Local order and vibrational coupling in solutions of polar molecules

Role of Hydration in Magnesium versus Calcium Ion Pairing with Carboxylate: Solution and the Aqueous Interface

The binding of group II metal cations such as Ca²⁺ and Mg²⁺ has been largely categorized as electrostatic or ionic using carboxylate symmetric and asymmetric stretching frequency assignments that have been historically used with little regard for the solvation environment of aqueous solutions. However, given the importance of these cations and their binding mechanisms related to biological function and in revealing surface enrichment factors for ocean to marine aerosol transfer, it is imperative that a deeper understanding be sought to include hydration effects. Here, infrared reflection-absorption and Raman spectra for surface and solution phase carboxylate binding information, respectively, are compared against bare (unbound) carboxylate and bidentate Zn²⁺:carboxylate spectral signatures. Spectral non-coincidence effect analysis, temperature studies, and spectral and potential of mean force calculations result in a concise interpretation of binding motifs that include the role of mediating water molecules, that is, contact and solvent-shared ion pairs. Calcium directly binds to the carboxylate group in contact ion pairs where magnesium rarely does. Moreover, we reveal the dominance of the solvent-shared ion pair of magnesium with carboxylate at the air-water interface and in solution.

Ligand binding to G-quadruplex DNA: new insights from ultraviolet resonance Raman spectroscopy

G-Quadruplexes (G4s) are noncanonical nucleic acid structures involved in the regulation of several biological processes of many organisms. The rational design of G4-targeting molecules developed as potential anticancer and antiviral therapeutics is a complex problem intrinsically due to the structural polymorphism of these peculiar DNA structures. The aim of the present work is to show how Ultraviolet Resonance Raman (UVRR) spectroscopy can complement other techniques in providing valuable information about ligand/G4 interactions in solution. Here, the binding of BRACO-19 and Pyridostatin - two of the most potent ligands - to selected biologically relevant G4s was investigated by polarized UVRR scattering at 266 nm. The results give new insights into the binding mode of these ligands to G4s having different sequences and topologies by performing an accurate analysis of peaks assigned to specific groups and their changes upon binding. Indeed, the UVRR data not only show that BRACO-19 and Pyridostatin interact with different G4 sites, but also shed light on the ligand and G4 chemical groups really involved in the interaction. In addition, UVRR results complemented by circular dichroism data clearly indicate that the binding mode of a ligand can also depend on the conformation(s) of the target G4. Overall, these findings demonstrate the utility of using UVRR spectroscopy in the investigation of G4s and G4-ligand interactions in solution.

Solvent dependent frequency shift and Raman noncoincidence effect of S=O stretching mode of Dimethyl sulfoxide in liquid binary mixtures

The isotropic and anisotropic Raman peak frequencies of S=O stretching mode of Dimethyl sulfoxide (DMSO) have been discussed in different chemical and isotopic solvent molecules using different mechanisms. The shifting of peak frequency in further dilution of DMSO with solvent molecule is observed for all solvents. Transition dipole - transition dipole interaction and hydrogen bonding may play a major role in shifting of peak frequencies. The non-coincidence effect (NCE) of DMSO was determined for all the solvents and compared with four theoretical models such as McHale's model, Mirone's modification of McHale's model, Logan's model and Onsager-Fröhlich dielectric continuum model respectively. Most of the theoretical models are largely consistent with our experimental data.

Signatures of coherent vibrational energy transfer in IR and Raman line shapes for liquid water

We calculate theoretical IR and Raman line shapes for the OH stretch region of liquid water, using mixed quantum/classical and electronic-structure/molecular-dynamics methods. Our approach improves upon the time-averaging approximation used earlier for the same problem, and our results are in excellent agreement with experiment. Previous analysis of theoretical results for this problem considered the extent of delocalization (over local OH stretch excitations) of the instantaneous vibrational eigenstates. In this work we present a complementary analysis in the time-domain, by decomposing the appropriate response functions into diagonal and off-diagonal contributions (in the local mode basis). Our analysis indicates that all vibrational spectra show signatures of coherent vibrational energy transfer. This is manifest in different (IR, isotropic and depolarized Raman) experiments to different extents, because of the competition between coherent energy transfer and rotational disorder.

Anisotropy shift and Raman bandwidth studies in carbonyl containing molecule o-chlorobenzaldehyde: role of repulsive forces

The analysis of Raman anisotropy shift as a function of solvent concentration shows the weakening of pair interaction of the molecules due to the influence of solvent-induced perturbations. The present study deals with the effect of dielectric constant of the medium on the non-coincidence effect (anisotropy shift) and the role of van der Waals' volume on the anisotropic Raman bandwidth. The CO stretching vibration of o-chlorobenzaldehyde (OCBD) molecule was studied in various polar and non-polar solvents namely CCl4, CH3CN, C6H5Cl and CH3C6H5. The data on anisotropic bandwidth are interpreted using the van der Waals' volume within the framework of lineshape theory of Bratos and Tarjus, while the Onsager-Fröhlich model on non-coincidence effect has been tested. Our study shows that the repulsive potential of the type e-alphaR is playing an important role in the OCBD-solvent interactions. The vanishing of anisotropy shift (non-coincidence effect) on dilution may be explained on the basis of repulsive forces playing a significant role in solute-solvent interactions.

