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1.
Taking pyridine as a prototypal example of biologically important nitrogen bases involved in proton-coupled electron transfers, it is shown with the example of the photochemically triggered oxidation of phenol by Ru(III)(bpy)(3) that this proton acceptor partakes in a concerted pathway whose kinetic characteristics can be extracted from the overall kinetic response. The treatment of these data, implemented by the results of a parallel study carried out in heavy water, allowed the determination of the intrinsic kinetic characteristics of this proton acceptor. Comparison of the reorganization energies and of the pre-exponential factors previously derived for hydrogen phosphate and water (in water) as proton acceptors suggests that, in the case of pyridine, the proton charge is delocalized over a primary shell of water molecules firmly bound to the pyridinium cation.  相似文献   

2.
The mechanism of proton-coupled electron transfer (PCET) from tyrosine in enzymes and synthetic model complexes is under intense discussion, in particular the pH dependence of the PCET rate with water as proton acceptor. Here we report on the intramolecular oxidation kinetics of tryptophan derivatives linked to [Ru(bpy)(3)](2+) units with water as proton acceptor, using laser flash-quench methods. It is shown that tryptophan oxidation can proceed not only via a stepwise electron-proton transfer (ETPT) mechanism that naturally shows a pH-independent rate, but also via another mechanism with a pH-dependent rate and higher kinetic isotope effect that is assigned to concerted electron-proton transfer (CEP). This is in contrast to current theoretical models, which predict that CEP from tryptophan with water as proton acceptor can never compete with ETPT because of the energetically unfavorable PT part (pK(a)(Trp(?)H(+)) = 4.7 ? pK(a)(H(3)O(+)) ≈ -1.5). The moderate pH dependence we observe for CEP cannot be explained by first-order reactions with OH(-) or the buffers and is similar to what has been demonstrated for intramolecular PCET in [Ru(bpy)(3)](3+)-tyrosine complexes (Sjo?din, M.; et al. J. Am. Chem. Soc.2000, 122, 3932. Irebo, T.; et al. J. Am. Chem. Soc.2007, 129, 15462). Our results suggest that CEP with water as the proton acceptor proves a general feature of amino acid oxidation, and provide further experimental support for understanding of the PCET process in detail.  相似文献   

3.
Proton-coupled electron transfer (PCET) was examined in a series of biomimetic, covalently linked Ru(II)(bpy)(3)-tyrosine complexes where the phenolic proton was H-bonded to an internal base (a benzimidazyl or pyridyl group). Photooxidation in laser flash/quench experiments generated the Ru(III) species, which triggered long-range electron transfer from the tyrosine group concerted with short-range proton transfer to the base. The results give an experimental demonstration of the strong dependence of the rate constant and kinetic isotope effect for this intramolecular PCET reaction on the effective proton transfer distance, as reflected by the experimentally determined proton donor-acceptor distance.  相似文献   

4.
In the present work, the joint use of the potential energy, the reaction electronic flux profiles and NBO analysis along the intrinsic reaction coordinate within the framework of the reaction force analysis allows us to gain insights into the mechanism of the proton transfer process in amino acids. The reaction was studied in alanine and phenylalanine in the presence of a continuum and with addition of one water molecule acting as a bridge, the results were compared to those of tryptophan. The bridging water molecule stabilizes the zwitterionic form and increases the reaction barriers by a factor of two. This result is interpreted in terms of the energy required to bring the amino acid and the water molecule closer to each other and to promote the proton transfer through the reordering of the electron density. Furthermore, the bridging water molecule induces a concerted asynchronous double proton transfer, where the transfer of the carboxyl hydrogen atom is followed by the second proton transfer to the ammonium group. In addition, a second not intervening water molecule was added, which changes the proton acceptor and donor properties of the reactive water molecule modulating the reaction mechanism. The aforementioned methods allow us to identify the order of the transferred protons and the asynchronicity, thereby, evolving as promising tools to not only characterize but also manipulate reaction mechanisms.  相似文献   

