Hydrogen bonding in substituted formic acid dimers

The hydrogen-bonded dimers of formic acid derivatives XCOOH (X = H, F, Cl, and CH3) have been investigated using density functional theory (B3LYP) and second-order M?ller-Plesset perturbation (MP2) methods, with the geometry optimization carried out using 6-311++G(2d,2p) basis set. The dimerization energies calculated using aug-cc-pVXZ (with X = D and T) basis have been extrapolated to infinite basis set limit using the standard methodology. The results indicate that the fluorine-substituted formic acid dimer is the most stable one in comparison to the others. Topological analysis carried out using Bader's atoms in molecules (AIM) theory shows good correlation of the values of electron density and its Laplacian at the bond critical points (BCP) with the hydrogen bond length in the dimers. Natural bond orbital (NBO) analysis carried out to study the charge transfer from the proton acceptor to the antibonding orbital of the X-H bond in the complexes reveals that most of the dimers are associated with conventional H-bonding except a few, where improper blue-shifting hydrogen bonds are found to be present.     

Ultrasonic and DFT study of intermolecular association through hydrogen bonding in aqueous solutions of d(−)-arabinose

The experimental measurements of density, viscosity and ultrasonic velocity of aqueous d-arabinose solutions were carried out as functions of concentration (0.1 ≤ m [mol kg^? 1] ≤ 1.0) and temperature (303.15 ≤ T [K] ≤ 323.15). The isentropic compressibility (β_s), acoustic impedance (Z), hydration number (H_n), intermolecular free length (L_f), classical sound absorption (α/f²)_class and shear relaxation time (τ) were calculated by using the measured data. These parameters have been interpreted in terms of solute–solvent interactions. The quantum chemical calculations were performed to study the hydrogen bonding in interacting complex formed between α-D-arabinopyranose in ¹C₄ conformation and water molecules. Computations have been done by using Density Functional Theory (DFT) method at B3LYP/6-31+g(d) level of theory to study the equilibrium structure of α-d-arabinose, α-D-arabinopyranose–water interacting complex and vibrational frequencies. The solution phase study was carried out using Onsager's reaction field model in water solvent. The computed and scaled vibrational frequencies are in good agreement with the main features of the experimental spectrum when seven water molecules are considered explicitly with α-D-arabinopyranose in ¹C₄ conformation. The interaction energy (E_total), hydrogen bond lengths and dipole moment (μ_m) of the interacting complex are also presented and discussed with in the light of solute–solvent interactions.     

Understanding the absorption and emission spectra of borondipyrromethene dye and its substituted analogues

Borondipyrromethene (BODIPY) dye possesses a bright and long wavelength emitting fluorescent character with a wide spectral range from visible to near infrared region. In the present work, the spectral properties of BODIPY dyes were analyzed using ab intio and density functional theory methods. The ground and excited state geometries of BODIPY and its substituted analogues in chloroform medium, were optimized using the density functional theory (DFT) and singly excited configuration interaction (CIS) methods. Based on the ground and excited state geometries, the absorption and emission spectra have been calculated using time-dependent density functional theory (TDDFT) method. The TDDFT calculations have been performed using hybrid exchange correlation functionals B3LYP and M06-HF and long-range separated functionals LC-BLYP, LC-BOP, LC-PBE, LC-PBE0 and CAM-B3LYP. The solvent phase calculations were carried out using polarizable continuum model (PCM). The TDDFT investigation reveals that the substitution of acceptor, donor–donor, donor–acceptor–donor and phenyl group in BODIPY dye influence the absorption and emission spectra significantly.     

Reaction mechanism of O -acylhydroxamate with cysteine proteases

The gas-phase reaction mechanism of O-acylhydroxamate with cysteine proteases has been investigated using ab initio and density functional theory. On the irreversible process, after breakdown of tetrahedral intermediate (INT1), small 1–2 anionotropic has been formed and rearranged to give stable by-products sulfenamide (P1) and thiocarbamate (P2) with considerable energy loss. While, on the reversible part of this reaction mechanism, intermediate (INT2) breaks down on oxidation, to form a stable product (P3). Topological and AIM analyses have been performed for hydrogen bonded complex in this reaction profile. Intrinsic reaction coordinates [IRC, minimum-energy path (MEP)] calculation connects the transition state between R-INT1, INT1-P1 and INT1-P2. The products P1, P2 and P3 are energetically more stable than the reactant and hence the reaction enthalpy is found to be exothermic.     

