Weakly interacting molecular clusters of CO with H2O,SO2, and NO+

Intermolecular interactions in three dimers, CO···H₂O, CO···SO₂, and CO···NO⁺, were studied at the CCSD(T) level of theory, using a series of the augmented correlation consistent polarised basis sets. Interaction energy and its components as well as vibrational spectra for local minima were computed using both harmonic and anharmonic approximations. While CO···H₂O and CO···SO₂ are weakly bound with the binding energies ?7.4 and ?6.4 kJ/mol, CO···NO⁺ is much more stable with the binding energy of ?32.8 kJ/mol corresponding to ΔG = ?4.7 kJ/mol at 254 K.     

Thermally Stable Schiff Base and its Metal Complexes: Molecular Docking and Protein Binding Studies

In this paper, interaction of Schiff base and its metal complexes carrying naphthalene ring in the structure with bovine serum albumin (BSA) were investigated using UV-vis absorption, fluorescence spectroscopies and molecular docking methods. The effect on the binding mechanism and properties of these compounds containing metal-free, iron and copper ions were also investigated. The fluorescence spectroscopy results showed that fluorescence intensity of BSA in the presence of different concentration of ligands was decreased through a static quenching mechanism. Binding constants (KSV, Kbin and Ka) and thermodynamic parameters (ΔG, ΔH and ΔS) for the ligand-protein interactions were also determined. ΔG values of ligand-protein interaction were calculated in the range ? 6.3 to ?5.5 kcal/mol. These negative values showed that binding process is spontaneous and, hydrogen bonding and van der Waals force were main interaction of the protein and ligands. ΔH and ΔS value were also calculated in the range of 1.10 to 1.26 kJ/mol and 0.133 to 0.135 kJ/mol. K, respectively. These positive values indicated that the binding process between ligands and BSA are endothermic and electrostatic interaction, respectively.     

The Interaction between Polycationic Poly-Lysine Dendrimers and Charged and Neutral Fluorescent Probes

The interactions between polycationic poly-lysine dendrimers and hydrophobic fluorescent probes (anionic ANS and neutral Prodan) were studied. R121 and R131 dendrimers were not able to interact with anionic and neutral hydrophobic groups. R124 was able to interact with neutral and anionic hydrophobic fluorescent probes, however mainly through hydrophobic forces. Dendrimers R155 and R169 showed the maximal effects. The strongest interactions observed for R169 can be explained by intramolecular folding (stacking) of its two L-proline residues. Using double fluorescence titration technique for ANS probe allowed to receive such constant of binding and the number of binding centers: for R121, 1.8·10³ (mol/l)⁻¹ and 1.07; for R124, 12.1·10³ (mol/l)⁻¹ and 0.48; for R131, 4.7·10³ (mol/l)⁻¹ and 0.48; for R155, 9.2·10³ (mol/l)⁻¹ and 1.36; for R169, 39.6·10³ (mol/l)⁻¹ and 0.97. Thus, neutral and anionic hydrophobic probes can be used for the fast preliminary screening of binding properties of newly synthesized polycationic dendrimers.     

Ab Initio Investigation of the Microspecies and Energy in Hydrated Strontium Ion Clusters

Quantum chemistry calculations were used to study the structure and energy of strontium (Sr) ion hydrated clusters [Sr(H₂O)_1?25]²⁺. The saturated hydration number of the first hydration layer of Sr²⁺ was 8, and the hydration distance was 2.58 Å. The second hydration layer had 1–9 hydration numbers, and the hydration distance was in the range of 4.4–4.6 Å. This work also developed the relationship between the thermodynamic data (average water binding energy E_n and successive water binding energy ΔE_n,n?1, etc.) of the aforementioned low-energy structure and the hydration structures. The first hydration layer was formed by the strong electrostatic interaction between Sr²⁺ and water molecules, and the decrease in ΔE_n,n?1 was relatively large. Hydrogen bonds were formed between water molecules of the second hydration layer and water molecules of the inner layer, and the decrease in ΔE_n,n?1 was relatively small. When one water molecule was added beyond the second hydration layer, ΔE_n,n?1 was close to the hydrogen bond energy 8.88 kcal/mol (37.1 kJ/mol) of dimer water molecule, indicating that there was very weak interaction between Sr²⁺ and the water molecules beyond the second hydration layer.     

