()‐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.     

Isomorphous crystals of strychninium 4‐chloro­benzoate and strychninium 4‐nitro­benzoate

In strychninium 4‐chloro­benzoate, C₂₁H₂₃N₂O₂⁺·C₇H₄ClO₂⁻, (I), and strychninium 4‐nitro­benzoate, C₂₁H₂₃N₂O₂⁺·C₇H₄NO₄⁻, (II), the strychninium cations form pillars stabilized by C—H⋯O and C—H⋯π hydrogen bonds. Channels between the pillars are occupied by anions linked to one another by C—H⋯π hydrogen bonds. The cations and anions are linked by ionic N—H⁺⋯O⁻ and C—H⋯X hydrogen bonds, where X = O, π and Cl in (I), and O and π in (II).     

The epimeric 9‐oxobicyclo[3.3.1]nonane‐3‐carboxylic acids: hydrogen‐bonding patterns of the endo acid and the lactol of the exo acid

The two δ‐keto carboxylic acids of the title, both C₁₀H₁₄O₃, are epimeric at the site of carboxyl attachment. The endo (3α) epimer, (I), has its keto‐acid ring in a boat conformation, with the tilt of the carboxyl group creating conformational chirality. The mol­ecules form hydrogen bonds by centrosymmetric pairing of carboxyl groups across the corners of the chosen cell [O⃛O = 2.671 (2) Å and O—H⃛O = 179 (2)°]. Two close intermolecular C—H⃛O contacts exist for the ketone. The exo (3β) epimer exists in the closed ring–chain tautomeric form as the lactol, 8‐hydroxy‐9‐oxatri­cyclo­[5.3.1.0^3,8]­undecan‐10‐one, (II). The mol­ecules have conformational chirality, and the hydrogen‐bonding scheme involves intermolecular hydroxyl‐to‐carbonyl chains of mol­ecules screw‐related in b [O⃛O = 2.741 (2) Å and O—H⃛O = 177 (2)°].     

(–)‐Dioxosantadienic acid: hydrogen‐bonding patterns in a bicyclic sesquiterpenoid keto acid and its mono­hydrate

The an­hydrous form, (I), of the title compound, (?)‐2‐(1,2,3,4,4a,7‐hexa­hydro‐4a,8‐di­methyl‐1,7‐dioxo‐2‐naphthyl)­propionic acid, C₁₅H₁₈O₄, derived from a naturally occurring sesquiterpenoid, has two mol­ecules in the asymmetric unit, (I) and (I′), differing in the conformations of the saturated ring and the carboxyl group. The compound aggregates as carboxyl‐to‐ketone hydrogen‐bonding catemers [O?O = 2.776 (3) and 2.775 (3) Å]. Two crystallographically independent sets of single‐strand hydrogen‐bonding helices with opposite end‐to‐end orientation pass through the cell in the b direction, one consisting exclusively of mol­ecules of (I) and the other entirely of (I′). Three C—H?O=C close contacts are found in (I). The monohydrate, C₁₅H₁₈O₄·H₂O, (II), with two mol­ecules of (I) plus two water mol­ecules in its asymmetric unit, forms a complex three‐dimensional hydrogen‐bonding network including acid‐to‐water, water‐to‐acid, water‐to‐ketone, water‐to‐water and acid‐to‐acid hydrogen bonds, plus three C—H?O=C close contacts. In both (I) and (II), only the ketone remote from the acid is involved in hydrogen bonding.     

The hydrogen‐bonding network in deacetyl­cephalothin

The structural analysis of deacetyl­cephalothin [systematic name: (6R,7R)‐3‐hydroxy­methyl‐8‐oxo‐7‐(2‐thio­phen‐2‐yl­acetyl­amino)‐5‐thia‐1‐aza­bicyclo­[4.2.0]oct‐2‐ene‐2‐carboxylic acid], C₁₄H₁₄N₂O₅S₂, shows that the geometry of the central bicyclic moiety is close to the geometry exhibited by other biologically active cephalosporin antibiotics. The mol­ecules are arranged in a helical chain running parallel to the 2₁ axis via a strong O—H⋯O hydrogen bond. The main helices are zipped together via N—H⋯O inter­actions, forming infinite layers. The supramolecular architecture is stabilized by O—H⋯S and C—H⋯O hydrogen bonds.     

