Hydrogen bonding incis-2,3-epoxycyclooctanol

Hydrogen bonding and the electron-withdrawing or electron-donating characteristics of substituent groups that are neighboring to epoxide groups can affect the reactivity of the epoxide ring. The crystal structure ofcis-2,3-epoxycyclooctanol has been determined as a saturated eight-membered ring compound in which a hydroxyl group is attached to the C(1) atom that is adjacent to a 2,3-fused epoxy ring. The findings are that the longer epoxide C-O bond (and hence the one expected to be more readily broken) is the one farther from the hydroxyl group [1.462(1) å versus 1.447(1) å] and that the optimal hydrogen bonding is to an adjacent molecule radier than within the molecule. The shortest C-C bond is that of the epoxide group; the bond adjacent to it (on the side farther from the hydroxyl group) is the next shortest.     

The molecular and crystal structure of tert-butyl Nalpha-tert-butoxycarbonyl-L-(S-trityl)cysteinate and the conformation-stabilizing function of weak intermolecular bonding

The title compound, C31H37NO4S [systematic name: (R)-tert-butyl-2-[(tert-butoxycarbonyl)amino]-3-(tritylsulfanyl)propanoate] is an L-cysteine derivative with three functions: NH2, COOH and SH, blocked by protecting groups tert-butoxycarbonyl, tert-butyl and trityl, respectively. The main chain of the molecule adopts the extended, nearly all-trans C5 conformation with the intramolecular N-H...O=C hydrogen bond. The urethane group is not involved in any intermolecular hydrogen bonding. Only weak intermolecular hydrogen bonds and hydrophobic contacts are observed in the crystal structure. These are C-H...O hydrogen bonds and CH/pi interactions with donor...acceptor distances, C...O ca. 3.5 A and C...C ca. 3.7 A, respectively. The first type of interaction links phenyl H-atoms and carbonyl groups. The second type of interaction is formed between a methyl group of the tert-butyl fragment and a trityl phenyl ring. The resulting molecular conformation in the crystal is very close to an ab initio minimum energy conformer of the isolated molecule. The extended C5 conformation of the main peptide chain is the same and there is slight discrepancy in the disposition of trityl phenyl rings. Their small dislocation creates the possibility of forming the entire network above of extensive, specific, weak intermolecular interactions; these constrain the molecule and permit it to retain the minimum energy C5 conformation of its main chain in the solid state. In contrast, in n-hexane solution, where such specific interactions cannot occur, only a small population of the molecules adopts the extended C5 conformation.     

Crystal structure of {aquaimidazole-[2-(2-carbamoylhydrazone)-propionato]} copper(II) nitrate

The crystal structure of {aquaimidazole[2-(2-carbamoylhydrazone)-propionato]}copper(II) nitrate [Cu(L)Im(H₂O)]NO₃ (I), where HL is the semicarbazone of pyruvic acid, Im is imidazole, is dtermined. The crystal structure of I contains two independent complexes IA and IB in which copper atoms coordinate once deprotonated tridentate HL, imidazole, and water molecules. Outer spheres of the complexes contain nitrate ions. In the compounds studied the coordination polyhedron of the copper atom is a distorted tetragonal pyramid. Its base is composed of carboxyl and carbamide oxygen atoms, azomethine nitrogen of monodeprotonated HL molecules, and the imidazole nitrogen atom. In the crystal, nitrate ions and imidazole molecules link the complexes via hydrogen bonds into 2D networks parallel to the (010) plane. These networks in turn are in pairs arranged into layers along the [010] direction due to hydrogen bonds between water molecules and oxygen atoms of nitrate ions, and also by water molecules and O3 atoms of the neighboring 2D networks. In the crystal, the π-π stacking interaction is observed between the imidazole rings from different layers and there is also a N-O…Cg (π ring) interaction inside the layers.     

