Interplay between vibrational energy transfer and excited state deactivation in DNA components.

Femtosecond laser spectroscopies are used to examine a thymine family of systems chosen to expose the interplay between excited state deactivation and two distinct vibrational energy transfer (VET) pathways: (i) VET from the base to the deoxyribose ring; (ii) VET between neighboring units in a dinucleotide. We find that relaxation in the ground electronic state accelerates markedly as the molecular sizes increase from the nucleobase to the dinucleotide. This behavior directly reflects growth in the density of vibrational quantum states on the substituent of the base. Excited state lifetimes are studied at temperatures ranging from 100 to 300 K to characterize the thermal fluctuations that connect the Franck-Condon geometries and the conical intersections leading back to the ground state. An Arrhenius analysis yields an approximate excited state energy barrier of 13 meV in the thymine dinucleotide. In addition, we find that the transfer of vibrational energy from the base to the substituent suppresses thermal fluctuations across this energy barrier. The possibility that the solvent viscosity imposes friction on the reaction coordinate is examined by comparing thymine and adenine systems. Experiments suggest that the solvent viscosity has little effect on barrier crossing dynamics in thymine because the conical intersection is accessed through relatively small out-of-plane atomic displacements. Overall, we conclude that the transfer of vibrational quanta from thymine to the deoxyribose ring couples significantly to the internal conversion rate, whereas the neighboring unit in the dinucleotide serves as a secondary heat bath. In natural DNA, it follows that (local) thermal fluctuations in the geometries of subunits involving the base and deoxyribose ring are most important to this subpicosecond relaxation process.

Influence of temperature on thymine-to-solvent vibrational energy transfer.

At the instant following the non-radiative deactivation of its ππ* electronic state, the vibrational modes of thymine possess a highly non-equilibrium distribution of excitation quanta (i.e., >4 eV in excess energy). Equilibrium is re-established through rapid (5 ps) vibrational energy transfer to the surrounding solvent. The mechanisms behind such vibrational cooling (VC) processes are examined here using femtosecond transient grating and two-dimensional photon echo spectroscopies conducted at 100 K and 300 K in a mixture of methanol and water. Remarkably, we find that this variation in temperature has essentially no impact on the VC kinetics. Together the experiments and a theoretical model suggest three possible mechanisms consistent with this behavior: (i) vibrational energy transfer from the solute to solvent initiates (directly) in intramolecular modes of the solute with frequencies >300 cm(-1); (ii) the relaxation induced increase in the temperature of the environment reduces the sensitivity of VC to the temperature of the equilibrium system; (iii) the time scale of solvent motion approaches 0.1 ps even at 100 K. Mechanism (i) deserves strong consideration because it is consistent with the conclusions drawn in earlier studies of isotope effects on VC in hydrogen bonding solvents. Our model calculations suggest that mechanism (ii) also plays a significant role under the present experimental conditions. Mechanism (iii) is ruled out on the basis of long-lived correlations evident in the photon echo line shapes at 100 K. These insights into photoinduced relaxation processes in thymine are made possible by our recent extension of interferometric transient grating and photon echo spectroscopies to the mid UV spectral region.

Probing ultrafast dynamics in adenine with mid-UV four-wave mixing spectroscopies.

Heterodyne-detected transient grating (TG) and two-dimensional photon echo (2DPE) spectroscopies are extended to the mid-UV spectral range in this investigation of photoinduced relaxation processes of adenine in aqueous solution. These experiments are the first to combine a new method for generating 25 fs laser pulses (at 263 nm) with the passive phase stability afforded by diffractive optics-based interferometry. We establish a set of conditions (e.g., laser power density, solute concentration) appropriate for the study of dynamics involving the neutral solute. Undesired solute photoionization is shown to take hold at higher peak powers of the laser pulses. Signatures of internal conversion and vibrational cooling dynamics are examined using TG measurements with signal-to-noise ratios as high as 350 at short delay times. In addition, 2DPE line shapes reveal correlations between excitation and emission frequencies in adenine, which reflect electronic and nuclear relaxation processes associated with particular tautomers. Overall, this study demonstrates the feasibility of techniques that will hold many advantages for the study of biomolecules whose lowest-energy electronic resonances are found in the mid-UV (e.g., DNA bases, amino acids).

Exciton delocalization and energy transport mechanisms in R-phycoerythrin.