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

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

Supramolecular hydrogen‐bonding patterns in salts of the antifolate drugs trimethoprim and pyrimethamine

Nine salts of the antifolate drugs trimethoprim and pyrimethamine, namely, trimethoprimium [or 2,4‐diamino‐5‐(3,4,5‐trimethoxybenzyl)pyrimidin‐1‐ium] 2,5‐dichlorothiophene‐3‐carboxylate monohydrate (TMPDCTPC, 1:1), C₁₄H₁₉N₄O₃⁺·C₅HCl₂O₂S⁻, ( I ), trimethoprimium 3‐bromothiophene‐2‐carboxylate monohydrate, (TMPBTPC, 1:1:1), C₁₄H₁₉N₄O₃⁺·C₅H₂BrO₂S⁻·H₂O, ( II ), trimethoprimium 3‐chlorothiophene‐2‐carboxylate monohydrate (TMPCTPC, 1:1:1), C₁₄H₁₉N₄O₃⁺·C₅H₂ClO₂S⁻·H₂O, ( III ), trimethoprimium 5‐methylthiophene‐2‐carboxylate monohydrate (TMPMTPC, 1:1:1), C₁₄H₁₉N₄O₃⁺·C₆H₅O₂S⁻·H₂O, ( IV ), trimethoprimium anthracene‐9‐carboxylate sesquihydrate (TMPAC, 2:2:3), C₁₄H₁₉N₄O₃⁺·C₁₅H₉O₂⁻·1.5H₂O, ( V ), pyrimethaminium [or 2,4‐diamino‐5‐(4‐chlorophenyl)‐6‐ethylpyrimidin‐1‐ium] 2,5‐dichlorothiophene‐3‐carboxylate (PMNDCTPC, 1:1), C₁₂H₁₄ClN₄⁺·C₅HCl₂O₂S⁻, ( VI ), pyrimethaminium 5‐bromothiophene‐2‐carboxylate (PMNBTPC, 1:1), C₁₂H₁₄ClN₄⁺·C₅H₂BrO₂S⁻, ( VII ), pyrimethaminium anthracene‐9‐carboxylate ethanol monosolvate monohydrate (PMNAC, 1:1:1:1), C₁₂H₁₄ClN₄⁺·C₁₅H₉O₂⁻·C₂H₅OH·H₂O, ( VIII ), and bis(pyrimethaminium) naphthalene‐1,5‐disulfonate (PMNNSA, 2:1), 2C₁₂H₁₄ClN₄⁺·C₁₀H₆O₆S₂²⁻, ( IX ), have been prepared and characterized by single‐crystal X‐ray diffraction. In all the crystal structures, the pyrimidine N1 atom is protonated. In salts ( I )–( III ) and ( VI )–( IX ), the 2‐aminopyrimidinium cation interacts with the corresponding anion via a pair of N—H…O hydrogen bonds, generating the robust R₂²(8) supramolecular heterosynthon. In salt ( IV ), instead of forming the R₂²(8) heterosynthon, the carboxylate group bridges two pyrimidinium cations via N—H…O hydrogen bonds. In salt ( V ), one of the carboxylate O atoms bridges the N1—H group and a 2‐amino H atom of the pyrimidinium cation to form a smaller R₂¹(6) ring instead of the R₂²(8) ring. In salt ( IX ), the sulfonate O atoms mimic the role of carboxylate O atoms in forming an R₂²(8) ring motif. In salts ( II )–( IX ), the pyrimidinium cation forms base pairs via a pair of N—H…N hydrogen bonds, generating a ring motif [R₂²(8) homosynthon]. Compounds ( II ) and ( III ) are isomorphous. The quadruple DDAA (D = hydrogen‐bond donor and A = hydrogen‐bond acceptor) array is observed in ( I ). In salts ( II )–( IV ) and ( VI )–( IX ), quadruple DADA arrays are present. In salts ( VI ) and ( VII ), both DADA and DDAA arrays co‐exist. The crystal structures are further stabilized by π–π stacking interactions [in ( I ), ( V ) and ( VII )–( IX )], C—H…π interactions [in ( IV )–( V ) and ( VII )–( IX )], C—Br…π interactions [in ( II )] and C—Cl…π interactions [in ( I ), ( III ) and ( VI )]. Cl…O and Cl…Cl halogen‐bond interactions are present in ( I ) and ( VI ), with distances and angles of 3.0020 (18) and 3.5159 (16) Å, and 165.56 (10) and 154.81 (11)°, respectively.     

Three‐dimensional hydrogen‐bonding supramolecular architecture of 2‐(3‐pyridinio)‐5‐(3‐pyridyl)‐1,3,4‐oxa­diazole perchlorate

In the crystal structure of the title compound, C₁₂H₉N₄O⁺·ClO₄⁻, the protonated cation adopts a cis‐I conformation and approximately planar geometry. Each perchlorate anion acts as the acceptor of three C—H⋯O weak interactions, which, together with N—H⋯N and C—H⋯N hydrogen bonds between the protonated cations, extend this structure into a three‐dimensional hydrogen‐bonded network.     