Physicochemical characterization of tamoxifen citrate pseudopolymorphs, methanolate and ethanolate

Two novel pseudopolymorphs, methanolate and ethanolate of tamoxifen [(Z)-2-[4-(1,2-diphenyl-1-butenyl)phenoxy]-N,N-dimethylethylamine]citrate, were prepared in addition to forms A and B reported previously. Their crystalline forms were identified and characterized by powder and single crystal X-ray diffractometry, differential scanning calorimetry, thermogravimetric analysis, hot-stage microscopy, scanning electron microscopy and diffuse reflectance infrared Fourier-transform spectroscopy, and their physicochemical stability was also evaluated. The results of single crystal X-ray analysis and thermogravimetric analysis of methanolate and ethanolate suggested that the stoichiometry of tamoxifen citrate : methanol and tamoxifen citrate : ethanol could be composed of a 1 : 1 molecular ratio for both solvates. The results of physicochemical stability evaluations at 75 and 97% RH at 40 and 60 degrees C indicated that the metastable form A was quite stable for at least 2 months even under severe storage conditions, whereas methanolate immediately transformed to a crystalline mixture of forms A and B, and subsequently changed to the stable form B.     

(5Z)‐4‐Amino‐2‐(4‐hydroxyphenyl)‐1H‐imidazol‐5(2H)‐one oxime 3‐oxide

The title molecule, C₉H₁₀N₄O₃, consists of benzene and imidazole rings which are almost perpendicular to each other. A hydroxyimino group is directly linked to the imidazole ring with a double C=N bond, which is the first example in this type of compound. The double bond may be a good location for the initiation of various reactions with a wide range of potential applications. In the crystal structure, there are π–π interactions between molecules related by a centre of symmetry, with the imidazole and benzene rings almost completely overlapped. The molecules are hydrogen bonded in each direction and form a three‐dimensional hydrogen‐bond network.     

Structures of N—（2,3,4,6—Tetra—O—acetyl—β—D—glycosyl） thiocarbamic Benzoyl Hydrazine

The crystal structure of N-(2,3,4,6-tetra-O-acetyl-β-D-gly-cosyl)-thiocarbamic benzoyl hydrazine(C22H27N3O9S) was determined by X-ray diffracton method.The hexopyranosyl ring adopts a chair conformation.All the ring substituents are in the equatorial positions.The acetoxyl-methyl group is in synclinal conformation.The S atom is in synperiplanar conformation while the benzoyl hydrazine moiety is anti-periplanar.The thiocarbamic moiety is almost companar with the benzoyl hydrazine group.There are two intramolecular hydrogen bonds and one intermolecular hydrogen bond for each molecule in the crystal structure.The molecules form a network structure through intermolecular hydrogen bonds.     

2‐[(E)‐(4‐Hydroxy‐3‐methoxybenzylidene)amino]‐N‐(2‐methylphenyl)‐4,5,6,7‐tetrahydro‐1‐benzothiophene‐3‐carboxamide

The title compound, C₂₄H₂₄N₂O₃S, exhibits antifungal and antibacterial properties. The compound crystallizes with two molecules in the asymmetric unit, with one molecule exhibiting `orientational disorder' in the crystal structure with respect to the cyclohexene ring. The o‐toluidine groups in both molecules are noncoplanar with the respective cyclohexene‐fused thiophene ring. In both molecules, there is an intramolecular N—H...N hydrogen bond forming a pseudo‐six‐membered ring which locks the molecular conformation and eliminates conformational flexibility. The crystal structure is stabilized by O—H...O hydrogen bonds; both molecules in the asymmetric unit form independent chains, each such chain consisting of alternating `ordered' and `disordered' molecules in the crystal lattice.     