Synthesis and Spectroscopic Distinction of Benzonaphthonaphthyridine and Its Isomer

Distinction of benzo[h]naphtho[1,2-b][1,6]naphthyridine and its isomeric benzo[b]naphtho[1,2-h][1,6]naphthyridine is well explained on the basis of various spectroscopic techniques. Initially these isomers were prepared from their respective chloroquinolines via anilinoquinolines as potential intermediates. Spectroscopic dissimilarities of their precursors and intermediates have also been considered and compared with the final benzonaphthonaphthyridine isomers.     

Opto-electronic properties of low band gap fused-ring thieno[3,4-b]pyrazine analogues – A theoretical study

The structural, optical and ionic properties of thieno[3,4-b]pyrazine (TP) analogues have been studied using quantum chemical methods. The density functional theory (DFT) and time-dependent density functional theory (TD-DFT) methods were employed to optimise the ground- and excited-state geometries of TP analogues. Based on the ground- and excited-state geometries, the absorption and emission spectra have been calculated by using TD-DFT method with 6-311G(d,p) basis set. All the calculations were carried out in gas phase and in acetonitrile and chloroform medium. The solvent-phase calculations were performed using the polarisable continuum model (PCM). It has been observed that the effect of medium on the calculated absorption and emission spectra of these analogues is negligible. The calculated absorption and emission spectra are in good agreement with the available experimental results. This theoretical investigation shows that the fused-ring thieno[3,4-b]pyrazine analogues dibenzo[f,h]thieno[3,4-b]quinoxalines and thieno[3′,4′:5,6]pyrazino[2,3-f][1,10] phenanthroline have lower band gap than the thieno[3,4-b]pyrazine. Hence, these analogues can be used for the production of low band gap conjugated polymers.     

Quantum chemical studies on tautomerism of barbituric acid in gas phase and in solution

Ab initoand density functional theory (DFT) methods were used to study the tautomers of barbituric acid in the gas phase and in a polar medium. In the gas phase, the tautomers were optimized at the HF/6-31G^*, MP2/6-31G^*and B3LYP/6-31G^*, B3PW91/6-31G^*levels of theory. The self-consistent reaction field theory (SCRF) at the HF/6-31G^*level of theory has been used to optimize the tautomers in a polar medium. The relative stability of the tautomers was compared in the gaseous and polar mediums. The ability of maximum hardness principle to predict the stable tautomer has been studied. The ¹³C-NMR chemical shift for carbon atoms in the tautomers was calculated and the results are discussed.     

Hydrogen‐bonded complexes of nicotine with simple alcohols

Ab initio and density functional theory studies have been performed on the hydrogen‐bonded complexes of neutral and protonated nicotine with ethanol, methanol, and trifluromethanol to explore their relative stability in a systematic way. Among all the hydrogen‐bonded nicotine complexes considered here, protonated forms in nicotine–ethanol and nicotine–methanol, and neutral form in nicotine–trifluromethanol complexes have been found to be the most stable. In the former two complexes, the proton attached to the pyrrolidine nitrogen acts as a strong hydrogen bond donor, whereas the pyrrolidine nitrogen atom acts as a hydrogen bond acceptor in the latter case. Neutral complex of nicotine with trifluromethanol has been found to possess a very short hydrogen bond (1.57 Å) and basis set superposition error corrected hydrogen bond energy value of 19 kcal/mol. The nature of the various hydrogen bonds formed has been investigated through topological aspects using Bader's atoms in molecules theory. From the calculated topological results, excellent linear correlation is shown to exist among the hydrogen bond length, electron density, and its Laplacian at the bond critical points for all the complexes considered. The natural bond orbital analysis has been carried out to investigate the charge transfer in the nicotine alcohol complexes. In contrast to the blue shifting behavior that is generally exhibited by other C? H···O hydrogen bonds involving sp³ carbon atom, the C? H···O hydrogen bond in the protonated nicotine–ethanol and methanol complexes has been found to be proper with red shifting in nature. © 2011 Wiley Periodicals, Inc.