Excited-state double proton transfer in 1-azacarbazole hydrogen-bonded dimers

1-azacarbazole hydrogen-bonded dimers undergo photoinduced double proton transfer reaction in their lowest excited singlet state. A second emission band with a maximum at 510 nm arises from a tautomer formed in the excited singlet state as a result of the double proton transfer process.     

Vibrational spectroscopy of water in hydrated lipid multi-bilayers. I. Infrared spectra and ultrafast pump-probe observables

The vibrational spectroscopy of hydration water in dilauroylphosphatidylcholine lipid multi-bilayers is investigated using molecular dynamics simulations and a mixed quantum/classical model for the OD stretch spectroscopy of dilute HDO in H(2)O. FTIR absorption spectra, and isotropic and anisotropic pump-probe decay curves have been measured experimentally as a function of the hydration level of the lipid multi-bilayer, and our goal is to make connection with these experiments. To this end, we use third-order response functions, which allow us to include non-Gaussian frequency fluctuations, non-Condon effects, molecular rotations, and a fluctuating vibrational lifetime, all of which we believe are important for this system. We calculate the response functions using existing transition frequency and dipole maps. From the experiments it appears that there are two distinct vibrational lifetimes corresponding to HDO molecules in different molecular environments. In order to obtain these lifetimes, we consider a simple two-population model for hydration water hydrogen bonds. Assuming a different lifetime for each population, we then calculate the isotropic pump-probe decay, fitting to experiment to obtain the two lifetimes for each hydration level. With these lifetimes in hand, we then calculate FTIR spectra and pump-probe anisotropy decay as a function of hydration. This approach, therefore, permits a consistent calculation of all observables within a unified computational scheme. Our theoretical results are all in qualitative agreement with experiment. The vibrational lifetime of lipid-associated OD groups is found to be systematically shorter than that of the water-associated population, and the lifetimes of each population increase with decreasing hydration, in agreement with previous analysis. Our theoretical FTIR absorption spectra successfully reproduce the experimentally observed red-shift with decreasing lipid hydration, and we confirm a previous interpretation that this shift results from the hydrogen bonding of water to the lipid phosphate group. From the pump-probe anisotropy decay, we confirm that the reorientational motions of water molecules slow significantly as hydration decreases, with water bound in the lipid carbonyl region undergoing the slowest rotations.     

Libration induced stretching mode excitation for pump-probe spectroscopy in pure liquid water

We developed an experimental approach to study pure liquid water in the infrared and avoid thermal effects. This technique is based on libration induced stretching excitation of water molecules. A direct correspondence between frequencies within the libration and OH stretching bands is demonstrated. Energy diffusion is studied in pure liquid water by measuring wave packet dynamics of OH stretching vibrator with infrared femtosecond spectroscopy. Wave packet dynamics reveals ultrafast energy dynamics and reflects 130 fs intermolecular energy transfer between water vibrators. Energy diffusion is almost two orders of magnitude faster than self diffusion in water.     

Synthesis of compounds of interest in proton transfer spectroscopy

A new series of compounds has been prepared for use in proton transfer spectroscopy. The complexes 6a-6d have been converted into the fully characterised perchlorates 7a-7d and the corresponding anhydro bases 8a-8d.     

Modeling proton transfer in imidazole-like dimers: a density functional theory study

A detailed theoretical study of proton transfer reaction in protonated imidazole, 1,2,3-triazole, and tetrazole dimers, the basic components of polymeric membrane used in proton exchange membranes fuel cells, has been carried out. In particular, several approaches based on density functional theory have been considered and their results compared with those provided by post-HF methods. From a computational point of view, these molecules appear to be a very challenging playground also for robust and recent functionals. Indeed none of the considered approaches provide results in close agreement with the reference post-HF data and a combined BMK//B3LYP model seems the only approach able to reproduce both the energetic and the structural features. From a chemical point of view, two new mechanisms of proton transfer in tetrazole dimers have been investigated and found to be more favorable than that previously hypothesized in literature. At the same time, the theoretical results show a direct connection between the obtained proton transfer barrier and the charge localized on the transferred hydrogen.     

The mechanism of double proton transfer in dimers of uracil and 2-thiouracil--the reaction force perspective

The intermolecular double proton transfer in dimers of uracil and 2-thiouracil is studied through density functional theory calculations. The reaction force framework provides the basis for characterizing the mechanism that in all cases has been associated to a dynamic balance between polarization and charge transfer effects. It has been found that the barriers for proton transfer depend upon the nature of the acceptor atoms and its position within the seminal monomer. Actually, the change in the nature of the hydrogen bonds connecting the two monomers along the reaction coordinate may favor or disfavor the double-proton transfer.     