Conformations and Self-association of Trifluoro-N-(3-formylcyclohept-2-en-1-yl)methanesulfonamide

The structure of trifluoro-N-(3-formylcyclohept-2-en-1-yl)methanesulfonamide and its self-association in solution have been studied by IR spectroscopy and quantum chemical methods [B3LYP/6-311G(d,p), AIM]; proton affinities of basic centers in its molecule have been evaluated. Trifluoro-N-(3-formylcyclohept-2-en-1-yl)methanesulfonamide in inert solvents forms cyclic dimers, whereas in crystal chain associates are more likely to be formed via hydrogen bonding between the NH and C=O groups of neighboring molecules. The carbonyl group in the title compound undergoes protonation only by the action of very strong trifluoromethanesulfonic acid. Weaker acids give rise to solvate H-complexes at the NH, C=O, and S=O groups. The topology of hydrogen bonds in dimers of different types has been analyzed in terms of the AIM theory.     

A 2D layered spin crossover complex constructed by NH...Cl- hydrogen bonds: [FeIIH3LMe]Cl.I3 (H3LMe = tris[2-(((2-methylimidazoyl-4-yl)methylidene)amino)ethyl]amine

A 2D layered spin crossover complex, [FeIIH3L(Me)]Cl.I3, has been synthesized from the reaction of FeIIICl3, a tripod ligand (H3LMe = tris[2-(((2-methylimidazoyl-4-yl)methylidene)amino)ethyl]amine), and NaI in methanol. The compound showed an abrupt spin transition between the HS (S = 2) and LS (S = 0) states at T(1/2) = 110 K without hysteresis. The crystal structures of the HS and LS states were determined at 180 and 90 K. A 2D layered structure is composed of NH...Cl- hydrogen bonds between the Cl- ion and three neighboring imidazole groups of [FeIIH3LMe]2+. The green light irradiation at 5 K induced the LIESST effect, and the thermal relaxation process from the HS to LS state showed a sigmoid curve at T > 55 K.     

Study of the Steric Structure of 7-Alkoxyalkyl-3-oxa-7-azabicyclo[3.3.1]nonan-9-ones and Their Derivatives Using 1H NMR Spectroscopy

Using the ¹H NMR spectroscopic method it has been shown that 7-alkoxyalkyl-3-oxa-7-azabicyclo[3.3.1]nonan-9-ones and 7-alkoxyalkyl-3-oxa-7-azabicyclo[3.3.1]nonanes exist in deuterochloroform solution in a double chair conformation. 7-(3-Butoxypropyl)-3-oxa-7-azabicyclo[3.3.1]nonan-9-ol is a 1:1 mixture of the two stereoisomeric alcohols. One of them exists in a double chair conformation having an equatorial hydroxyl group with relation to the piperidine ring and the other in a chair-boat conformation having an axial hydroxyl group which involves an intramolecular hydrogen bond with the unshared electron pair of the nitrogen atom.     

On a possible invariance of a transition structure to the effects produced by ancillary H-bonding molecules: Modeling the effects of Ser-48 in the hydride-transfer step of liver alcohol dehydrogenase

The influence of a hydroxyl group simulating Ser-48 in the hydride-transfer step characteristic of liver alcohol dehydrogenase is studied on the hydride-transfer reaction as modeled by a methanolate anion interacting with a cyclo propenyl cation. It is shown first that this is an adequate model by comparing it to the methanolate-pyrydinium cation model transition structure, (TS ). The side-chain effect is modeled first by adding water and then with methanol located at the position that Ser-48 occupies in the enzyme; a supermolecule approach is used. It is found that (i) the normalized advance coordinate (NAC ) for the exchanged hydrogen has an invariant value at the TS and the reactant, while for the product, the NAC depends upon the external perturbation introduced by the ancillary molecule (the TS is reactant-like); (ii) the products are strongly destabilized, so the (activation) barrier with respect to the TS diminishes; (iii) the energy gap between reactants and products is sensibly diminished by the presence of methanol; (iv) the alcoholate moiety in the hydride transfer complex is not spontaneously protonated; and (v) there is a negligible charge transfer between the hydride-transfer system and models of Ser-48. In the present simplified model, methanol appears to have a catalytic effect via hydrogen bonding. © 1996 John Wiley & Sons, Inc.     

