II) cyclize with formal loss of hydrogen peroxide to form substituted benzimidazoles. Thus, 4‐ethylamino‐2‐methyl‐1H‐benzimidazole, C₁₀H₁₃N₃, (III), was obtained from (I) under these reaction conditions. Compound (III) contains two independent molecules with no imposed internal symmetry. The molecules are linked into chains via N—H...N hydrogen bonds involving the imidazole rings, while the ethylamino groups do not participate in any hydrogen bonding. This is the first reported structure of a benzimidazole derivative with 4‐amino and 2‐alkyl substituents.     

4,6‐Dinitro‐N,N′‐di‐n‐octylbenzene‐1,3‐diamine, 4,6‐dinitro‐N,N′‐di‐n‐undecylbenzene‐1,3‐diamine and N,N′‐bis(2,4‐dinitrophenyl)octane‐1,8‐diamine

4,6‐Dinitro‐N,N′‐di‐n‐octylbenzene‐1,3‐diamine, C₂₂H₃₈N₄O₄, (I), 4,6‐dinitro‐N,N′‐di‐n‐undecylbenzene‐1,3‐diamine, C₂₈H₅₀N₄O₄, (II), and N,N′‐bis(2,4‐dinitrophenyl)octane‐1,8‐diamine, C₂₀H₂₄N₆O₈, (III), are the first synthetic meta‐dinitroarenes functionalized with long‐chain aliphatic amine groups to be structurally characterized. The intra‐ and intermolecular interactions in these model compounds provide information that can be used to help understand the physical properties of corresponding polymers with similar functionalities. Compounds (I) and (II) possess near‐mirror symmetry, with the octyl and undecyl chains adopting fully extended anti conformations in the same direction with respect to the ring. Compound (III) rests on a center of inversion that occupies the mid‐point of the central C—C bond of the octyl chain. The middle six C atoms of the chain form an anti arrangement, while the remaining two C atoms take hard turns almost perpendicular to the rest of the chain. All three molecules display intramolecular N—H...O hydrogen bonds between the amine and nitro groups, with the same NH group forming a bifurcated intermolecular hydrogen bond to the nitro O atom of an adjacent molecule. In each case, these interactions link the molecules into one‐dimensional molecular chains. In (I) and (II), these chains pack so that the pendant alkyl groups are interleaved parallel to one another, maximizing nonbonded C—H contacts. In (III), the alkyl groups are more isolated within the molecular chains and the primary nonbonded contacts between the chains appear to involve the nitro groups not involved in the hydrogen bonding.     

()‐3‐Oxo­cyclo­hexane­carboxyl­ic and ‐acetic acids: contrasting hydrogen‐bonding patterns in two homologous keto acids

The crystal structures for the title compounds reveal fundamentally different hydrogen‐bonding patterns. ()‐3‐Oxo­cyclo­hexanecarboxylic acid, C₇H₁₀O₃, displays acid‐to‐ketone catemers having a glide relationship for successive components of the hydrogen‐bonding chains which advance simultaneously by two cells in a and one in c [O?O = 2.683 (3) Å and O—H?O = 166°]. A pair of intermolecular close contacts exists involving the acid carbonyl group. The asymmetric unit in ()‐3‐oxo­cyclo­hexane­acetic acid, C₈H₁₂O₃, utilizes only one of two available isoenthalpic conformers and its aggregation involves mutual hydrogen bonding by centrosymmetric carboxyl dimerization [O?O = 2.648 (3) Å and O—H?O = 171°]. Intermolecular close contacts exist for both the ketone and the acid carbonyl group.     