Excited-state double proton transfer of 7-azaindole dimers in a low-temperature organic glass

The excited-state double proton transfer of model DNA base pairs, 7-azaindole (7AI) dimers, is explored in a low-temperature organic glass of n-dodecane using picosecond time-resolved fluorescence spectroscopy. Reaction mechanisms are found to depend on the conformations of 7AI dimers at the moment of excitation; whereas planar conformers tautomerize rapidly (<10 ps), twisted conformers undergo double proton transfer to form tautomeric dimers on the time scale of 250 ps at 8 K. The proton transfer is found to consist of two orthogonal steps: precursor-configurational optimization and intrinsic proton transfer via tunneling. The rate is almost isotope independent at cryogenic temperatures because configurational optimization is the rate-determining step of the overall proton transfer. This optimization is assisted by lattice vibrations below 150 K or by librational motions above 150 K.     

Bimodal proton transfer in acid-base reactions in water

We investigate one of the fundamental reactions in solutions, the neutralization of an acid by a base. We use a photoacid, 8-hydroxy-1,3,6-trisulfonate-pyrene (HPTS; pyranine), which upon photoexcitation reacts with acetate under transfer of a deuteron (solvent: deuterated water). We analyze in detail the resulting bimodal reaction dynamics between the photoacid and the base, the first report on which was recently published. We have ascribed the bimodal proton-transfer dynamics to contributions from preformed hydrogen bonding complexes and from initially uncomplexed acid and base. We report on the observation of an additional (6 ps)(-1) contribution to the reaction rate constant. As before, we analyze the slower part of the reaction within the framework of the diffusion model and the fastest part by a static, sub-150 fs reaction rate. Adding the second static term considerably improves the overall modeling of the experimental results. It also allows to connect experimentally the diffusion controlled bimolecular reaction models as defined by Eigen-Weller and by Collins-Kimball. Our findings are in agreement with a three-stage mechanism for liquid phase intermolecular proton transfer: mutual diffusion of acid and base to form a "loose" encounter complex, followed by reorganization of the solvent shells and by "tightening" of the acid-base encounter complex. These rearrangements last a few picoseconds and enable a prompt proton transfer along the reaction coordinate, which occurs faster than our time resolution of 150 fs. Alternative models for the explanation of the slower "on-contact" reaction time of the loose encounter complex in terms of proton transmission through a von Grotthuss mechanism are also discussed.     

Exploration on regulating factors for proton transfer along hydrogen-bonded water chains.

Proton transfer along a single-file hydrogen-bonded water chain is elucidated with a special emphasis on the investigation of chain length, side water, and solvent effects, as well as the temperature and pressure dependences. The number of water molecules in the chain varies from one to nine. The proton can be transported to the acceptor fragment through the single-file hydrogen-bonded water wire which contains at most five water molecules. If the number of water molecule is more than five, the proton is trapped by the chain in the hydroxyl-centered H(7)O(3) (+) state. The farthest water molecule involved in the formation of H(7)O(3) (+) is the fifth one away from the donor fragment. These phenomena reappear in the molecular dynamics simulations. The energy of the system is reduced along with the proton conduction. The proton transfer mechanism can be altered by excess proton. The augmentation of the solvent dielectric constant weakens the stability of the system, but favors the proton transfer. NMR spin-spin coupling constants can be used as a criterion in judging whether the proton is transferred or not. The enhancement of temperature increases the thermal motion of the molecule, augments the internal energy of the system, and favors the proton transfer. The lengthening of the water wire increases the entropy of the system, concomitantly, the temperature dependence of the Gibbs free energy increases. The most favorable condition for the proton transfer along the H-bonded water wire is the four-water contained chain with side water attached near to the acceptor fragment in polar solvent under higher temperature.     

Coherent nuclear wavepacket motions in ultrafast excited-state intramolecular proton transfer: sub-30-fs resolved pump-probe absorption spectroscopy of 10-hydroxybenzo[h]quinoline in solution