Synthesis of nickel complexes with bidentate N,O-type ligands and application in the catalytic oligomerization of ethylene

The dinuclear complexes [Ni(micro-Cl){(4,5-dihydro-4,4-dimethyloxazol-2-yl)methanol}](2)Cl(2) and [Ni(micro-Cl){(pyridin-2-yl)methanol}](2)Cl(2) 16 have been synthesized in high yields by reaction of NiCl(2) with 2 mol. equiv. of the ligands 4,5-dihydro-4,4-dimethyloxazol-2-yl)methanol 13 or (pyridin-2-yl)methanol 15, respectively. The reaction of NiCl(2) with 3 mol. equiv. of 15 afforded in high yield the mononuclear, octahedral mer-[Ni{(pyridin-2-yl)methanol}(3)Cl(2)] complex 18. The reaction of 16 with NaH led to the deprotonation of one of the pyridine alcohol ligands to form [Ni{(pyridin-2-yl)methanol}{(pyridin-2-yl)methanolate}Cl] 21 in which the metal is coordinated by one pyridine alcohol and one pyridine alcoholate ligand. The crystal structures of the dinuclear, chloride-bridged octahedral complexes in 14.C(6)H(12) and in 16.3CH(2)Cl(2) and of the mononuclear, octahedral complex 18 in 18.CH(2)Cl(2) have been determined by X-ray diffraction. In the latter case, intermolecular OH...Cl bonding interactions generate a centrosymmetric pseudo-dimer. Complexes 14, 16, and 21 have been tested in ethylene oligomerization with AlEtCl(2) (Al/Ni ratios of 2, 4 or 6) or MAO (50, 100 or 200 equiv.) as co-catalysts under 10 bar of ethylene and yielded mostly dimers and trimers. Complex 16 in the presence of 6 equiv. of AlEtCl(2) proved to be the most active system with a turnover frequency (TOF) up to 187 500 C(2)H(4) (mol Ni h)(-1). Complex 16 with 200 equiv. of MAO was also the most active, with TOF up to 104 300 C(2)H(4) (mol Ni h)(-1) under 30 bar of ethylene.     

Peptide-heterocycle hybrid molecules: solid-phase-supported synthesis of substituted N-terminal 5-aminotetrazole peptides via electrocyclization of peptidic imidoylazides

A method for the synthesis of polypeptides modified with a tetrazole ring at the N-terminus is described. Reaction of the N-terminal amino group of solid-supported peptides with arylisothiocyanates generates thiourea intermediates, which upon treatment with Mukaiyama's reagent (2-chloro-1-methylpyridinium iodide) generate electrophilic carbodiimide functionality. Trapping by the azide anion and electrocyclization of the intermediate imidoylazide generates an aryl-substituted 5-aminotetrazole at the N-terminus of the peptide. To prevent competitive cyclization of a neighboring amide N-H into the carbodiimide, there should not be a free N-H at the [X-1] position relative to the activated carbodiimide. Protection of the N-H group at this position or incorporation of a secondary amino acid is thus required for optimal tetrazole formation. Cleavage from the resin releases the hybrid molecules incorporating a 5-aminotetrazole ring conjugated onto a peptidic fragment.     

Some features of the crystal and molecular structure of N-(1,2,4-triazol-5-yl)benzamidine and its hydrochloride

The crystal and molecular structures of N-(1,2,4-triazol-5-yl)benzamidine (1) and its hydrochloride (2) were determined by x-ray crystallography. In compound 1 both independent molecules are Z isomers of the anidine substituted in the imino group and 5-substituted 1H-1,2,4-triazoles. In the crystal the molecules of compound 1 are linked into a stable dimer by intermolecular hydrogen bonds. An undissociated HCl molecule was unexpectedly found in the structure of compound 2, while the structure of the base corresponded to the Z isomer of the amidine substituted in the amino group and to 2H-1,2,4-triazole substituted at position 5. The structures of compounds 1 and 2 are stabilized by an intramolecular hydrogen bond. The HCl molecule participates in the formation of intermolecular hydrogen bonds in compound 2.N. D. Zelinskii Institute of Organic Chemistry, Russian Academy of Sciences, 117913 Moscow. Translated fromIzvestiya Akademii Nauk, Seriya Khimicheskaya, No. 6, pp. 1380–1386, June, 1992.     