Hydrogen bonding in nitroaniline analogues: hydrogen‐bonded sheets in 2‐amino‐4,6‐dimethoxy‐5‐nitropyrimidine and π‐stacked hydrogen‐bonded sheets in 4‐amino‐2,6‐dimethoxy‐5‐nitropyrimidine

In 2‐amino‐4,6‐di­methoxy‐5‐nitro­pyrimidine, C₆H₈N₄O₄, the mol­ecules are linked by one N—H⋯N and one N—H⋯O hydrogen bond to form sheets built from alternating R(8) and R(32) rings. In isomeric 4‐amino‐2,6‐di­methoxy‐5‐nitro­pyrimidine, C₆H₈N₄O₄, which crystallizes with Z′ = 2 in P, the two independent mol­ecules are linked into a dimer by two independent N—H⋯N hydrogen bonds. These dimers are linked into sheets by a combination of two‐centre C—H⋯O and three‐centre C—H⋯(O)₂ hydrogen bonds, and the sheets are further linked by two independent aromatic π–π‐stacking interactions to form a three‐dimensional structure.     

Study of hydrogen‐bonding strength in poly(ϵ‐caprolactone) blends by DSC and FTIR

The hydrogen‐bonding strength of poly(?‐caprolactone) (PCL) blends with three different well‐known hydrogen‐bonding donor polymers [i.e., phenolic, poly(vinyl‐phenol) (PVPh), and phenoxy] was investigated with differential scanning calorimetry and Fourier transform infrared spectroscopy. All blends exhibited a single glass‐transition temperature with differential scanning calorimetry, which is characteristic of a miscible system. The strength of interassociation depended on the hydrogen‐bonding donor group in the order phenolic/PCL > PVPh/PCL > phenoxy/PCL, which corresponds to the q value of the Kwei equation. In addition, the interaction energy density parameter calculated from the melting depression of PCL with the Nishi–Wang equation resulted in a similar trend in terms of the hydrogen‐bonding strength. Quantitative analyses on the fraction of hydrogen‐bonded carbonyl groups in the molten state were made with Fourier transform infrared spectroscopy for all systems, and good correlations between thermal behaviors and infrared results were observed. © 2001 John Wiley & Sons, Inc. J Polym Sci Part B: Polym Phys 39: 1348–1359, 2001     

l‐Isoleucyl‐l‐asparagine 1.094‐hydrate: a hybrid hydrogen‐bonding pattern

The title compound, C₁₀H₂₀N₃O₄·1.094H₂O, crystallizes with two dipeptide molecules in the asymmetric unit, each participating in two head‐to‐tail chains with hydrogen bonds between the terminal amino and carboxylate groups. As with many other dipeptides, the resulting structure is divided into distinct layers, but as the amide groups of the two peptide molecules participate in different types of interaction, the observed hydrogen bonds within a peptide main‐chain layer (as distinct from the side‐chain/solvent regions) cannot adapt to any of the four basic patterns observed previously for dipeptides. Instead, a rare hybrid pattern is formed.     

3‐Acetylanilinium bromide,nitrate and dihydrogen phosphate: hydrogen‐bonding motifs in one,two and three dimensions

In the title compounds, namely 3‐acetylanilinium bromide, C₈H₁₀NO⁺·Br⁻, (I), 3‐acetylanilinium nitrate, C₈H₁₀NO⁺·NO₃⁻, (II), and 3‐acetylanilinium dihydrogen phosphate, C₈H₁₀NO⁺·H₂PO₄⁻, (III), each asymmetric unit contains a discrete cation, with a protonated amino group, and an anion. In the crystal structure of (I), the ions are connected via N—H...Br and N—H...O hydrogen bonds into a chain of spiro‐fused R²₂(14) and R²₄(8) rings. In compound (II), the non‐H atoms of the cation all lie on a mirror plane in the space group Pnma, while the nitrate ion lies across a mirror plane. The crystal structures of compounds (II) and (III) are characterized by hydrogen‐bonded networks in two and three dimensions, respectively. The ions in (II) are connected via N—H...O hydrogen bonds, with three characteristic graph‐set motifs, viz.C²₂(6), R²₁(4) and R⁴₆(14). The ions in (III) are connected via N—H...O and O—H...O hydrogen bonds, with five characteristic graph‐set motifs, viz.D, C(4), C¹₂(4), R³₃(10) and R⁴₄(12). The significance of this study lies in its illustration of the differences between the supramolecular aggregations in the bromide, nitrate and dihydrogen phosphate salts of a small organic molecule. The different geometry of the counter‐ions and their different potential for hydrogen‐bond formation result in markedly different hydrogen‐bonding arrangements.     