The dynamics of the excited-state intramolecular proton transfer of 10-hydroxybenzo[h]quinoline (10-HBQ) and the associated coherent nuclear motion were investigated in solution by femtosecond absorption spectroscopy. Sub-picosecond transient absorption measurements revealed spectral features of the stimulated emission and absorption of the keto excited state (the product of the reaction). The stimulated emission band appeared in the 600-800-nm region, corresponding to the wavelength region of the steady-state keto fluorescence. It showed successive temporal changes with time constants of 350 fs and 8.3 ps and then disappeared with the lifetime of the keto excited state (260 ps). The spectral feature of the stimulated emission changed in the 350-fs dynamics, which was likely assignable to the intramolecular vibrational energy redistribution in the keto excited state. The 8.3-ps change caused a spectral blue shift and was attributed to the vibrational cooling process. The excited-state absorption was observed in the 400-600-nm region, and it also showed temporal changes characterized by the 350-fs and 8.3-ps components. To examine the coherent nuclear dynamics (nuclear wavepacket motion) in excited-state 10-HBQ, we carried out pump-probe measurements of the stimulated emission and absorption signals with time resolution as good as 27 fs. The obtained data showed substantially modulated signals due to the excited-state vibrational coherence up to a delay time of several picoseconds after photoexcitation. This means that the vibrational coherence created by photoexcitation in the enol excited state is transferred to the product. Fourier transform analysis indicated that four frequency components in the 200-700-cm(-1) region contribute to the oscillatory signal, corresponding to the coherent nuclear motions in excited-state 10-HBQ. Especially, the lowest-frequency mode at 242 cm(-1) is dephased significantly faster than the other three modes. This observation was regarded as a manifestation that the nuclear motion of the 242-cm(-1) mode is correlated with the structural change of the molecule associated with the reaction (the reaction coordinate). The 242-cm(-1) mode observed in excited-state 10-HBQ was assigned to a vibration corresponding to the ground-state vibration at 243 cm(-1) by referring to the results of resonance Raman measurements and density functional calculations. It was found that the nuclear motion of this lowest-frequency mode involves a large displacement of the OH group toward the nitrogen site as well as in-plane skeletal deformation that assists the oxygen and nitrogen atoms to come closer to each other. We discuss the importance of the nuclear wavepacket motion on a multidimensional potential-energy surface including the vibrational coordinate of the low-frequency modes.     

Structural inhomogeneity of interfacial water at lipid monolayers revealed by surface-specific vibrational pump-probe spectroscopy

We report vibrational lifetime measurements of the OH stretch vibration of interfacial water in contact with lipid monolayers, using time-resolved vibrational sum frequency (VSF) spectroscopy. The dynamics of water in contact with four different lipids are reported and are characterized by vibrational relaxation rates measured at 3200, 3300, 3400, and 3500 cm(-1). We observe that the water molecules with an OH frequency ranging from 3300 to 3500 cm(-1) all show vibrational relaxation with a time constant of T(1) = 180 ± 35 fs, similar to what is found for bulk water. Water molecules with OH groups near 3200 cm(-1) show distinctly faster relaxation dynamics, with T(1) < 80 fs. We successfully model the data by describing the interfacial water containing two distinct subensembles in which spectral diffusion is, respectively, rapid (3300-3500 cm(-1)) and absent (3200 cm(-1)). We discuss the potential biological implications of the presence of the strongly hydrogen-bonded, rapidly relaxing water molecules at 3200 cm(-1) that are decoupled from the bulk water system.     

A density functional theory study of dimers of hydrophosphoryl compounds and proton transfer in them

The structures of dimers of several types of dimethylphosphinous acid (CH₃)₂POH and dimethylphosphine oxide (CH₃)₂P(O)H and dimers of the corresponding perfluorinated derivatives (CF₃)₂POH and (CF₃)₂P(O)H were studied in detail by density functional theory with the PBE gradient-corrected functional and the TZ2p basis set. Fairly strong dimeric associates (2.50–10.5 kcal/mol) were shown to form thanks to O-H···O, O-H···P, and C-H···O H-bonds and dipole-dipole interactions of polar phosphoryl groups P → O of two monomer molecules. The existence of C-H···O and the absence of P-H···O H-bonds in (CH₃)₂P(O)H dimers was substantiated by an AIM (atoms in molecules) analysis of their structures according to Bader. The reaction coordinates were calculated for synchronous transfer of two protons in (CH₃)₂POH and (CF₃)₂P(O)H dimers. Both rearrangements were shown to occur via symmetrical six-membered planar transition states with activation barriers of less than 20 kcal/mol, which was much lower than for intramolecular transfer in the corresponding monomers (47 kcal/mol for the (CH₃)₂P(O)H → (CH₃)₂POH pair). The tautomeric transitions between the phosphinous acid and phosphine oxide forms observed experimentally in nonpolar media under mild conditions in the absence of molecules that could act as proton carriers were shown to proceed as bimolecular reactions with the intermediate formation of the corresponding dimers.     