Synthesis and characterisation of tetra-tetrazole macrocycles

The syntheses of tetra-tetrazole macrocycles, containing two bis-tetrazole units linked by a variety of alkyl-chain lengths from four to eight carbons, are described. The crystal structures of three of these derivatives are reported, and the molecular conformation in the solid state is compared to that of the previously reported tetra-tetrazole macrocycle and to other bis- and tris(tetrazole)benzene structures. The macrocycle conformation is influenced by the length of the alkyl-chain linker, the relative orientation of the tetrazole rings on the benzene ring and by intermolecular interactions. In the macrocycles based on 1,2-bis(tetrazole)benzene, the adjacent tetrazole rings on the benzene ring are prevented from becoming co-planar on intramolecular (steric) grounds. In the 1,3- and 1,4-bis(tetrazole)benzene derivatives, there is no such impediment, and a co-planar arrangement is observed where intra- and/or intermolecular stacking interactions exist. Deviations from co-planarity are associated with optimisation of intermolecular interactions between the tetrazole rings and adjacent alkyl chains. In the macrocycle based on 1,4-bis(tetrazole)benzene with four-carbon linkers, an intramolecular stacking interaction exists, which precludes the presence of any cavity. In the macrocycle based on 1,3-bis(tetrazole)benzene with six-carbon linkers, a cavity of 10.8×9.4 Å is observed for each molecule in the solid state, although the packing of adjacent molecules is such that there are no extended channels running through the crystal.     

Synthesis and crystal structure analysis of 2-(4-fluorobenzyl)-6-phenylimidazo[2,1-b][1,3,4]thiadiazole and its chlorophenyl derivative

Preparations of 2-(4-fluorobenzyl)-6-phenylimidazo[2,1-b][1,3,4]thiadiazole (3a) and its chlorophenyl derivative (3b) are described. Preliminary analysis was done spectroscopically by means of ¹H NMR, ¹³C NMR spectra, mass spectra and elemental analyses. Further the structures were confirmed by X-ray crystal structure analyses. The compound (3a) has crystallized in a triclinic P-1 space group with three independent molecules in the asymmetric unit, while the compound (3b) belongs to P2₁/c space group with one molecule in the asymmetric unit. The molecule (3b) differs from molecule (3a) by the presence of chlorine substituent. Additionally, the imidazo-thiadiazole entity is as usual planar. Intramolecular C–H⋯N hydrogen bonding between the imidazole and the phenyl ring of the molecule can be observed in (3a) & (3b). The molecules of (3a) are linked into two dimensional supramolecular hexagonal hydrogen bonded network sustained by C–H⋯F interaction, while those of (3b) are linked by bifurcated C–H⋯N interactions. Further, the molecular packing of both the compounds is stabilized by π–π stacking interactions between the benzene and imidazo-thiadiazole ring systems.     

The crystal and molecular structure of delta-9-tetrahydrocannabinolic acid b.

The crystal and molecular structure of the title compound C-22H-30O-4, has been determined by X-ray methods using 1106 reflections above background level collected by counter methods. The crystals are orthorhombic, space group P2-12-12-1 with cell dimensions a equals 16.514(2) A; b equals 14.324(2) A; c equals 8.744(1) A; there are four molecules per unit cell. The structure was refined to an R of 0.084 (weighted R-w equals 0.068). The cyclohexene and the pyran part of the molecule occurs in the half-chair conformation. The bond distances and angles, and a slight twist of the benzene ring, indicate considerable stains in the aromatic system. Both the phenolic and carboxylic group are significantly out of the plane through the aromatig ring. The angle between this plane and a plane through the cyclohexene ring is 37.7 degrees. The pentyl sidechain occurs in an extended gauche conformation, and the thermal parameters of this part of the molecule are very high. The molecules are held together by van der Waals forces in the c-directions, and hydrogen bonds (2.688 A) from phenolic to carboxylic groups in the a-b plane. There is a short ultra-molecular hydrogen bond (2.490 A) from the carboxylic group to the pyran oxygen.     