5.
Proton-coupled electron transfer oxidation of phenols play a prominent role in several natural processes, and one may wonder if their high efficiency is related to the possibility that the electron and proton transfer steps are concerted. The cyclic voltammetric observation of the electrochemical oxidation and reverse reaction has allowed, with the example of 2,4,6-tri-tert-butylphenol in nonbuffered aqueous media, the clear identification of a pathway in which a phenol is directly and reversibly converted into the phenoxyl radical while the generated proton is accepted by a water molecule in a concerted manner. In very basic media, a stepwise mechanism takes place in which the phenol is deprotonated by OH- and the resulting phenoxide ion rapidly oxidized into the phenoxyl radical. As the pH decreases, this pathway progressively shuts down to the advantage of the concerted pathway. The latter assignment is confirmed by the observation of a substantial H/D kinetic isotope effect. At moderately basic pH 10.5, the contributions of the two pathways are about equal and the occurrence of the two competing routes is directly visualized in the cyclic voltammetry response.  相似文献   

6.
The kinetics and mechanism of proton-coupled electron transfer (PCET) from a series of phenols to a laser flash generated [Ru(bpy)(3)](3+) oxidant in aqueous solution was investigated. The reaction followed a concerted electron-proton transfer mechanism (CEP), both for the substituted phenols with an intramolecular hydrogen bond to a carboxylate group and for those where the proton was directly transferred to water. Without internal hydrogen bonds the concerted mechanism gave a characteristic pH-dependent rate for the phenol form that followed a Marcus free energy dependence, first reported for an intramolecular PCET in Sj?din, M. et al. J. Am. Chem. Soc. 2000, 122, 3932-3962 and now demonstrated also for a bimolecular oxidation of unsubstituted phenol. With internal hydrogen bonds instead, the rate was no longer pH-dependent, because the proton was transferred to the carboxylate base. The results suggest that while a concerted reaction has a relatively high reorganization energy (lambda), this may be significantly reduced by the hydrogen bonds, allowing for a lower barrier reaction path. It is further suggested that this is a general mechanism by which proton-coupled electron transfer in radical enzymes and model complexes may be promoted by hydrogen bonding. This is different from, and possibly in addition to, the generally suggested effect of hydrogen bonds on PCET in enhancing the proton vibrational wave function overlap between the reactant and donor states. In addition we demonstrate how the mechanism for phenol oxidation changes from a stepwise electron transfer-proton transfer with a stronger oxidant to a CEP with a weaker oxidant, for the same series of phenols. The hydrogen bonded CEP reaction may thus allow for a low energy barrier path that can operate efficiently at low driving forces, which is ideal for PCET reactions in biological systems.  相似文献   

7.
Proton transfer reaction is studied for 1H-pyrrolo[3,2-h]quinoline-water complexes (PQ-(H(2)O)(n), n = 0-2) in the ground and the lowest excited singlet states at the density functional theory (DFT) level. Cyclic hydrogen-bonded complexes are considered, in which water molecules form a bridge connecting the proton donor (pyrrole NH group) and acceptor (quinoline nitrogen) atoms. To understand the effect of the structure and length of water bridges on the excited-state tautomerization in PQ, the potential energy profile of the lowest excited singlet state is calculated adiabatically by the time-dependent DFT (TDDFT) method. The S(0) --> S(1) excitation of PQ is accompanied by significant intramolecular transfer of electron density from the pyrrole ring to the quinoline fragment, so that the acidity of the N-H group and the basicity of the nitrogen atom of the quinoline moiety are increased. These excited-state acid-base changes introduce a driving force for the proton transfer reaction. The adiabatic TDDFT calculations demonstrate, however, that the phototautomerization requires a large activation energy in the isolated PQ molecule due to a high energy barrier separating the normal form and the tautomer. In the 1:1 cyclic PQ-H(2)O complex, the energy barrier is dramatically reduced, so that upon excitation of this complex the tautomerization can occur rapidly in one step as concerted asynchronous movements of the two protons assisted by the water molecule. In the PQ-(H(2)O)(2) solvate two water molecules form a cyclic bridge with sterically strained and unfavorable hydrogen bonds. As a result, some extra activation energy is needed for initiating the proton dislocation along the longer hydrogen-bond network. The full tautomerization in this complex is still possible; however, the cooperative proton transfer is found to be highly asynchronous. Large relaxation and reorganization of the hydrogen-bonded water bridge in PQ-(H(2)O)(2) are required during the proton translocation from the pyrrole NH group to the quinoline nitrogen; this may block the complete tautomerization in this type of solvate.  相似文献   