Supramolecular Polymerization of C3‐Symmetric Organogelators: Cooperativity,Solvent, and Gelation Relationship

A systematic study of the influence of solvent and the size of C₃‐symmetric discotics on their supramolecular polymerization mechanism is presented. The cooperativity of the self‐assembly of the reported compounds is directly related to their gelation ability. The two series of C₃‐symmetric discotics investigated herein are based on benzene‐1,3,5‐tricarboxamides (BTAs) and oligo(phenylene ethynylene)‐based tricarboxamides (OPE? TAs) that are peripherally decorated with achiral ( 1 a and 2 a ) or chiral N‐(2‐aminoethyl)‐3,4,5‐trialkoxybenzamide units ( 1 b and 2 b ). The supramolecular polymerization of compounds 1 a , b and 2 a , b has been exhaustively investigated in a number of solvents and by using various techniques: variable‐temperature circular dichroism (VT‐CD) spectroscopy, concentration‐dependent ¹H NMR spectroscopy, and isothermal titration calorimetry (ITC). The supramolecular polymerization mechanism of compounds 2 is highly cooperative in solvents such as methylcyclohexane and toluene and is isodesmic in CHCl₃. Unexpectedly, chiral compound 1 b is practically CD‐silent, in contrast with previously reported BTAs. ITC measurements in CHCl₃ demonstrated that the supramolecular polymerization of BTA 1 a is isodesmic. These results confirm the strong influence of the π‐surface of the central aromatic core of the studied discotic and the branched nature of the peripheral side chains on the supramolecular polymerization. The gelation ability of these organogelators is negated in CHCl₃, in which the supramolecular polymerization mechanism is isodesmic.     

Desymmetrization of 3,3′‐Bis(acylamino)‐2,2′‐bipyridine‐Based Discotics: The High Fidelity of Their Self‐Assembly Behavior in the Liquid‐Crystalline State and in Solution

Two novel nonsymmetrical disc‐shaped molecules 1 and 2 based on 3,3′‐bis(acylamino)‐2,2′‐bipyridine units were synthesized by means of a statistical approach. Discotic 1 possesses six chiral dihydrocitronellyl tails and one peripheral phenyl group, whereas discotic 2 possesses six linear dodecyloxy tails and one peripheral pyridyl group. Preorganization by strong intramolecular hydrogen bonding and subsequent aromatic interactions induce self‐assembly of the discotics. Liquid crystallinity of 1 and 2 was determined with the aid of polarized optical microscopy, differential scanning calorimetry, and X‐ray diffraction. Two columnar rectangular mesophases (Col_r) have been identified, whereas for C₃‐symmetrical derivatives only one Col_r mesophase has been found. 1 In solution, the molecularly dissolved state in chloroform was studied with ¹H NMR spectroscopy, whereas the self‐assembled state in apolar solution was examined with optical spectroscopy. Remarkably, these desymmetrized discotics, which lack one aliphatic wedge, behave similar to the symmetric parent compound. To prove that the stacking behavior of discotics 1 and 2 is similar to that of reported C₃‐symmetrical derivatives, a mixing experiment of chiral 1 with C₃‐symmetrical 13 has been undertaken; it has shown that they indeed belong to one type of self‐assembly. This helical J‐type self‐assembly was further confirmed with UV/Vis and photoluminescence (PL) spectroscopy. Eventually, disc 2 , functionalized with a hydrogen‐bonding acceptor moiety, might perform secondary interactions with molecules such as acids.     

3‐[4‐(3,4‐Di­methyl­phenyl)‐1,3‐thia­zol‐2‐yl]‐2‐(2‐hydroxy­phenyl)‐1,2,3,4‐tetra­hydro­quin­az­olin‐4‐one

The facile one‐pot synthesis of the title compound, C₂₅H₂₁N₃O₂S, is described. The six‐membered 1,3‐di­aza ring is puckered with an axial phenyl group in the 2‐position. Intermolecular hydrogen bonding between hydroxyl and ketonic O atoms produces infinite one‐dimensional chains in the a direction.     

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.     

