Density-Functional Studies on the Structure and Vibrational Spectra of Transient Intermediates of p-Benzoquinone

Ultrafast above-threshold dynamics of the radical anion of a prototypical quinone electron-acceptor

Quinones feature prominently as electron acceptors in nature. Their electron-transfer reactions are often highly exergonic, for which Marcus theory predicts reduced electron-transfer rates because of a free-energy barrier that occurs in the inverted region. However, the electron-transfer kinetics that involve quinones can appear barrierless. Here, we consider the intrinsic properties of the para-benzoquinone radical anion, which serves as the prototypical electron-transfer reaction product involving a quinone-based acceptor. Using time-resolved photoelectron spectroscopy and ab initio calculations, we show that excitation at 400 and 480 nm yields excited states that are unbound with respect to electron loss. These excited states are shown to decay on a sub-40 fs timescale through a series of conical intersections with lower-lying excited states, ultimately to form the ground anionic state and avoid autodetachment. From an isolated electron-acceptor perspective, this ultrafast stabilization mechanism accounts for the ability of para-benzoquinone to capture and retain electrons.

Time-resolved resonance Raman spectroscopy: exploring reactive intermediates

The study of reaction mechanisms involves systematic investigations of the correlation between structure, reactivity, and time. The challenge is to be able to observe the chemical changes undergone by reactants as they change into products via one or several intermediates such as electronic excited states (singlet and triplet), radicals, radical ions, carbocations, carbanions, carbenes, nitrenes, nitrinium ions, etc. The vast array of intermediates and timescales means there is no single "do-it-all" technique. The simultaneous advances in contemporary time-resolved Raman spectroscopic techniques and computational methods have done much towards visualizing molecular fingerprint snapshots of the reactive intermediates in the microsecond to femtosecond time domain. Raman spectroscopy and its sensitive counterpart resonance Raman spectroscopy have been well proven as means for determining molecular structure, chemical bonding, reactivity, and dynamics of short-lived intermediates in solution phase and are advantageous in comparison to commonly used time-resolved absorption and emission spectroscopy. Today time-resolved Raman spectroscopy is a mature technique; its development owes much to the advent of pulsed tunable lasers, highly efficient spectrometers, and high speed, highly sensitive multichannel detectors able to collect a complete spectrum. This review article will provide a brief chronological development of the experimental setup and demonstrate how experimentalists have conquered numerous challenges to obtain background-free (removing fluorescence), intense, and highly spectrally resolved Raman spectra in the nanosecond to microsecond (ns-μs) and picosecond (ps) time domains and, perhaps surprisingly, laid the foundations for new techniques such as spatially offset Raman spectroscopy.

Substituent effects on the rearrangements of cyclohexyl to cyclopentyl radicals involving avermectin-related radicals

The rearrangement of a substituted cyclohexyl radical to a cyclopentylmethyl radical on the skeleton of avermectin B1 has been investigated using density functional (UB3LYP/6-31G(d)) and G3MP2B3 computational methods. The rearrangement is preferred when highly radical stabilizing groups are present at the 2- and 3-positions of the cyclohexyl radical. A substituent on the 3-position of the cyclohexyl radical enables ring-cleavage of the cyclohexyl radical, while a radical stabilizing substituent on the 2-position of the cyclohexyl radical stabilizes the final cyclopentylmethyl radical, enabling the overall rearrangement and reversing the normal thermodynamic preference for the hexenyl radical ring closure.

DFT vibrational calculations of rhodamine 6G adsorbed on silver: analysis of tip-enhanced Raman spectroscopy

The tip-enhanced near-field Raman (TERS) bands of Rhodamine 6G (R6G), that we reported earlier [Chem. Phys. Lett. 2001, 335, 369.], are assigned on the basis of density-functional theory (DFT) calculations at the 6-311++G(d,p) level. The Raman and infrared intensities as well as frequencies of the vibrational modes are used for band assignments. These vibrational modes, in combination with characterization of resonant electronic transitions using time-dependent DFT calculations, predict spectral changes in resonant Raman and surface-enhanced resonant Raman scatterings of R6G. Moreover, the TERS spectra of R6G are analyzed in detail, where interactions between the tip and R6G molecules and their enhancement mechanisms are discussed. Finally, we propose a novel Raman spectroscopy technique capable of detecting molecular vibrations at sub-nanometer scale.

Density functional calculations on the structure, vibrational frequencies and normal modes of 7-Azaindole

The structure, harmonic frequencies and vibrational mode assignments for 7-Azaindole monomer and its isotopic analogous are calculated using BP86 method employing the 6-31G(*) basis set. The results of the optimized molecular structure obtained on the basis of these calculations are presented and critically compared with the experimental IR data recorded in gas phase. The Raman and IR spectral data of 7-Azaindole obtained in solid phase have also been included. The normal mode analysis has been carried out for all the modes. The analysis of vibrational data for 7-Azaindole has been qualitative both in terms of assignments as well as the description of the normal modes. Potential energy distribution has been calculated for the perfect assignment of the vibrational modes.