A zwitterion of 1,5‐bis­(2‐hydroxy­benzamido)‐3‐aza­pentane: a two‐dimensional hydrogen‐bonding network involving dimers

The title compound, 2‐{N‐[2‐(2‐hydroxy­benzamido)ethyl­ammonio­ethyl]amino­carbon­yl}phenolate, C₁₈H₂₁N₃O₄, crystallizes in a zwitterionic form as a result of inter­molecular proton transfer and possesses a negatively charged phenolate group and a protonated amino group. The 2‐hydroxy­benzamide and 2‐(amino­carbonyl)­phenolate moieties attached to the two ends of the C—C—N—C—C backbone adopt a cis conformation in relation to this backbone. All N‐ and O‐bound H atoms are involved in hydrogen‐bond formation; the zwitterions are first linked into head‐to‐tail dimers, which are further organized into a two‐dimensional network parallel to the crystallographic bc plane.     

(−)‐3,7‐Dioxo‐5β‐cholanic acid: dual hydrogen‐bonding modes in a diketonic bile‐acid derivative

The asymmetric unit of the title compound, C₂₄H₃₆O₄, contains three mol­ecules, all differing in their side‐chain conformations and all linked by hydrogen bonding confined entirely within a three‐mol­ecule block. One connection is of the acid‐to‐ketone type [O⋯O = 2.7055 (19) Å and O—H⋯O = 180°] and the other involves carboxyl pairing [O⋯O = 2.6485 (18) and 2.6598 (18) Å, and O—H⋯O = 168 and 174°]. Numerous inter­molecular C—H⋯O close contacts connect neighbouring mol­ecules.     

5‐Oxocyclooctanecarboxylic acid: hydrogen‐bonding pattern and conformational disorder in a medium‐ring ɛ‐keto acid

Molecules of the title compound, C₉H₁₄O₃, adopt a chiral `boat–chair' conformation, in which the carboxyl group avoids potential cross‐ring ketone interactions by an outward `equatorial' orientation. The asymmetric unit contains two such mol­ecules, one conformationally fixed without disorder, (I), and the other, (I′), extensively disordered, both in the bond lengths and angles of the carboxyl and by a coupled `up‐down' conformational disordering [ratio of 60:40 (1)] of the remote ends of the boat–chair system. Each mol­ecule in the asymmetric unit forms a centrosymmetric hydrogen‐bonded carboxyl dimer with a second mol­ecule of its own type. For (I), O?O = 2.658 (3) Å and O—H?O = 174°. For (I′), O?O = 2.653 (3) Å and O—H?O = 165°. A number of intermolecular C=O?H—C close contacts are found.     

Conformational flexibility in open chain molecules: chiral and achiral alkanes

Conformational partition functions of chiral and achiral alkanes have been computed by using a continuum approach (instead of rotational isomeric state approximations). The accessible conformational space per bond depends upon the structure of the compound and is only in the range of 5–13% of the maximum accessible range. In order to partly overcome the intrinsic ambiguity of the term “conformational flexibility”, the distinction between number flexibility (a measure of the number of accessible energy minima) and space flexibility (a measure of the total allotted space) is proposed. Further, the conformational versatility of each bond of a molecule is evaluated in terms of the a priori probability density function of that bond, and it is shown that the use of this function permits a comparison of the relative conformational flexibilities of the individual bonds, which is particularly useful for molecules having more than two rotation angles (where the conventional energy maps cannot be used). Optical rotations are calculated for a series of chiral alkanes by combining the continuum approach for conformational analysis and a recent optical activity calculation scheme. Contributions of single bonds to the molar optical rotation are evaluated and discussed. The influence of temperature upon conformational and chiral properties is evaluated.     

3‐Oxa‐6,8‐diaza‐1,2:4,5‐dibenzocycloocta‐1,4‐dien‐7‐one: a three‐dimensional network assembled by hydrogen‐bonding, π–π and edge‐to‐face interactions

The title compound, C₁₃H₁₀N₂O₂, is the first structure in which the urea moiety is incorporated into an eight‐membered ring. Two mol­ecules are found in the asymmetric unit, which are almost identical in their conformation and their hydrogen‐bond pattern. The carbonyl O atom acts as a double acceptor for the NH groups of two adjacent mol­ecules. In this way, infinite tapes are formed, which are connected viaπ–π and edge‐to‐face interactions in the second and third dimension. This hierarchical order of interactions is confirmed by molecular mechanics calculations. Force‐field and semi‐empirical calculations for a single mol­ecule did not find the envelope conformation present in the crystal, indicating instead a C_s conformation. Only with a model consisting of a hydrogen‐bonded dimer or a larger hydrogen‐bonded section was a conformation found that was similar to the one present in the crystal.