Revealing Intra- and Intermolecular Interactions Determining Physico-Chemical Features of Selected Quinolone Carboxylic Acid Derivatives

The intra- and intermolecular interactions of selected quinolone carboxylic acid derivatives were studied in monomers, dimers and crystals. The investigated compounds are well-recognized as medicines or as bases for further studies in drug design. We employed density functional theory (DFT) in its classical formulation to develop gas-phase and solvent reaction field (PCM) models describing geometric, energetic and electronic structure parameters for monomers and dimers. The electronic structure was investigated based on the atoms in molecules (AIM) and natural bond orbital (NBO) theories. Special attention was devoted to the intramolecular hydrogen bonds (HB) present in the investigated compounds. The characterization of energy components was performed using symmetry-adapted perturbation theory (SAPT). Finally, the time-evolution methods of Car–Parrinello molecular dynamics (CPMD) and path integral molecular dynamics (PIMD) were employed to describe the hydrogen bond dynamics as well as the spectroscopic signatures. The vibrational features of the O-H stretching were studied using Fourier transformation of the autocorrelation function of atomic velocity. The inclusion of quantum nuclear effects provided an accurate depiction of the bridged proton delocalization. The CPMD and PIMD simulations were carried out in the gas and crystalline phases. It was found that the polar environment enhances the strength of the intramolecular hydrogen bonds. The SAPT analysis revealed that the dispersive forces are decisive factors in the intermolecular interactions. In the electronic ground state, the proton-transfer phenomena are not favourable. The CPMD results showed generally that the bridged proton is localized at the donor side, with possible proton-sharing events in the solid-phase simulation of stronger hydrogen bridges. However, the PIMD enabled the quantitative estimation of the quantum effects inclusion—the proton position was moved towards the bridge midpoint, but no qualitative changes were detected. It was found that the interatomic distance between the donor and acceptor atoms was shortened and that the bridged proton was strongly delocalized.     

Methylation of 1,8-dihydroxy-9,10-anthraquinone with and without use of solvent-free technique

A convenient and environmentally friendly solvent-free procedure has been developed for dimethylation of 1,8-dihydroxy-9,10-anthraquinone with excellent yield. A highly selective monomethylation of 1,8-dihydroxy-9,10-anthraquinone in refluxing tetraglyme makes monomethylated peri-dihydroxy-9,10-anthraquinones easily available. Alternatively, irradiation in a domestic microwave oven has been employed for the solvent-free monomethylation of 1,8-dihydroxy-9,10-anthraquinone.     

Exploring Intra- and Intermolecular Interactions in Selected N-Oxides—The Role of Hydrogen Bonds

Intra- and intermolecular interactions have been explored in selected N-oxide derivatives: 2-(N,N-dimethylamino-N-oxymethyl)-4,6-dimethylphenyl (1) and 5,5’-dibromo-3-diethylaminomethyl-2,2’-biphenol N-oxide (2). Both compounds possess intramolecular hydrogen bonding, which is classified as moderate in 1 and strong in 2, and resonance-assisted in both cases. Density Functional Theory (DFT) in its classical formulation as well as Time-Dependent extension (TD-DFT) were employed to study proton transfer phenomena. The simulations were performed in the gas phase and with implicit and explicit solvation models. The obtained structures of the studied N-oxides were compared with experimental data available. The proton reaction path was investigated using scan with an optimization method, and water molecule reorientation in the monohydrate of 1 was found upon the proton scan progress. It was found that spontaneous proton transfer phenomenon cannot occur in the electronic ground state of the compound 1. An opposite situation was noticed for the compound 2. The changes of nucleophilicity and electrophilicity upon the bridged proton migration were analyzed on the basis of Fukui functions in the case of 1. The interaction energy decomposition of dimers and microsolvation models was investigated using Symmetry-Adapted Perturbation Theory (SAPT). The simulations were performed in both phases to introduce polar environment influence on the interaction energies. The SAPT study showed rather minor role of induction in the formation of homodimers. However, it is worth noticing that the same induction term is responsible for the preference of water molecules’ interaction with N-oxide hydrogen bond acceptor atoms in the microsolvation study. The Natural Bond Orbital (NBO) analysis was performed for the complexes with water to investigate the charge flow upon the polar environment introduction. Finally, the TD-DFT was applied for isolated molecules as well as for microsolvation models showing that the presence of solvent affects excited states, especially when the N-oxide acceptor atom is microsolvated.     

