Hydrogen bonding network in a chiral alcohol: (1R,2S,5R)-(−)-menthol. Conformational preference studied by IR–Raman–VCD spectroscopies and quantum chemical calculations

A study of the molecular structure of (1R,2S,5R)-(?)-menthol and the hydrogen bond networks formed by this species in solution is carried out. Molecular structures of monomers and H-bonded dimers and trimers of the title compound are optimized using quantum chemical calculations in the isolated molecule approach. In addition, IR, Raman and VCD techniques are used to study CCl₄ solutions and thin films of the target compound. Their corresponding vibrational spectra are then analysed, both theoretically (HF and DFT) and experimentally, to characterize the different monomers (rotamers) and H-bonded oligomer species in menthol solutions as a function of the concentration.     

Synthesis of (S)-(−)-β-cuparenone and (S)-(−)-cuparene

A short and efficient synthesis of the title compounds is described. (S)-(−)-β-Cuparenone was prepared in 31% yield from p-tolualdehyde and mesityl oxide in eight steps. Absolute stereochemistry was established by means of a diastereoselective cyclopropanation using (R,R)-hydrobenzoin as a recoverable auxiliary.     

Asymmetric synthesis of (S)-(−)-acromelobinic acid

A total synthesis of (S)-(−)-acromelobinic acid 2, which was isolated from clitocybe acromelalga, was achieved via an asymmetric hydrogenation protocol. Dehydroamino acid derivative 12 was prepared from 2,5-lutidine 5 and subjected to asymmetric hydrogenation using (S,S)-[Rh(Et-DuPHOS)(COD)]BF₄ to give the (S)-(+)-pyridylalanine derivative 13 in 93% yield and >96% e.e. Removal of the protecting groups in (S)-(+)-13 afforded (S)-(−)-acromelobinic acid 2.     

(±)-1-Tetralone-3-carboxyl­ic acid and (±)-1-tetralone-2-acetic acid: hydrogen bonding in two γ-keto acids

The crystal structure of (±)-4-oxo-1,2,3,4-tetra­hydro­naph­thalene-2-carboxylic acid (C₁₁H₁₀O₃) involves projection of the carboxyl group nearly orthogonal to the aromatic plane and hydrogen bonding of the acid groups by centrosymmetric pairing across the a edge and the center of the chosen cell [O⃛O = 2.705 (2) Å]. Intermolecular C—H⃛O=C close contacts to translationally related mol­ecules are found for both the ketone (2.55 Å) and the acid (2.67 Å). In (±)-1-oxo-1,2,3,4-tetra­hydro­naph­thalene-2-acetic acid (C₁₂H₁₂O₃), the aggregation involves centrosymmetric carboxyl dimers mutually hydrogen bonded across the bc face and the a edge of the chosen cell [O⃛O = 2.674 (2) Å]. A 2.60 Å close C—H⃛O=C contact is found to the carboxyl group of centrosymmetrically related mol­ecule.     

Conformational analysis and interpretation of ν(OH) band in the IR spectrum of o-vinylphenol: a DFT study

Two-dimensional cyclic potential energy surface for internal rotation of vinyl and hydroxyl substituents in o-vinylphenol molecule was constructed by the B3LYP/6-311G(d) method. It was shown that o-vinylphenol molecule exists in the gas phase as a mixture of seven rotamers denoted as A (A′), B (B′), C (C′) and D. The B3LYP/cc-pVTZ calculated percentage of the rotamers A and A′ in which OH…π intramolecular interaction occurs, is at most 24%. The height of barriers t interconversions between o-vinylphenol rotamers varies from 0.1 to 5.2 kcal mol⁻¹. According to B3LYP/cc-pVTZ calculations, the inclusion of solvent effect in the framework of the polarizable continuum model for a solution of o-vinylphenol in CCl₄ leads to a decrease in theoretical values of ν(OH) frequencies by about 4–9 cm⁻¹ and to an increase in the percentage of the rotamers without intramolecular hydrogen bond by about 4.3% compared to the corresponding gas-phase values. The simulated IR spectral contours of ν(OH) bands are in good agreement with experimental one Published in Russian in Izvestiya Akademii Nauk. Seriya Khimicheskaya, No. 3, pp. 499–508, March, 2008.     