Spectroscopic and spectroelectrochemical characterization of acceptor--sigma spacer--donor monolayers

A novel self-assembled monolayer based on benzoquinone--sigma spacer--ferrocene assembly has been prepared on the surface of gold. The preceding paper gives the reaction conditions for the synthesis of the monolayer and a detailed electrochemical characterization of the assembly. In the present paper, the monolayer structure and the orientation of the redox moieties are followed by a detailed spectroscopic analysis. The monolayer has been characterized by reflectance absorbance IR spectroscopy, FT-Raman spectroscopy, and X-ray photoelectron spectroscopy at every step of modification. Additionally, spectroelectrochemical studies have been carried out by coupling Raman spectroscopy with cyclic voltammetry to elucidate the structural variations associated with the monolayer as a function of applied dc bias.

Surface-Enhanced Resonance Raman Scattering and Density Functional Calculations of Hemicyanine Adsorbed on Colloidal Silver Surface

Resonance Raman (RR) and surface-enhanced resonance Raman scattering (SERRS) of 4'-(N,N'-dimethylaminostyryl)-4-propylpyridinium bromide (hemicyanine, HC dye) in acetonitrile solution and on a colloidal silver surface have been investigated. The structure of the dye in the ground (S0) and excited (S1) electronic states was optimized using density functional calculations along with the B3LYP and the configuration interaction with the singlet excitation (CIS) methods, respectively, using the 6-31G basis set. The vibrational frequencies of the molecule were computed at the optimized geometry and compared with the observed Raman bands. A complete normal-mode analysis has been carried out because it is essential for the accurate assignment of the vibrational spectra. From the observed enhancement along various in-plane and out-of-plane vibrations in the SERRS spectrum and from theoretical calculations, it has been inferred that the interaction with the silver surface occurs via the nitrogen lone pair of the pyridyl or the dimethylamino group of the molecule with a tilted orientation. The observed red-shifts in the SERRS spectrum along various vibrations indicate strong interaction (chemisorption) of the HC dye with the silver surface. This is also supported by the presence of a Ag-N stretching vibration at 241 cm(-1). The effect of the dye concentration on the orientation of the molecule is also discussed.

Structure and Vibrational Spectra of Mononitrated Benzo[a]pyrenes

The molecules benzo[a]pyrene (BaP) and 1-, 3-, and 6-nitrobenzo[a]pyrene (1-NBaP, 3-NBaP, 6-NBaP) are currently of significant interest due to their presence in respirable combustion exhaust particulates and their mutagenic and carcinogenic properties. Structure-function correlations as well as spectroscopic signatures for trace analysis are necessary for these benzo[a]pyrene derivatives. In this paper, detailed infrared and Raman spectroscopic data of BaP and its three mononitrated isomers are provided for the first time. By utilizing density functional theory (DFT, B3LYP method with 6-311+G basis set), the molecular geometries and the vibrational spectra are calculated. Good agreement is noted between the calculated and experimental geometry for BaP, and predictions of the vibrational data for all compounds are within approximately 5 cm-1 of the experimental data. Normal mode assignments are proposed with particular emphasis on the nitro group vibrations. The geometrical distortions of the BaP structure upon nitro group substitution and correlations between structural parameters and vibrational data as well as structure-function relationships related to the mutagenicity of this important class of polycyclic aromatic hydrocarbons are discussed.

The molecular structure and orientation of antiferroelectric liquid crystal using the density-functional theory and two-dimensional correlation-polarized infrared spectroscopy

The structure and vibrational frequencies of the chiral antiferroelectric liquid-crystal molecule, 4-(1-methyheptyloxycarbonyl) phenyl-4-(4'-octyloxy) benzoate (MHOCPOOB), have been calculated using the density-functional theory (DFT) with the Becke-3 Lee-Yang-Parr/6-31G(d,p) level. The observed vibrational spectra have been resolved and assigned in detail by comparison to the computed values. The results indicate that the computed and observed spectra are in good agreement with each other. The stable molecular structure obtained with the DFT theory shows that the two hydrocarbon chains are all-trans zigzag conformer and nearly perpendicular to each other. The orientation of the mesogen part and the hydrocarbon chains for MHOCPOOB in the Sm-C*A phase are investigated by employing the polarization-angle-dependent infrared spectra in the electric-field induced and the two-dimensional correlation spectroscopy. After combining the experimental and theoretical results, it can be concluded that the azimuth of the achiral and chiral chains is opposite to each other, the orientation of the achiral chain is almost the same direction as the mesogen core, and the orientation of the chiral chain is nearly perpendicular to the mesogen part. The achiral and chiral CH2 chains are both a probable all-trans zigzag conformer.

Resonance Raman spectra of n-pi* singlet-triplet transition of p-benzoquinone at low concentrations

A weak visible absorption spectrum of p-benzoquinone (p-BQ) in CS2 due to n-pi* singlet-triplet transition was measured. Using the resonance Raman (RR) effect in liquid-core optical fiber (LCOF), we have obtained the 514.5 nm excited RR spectra of p-benzoquinone near 1445 cm(-1) and have demonstrated that the new characteristic RR band is attributed to the symmetric C=O stretch (nu(C=O)) of n-pi* singlet-triplet transition of p-BQ. The effect of solution concentration on the RR band was investigated at very low concentrations. The RR peak spreads toward short wavelength side with decreasing solution concentration ranging from 10(-7) to 10(-11) mol L(-1), whereas the blue-shift isn't obvious when the concentration is, at single molecule level, lower than 10(-11) mol L(-1). Our result is useful for single molecule detection to some extent.