Novel Macrocycles. Part 6. Synthesis, Structures and Cation Binding from Optical Spectroscopy of 9,10-Anthraquinone-crown Ethers

The 9,10-anthraquinone-[12]crown-4, [15]crown-5 and [18]crown-6 derivatives were synthesized from 1,2-dihydroxy-9,10-anthraquinone and 1,8-dihydroxy-9,10-anthraquinone which were condensed with dihalides or ditosylates of polyethylene glycols in alkali carbonate/DMSO. The 9,10-anthraquinone derived polyoxacyclo-alkanes were characterized with IR, mass spectrometry, ¹H, ¹³C spectroscopy and elemental analysis. The cation binding properties were studied with UV-vis spectroscopy. The association constants found in acetonitrile were selectively dependent on the cation radius and macrocycle size as well as the molecular structures. The observed results from UV-vis studies, however, showed the stronger complexing role of 1,2-derived macrocycles compared to those of 1,8-derivatives. The theoretical conformational analysis and the energy optimisations of the 9,10-anthraquinone-macrocycles carried out with MM+ method explained the binding results.     

Naphthazarin Derivatives in the Light of Intra- and Intermolecular Forces

Our long-term investigations have been devoted the characterization of intramolecular hydrogen bonds in cyclic compounds. Our previous work covers naphthazarin, the parent compound of two systems discussed in the current work: 2,3-dimethylnaphthazarin (1) and 2,3-dimethoxy-6-methylnaphthazarin (2). Intramolecular hydrogen bonds and substituent effects in these compounds were analyzed on the basis of Density Functional Theory (DFT), Møller–Plesset second-order perturbation theory (MP2), Coupled Clusters with Singles and Doubles (CCSD) and Car-Parrinello Molecular Dynamics (CPMD). The simulations were carried out in the gas and crystalline phases. The nuclear quantum effects were incorporated a posteriori using the snapshots taken from ab initio trajectories. Further, they were used to solve a vibrational Schrödinger equation. The proton reaction path was studied using B3LYP, ωB97XD and PBE functionals with a 6-311++G(2d,2p) basis set. Two energy minima (deep and shallow) were found, indicating that the proton transfer phenomena could occur in the electronic ground state. Next, the electronic structure and topology were examined in the molecular and proton transferred (PT) forms. The Atoms In Molecules (AIM) theory was employed for this purpose. It was found that the hydrogen bond is stronger in the proton transferred (PT) forms. In order to estimate the dimers’ stabilization and forces responsible for it, the Symmetry-Adapted Perturbation Theory (SAPT) was applied. The energy decomposition revealed that dispersion is the primary factor stabilizing the dimeric forms and crystal structure of both compounds. The CPMD results showed that the proton transfer phenomena occurred in both studied compounds, as well as in both phases. In the case of compound 2, the proton transfer events are more frequent in the solid state, indicating an influence of the environmental effects on the bridged proton dynamics. Finally, the vibrational signatures were computed for both compounds using the CPMD trajectories. The Fourier transformation of the autocorrelation function of atomic velocity was applied to obtain the power spectra. The IR spectra show very broad absorption regions between 700 cm−1–1700 cm−1 and 2300 cm−1–3400 cm−1 in the gas phase and 600 cm−1–1800 cm−1 and 2200 cm−1–3400 cm−1 in the solid state for compound 1. The absorption regions for compound 2 were found as follows: 700 cm−1–1700 cm−1 and 2300 cm−1–3300 cm−1 for the gas phase and one broad absorption region in the solid state between 700 cm−1 and 3100 cm−1. The obtained spectroscopic features confirmed a strong mobility of the bridged protons. The inclusion of nuclear quantum effects showed a stronger delocalization of the bridged protons.     

1,8-二羟基-9,10-二氢蒽的合成

以1,8-二羟基蒽醌为原料,经甲醚化,锌粉和金属钠还原,去甲基等4步反应合成1,8-二羟基-9,10-二氢蒽,总产率为37.1,8-二甲氧基蒽醌用NaBH₄/CF₃COOH还原生成二聚产物,并测定了其单晶结构.     