(±)-3-(3-Oxo­cyclo­hexyl)­propionic acid: dual conformational selection and hydrogen bonding in an ɛ-keto acid

The asymmetric unit of the title compound, C₉H₁₄O₃, consists of two mol­ecules having conformations that differ by a rotation of 111.7 (5)° about the equatorial substituent bond, so that the side chains of the two species extend away from the ring in different directions. Each conformer forms centrosymmetric hydrogen-bonded acid-to-acid dimers with its own enantiomer [O⋯O = 2.681 (3) and 2.698 (4) Å]. There is an intermolecular C—H⋯O close contact involving the ketone group of one of the conformers.     

Asymmetric azido-copper(II) bridges: ferro- or antiferromagnetic? experimental and theoretical magneto-structural studies

Reaction of NaN(3) with the [Cu(II)(tn)](2+) ion (tn = 1,3-diaminopropane) in basic aqueous solution yields the azido-bridged complex of formula [Cu(2)(tn)(2)(N(3))(4)] (1), which is characterized by X-ray crystallography. The structure of 1 is made up of dinuclear neutral complexes, of formula [Cu(2)(tn)(2)(N(3))(4)], resulting from the assembling of two mononuclear units through two equivalent end-on azide bridges connecting asymmetrically two Cu(tn)(N(3))(2) entities. These dinuclear units are connected through two asymmetric end-to-end N(3) bridges to form a chain of dimers. Magnetic measurements for compound 1 show weak antiferromagnetic exchange interactions between the Cu(II) ions. The magnetic data were modeled using the susceptibility expression derived for an alternating AF S = 1/2 chain. A very satisfactory fit over the whole temperature range was obtained with g = 2.1438(4), J(1) = -3.71(2) cm(-1), and J(2) = -3.10(2) cm(-1) (J(1) and J(2) are the singlet-triplet separations). This magnetic behavior differs from those observed for similar examples which were reported as having alternating ferro- and antiferromagnetic exchange interactions; thus, DFT calculations were done to understand the nature of the magnetic coupling in such asymmetric end-on and end-to-end N(3) bridges. Theoretical results show that the double asymmetric end-on bridges produce antiferromagnetic coupling while the end-to-end ones can present ferro- or antiferromagnetic coupling depending on the copper coordination sphere.     

OH···X (X = O, S) hydrogen bonding in thetrahydrofuran and tetrahydrothiophene

In this article, hydrogen bonding interaction between p-cresol (p-CR) and cyclic ether, tetrahydrofuran (THF) and thioether, tetrahydrothiophene (THT) has been investigated. Two-color resonantly enhanced two-photon ionization in conjunction with the fluorescence detected IR (FDIR) spectroscopy was used to record the changes in the OH stretching frequency in these complexes. The FDIR spectra showed existence of a single conformer of the p-CR·THF and two conformers of the p-CR·THT complex. With the help of computed IR spectra and atoms-in-molecules analysis, the two conformers of p-CR·THT were assigned as the complex of p-CR with THT (C(2))/THT (C(S)). The redshift of OH stretching frequency for the p-CR·THF complex was greater compared to those for the conformers of the p-CR·THT complex. The binding energies of the p-CR·THF and p-CR·THT complexes were computed to be 7.42 and 6.15 kcal/mole. These were of the same order as those for the acyclic analogs, diethylether (DEE), and diethylsulfide (DES), of the solvent molecules under investigation. Although the DEE and THF consist of same number of carbon atoms, the dispersion energy contribution was much higher (43%) for DEE than that for THF (30%). In the case of sulfur analogs, however, it was similar (~50%) in the case of both DES well as THT complexes. All the computed H-bond indicators for these two complexes nicely correlate with the observed redshift of the O-H stretch.     