The mechanism of proton transfer between adjacent sites exposed to water

The surface of a protein, or a membrane, is spotted with a multitude of proton-binding sites, some of which are only a few angstroms apart. When a proton is released from one site, it propagates through the water by a random walk under the bias of the local electrostatic potential determined by the distribution of the charges on the protein. Some of the released protons disperse into the bulk, but during the first few nanoseconds, the released protons can be trapped by encounter with nearby acceptor sites. This process resembles a scenario which corresponds with the time-dependent Debye-Smoluchowski equation. In the present study, we investigated the mechanism of proton transfer between sites that are only a few angstroms apart, using as a model the proton exchange between sites on a small molecule, fluorescein, having two, spectrally distinguishable, proton-binding sites. The first site is the oxyanion on the chromophore ring structure. The second site is the carboxylate moiety on the benzene ring of the molecule. Through our experiments, we were able to reconstruct the state of protonation at each site and the velocity of proton transfer between them. The fluorescein was protonated by a few nanosecond long proton pulse under specific conditions that ensured that the dye molecules would be protonated only by a single proton. The dynamics of the protonation of the chromophore were measured under varying initial conditions (temperature, ionic strength, and different solvents (H(2)O or D(2)O)), and the velocity of the proton transfer between the two sites was extracted from the overall global analysis of the signals. The dynamics of the proton transfer between the two proton-binding sites of the fluorescein indicated that the efficiency of the site-to-site proton transfer is very sensitive to the presence of the screening electrolyte and has a very high kinetic isotope effect (KIE = 55). These two parameters clearly distinguish the mechanism from proton diffusion in bulk water. The activation energy of the reaction (E(a) = 11 kcal mol(-1)) is also significantly higher than the activation energy for proton dissociation in bulk water (E(a) approximately 2.5 kcal mol(-1)). These observations are discussed with respect to the effect of the solute on the water molecules located within the solvation layer.     

Excited-state double proton transfer dynamics of model DNA base pairs: 7-hydroxyquinoline dimers

The excited-state double proton transfer of model DNA base pairs, 7-hydroxyquinoline dimers, in benzene has been investigated using picosecond time-resolved fluorescence spectroscopy. Upon excitation, whereas singly hydrogen-bonded noncyclic dimers do not go through tautomerization within the relaxation time of 1400 ps, doubly hydrogen-bonded cyclic dimers undergo excited-state double proton transfer on the time scale of 25 ps to form tautomeric dimers, which subsequently undergo a conformational change in 180 ps to produce singly hydrogen-bonded tautomers. The rate constant of the double proton transfer reaction is temperature-independent, showing a large kinetic isotope effect of 5.2, suggesting that the rate is governed mostly by tunneling.     

Tunneling in the proton transfer between two water molecules

SCF CNDO calculations were performed for the species H₅O⁺₂ at several positions of the intervening proton and at interoxygen distances of 2.65, 2.70 and 2.75 Å. The energy profile was fitted to a potential energy function containing a quadratic term plus a gaussian. The eigenvalues and eigenvectors were obtained by using the variational method with the eigenfunctions of the parabolic potential as basis set. The results indicate that at 2.65 Å the top of the barrier is below the first energy level and that at 2.75 Å the first two energy levels are below the top of the barrier with the splitting of the symmetric-antisymmetric pair of 0.00132 au indicating that tunneling occurs at a frequency of 10¹⁴ reciprocal seconds.     

Examination of formamide,formamidic acid,amidine dimers,and the double proton transfer transition states involving these dimers

Structures and relative energies were obtained for the hydrogen bonded dimers of formamide and formamidic acid using the 3-21G basis set. A double proton transfer transition state is claimed to link these two dimers. While the structure of the transition state was intermediate between those of the two dimers, the energy was only 7.6 kJ/mol greater than the less stable formamidic acid dimer. The activation energy from the formamide dimer side of the reaction was found to be 125 kJ/mol of dimer. A similar transition state was found for the amidine dimer system. The activation energy for this model reaction was found to be 66.9 kJ/mol of dimer.     

Excited-state double proton transfer of 7-azaindole in water nanopools

The excited-state proton-transfer dynamics of 7-azaindole occurring in the water nanopools of reverse micelles has been investigated by measuring time-resolved fluorescence spectra and kinetics, as well as static absorption and emission spectra, with varying water content and isotope. 7-Azaindole molecules are found to exist in the bound-water regions of reverse micelles. The rate constant and the kinetic isotope effect of proton transfer are smaller than those in bulk water although both increase with the size of the water nanopool. The retardation of proton transfer in the bound regions is attributed to the increased free energy of prerequisite solvation to form a cyclically H-bonded 1:1 7-azaindole/water complex.