Methyl 3‐O‐β‐l‐fucopyranosyl α‐d‐glucopyranoside trihydrate

The water content of the title compound, C₁₃H₂₄O₁₀·3H₂O, creates an extensive hydrogen‐bonding pattern, with all the hydroxyl groups of the disaccharide acting as hydrogen‐bond donors and acceptors. The water molecules are arranged in columns along the crystallographic b axis and form, together with one of the hydroxyl groups, infinite hydrogen‐bonded chains. The conformation of the disaccharide is described by glycosidic torsion angles of −38 and 18°.     

Synthesis and characterization of a novel long‐alkyl‐chain ester‐substituted benzimidazole gelator and its octan‐1‐ol solvate

The synthesis of a novel benzimidazole derivative with a long‐chain‐ester substituent, namely methyl 8‐[4‐(1H‐benzimidazol‐2‐yl)phenoxy]octanoate, (3), is reported. Ester (3) shows evidence of aggregation in solution and weak gelation ability with toluene. The octan‐1‐ol solvate, methyl 8‐[4‐(1H‐benzimidazol‐2‐yl)phenoxy]octanoate octan‐1‐ol monosolvate, C₂₂H₂₆N₂O₃·C₈H₁₈O, (4), exhibits a four‐molecule hydrogen‐bonded motif in the solid state, with N—H…O hydrogen bonds between benzimidazole molecules and O—H…N hydrogen bonds between the octan‐1‐ol solvent molecules and the benzimidazole unit. The alkyl chains of the ester and the octan‐1‐ol molecules are in unfolded conformations. The phenylene ring is canted by 10.27 (6)° from the plane of the benzimidazole ring system. H…C contacts make up 20.7% of the Hirshfeld surface coverage. Weak C—H…π interactions involving the benzimidazole alkyl chain and three aromatic rings are observed.     

Glycosidic linkage,N‐acetyl side‐chain,and other structural properties of methyl 2‐acetamido‐2‐deoxy‐β‐d‐glucopyranosyl‐(1→4)‐β‐d‐mannopyranoside monohydrate and related compounds

The crystal structure of methyl 2‐acetamido‐2‐deoxy‐β‐d ‐glycopyranosyl‐(1→4)‐β‐d ‐mannopyranoside monohydrate, C₁₅H₂₇NO₁₁·H₂O, was determined and its structural properties compared to those in a set of mono‐ and disaccharides bearing N‐acetyl side‐chains in βGlcNAc aldohexopyranosyl rings. Valence bond angles and torsion angles in these side chains are relatively uniform, but C—N (amide) and C—O (carbonyl) bond lengths depend on the state of hydrogen bonding to the carbonyl O atom and N—H hydrogen. Relative to N‐acetyl side chains devoid of hydrogen bonding, those in which the carbonyl O atom serves as a hydrogen‐bond acceptor display elongated C—O and shortened C—N bonds. This behavior is reproduced by density functional theory (DFT) calculations, indicating that the relative contributions of amide resonance forms to experimental C—N and C—O bond lengths depend on the solvation state, leading to expectations that activation barriers to amide cis–trans isomerization will depend on the polarity of the environment. DFT calculations also revealed useful predictive information on the dependencies of inter‐residue hydrogen bonding and some bond angles in or proximal to β‐(1→4) O‐glycosidic linkages on linkage torsion angles ? and ψ. Hypersurfaces correlating ? and ψ with the linkage C—O—C bond angle and total energy are sufficiently similar to render the former a proxy of the latter.     

(±)‐cis‐2‐Methyl‐4‐oxo­cyclo­hexane­carboxyl­ic acid: catemeric hydrogen bonding in a δ‐keto acid derived from Hagemann's ester

The title compound, C₈H₁₂O₃, crystallizes as acid‐to‐ketone hydrogen‐bonding catemers, in which hydrogen bonds progress from the carboxyl group of each mol­ecule to the ketone group of a translationally related neighbor [O⋯O = 2.738 (3) Å and O—H⋯O = 153 (4)°]. Four separate hy­drogen‐bonding chains proceed through the cell in centrosymmetrically related pairs along axes lying in the ab plane. Three intermolecular C—H⋯O close contacts exist involving both carboxyl O atoms. Factors contributing to the choice of hydrogen‐bonding mode are discussed.     