Quantum-chemical and correlation study on the tautomerism and ionization of 1,4,5,8-tetrahydroxy-9,10-anthraquinone and its alkyl-substituted derivatives

1,4,5,8-Tetrahydroxy-9,10-anthraquinone and its alkyl derivatives exist as equilibrium mixtures of prototropic tautomers and rotational isomers differing in the mode of intramolecular hydrogen bonding. Their electronic absorption spectra contain π_l,π* bands corresponding to 9,10-, 1,10-, 1,4-, and (more rarely) 1,5-anthraquinoid structures. Introduction of substituents, solvation, ionization, and complex formation lead to displacement of tautomeric and conformational equilibria, which are responsible for the observed diversity of their absorption spectra.     

Intermolecular Interactions and Spectroscopic Signatures of the Hydrogen-Bonded System—n-Octanol in Experimental and Theoretical Studies

n-Octanol is the object of experimental and theoretical study of spectroscopic signatures and intermolecular interactions. The FTIR measurements were carried out at 293 K for n-octanol and its deuterated form. Special attention was paid to the vibrational features associated with the O-H stretching and the isotope effect. Density Functional Theory (DFT) in its classical formulations was applied to develop static models describing intermolecular hydrogen bond (HB) and isotope effect in the gas phase and using solvent reaction field reproduced by Polarizable Continuum Model (PCM). The Atoms in Molecules (AIM) theory enabled electronic structure and molecular topology study. The Symmetry-Adapted Perturbation Theory (SAPT) was used for energy decomposition in the dimers of n-octanol. Finally, time-evolution methods, namely classical molecular dynamics (MD) and Car-Parrinello Molecular Dynamics (CPMD) were employed to shed light onto dynamical nature of liquid n-octanol with emphasis put on metric and vibrational features. As a reference, CPMD gas phase results were applied. Nuclear quantum effects were included using Path Integral Molecular Dynamics (PIMD) and a posteriori method by solving vibrational Schrödinger equation. The latter applied procedure allowed to study the deuterium isotope effect.     

Stereoselective synthesis of 1,8- and 1,5-diketo-trans-syn-trans-perhydroanthracenes

A stereOselective conversion of 1,8- and 1,5-diethoxy-9,10-anthraquinone to 1,8- and 1,5-diketo-$\text{trans}$-$\text{syn}$-$\text{trans}$-perhydroanthracenes by successive sodium borohydride, metal-ammonia, and catalytic reductions is described.     

Ab Initio Dot Structures Beyond the Lewis Picture

The empirical Lewis picture of the chemical bond dominates the view chemists have of molecules, of their stability and reactivity. Within the mathematical framework of quantum mechanics, all this chemical information is hidden in the many-particle wave function Ψ. Thus, to reveal and understand it, there is great interest in enhancing the Lewis model and connecting it to computable quantities. As has previously been shown, the Lewis picture can often be recovered from the probability density |Ψ|2 with probabilities in agreement with valence bond weights: the structures appear as most likely positions in the all-electron configuration space. Here, we systematically expand this topological probability density analysis to molecules with multiple bonds and lone pairs, employing correlated Slater-Jastrow wave functions. In contrast to earlier studies, non-Lewis structures are obtained that disagree with the prevalent picture and have a potentially better predictive capability. While functional groups are still recovered with these ab initio structures, the boundary between bonds and lone pairs is mostly blurred or non-existent. In order to understand the newly found structures, the Lewis electron pairs are replaced with spin-coupled electron motifs as the fundamental electronic fragment. These electron motifs—which coincide with Lewis’ electron pairs for many single bonds—arise naturally from the generally applicable analysis presented. An attempt is made to rationalize the geometry of the newly-found structures by considering the Coulomb force and the Pauli repulsion.     

Metal Complexes with 1,5- and 1,8-Dihydroxy-9,10-Anthraquinones: Electronic Absorption Spectra and Structure of Ligands

Metal complexes with 1,5-dihydroxy-9,10-anthraquinone are studied by the spectrophotometric, quantum-chemical, and correlation methods. It was established that the ligand in these complexes can occur in seven excited states that differ not only in the ionization degree but also in the prevailing contribution of the tautomeric 9,10-, 1,10-, and 1,5-anthraquinoid structures. In all known complexes with 1,8-dihydroxy-9,10-anthraquinone and singly ionized ligand, this ligand has the 1,10-anthraquinoid structure; in complexes with the doubly ionized ligand, the latter ligand most often has the 9,10-anthraquinoid structure. The known complexes are classified according to the ligand structures.     