Energy transport mechanisms in R-Phycoerythrin (RPE), a light harvesting protein located at the top of the phycobilisome antenna in red algae, are investigated using nonlinear optical spectroscopies and theoretical models. The RPE hexamer possesses a total of 30 bilin pigments, which can be subdivided into three classes based on their molecular structures and electronic resonance frequencies. Of particular interest to this study is the influence of exciton delocalization on the real-space paths traversed by photoexcitations as they concentrate on the lowest energy pigment sites. Transient grating measurements show that significant nuclear relaxation occurs at delay times less than 100 fs, whereas energy transport spans a wide range of time scales depending on the proximity of the initial and final states involved in the process. The fastest energy transport dynamics within the RPE complex are close to 1 ps; however, evidence for sub-100 fs exciton self-trapping is also obtained. In addition, photon echo experiments reveal vibronic interactions with overdamped and underdamped nuclear modes. To establish signatures of exciton delocalization, energy transport is simulated using both modified Redfield and Förster theories, which respectively employ delocalized and localized basis states. We conclude that exciton delocalization occurs between six pairs of phycoerythrobilin pigments (i.e., dimers) within the protein hexamer. It is interesting that these dimers are bound in locations analogous to the well-studied phycocyanobilin dimers of cyanobacterial allophycocyanin and c-phycocyanin in which wave function delocalization is also known to take hold. Strong conclusions regarding the electronic structures of the remaining pigments cannot be drawn based on the present experiments and simulations due to overlapping resonances and broad spectroscopic line widths, which prevent the resolution of dynamics at particular pigment sites.

Vibronic enhancement of exciton sizes and energy transport in photosynthetic complexes.

Transport processes and spectroscopic phenomena in light harvesting proteins depend sensitively on the characteristics of electron-phonon couplings. Decoherence imposed by low-frequency nuclear motion generally suppresses the delocalization of electronic states, whereas the Franck-Condon progressions of high-frequency intramolecular modes underpin a hierarchy of vibronic Coulombic interactions between pigments. This Article investigates the impact of vibronic couplings on the electronic structures and relaxation mechanisms of two cyanobacterial light-harvesting proteins, allophycocyanin (APC) and C-phycocyanin (CPC). Both APC and CPC possess three pairs of pigments (i.e., dimers) that undergo electronic relaxation on the subpicosecond time scale. Electronic relaxation is ~10 times faster in APC than in CPC despite the nearly identical structures of their pigment dimers. We suggest that the distinct behaviors of these closely related proteins are understood on the same footing only in a basis of joint electronic-nuclear states (i.e., vibronic excitons). A vibronic exciton model predicts well-defined rate enhancements in APC at realistic values of the site reorganization energies, whereas a purely electronic exciton model points to faster dynamics in CPC. Calculated exciton sizes (i.e., participation ratios) show that wave function delocalization underlies the rate enhancement predicted by the vibronic exciton model. Strong vibronic coupling and heterogeneity in the pigment sites are the key ingredients of the vibronic delocalization mechanism. In contrast, commonly employed purely electronic exciton models see heterogeneity as only a localizing influence. This work raises the possibility that similar vibronic effects, which are often neglected, may generally have a significant influence on energy transport in molecular aggregates and photosynthetic complexes.

Influence of vibronic coupling on band structure and exciton self-trapping in α-perylene.

Exciton sizes influence transport processes and spectroscopic phenomena in molecular aggregates and crystals. Thermally driven nuclear motion generally localizes electronic states in equilibrium systems. Exciton sizes also undergo dynamic changes caused by nonequilibrium relaxation in the lattice structure local to the photoexcitations (i.e., self-trapping). The α-phase of crystalline perylene is particularly well-suited for fundamental studies of exciton self-trapping mechanisms. It is generally agreed that a subpicosecond self-trapping process in α-perylene localizes photoexcited excitons onto pairs of closely spaced molecules (i.e., dimers), which then relax through excimer emission. Here, electronic relaxation dynamics in α-perylene single crystals are investigated using a variety of nonlinear optical spectroscopies in conjunction with a Frenkel exciton model. Linear absorption and photon echo spectroscopies suggest that excitons are delocalized over less than four unit cells (16 molecules) at 78 K prior to self-trapping. Stimulated Raman spectroscopies conducted on and off electronic resonance reveal significant vibronic coupling in a mode at 104 cm(-1), which corresponds to the displacement between perylene molecules comprising a dimer. Strong vibronic coupling in this mode suggests that motion along the interdimer axis is instrumental in driving the self-trapping process. The results are discussed in the context of our recent study of tetracene and rubrene single crystals in which similar experiments and models were employed.

Toward the origin of exciton electronic structure in phycobiliproteins.