(R)‐4‐(4‐Aminophenyl)‐2,2,4‐trimethylchroman and (S)‐4‐(4‐aminophenyl)‐2,2,4‐trimethylthiachroman

The title compounds, C₁₈H₂₁NO and C₁₈H₂₁NS, in their enantiomerically pure forms are isostructural with the enantiomerically pure 4‐(4‐hydroxyphenyl)‐2,2,4‐trimethylchroman and 4‐(2,4‐dihydroxyphenyl)‐2,2,4‐trimethylchroman analogues and form extended linear chains via N—H...O or N—H...S hydrogen bonding along the [100] direction. The absolute configuration for both compounds was determined by anomalous dispersion methods with reference to both the Flack parameter and, for the light‐atom compound, Bayesian statistics on Bijvoet differences.     

(8‐Dimethylamino‐1‐naphthyl)dimethylammonium 3‐carboxy‐1,4,5,‐6,7,7‐hexachlorobicyclo[2.2.1]hept‐5‐ene‐2‐carboxylate hydrate

The structure of the title compound, C₁₄H₁₉N₂⁺·C₉H₃Cl₆O₄^?·H₂O, consists of singly ionized 1,4,5,6,7,7‐hexachlorobicyclo[2.2.1]hept‐5‐ene‐2,3‐dicarboxylic acid anions and protonated 1,8‐bis(dimethylamino)naphthalene cations. In the (8‐dimethylamino‐1‐napthyl)dimethylammonium cat­ion, a strong disordered intramolecular hydrogen bond is formed with N?N = 2.589 (3) Å. The geometry and occupancy obtained in the final restrained refinement suggest that the disordered hydrogen bond may be asymmetric. Water mol­ecules link the anion dimers into infinite chains via hydrogen bonding.     

Crystal packing of two 5‐substituted 2‐methyl‐4‐nitro‐1H‐imidazoles

Infinite chains connected by N—H...N hydrogen bonding form the primary packing motif in two closely related 4‐nitroimidazole derivatives, viz. 5‐bromo‐2‐methyl‐4‐nitro‐1H‐imidazole, C₄H₄BrN₃O₂, (I), and 2‐methyl‐4‐nitro‐1H‐imidazole‐5‐carbonitrile, C₅H₄N₄O₂, (II). These chains are almost identical, even though in (II) there are two symmetry‐independent molecules in the asymmetric unit. The differences appear in the interactions between the chains; in (I), there are strong C—Br...O halogen bonds, which connect the chains into a two‐dimensional grid, while in (II), the cyano group does not participate in specific interactions and the chains are only loosely connected into a three‐dimensional structure.     

Oligodeoxynucleotide Duplexes Containing (5′S)‐5′‐C‐Alkyl‐Modified 2′‐Deoxynucleosides: Can an Alkyl Zipper across the DNA Minor‐Groove Enhance Duplex Stability?

A series of oligonucleotides containing (5′S)‐5′‐C‐butyl‐ and (5′S)‐5′‐C‐isopentyl‐substituted 2′‐deoxyribonucleosides were designed, prepared, and characterized with the intention to explore alkyl‐zipper formation between opposing alkyl chains across the minor groove of oligonucleotide duplexes as a means to modulate DNA‐duplex stability. From four possible arrangements of the alkyl groups that differ in the density of packing of the alkyl chains across the minor groove, three (duplex types I – III , Fig. 2) could experimentally be realized and their duplex‐forming properties analyzed by UV‐melting curves, CD spectroscopy, and isothermal titration calorimetry (ITC), as well as by molecular modeling. The results show that all arrangements of alkyl residues within the minor groove of DNA are thermally destabilizing by 1.5–3°/modification in T_m. We found that, within the proposed duplexes with more loosely packed alkyl groups (type‐ III duplexes), accommodation of alkyl residues without extended distorsion of the helical parameters of B‐DNA is possible but does not lead to higher thermodynamic stability. The more densely packed and more unevenly distributed arrangement (type‐ II duplexes) seems to suffer from ecliptic positioning of opposite alkyl groups, which might account for a systematic negative contribution to stability due to steric interactions. The decreased stability in the type‐ III duplexes described here may be due either to missing hydrophobic interactions of the alkyl groups (not bulky enough to make close contacts), or to an overcompensation of favorable alkyl‐zipper formation presumably by loss of structured H₂O in the minor groove.     