Chiral discrimination of ibuprofen isomers in β-cyclodextrin inclusion complexes: experimental (NMR) and theoretical (MD, MM/GBSA) studies

In this paper, we analyze the energetic and conformational preferences involved in the chiral discrimination of ibuprofen (Ibu) isomers by beta-cyclodextrin (β-CD) when forming inclusion complexes in water. This study was performed by means of atomistic molecular mechanics simulations upon four different penetration modes of the guest, and a structural 2D NMR experiment. The trajectories of these simulations were treated with the MM/GBSA method in order to obtain the relative weights of the different free energy components. The resulting values of the free energy of binding and other geometrical features indicate that this chiral selectivity is influenced by a preferred penetration mode involving the S-(+)-Ibu isomer. The calculated ΔΔG of binding is in good agreement with published experiments.     

A simple synthesis of (−)-(R)-ipsdienol and (−)-(S)-ipsenol

A short and efficient synthesis of the unnatural enantiomer of (+)-(S)-ipsdienol 1 and (−)-(S)-ipsenol 2 is presented via an asymmetric allylboration. The synthesis was achieved by using a one-pot reduction–methylenation of an exo-methylene lactone intermediate.     

Chiral terpenes in different phases: <Emphasis Type="Italic">R</Emphasis>-(−)-camphorquinone studied by IR–Raman–VCD spectroscopies and theoretical calculations

R-(−)-camphorquinone is a bicyclical terpenoid with many usages and application in different fields. Different experimental and theoretical works reveal that there is only one stable conformer of this chiral chemical species in agreement to the sterical restriction that the bicycle introduces. In the current work, from a complete assignment of the vibrational IR and Raman spectra, we are able to explain the VCD spectrum of the title compound. The recorded spectra of R-(−)-camphorquinone in different phases have been analyzed and compared: the first one in CCl₄ solution, the second one using Nujol and Fluorolube suspensions and the third one using thin films. Finally, to study the coupling between the two C=O stretching normal modes, a NBO analysis is performed. The present work reveals that IR, Raman and VCD, combined with quantum chemical calculations, are helpful complementary techniques to characterize chiral systems, as terpenes, in different phases.     

Kinetics and mechanism of thermal gas-phase elimination of α- and β- (N-arylamino)propanoic acid: experimental and theoretical analysis

2-(N-Phenylamino)propanoic acid 1a and 3-(N-phenylamino)-propanoic acid 2a together with four of their aryl analogues were pyrolysed in the gas-phase. The reactions were homogeneous and free from catalytic and radical pathways. Analysis of the pyrolysate of 1 showed the elimination products to be carbon monoxide, acetaldehyde and aniline, while the pyrolysate of 2 reveals the formation of acrylic acid in addition to aniline. Theoretical study of the pyrolysis of 2 using an ab initio SCF method lend support to a reaction pathway involving a 4-membered cyclic transition state.     

Synthesis of (4R,5S)-(−)- and (4S,5S)-(+)-L-Factors and Muricatacin from D-Glucose

Abstract

In connection with our projects on the synthesis of biologically active 5-hydroxyalkan-4-olides which have a chiral 2.3-diol unit,¹ we have carried out the synthesis of (4R,5S)-(?)- and (4R,5S)-(+)-L-factors (1).² the proposed autoregulators from Streptomyees griseus, and muricatacin (2),³ a biologically active constituent from the seeds of Annona muricata L. via 2.3-dihydroxy aldehydes derived from D-glucose. Hex-3-enofuranose4 was prepared by the elimination of thetriflate derived from D-glucose.     

Watson–Crick versus imidazopyridopyrimidine base pairs: theoretical study on differences in stability and hydrogen bonding strength

Matsuda and coworkers demonstrated that imidazopyridopyrimidine nucelobases (N ^N , O ^O , N ^O , tO ^O , and O ^N ) can mimic Watson–Crick nucleobase in forming H-bonds in DNA double helix. In the present study, we address the question about the strengths of the H-bonds in imidazopyridopyrimidine base pairs compared to those in Watson–Crick ones by focusing particularly on the nature of these interactions. Optimized structures of imidazopyridopyrimidine, imidazopyridopyrimidine–Watson–Crick, and Watson–Crick base pairs are obtained at the DFTB3LYP/6-311++G (d,p). The nature and strength of the intramolecular H-bonds in these base pairs have been investigated based on natural bond orbital (NBO method) to consider the effect of charge transfer, “atoms-in-molecules” (AIM) topological parameters, and decomposition of the interaction energies using the energy decomposition analysis (EDA). These investigations imply that N ^N –O ^O and N ^O –O ^N can form base pairs with four H-bonds (most stable than those of Watson–Crick base pairs) when they incorporated into DNA double helix. Furthermore, it can be deduced that O ^N and N ^N nucleobases form energetically more favorable pairs with adenine and guanine than the normal Watson–Crick counter parts. These results can be helpful for the stabilization and regulation of a variety of new base-pairing motif of DNA structures.     