Femtosecond laser spectroscopies are used to examine the electronic structures of two proteins found in the phycobilisome antenna of cyanobacteria, allophycocyanin (APC) and C-phycocyanin (CPC). The wave function composition involving the pairs of phycocyanobilin pigments (i.e., dimers) found in both proteins is the primary focus of this investigation. Despite their similar geometries, earlier experimental studies conducted in our laboratory and elsewhere observe clear signatures of exciton electronic structure in APC but not CPC. This issue is further investigated here using new experiments. Transient grating (TG) experiments employing broadband quasicontinuum probe pulses find a redshift in the signal spectrum of APC, which is almost twice that of CPC. Dynamics in the TG signal spectra suggest that the sub-100 fs dynamics in APC and CPC are respectively dominated by internal conversion and nuclear relaxation. A specialized technique, intraband electronic coherence spectroscopy (IECS), photoexcites electronic and nuclear coherences with nearly full suppression of signals corresponding to electronic populations. The main conclusion drawn by IECS is that dephasing of intraband electronic coherences in APC occurs in less than 25 fs. This result rules out correlated pigment fluctuations as the mechanism enabling exciton formation in APC and leads us to propose that the large Franck-Condon factors of APC promote wave function delocalization in the vibronic basis. For illustration, we compute the Hamiltonian matrix elements involving the electronic origin of the alpha84 pigment and the first excited vibronic level of the beta84 pigment associated with a hydrogen out-of-plane wagging mode at 800 cm(-1). For this pair of vibronic states, the -51 cm(-1) coupling is larger than the 40 cm(-1) energy gap, thereby making wave function delocalization a feasible prospect. By contrast, CPC possesses no pair of vibronic levels for which the intermolecular coupling is larger than the energy gap between vibronic states. This study of APC and CPC may be important for understanding the photophysics of other phycobiliproteins, which generally possess large vibronic couplings.

Nature of excited states and relaxation mechanisms in C-phycocyanin.

The electronic structure and photoinduced relaxation dynamics of the cyanobacterial light harvesting protein, C-Phycocyanin (CPC), are examined using transient grating and two-dimensional (2D) photon echo spectroscopies possessing sub-20 fs time resolution. In combination with linear absorption and fluorescence measurements, these time-resolved experiments are used to constrain the parameters of a Frenkel exciton Hamiltonian. Particular emphasis is placed on elucidating the nature of excited states involving the alpha84 and beta84 phycocyanobilin pigment dimers of CPC. This paper obtains new experimental evidence suggesting that electronic relaxation proceeds by way of incoherent energy transfer between the alpha84 and beta84 pigment sites (i.e., the weak coupling limit of energy transfer). Transient absorption anisotropies simulated in the weak coupling limit agree well with measurements, whereas signals computed in an exciton basis possess short-lived (electronic) coherent components not present in the experimental data. In addition, 2D photon echo spectra for CPC show no sign of the interfering nonlinearities predicted by a theoretical model to be characteristic of exciton formation. Another important new observation is that the sub-100 fs dynamics in the transient absorption anisotropy are dominated by an impulsively excited hydrogen out-of-plane wagging mode similar to those observed in phytochrome and retinal. Detection of this 795 cm(-1) coherence is of particular interest because our recent study of a closely related protein, Allophycocyanin (APC), assigns a similar coordinate as a promoting mode enabling ultrafast internal conversion. Together, the experiments conducted for APC and CPC suggest that interactions between the pigments and environment are the key to understanding why electronic relaxation in CPC is more than three times slower than APC despite the nearly identical geometries of the pigment dimers. Most important in reaching this conclusion is the present finding that relaxation of the 2D photon echo line shapes of CPC is approximately two times faster than that measured for APC. Overall, the present results underscore the ability of phycobiliproteins to control light harvesting dynamics through solvation and variation in the conformations of open-chain tetrapyrrole chromophores.

Exciton coherence and energy transport in the light-harvesting dimers of allophycocyanin.