Intermolecular potentials for ammonia based on the test particle model and the coupled pair functional method

The intermolecular interaction ΔE in (NH₃)₂ is investigated on the SCF level, with inclusion of correlation effects by means of the CPF method and within the simple test particle model. Whereas the linear hydrogen bonded structure is favoured on the SCF level, ΔE = -7·65 kJ mol^-1, the most stable geometry on the highest level of theory is a cyclic structure, ΔE = -12·96 kJ mol^-1. The minimum is very shallow and allows for appreciable angular motions. The test particle model reproduces the general features of ΔE but shows deviations in details. The computed potentials are used in MD simulations to compute static and dynamic properties of liquid NH₃. Good agreement with available experimental results is obtained throughout.     

Conformational evolution of TFSI− in protic and aprotic ionic liquids

We here report on the conformational evolution of the bis(trifluoromethanesulfonyl)imide anion (TFSI⁻) in protic and aprotic TFSI⁻‐based ionic liquids as a function of temperature. The investigation is performed by Raman spectroscopy in the spectral ranges 240‐380 cm⁻¹ and 715‐765 cm⁻¹, where the interference from bands due to the cations is negligible. The contribution from each TFSI⁻ conformation, i.e. the cisoid (C₁) and the transoid (C₂), is quantified in order to estimate the enthalpy of conformational change, ΔH, which is found to be in the range 3.4–7.3 kJ/mol in the liquid state. Conformational information is for the first time determined from the 740 cm⁻¹ band, which previously mainly has been used as an indicator of ion‐ion interactions. The similarity in ΔH values obtained from the two spectral ranges demonstrates the validity of using also the 740 cm⁻¹ band for the quantification of the TFSI conformational evolution. Copyright © 2010 John Wiley & Sons, Ltd.     

Binding Study of Phenformin with Bovine Serum Album Using a Combined Technique of Equilibrium Dialysis with Flow-Injection Chemiluminescence Detection

ABSTRACT

The interaction between phenformin hydrochloride and bovine serum albumin (BSA) was investigated by the methods of chemiluminescence combined with equilibrium dialysis technique. A novel N-bromosuccinimide (NBS)–eosin Y (EY) chemiluminescence (CL) method was established for the determination of phenformin. The mechanism of this chemiluminescence system was proposed. Optimization studies were performed to determine the phenformin. Under the optimal conditions, the CL intensity was linear for a phenformin concentration over the range of 4.6 × 10^?8 to 5.0 × 10^?5 g/mL. The detection limit was 1.5 × 10^?8 g/mL. The data obtained by the present equilibrium dialysis–CL system were analyzed using the Klotz plot and the Scatchard analysis. The results showed that the Klotz plot and the Scatchard plot are linear with good correlation coefficient, indicating that the phenformin has only one type of binding site on BSA. The binding parameters were the number of the binding sites n (1.02) and the estimated association constant K (2.66 × 10⁴ L/mol). The chemiluminescence system combined with equilibrium dialysis developed in this work demonstrated its use for determination of interaction between drug and protein by using relatively simple instrument.     