Halogen bonding in 1,2‐dibromo‐4,5‐dimethoxybenzene and 1,2‐diiodo‐4,5‐dimethoxybenzene

An interesting case of `halogen‐bonding‐promoted' crystal structure architecture is presented. The two title compounds, C₈H₈Br₂O₂ and C₈H₈I₂O₂, have almost indistinguishable molecular structures but very different spatial organization, and this is mainly due to differences in the halogen‐bonding interactions in which the different species present, i.e. Br and I, take part. The dibromo structure exhibits a π‐bonded columnar array involving all four independent molecules in the asymmetric unit, with intercolumnar interactions governed by C—Br...Br—C links and with no C—Br...O/N interactions present. In the diiodo structure, instead, the C—I...O synthon prevails, defining linear chains, in turn interlinked by C—I...I—C interactions.     

()‐Tartaric acid

()‐Tartaric acid, C₄H₆O₆, crystallized from ethanol in space group P. The structure is characterized by five hydrogen bonds, including the formation of a centrosymmetric carbox­ylic acid dimer which forms infinite chains along the body diagonal. These chains form sheets via hydrogen bonding between α‐hydroxyl groups. The sheets are connected through a bifurcated hydrogen bond. Structural comparisons are made with homochiral (2R,3R)‐(+)‐tartaric acid.     

2‐[N‐(2,3‐Dimethylphenyl)carbamoyl]benzenesulfonamide and the 3,4‐ and 2,6‐dimethylphenyl analogues

The structures of 2‐[(2,3‐dimethylphenyl)carbamoyl]benzenesulfonamide, 2‐[(3,4‐dimethylphenyl)carbamoyl]benzenesulfonamide and 2‐[(2,6‐dimethylphenyl)carbamoyl]benzenesulfonamide, all C₁₅H₁₆N₂O₃S, are stabilized by extensive intra‐ and intermolecular hydrogen bonds. In all three structures, the sulfonamide and carbamoyl groups are involved in hydrogen bonding. In the 2,3‐dimethyl and 2,6‐dimethyl derivatives, dimeric units and chains of molecules are formed parallel to the c axis. In the 3,4‐dimethyl derivative, the hydrogen bonding creates tetrameric units, resulting in macrocyclic R₄⁴(22) rings that form sheets in the ab plane. The three analogues are closely related to the fenamate class of nonsteroidal anti‐inflammatory drugs.     

A one‐dimensional cobalt(II) coordination polymer based on 2,4′‐oxydibenzoic acid: poly[[[diaquabis[2‐(4‐carboxyphenoxy)benzoato‐κO1]cobalt(II)]‐μ‐4,4′‐bipyridine‐κ2N:N′] dihydrate]

The reaction of CoSO₄ with 2,4‐oxydibenzoic acid (H₂oba) and 4,4′‐bipyridine (bipy) under hydrothermal condition yielded a new one‐dimensional cobalt(II) coordination polymer, {[Co(C₁₄H₉O₅)₂(C₁₀H₈N₂)(H₂O)₂]·2H₂O}_n, which was characterized by elemental analysis, IR spectroscopy, thermogravimetric analysis, magnetic properties and single‐crystal X‐ray diffraction. The Co^II ions are connected by bipy ligands into infinite one‐dimensional chains. The Hoba⁻ ligands extend out from the two sides of the one‐dimensional chain. O—H...O hydrogen bonding extends these chains into a two‐dimensional supramolecular architecture.