Femtosecond transient grating and photon echo spectroscopies with a sub-20 fs time resolution are applied to allophycocyanin (APC), a protein located at the base of the phycobilisome antenna of cyanobacteria. Coupling between pairs of phycocyanobilin pigments with nondegenerate energy levels gives rise to the four-level exciton electronic structure of APC. Spectroscopic signals obtained in multiple experiments (e.g., linear absorption, fluorescence, transient grating, 2D Fourier transform photon echo) are used to constrain the parameters of a Frenkel exciton Hamiltonian. Comparison between experiment and theory yields a robust microscopic understanding of the electronic and nuclear relaxation dynamics. In agreement with previous work, transient absorption anisotropy establishes that internal conversion between the exciton states of the dimer occurs with time constants of 35, 220, and 280 fs. The sub-100 fs dynamics are decomposed into three distinct relaxation processes: electronic population transfer, intramolecular vibrational energy redistribution, and the dephasing of electronic and nuclear coherences. Model calculations show that the sub-100 fs red-shift in the transient absorption signal spectrum reflects interference between stimulated emission (ESE) and excited state absorption (ESA) signal components. It is also established that the pigment fluctuations in the dimer are not well-correlated, although further experiments will be required to precisely quantify the amount of correlation. The findings of this paper suggest that the light harvesting function of APC is enhanced by nondegeneracy of the pigments comprising the dimer and strong vibronic coupling of intramolecular modes on the phycocyanobilins. We find that the exciton states are 96% localized to the individual molecular sites within a particular dimer. Localization of the transition densities, in turn, is suggested to promote significant vibronic coupling which serves to both broaden the absorption line shape and open channels for fast internal conversion. The dominant internal conversion channel is assigned to a promoting mode near 800 cm(-1) involving hydrogen out-of-plane (HOOP) wagging motion similar to that observed in phytochrome and retinal. This rate enhancement ensures that all photoexcitations quickly and efficiently relax to the electronic origin of the lower energy exciton state from which energy transfer to the reaction center occurs.

Probing the dynamics of intraband electronic coherences in cylindrical molecular aggregates.

Electronic coherence transfer has been detected in only a small number of systems despite the potential impact of these dynamics on natural and artificial light harvesting. Nonlinear spectroscopies designed to probe the dynamics of electronic coherences are challenged by signal emission associated with electronic populations. This paper presents a newly developed nonlinear laser spectroscopy capable of measuring intraband electronic coherences (i.e., for pairs of single exciton states) in molecular aggregates with full suppression of undesired signal components. In comparison with methods applying all-femtosecond laser pulses, the present experiment uses both narrowband and broadband pulses to obtain similar information with a greater than 360-fold faster data acquisition rate. In addition, the technique enhances spectral resolution with experimental control of the measured line widths. High instrument throughput facilitates the comparison of measurements for a wide variety of materials. As the first application of this technique, we investigate the dynamics of intraband electronic coherences in double-walled cylindrical molecular aggregates possessing five slightly different morphologies controlled by varying the solvent conditions. Interfering coherences associated with pairs of exciton states give rise to well-resolved quantum beats in the measured signal fields. In addition, coherence transfer processes are investigated using a superposition of tensor elements (i.e., an analogue of probing population transfer with pump-probe anisotropy). The comparison of experimental measurements and calculations based on a theoretical model supports the finding of coherence transfer processes terminating in an electronic coherence between the inner and outer cylinder excitons.

Correlated exciton fluctuations in cylindrical molecular aggregates.

Femtosecond electronic relaxation dynamics of a cylindrical molecular aggregate are measured with transient grating (TG) and two-dimensional Fourier transform photon echo (PE) spectroscopies. The aggregates are double-walled cylindrical structures formed by self-assembly of amphiphilic cyanine dye molecules in water. The diameters of the inner and outer cylinders are approximately 6 and 10 nm. The linear absorption spectrum of the aggregate exhibits four spectrally resolved single exciton transitions corresponding to excited states localized on particular regions of the structure: (1) an excited state localized on the inner cylinder corresponds to the lowest energy transition at 16670 cm(-1); (2) a transition at 17150 cm(-1) represents a state localized on the outer cylinder, (3) whereas an overlapping peak found at 17330 cm(-1) is more closely associated with the inner cylinder; (4) an excited state delocalized between the inner and outer cylinder is assigned to a transition in the linear absorption spectrum at 17860 cm(-1). TG spectra show a series of resonances reflecting the electronic structure of both the single and double exciton manifolds. In addition, PE spectra reveal coherent modulation of both diagonal and cross-peak amplitudes persisting for 100 fs, where the coherence frequency matches the energy gap between transitions 1 and 4 in the linear absorption spectrum. PE line shapes suggest correlated energy level fluctuations for the exciton states associated with these two transitions, which is consistent with this fairly long-lasting coherence at room temperature in aqueous solution. The impact of these correlations on Forster energy transfer efficiency is discussed. The observations imply fairly long-range correlations between the molecular sites (>0.6 nm), which in turn reflects the length scale of the environmental motion inducing the fluctuations. We suggest that this environmental motion is most likely associated with water confined inside the cylinder and/or fluctuations of the dye's aliphatic functional groups.