Chelating, bridging, and chain structures within Ag(I) and Cu(I) complexes of bis(nicotinyloxy), bis(isonicotinyloxy), and bis(pyrimidine-5-carboxyloxy)-1,8-disubstituted anthraquinone ligands

Reaction of Ag(I) and Cu(I) [M(NCCH₃)₄]X (X = BF₄⁻ and PF₆⁻) salts with 1,8-bis(nicotinyloxy)anthracene-9,10-dione (1), 1,8-bis(isonicotinyloxy)anthracene-9,10-dione (2), and 1,8-bis(pyrimidine-5-carboxyloxy)anthracene-9,10-dione (3), yield new chelating and bridging complexes and two new coordination polymers. The bridging capabilities of ligands 1 and 2 have not been demonstrated before, and ligand 1, by itself, has the flexibility to produce either chelated or bridged structures and an unusual ladder coordination polymer. The tetradentate ligand 3 also produces a one-dimensional coordination polymer in the presence of one equivalent of Ag(I). All complexes have been characterized by X-ray crystallography.     

Anthraquinones tautomerism: VI. Substituted 1,4,5-trihydroxyanthraquinones

1,4,5-Trihydroxy-9,10-anthraquinone and its substituted derivatives exist in equilibrium of structures distinguished by quinoid tautomerism and rotational isomerism. Their electron absorption spectra contain π₁, π*-bands corresponding to 9,10-and 1,10-, more seldom to 1,5-and 1,4-anthraquinoid structures. Of three isomeric 1,10-anthraquinones only 4,8,9-trihydroxy-1,10-antraquinones were found. All tautomer may exist as conformers with contiguous CO and OH groups not bound by an intramolecular hydrogen bond. The considerable difference in color of structurally similar substituted compounds is due to tautomerism and conformer transformations.     

Hydrogen and Lithium Bonds—Lewis Acid Units Possessing Multi-Center Covalent Bonds

MP2/aug-cc-pVTZ calculations were carried out on complexes wherein the proton or the lithium cation is located between π-electron systems, or between π-electron and σ-electron units. The acetylene or its fluorine and lithium derivatives act as the Lewis base π-electron species similarly to molecular hydrogen, which acts as the electron donor via its σ-electrons. These complexes may be classified as linked by π-H∙∙∙π/σ hydrogen bonds and π-Li∙∙∙π/σ lithium bonds. The properties of these interactions are discussed, and particularly the Lewis acid units are analyzed, because multi-center π-H or π-Li covalent bonds may occur in these systems. Various theoretical approaches were applied here to analyze the above-mentioned interactions—the Quantum Theory of Atoms in Molecules (QTAIM), the Symmetry-Adapted Perturbation Theory (SAPT) and the Non-Covalent Interaction (NCI) method.     

Anthraquinone pigments from the crinoid Comanthus bennetti

From the crinoid Comanthus bennetti we isolated and characterized five pigments. One is the known 3-(1′-hydroxypropyl)-1,6,8-trihydroxy-9,10-anthraquinone (rhodoptilometrin). The remaining four had not previously been isolated from a natural source: 3-propyl-1,6,8-trihydroxy- 9,10-anthraquinone; 3-propionyl-1,6,8-trihydroxy-9,10-anthraquinone; 3(2′-hydroxypentyl)-1,6,8- trihydroxy-9,10-anthraquinone; and 2-(1′-hydroxypropyl)-1,4,5,7-tetrahydroxy-9,10-anthraquinone.     

Electronic absorption spectra of amino substituted anthraquinones and their interpretation using the ZINDO/S and AM1 methods

Electronic absorption spectra of 1,2-diamino-9,10-anthraquinone (12DAAQ), 1,4-diamino-9,10-anthraquinone (14DAAQ), 1,5-diamino-9,10-anthraquinone (15DAAQ), and 2,6-diamino-9,10-anthraquinone (26DAAQ) are investigated. Molecular geometries of the amino anthraquinones in the ground state are optimized using the semiempirical ZINDO/1 and AM1 methods without imposing any symmetry constraints. The ground state geometries of all the molecular systems are found to be planar. For interpretation of the spectra, ZINDO/S-CI and AM1-CI calculations employing singly excited configuration using the completely optimized geometry are carried out. Such calculations on the electronic spectra of amino anthraquinones are carried out for the first time. On the basis of these calculations, the assignment of the spectra are successfully made.     