Synthesis,Crystal Structure and Biological Activities of 1-（（5-（4-（4-Chlorophenoxy）-2-chlorophenyl）-2,2,3- trimethyloxazolidin-5-yl）methyl）-1H-1,2,4-triazole

The title compound 1-（（5-（4-（4-chlorophenoxy）-2-chlorophenyl）-2,2,3-trimethyl-oxazolidin- 5-yl）methyl）-lH-1,2,4-triazole （C21H22Cl2N4O2）has been synthesized and characterized by elemental analysis, IR, 1H NMR, MS and single-crystal X-ray diffraction. The crystal belongs to the triclinic system, space group Pi with a = 6.891（2）, b = 9.074（2）, c = 18.258（4）AA, α = 99.292（4）, β = 95.105（4）, γ = 108.068（3）°, C21H22Cl2N4O2, Mr = 433.33, V= 1059.3（4） Aa, Z = 2, Dc = 1.359 g/cm3, F（000） = 452,μ = 0.331 mm-1, the final R = 0.0448 and wR = 0.0994 for 3727 unique reflections. The dihedral angle between the oxazolidine ring taking an envelope conformation with a local pseudo-mirror and the triazole ring is 27.7（9）°. Weak intermolecular C-H...N hydrogen bonds and π-π interactions exist between the triazole rings of neighboring molecules, forming a three-dimensional network, which stabilizes the crystal structure. The primary biological test shows the target compound has certain fungicidal activity.     

Two different modes of halogen bonding in two 4‐nitroimidazole derivatives

In the crystal structures of the two imidazole derivatives 5‐chloro‐1,2‐dimethyl‐4‐nitro‐1H‐imidazole, C₅H₆ClN₃O₂, (I), and 2‐chloro‐1‐methyl‐4‐nitro‐1H‐imidazole, C₄H₄ClN₃O₂, (II), C—Cl...O halogen bonds are the principal specific interactions responsible for the crystal packing. Two different halogen‐bond modes are observed: in (I), there is one very short and directional C—Cl...O contact [Cl...O = 2.899 (1) Å], while in (II), the C—Cl group approaches two different O atoms from two different molecules, and the contacts are longer [3.285 (2) and 3.498 (2) Å] and less directional. In (I), relatively short C—H...O hydrogen bonds provide the secondary interactions for building the crystal structure; in (II), the C—H...O contacts are longer but there is a relatively short π–π contact between molecules related by a centre of symmetry. The molecule of (I) is almost planar, the plane of the nitro group making a dihedral angle of 6.97 (7)° with the mean plane of the imidazole ring. The molecule of (II) has crystallographically imposed mirror symmetry and the nitro group lies in the mirror plane.     

茶碱晶体印迹聚合物

采用分子印迹的方法 ,以甲基丙烯酸为功能单体 ,双甲基丙烯酸乙二酯为交联剂 ,茶碱晶体为印迹物 ,采用光引发聚合的方式 ,制备了茶碱晶体印迹聚合物 .扫描电镜观察显示 ,聚合物表面用 0 1mol L盐酸溶液反复洗涤除去茶碱晶体后 ,可以在饱和茶碱溶液中诱导茶碱结晶的生成 ;而在同样条件下的咖啡因晶体印迹聚合物表面则没有相应的诱导结晶能力 .分析结果表明 ,茶碱和咖啡因在咪唑取代基上的微小差异可能是导致两者表现不同的主要原因 ,茶碱分子可以通过其咪唑环和相邻嘧啶环上的羰基以氢键或静电作用的方式与甲基丙烯酸的羧基产生分子识别所需的 3点协同相互作用 ,而结构相似的咖啡因则因其咪唑环上的取代基不同 ,无法满足识别所需的基本要求