8.
The concerted proton-electron transfer (CPET) oxidation of phenol with water (in water) and hydrogen phosphate as proton acceptors provides a good example for testing the consistency of the electrochemical and homogeneous approaches to a reaction, the comprehension of which raises more mechanistic and kinetic challenges than that of a simple outer-sphere electron transfer. Comparison of the intrinsic kinetic characteristics (obtained at zero driving force of the CPET reaction) shows that consistency is indeed observed after a careful identification and quantitation of side factors (electrical work terms, image force effects). Water (in water) appears as a better intrinsic proton acceptor than hydrogen phosphate in both cases in terms of reorganization energy and pre-exponential factor, corroborating the mechanism by which electron transfer is concerted with Grotthus-type proton translocation in water. Detailed compared analysis of the approaches also revealed that modest but significant electric field effects may be at work in the electrochemical case. Comparison with phenoxide ion oxidation, taken as a reference outer-sphere electron transfer, points to a CPET precursor complex that possesses a precise spatial structure allowing the formation of one or several H-bonds as required by the occurrence of the CPET reaction, thus decreasing considerably the number of efficient collisions compared with those undergone by structureless spherical reactants.  相似文献   

9.
Calix[4]hydroquinone has recently attracted considerable interest since it forms stable tubular aggregates mediated solely by hydrogen bonding and pi-pi-stacking interactions. These aggregates trap specifically various small organic molecules and, in particular, catalyze the proton exchange of water with acetone. Using correlated quantum chemical methods, the mechanism of the observed proton exchange mediated by keto-enol tautomerism of acetone is investigated in detail. Starting with an investigation of keto-enol tautomerism of acetone-water clusters, it appears that four catalytic water molecules are optimal for the catalysis and that additional solvent water molecules lead to a decrease in efficiency. Analyses of the partial charges revealed a decrease of the polarization of the reactive hydrogen bonds due to the additional water molecules. As a next step, hydroquinone-acetone-water complexes were studied as models for the situation in the CHQ moieties. However, the computations revealed that the proton transfer reaction becomes less efficient when one catalytic water molecule is replaced by hydroquinone. Although concerted proton transfer via keto-enol tautomerism of acetone seems to be the predominant mechanism in supercritical water, it is no longer the rate-determining reaction mechanism for the catalyzed acetone-water proton exchange observed in tubular CHQ. Nevertheless, a key feature of the catalytic function of tubular CHQ has been identified to be the stiff hydrogen bonding network and the exclusion of additional solvent water molecules.  相似文献   

10.
The coupling of long-range electron transfer to proton transport over multiple sites plays a vital role in many biological and chemical processes. Recently the concerted proton-coupled electron transfer (PCET) reaction in a molecule with a hydrogen-bond relay inserted between the proton donor and acceptor sites was studied electrochemically. The standard rate constants and kinetic isotope effects (KIEs) were measured experimentally for this double proton transfer system and a related single proton transfer system. In the present paper, these systems are studied theoretically using vibronically nonadiabatic rate constant expressions for electrochemical PCET. Application of this approach to proton relays requires the calculation of multidimensional proton vibrational wave functions and the incorporation of multiple proton donor-acceptor motions. The decrease in proton donor-acceptor distances due to thermal fluctuations and the contributions from excited electron-proton vibronic states play important roles in these systems. The calculated KIEs and the ratio of the standard rate constants for the single and double proton transfer systems are in agreement with the experimental data. The calculations indicate that the standard PCET rate constant is lower for the double proton transfer system because of the smaller overlap integral between the ground state reduced and oxidized proton vibrational wave functions, resulting in greater contributions from excited electron-proton vibronic states with higher free energy barriers. The theory predicts that this rate constant may be increased by modifying the molecule in a manner that decreases the equilibrium proton donor-acceptor distances or alters the molecular thermal motions to facilitate the concurrent decrease of these distances. These insights may guide the design of more efficient catalysts for energy conversion devices.  相似文献   