Concentration-Dependent Frequency Shifts and Raman Spectroscopic Noncoincidence Effect of the CO Stretching Mode in Dipolar Mixtures of Acetone/Dimethyl Sulfoxide. Experimental, Theoretical, and Simulation Results

The nu(C=O) Raman band frequencies of acetone have been analyzed to separate the contributions of the environmental effect and the vibrational coupling to the gas-to-liquid frequency shifts of this band and to elucidate the changes in these two contributions upon dilution in DMSO. We have measured the frequencies of the nu((12)C=O) band in acetone/DMSO binary mixtures, the nu((13)C=O) band of the acetone-(13)C=O present as a natural abundance isotopic impurity in these mixtures, and both the nu((12)C=O) and nu((13)C=O) bands in the acetone-(12)C=O/acetone-(13)C=O isotopic mixtures at infinite dilution. These frequencies are compared with those of the nu((12)C=O) band in the acetone/CCl(4) binary mixtures measured previously. We have found the following three points: (i) The negative environmental contribution for the nu((12)C=O) oscillator of acetone completely surrounded by DMSO is reduced in magnitude by +5.5 cm(-1) and +7.8 cm(-1) upon the complete substitution of DMSO with acetone and CCl(4) molecules, respectively, indicating the progressive reduction of the attractive forces exerted by the environment on the nu((12)C=O) mode of acetone. (ii) In DMSO and other solvents, the contribution of the vibrational coupling to the frequency of the isotropic Raman nu((12)C=O) band of acetone becomes progressively more negative with increasing acetone concentration up to a value of -5.5 cm(-1), while the contribution to the frequency of the anisotropic Raman band remains approximately unchanged. The only difference resides in the curvatures of the concentration dependencies of these contributions which depend on the relative solute/solvent polarity. (iii) The noncoincidence effect (separation between the anisotropic and isotropic Raman band frequencies) of the nu(C=O) mode in the acetone/DMSO mixtures exhibits a downward (concave) curvature, in contrast to that in the acetone/CCl(4) mixtures, which shows an upward (convex) curvature. This result is supported by MD simulations and by theoretical predictions and is interpreted as arising from the reduction and enhancement of the short-range orientational order of acetone in the acetone/DMSO and acetone/CCl(4) mixtures, respectively.

Raman anisotropic bandwidth study of C=O stretching vibration of methyl isobutyl ketone: role of van der Waals' volume of the interacting systems

The bandwidth (FWHM) of the anisotropic component (Gamma(aniso)) of methyl isobutyl ketone (MIBK) for different concentrations of solvents varying from 10 to 90% was measured and was plotted as a function of solvent concentrations. In lower solvent concentration, the graph shows a curvature with a discontinuity which occurs between 40 and 60% and in higher solvent concentration, the graph shows a straight line for most of the solvents. In order to interpret the complicated behaviour we have taken into accounts the van der Waals' volume (V(w)) of the sphere of influence in solute dissolved in all solvents. Considering the role of van der Waals' volume in these systems the parameter Gamma(omega)=ln(Gamma(aniso)/V(w)) was plotted at different solvent concentrations. The graph shows a straight line for the entire region. In order to study the influence of screening effect on the bandwidth, the capacitances of the liquid mixture at different solvent concentrations varying from 10 to 90% were measured for all the solvents. The plot of capacitance at different solvent concentrations for each solvent shows a discontinuity around 50% of solvent concentration.

Solvent dependent analysis of isotropic Raman band shape of C=O stretching vibration

The isotropic Raman band shape corresponding to C=O stretching vibration of some molecules has been studied in neat liquids and as a function of solvent concentration using both polar and non-polar solvents. The Raman band shape was analyzed on the basis of correlation with the Lorentzian line shape by employinga simple method of linear curve fitting. In neat liquids and in low solvent concentration region, the band shape was found to be non-Lorentzian. With the gradual increase in solvent concentration the band shape approaches a Lorentzian function. The plot of the correlation coefficient for a Lorentzian shape shows a discontinuity in the intermediate range of solvent concentration. The influence of the structural characteristics of the solute and the solvent systems on the reference mode and various multipolar interactions together with the time varying spatial distribution of solvent molecules with respect to the reference molecule are expected to govern the microenvironmental fluctuations. This may be responsible for the discontinuity in the intermediate solvent concentration region.