Bound Energy of Water in Hard Dental Tissues

Abstract

Enamel and dentin are composed, respectively, of 3 wt% and 10 wt% of water, which exhibits different features in the tissues: loosely and tightly bound water. The objective of this study is to clarify by infrared spectroscopy, the different features of the water in heated (100–1000°C) hard dental tissues (enamel and dentin). The water band between 3800 cm^?1 and 2500 cm^?1 was analyzed by infrared spectroscopy. The area dependence of the water band with temperature was compared with the Arrhenius equation in two regions (100–400°C and 700–1000°C). The activation energy was determined for these two regions, and similar values were observed for both tissues. For enamel we obtain ?4.1±0.2 kJ/mol at 100–400 °C and ?63±9 kJ/mol at 700–1000°C; for dentin ?4.1±0.2 kJ/mol at 100–400°C and ?60±11 kJ/mol at 700–1000°C. The water loss changes the color of the tissues, hydroxyapatite crystallographic parameters, and produce ESR signals. These changes were discussed and compared with the results observed in this work and after laser irradiation. We conclude that these two activation energies could be assigned to the adsorbed (loosely bound) and trapped (tightly bound) water.     

Synthesis and Spectroscopic Studies of Some New Polyether Ligands of the Schiff Base Type

Abstract

New polyether ligands of Schiff base type (3–13) were synthesized from the reaction of diethylene glycol bis(2‐aminophenyl)ether and triethylene glycol bis(2‐aminophenyl)ether with salicylaldehyde, 5‐methoxysalicylaldehyde, 5‐bromosalicylaldehyde, 5‐nitro salicylaldehyde, and 2‐hydroxy‐1‐naphthaldehyde. The products were characterized by elemental analysis, IR, ¹H, ¹³C NMR, and UV‐VIS techniques. The UV‐VIS spectra of those Schiff bases with an OH group in the ortho position to the imino group were studied in polar and nonpolar solvents in acidic and basic media. The compounds are in tautomeric equilibrium (enol‐imine, O–H · N?keto‐amine, O · H–N forms) in solvents, acidic chloroform, and benzene solutions and basic DMSO, chloroform, and benzene solutions. These tautomers were not observed in polar and non‐polar solvents and in basic solutions of DMSO, chloroform, and benzene for the Schiff bases 5–10. Tautomer proportions, which were obtained from ¹H NMR and UV‐VIS data in DMSO, were compared for compounds 3, 4, 11, and 12.     

Dissociation of the light-harvesting membrane protein complex I from Rhodobacter sphaeroides under high hydrostatic pressure

The light-harvesting complex 1 (LH1) from Rhodobacter sphaeroides is an excellent model system for investigating the stability of oligomeric membrane proteins under high hydrostatic pressure. The currently investigated LH1 forms a 16-meric ring structure of B825 subunits. B825 is a heterodimer of transmembrane α- and β-polypeptide chains, which non-covalently binds two bacteriochlorophyll a molecules. These pigment molecules were used as intrinsic spectroscopic sensors to follow the dissociation reaction. Our results demonstrate that the LH1 dissociates into B825 subunits through an intermediary tetrameric unit B845. The dissociation mechanism depends on pressure. At ～200–500?MPa the dissociation corresponds to a pseudo-first-order reaction, characterised by the apparent reaction rate at atmospheric pressure k₀?=?3·10^?5?s^?1, activation volume ΔV^??=??4?mL/mol, and free energy of activation ΔG^??=?26?kJ/mol. Below 200?MPa and above 500?MPa, the reaction is more complex, including further dissociation of B825 into monomers B777.     

Tuning of carbon bonds by substituent effects: an ab initio study

ABSTRACT

An ab initio study, at the MP2/aug-cc-pVTZ level of theory, is performed to study σ-hole bond in binary XH₃C···CNY complexes, where X = CN, F, NO₂, CCH and Y = H, OH, NH₂, CH₃, C₂H₅, Li. This type of interaction is labelled as ‘carbon bond’, since a covalently bonded carbon atom acts as the Lewis acid in these systems. The geometrical and energetic parameters of the resulting complexes are analysed in details. The interaction energies of these complexes are between ?4.97 kJ/mol in (HCC)H₃C···CNH and ?23.07 kJ/mol in (O₂N)H₃C···CNLi. It is found that the electrostatic interaction plays a key role in the overall stabilisation of these carbon-bonded complexes. To deepen the understanding of the nature of the carbon-bonding, the molecular electrostatic potential, natural bond orbital, quantum theory of atoms in molecules and non-covalent interaction index analyses are also used. Our results indicate that the carbon bond is favoured over the C-H···C hydrogen bond in the all complexes considered and may suggest the possible important roles of the C···C interactions in the crystal growth and design.     