Synthesis and crystal structure of 9,10-dihydro-9,10-etheno-1,8-dichloro-11-diphenylphosphinyl-12-(diphenylphosphinylethynyl)anthracene

The title compound, 9,10-dihydro-9,10-etheno-1,8-dichloro-11-diphenylphosphinyl-12-(diphenylphosphinylethynyl)anthracene (1), has been synthesized and its crystal structure has been determined. The compound 1 crystallized into the triclinic space group P-1 with =74.837(4)°, β=88.156(4)°, γ=65.398(4)°, Z=2, D_c=1.352 gcm⁻³. In the crystal structure of 1a, one chloroform molecule was included by the compound 1 with a 1:1 ratio and the existence of non-classical intermolecular C–HO hydrogen bonds, intramolecular C–HCl and C–HO hydrogen bonds and π–π stacking were observed.     

The Effect of Particle Size and the Modifier on the Properties of Palladium Catalysts in the Synthesis of Hydrogen Peroxide by the Anthraquinone Method

The effect of the composition of the catalytic system and the size of particles on the properties of palladium catalysts in 2-ethyl-9,10-anthraquinone hydrogenation was studied. It was shown that, depending on the nature of a reducing agent (H₂, AlEt₃), palladium species formed in the absence of a modifying agent catalyze various side processes to a substantial extent together with 2-ethyl-9,10-anthraquinone hydrogenation: mostly hydrogenolysis (in the case of H₂ as a reducing agent) and hydrogenation of aromatic rings in 2-ethyl-9,10-anthrahydroquinone (in the case of AlEt₃ as a reducing agent). Elementary phosphorus was found to have a promoting effect on the selectivity of palladium catalysts in the synthesis of hydrogen peroxide by the anthraquinone method. The main factors that make it possible to control the selectivity of palladium catalysts were discussed.     

A TD-DFT study on the hydrogen bonding of three esculetin complexes in electronically excited states: strengthening and weakening

Time-dependent density functional theory (TD-DFT) method was used to study the excited-state hydrogen bonding of three esculetin complexes formed with aprotic solvents. The geometric structures, molecular orbitals (MOs), electronic spectra and the infrared (IR) spectra of the three doubly hydrogen-bonded complexes formed by esculetin and aprotic solvents dimethylsulfoxide (DMSO), tetrahyrofuran (THF) and acetonitrile (ACN) in both ground state S(0) and the first singlet excited state S(1) were calculated by the combined DFT and TD-DFT methods with the COSMO solvation model. Two intermolecular hydrogen bonds can be formed between esculetin and the aprotic solvent in each hydrogen-bonded complex. Based on the calculated bond lengths of the hydrogen bonds and the groups involved in the formation of the intermolecular hydrogen bonds in different electronic states, it is demonstrated that one of the two hydrogen bonds formed in each hydrogen-bonded complex is strengthened while the other one is weakened upon photoexcitation. Furthermore, it is found that the strength of the intermolecular hydrogen bonds formed in the three complexes becomes weaker as the solvents change from DMSO, via THF, to ACN, which is suggested to be due to the decrease of the hydrogen bond accepting (HBA) ability of the solvents. The spectral shifts of the calculated IR spectra further confirm the strengthening and weakening of the intermolecular hydrogen bonds upon the electronic excitation. The variations of the intermolecular hydrogen bond strengths in both S(0) and S(1) states are proposed to be the main reasons for the gradual spectral shifts in the absorption and fluorescence spectra both theoretically and experimentally.     

Hydrogen-bond-induced selectivity of a head-to-head photo-dimerisation of dialkynylanthracene – access to tetradentate Lewis acids

Using 2-hydroxypropyl-protecting groups, 1,8-dialkynylanthracene photo-dimers were prepared in head-to-head-configuration by UV irradiation on a multi-gram scale. In non-polar solvents, the combination of non-covalent hydrogen bonds and π–π-interactions induces the formation of the syn-isomer in up to 85% yield. Instead, more polar solvents or irradiation of unprotected 1,8-diethynylanthracene led to formation of the corresponding anti-isomer in large excess. Cleavage of the protecting groups under basic conditions affords a rigid hydrocarbon skeleton with four directional functions. This was used as a building block for a tetradentate boron Lewis acid. Its applicability as a host for Lewis-base substrates was demonstrated by the formation of adducts with various nitrogen bases. Adduct formation with hydrazine leads to impressive networks between the tetraboron host and the substrate molecules.

Preorganised by hydrogen bonds and π-stacking, 2-hydroxypropylalkyne-protected 1,8-alkynylanthracene photo-dimerises preferably in head-to-head configuration; the resulting rigid organic frameworks can be converted into tetradentate boron Lewis acids.