Azasugar analogues: conformationally restricted vicinal diamine derived from (S)-(−)-pyroglutamic acid

The preparation of a diamino substituted pyrrolidinone system in a diastereoselectively controlled manner is described. The procedure employed made use of electrophilic amination of a chiral bicyclic γ-lactam, which when subjected to sequential deprotection provided a simple route to a 3,4-diaminopyroglutaminol. The chemoselective deprotection of the amino functionality was also shown to be possible under mild hydrogenolytic conditions.     

Complexation copper(II) or magnesium ions with d-glucuronic acid – potentiometric,spectral and theoretical studies

Results of potentiometric and spectral studies have shown that in d-glucuronic acid (GluA) with Cu²⁺ or Mg²⁺ systems, the complexes ML and ML(OH)_x are formed. Overall stability constants (log β) and equilibrium constants (log K_e) were calculated for all complex forms. The mode of coordination for each form was concluded on the basis of spectral values, Vis, EPR, and chemical shifts in the ¹³C NMR. According to spectral analysis, Cu(GluA) exists in two possible forms, which confirm the occurrence of the coordination dichotomy in the system. The main center of interactions in the hydroxyl complexes Cu(GluA)(OH)_x and MgGluA are oxygens from the carboxyl group. Differences in the coordination mode in the copper(II) and magnesium systems at low pH were observed.     

Efficient synthesis of (−)-(R)- and (+)-(S)-rolipram

A novel, efficient and protecting group free enantioselective synthetic approach of (?)-(R)-1 and (+)-(S)-rolipram 2 is described employing the organocatalyzed asymmetric Michael addition, Henry condensation, Wittig olefination and reductive lactamization reactions as key steps.     

An improved synthesis of (S)-(+)- and (R)-(−)-[2.2]paracyclophane-4-carboxylic acid

Treatment of 4-bromo[2.2]paracyclophane with n-butyllithium followed by CO₂ produced [2.2]paracyclophane-4-carboxylic acid, 1. Both enantiomeric forms [63% of (+)-(S)-1 and 48% of (−)-(R)-1] were obtained by resolution via the corresponding diastereomeric α-(p-nitrophenylethylammonium salts.     

The role of β-bulky substituents in aldol reactions of boron enolates of methylketones with aldehydes: experimental and theoretical studies by DFT analysis

In this work, we show the influence of the volume of the β-substituents on the levels of 1,5-stereoselectivities of aldol reactions of boron enolates generated from β-alkoxy methylketones with aldehydes. Excellent levels of 1,5-syn stereoinduction were obtained when the β-protecting group is a silicon ether. This remarkable selectivity is attributed to the volume of the β-bulky substituent of the corresponding boron enolate. We have investigated a stereochemical model using DFT analysis to rationalize the sense of 1,5-syn stereoselectivities of β-alkyl-β-alkoxy methylketones.     

Asymmetric synthesis of (S)-(−)-tetrahydropalmatine and (S)-(−)-canadine via a sulfinyl-directed Pictet–Spengler cyclization

(S)-(?)-Tetrahydropalmatine 2 and (S)-(?)-canadine 4 were synthesized in three steps from (S)-6, in 33% and 34% overall yield, respectively. Thus, condensation of the (S)-(E)-sulfinylimines 10 and 11 with the carbanion derived from (S)-6 gave the tetrahydroisoquinolines 12 and 13, respectively, which upon TFA induced N-desulfinylation, and subsequent microwave assisted Pictet–Spengler cyclization effected both cyclization and C-desulfinylation producing (S)-(?)-tetrahydropalmatine 2 and (S)-(?)-canadine 4 in optically pure form.