Investigation of the Interaction Between Rutin and Trypsin in Solution by Multi-Spectroscopic Method

ABSTRACT

The interactions between rutin and trypsin were investigated by UV-Vis absorption, CD, fluorescence, resonance light-scattering spectra, synchronous fluorescence, and three-dimensional fluorescence spectra techniques under physiological pH 7.40. Rutin effectively quenched the intrinsic fluorescence of trypsin via static quenching. The enthalpy change and entropy change were estimated to be ?8.23 kJ·mol^?1 and 53.66 J·mol^?1·K^?1 according to the van't Hoff equation. The process of binding rutin to trypsin was a spontaneous molecular interaction procedure. This result indicates that hydrophobic and electrostatic interactions played a major role in stabilizing the complex. The conformation of trypsin was discussed by CD, synchronous, and three-dimensional fluorescence techniques.     

Homoaromaticity in aza‐ and phosphasemibullvalenes. A computational study

The enthalpies of activation ΔH^? for the Cope rearrangement in several aza‐ and phosphasemibullvalenes have been investigated by MP4/cc‐pVDZ//MP2/cc‐pVDZ and CCSD(T)/cc‐pVDZ//MP2/cc‐pVDZ calculations. One tetraazasemibullvalene and several phosphasemibullvalenes were found to have vanishing ΔH^? values, which together with calculated large negative Nucleus Independent Chemical Shift (NICS) values and geometrical data show that these molecules have delocalized and bishomoaromatic minima. Furthermore, three azasemibullvalenes were found to have small ΔH^? values (≤2 kcal/mol) combined with large negative NICS, suggesting that they could also have bishomoaromatic minima. Copyright © 2010 John Wiley & Sons, Ltd.     

Conformational analysis of 3,3‐dimethyl‐3‐silathiane, 2,3,3‐trimethyl‐3‐silathiane and 2‐trimethylsilyl‐3,3‐dimethyl‐3‐silathiane—preferred conformers,barriers to ring inversion and substituent effects

The first conformational analysis of 3‐silathiane and its C‐substituted derivatives, namely, 3,3‐dimethyl‐3‐silathiane 1 , 2,3,3‐trimethyl‐3‐silathiane 2 , and 2‐trimethylsilyl‐3,3‐dimethyl‐3‐silathiane 3 was performed by using dynamic NMR spectroscopy and B3LYP/6‐311G(d,p) quantum chemical calculations. From coalescence temperatures, ring inversion barriers ΔG^≠ for 1 and 2 were estimated to be 6.3 and 6.8 kcal/mol, respectively. These values are considerably lower than that of thiacyclohexane (9.4 kcal/mol) but slightly higher than the one of 1,1‐dimethylsilacyclohexane (5.5 kcal/mol). The conformational free energy for the methyl group in 2 (?ΔG° = 0.35 kcal/mol) derived from low‐temperature ¹³C NMR data is fairly consistent with the calculated value. For compound 2 , theoretical calculations give ΔE value close to zero for the equilibrium between the 2 ‐Me_ax and 2 ‐Me_eq conformers. The calculated equatorial preference of the trimethylsilyl group in 3 is much more pronounced (?ΔG° = 1.8 kcal/mol) and the predominance of the 3 ‐SiMe_{3 eq} conformer at room temperature was confirmed by the simulated ¹H NMR and 2D NOESY spectra. The effect of the 2‐substituent on the structural parameters of 2 and 3 is discussed. Copyright © 2010 John Wiley & Sons, Ltd.     

Electrical conductivity anisotropy in alkali feldspar at high temperature and pressure

The electrical conductivity of alkali feldspar along different orientations was determined at 1.0 GPa and at temperatures of 823–1286 K in a cubic anvil apparatus using alternating current impedance spectroscopy. Impedance arcs representing crystal conductivity occur in the frequency range of ～10³–10⁶ Hz. The electrical conductivity of alkali feldspar increases with increasing temperature. The highest electrical conductivities in alkali feldspars were measured along the a-axis, with somewhat lower conductivities along the b-axis, and the lowest conductivities along the c-axis, suggesting minor anisotropy. The activation enthalpies ranged from 100 to 110 kJ/mol. The anisotropic results were combined to yield an isotropic model with an activation enthalpy of 102 kJ/mol. By comparing these results with previous results, we suggest that the dominating charge carriers for alkali feldspars are alkali ions. The minor anisotropy in conductivity for alkali feldspar may not account for the anisotropy of the crust.     

Theoretical studies on structure and performance of [1,2,5]‐oxadiazolo‐[3,4‐d]‐pyridazine‐based derivatives

Based on energetic compound [1,2,5]‐oxadiazolo‐[3,4‐d]‐pyridazine, a series of functionalized derivatives were designed and first reported. Afterwards, the relationship between their structure and performance was systematically explored by density functional theory at B3LYP/6‐311 g (d, p) level. Results show that the bond dissociation energies of the weakest bond (N–O bond) vary from 157.530 to 189.411 kJ · mol^?1. The bond dissociation energies of these compounds are superior to that of HMX (N–NO_2, 154.905 kJ · mol^?1). In addition, H1, H2, H4, I2, I3, C1, C2, and D1 possess high density (1.818–1.997 g · cm^?3) and good detonation performance (detonation velocities, 8.29–9.46 km · s^?1; detonation pressures, 30.87–42.12 GPa), which may be potential explosives compared with RDX (8.81 km · s^?1, 34.47 GPa ) and HMX (9.19 km · s^?1, 38.45 GPa). Finally, allowing for the explosive performance and molecular stability, three compounds may be suggested as good potential candidates for high‐energy density materials. Copyright © 2016 John Wiley & Sons, Ltd.     

Tautomerism,dynamic properties and level crossing in 2‐(pyridin‐2‐yl) furan‐3‐ol by density functional theory and natural bond orbital analysis

2‐(Pyridin‐2‐yl)furan‐3‐ol (PYFO, T1) and (2E)‐2‐(pyridin‐2(1H)‐ylidene)furan‐3(2H)‐one (PYFO, T2) were considered to study their tautomerism interconversions, relative rotations of rings, OH bond rotations, and possibility of crossing between those energy surfaces using density functional theory methods at the Becke, three‐parameter, Lee–Yang–Parr/6‐311++G** level of theory. The optimized structures of both tautomers and the transition state of tautomerism are completely planar. A study of tautomerism in PYFO shows that T1 tautomer is about 24.38 kJ/mol more stable than T2. The rate constants of tautomerism interconversion for converting T1 to T2 is 1.98 × 10⁸ M^–1 s^–1 and for converting T2 to T1 is 3.70 × 10¹² M^–1 s^–1 at room temperature that show the possibility of this tautomerism with high rate at ambient temperature. Rotation of OH bond in T1 shows two minimum (at 0° (global minimum) and 180° (local minimum)) and a transition state at 110° (and 265°) with 47.10 kJ/mol barrier energy. Relative rotation of rings shows global minimum at 0° for both tautomers and local minimum at 154° and 206° for T1 and 180° for T2. The barrier energy for ring rotation of T1 was observed at 90° and 270° with 63.69 kJ/mol height and for T2 was observed at 120 with 170.86 kJ/mol height. Interestingly, the energy levels of ring rotations for T1 and T2 are the same and crossing between them was observed. Therefore, although these two potentials do not have the same symmetries, because of the crossing between their energy level, crossing is not avoided. Copyright © 2011 John Wiley & Sons, Ltd.