11.
Proton transfer in bacteriorhodopsin from the cytoplasm to the extracellular side is initiated from protonated asp96 in the cytoplasmic region toward the deprotonated Schiff base. This occurs in the transition from the photocycle late M state to the N state. To investigate this proton-transfer process, a quantum mechanics/molecular mechanics (QM/MM) model is constructed from the bacteriorhodopsin E204Q mutant crystal structure. Three residues, asp96, asp85, and thr89, as well as most of the retinal chromophore and the Schiff base link of lys216 are treated quantum mechanically and connected to the remaining classical protein through linker atom hydrogens. Structural transformation in the M state results in the formation of a water channel between the Schiff base and asp96. Since a part of this channel is lined with hydrophobic residues, there has been a question on the mechanism of proton transfer in a hydrophobic channel. Ab initio dynamics using the CHARMM/GAMESS methodology is used to simulate the transfer of the proton through a partially hydrophobic channel. Once sufficient water molecules are added to the channel to allow the formation of a single chain of waters from asp96 to the Schiff base, the transfer occurs as a fast (less than a picosecond) concerted event irrespective of the protonation state of asp85. Dynamic transfer of the proton from asp96 to the nearest water initiates the organization of a strongly bonded water chain conducive to the transfer of the proton to the Schiff base nitrogen.  相似文献   

12.
In many of the chemical steps in photosynthesis and artificial photosynthesis, proton coupled electron transfer (PCET) plays an essential role. An important issue is how excited state reactivity can be integrated with PCET to carry out solar fuel reactions such as water splitting into hydrogen and oxygen or water reduction of CO2 to methanol or hydrocarbons. The principles behind PCET and concerted electron–proton transfer (EPT) pathways are reasonably well understood. In Photosystem II antenna light absorption is followed by sensitization of chlorophyll P680 and electron transfer quenching to give P680+. The oxidized chlorophyll activates the oxygen evolving complex (OEC), a CaMn4 cluster, through an intervening tyrosine–histidine pair, YZ. EPT plays a major role in a series of four activation steps that ultimately result in loss of 4e?/4H+ from the OEC with oxygen evolution. The key elements in photosynthesis and artificial photosynthesis – light absorption, excited state energy and electron transfer, electron transfer activation of multiple-electron, multiple-proton catalysis – can also be assembled in dye sensitized photoelectrochemical synthesis cells (DS-PEC). In this approach, molecular or nanoscale assemblies are incorporated at separate electrodes for coupled, light driven oxidation and reduction. Separate excited state electron transfer followed by proton transfer can be combined in single semi-concerted steps (photo-EPT) by photolysis of organic charge transfer excited states with H-bonded bases or in metal-to-ligand charge transfer (MLCT) excited states in pre-associated assemblies with H-bonded electron transfer donors or acceptors. In these assemblies, photochemically induced electron and proton transfer occur in a single, semi-concerted event to give high-energy, redox active intermediates.  相似文献   

13.
The capacity to transfer protons between surface groups is an innate property of many proteins. The transfer of a proton between donor and acceptor, located as far as 6-7 A apart, necessitates the participation of water molecules in the process. In a previous study we investigated the mechanism of proton transfer (PT) between bulk exposed sites, a few ?ngstr?ms apart, using as a model the proton exchange between the proton-binding sites of the fluorescein molecule in dilute aqueous solution.1 The present study expands the understanding of PT reactions between adjacent sites exposed to water through the calculation the minimum energy pathways (MEPs) by the conjugate peak refinement algorithm2 and a quantum-mechanical potential. The PT reaction trajectories were calculated for the fluorescein system with an increasing number of water molecules. The MEP calculations reveal that the transition state is highly strained and involves a supramolecular structure in which fluorescein and the interconnecting water molecules are covalently bonded together and the protons are shared between neighboring oxygens. These findings are in accord with the high activation energy, as measured for the reaction, and indicate that PT reactions on the surface proceed by a semi- or fully concerted rather than stepwise mechanism. A similar mechanism is assumed to be operative on the surface of proteins and renders water-mediated PT reactions as highly efficient as they are.  相似文献   

14.
In a previous study of ab initio dynamics, the proton transfer in bacteriorhodopsin from protonated asp96 in the cytoplasmic region toward the deprotonated Schiff base was investigated. A quantum mechanics/molecular mechanics model was constructed from the X-ray structure of bacteriorhodopsin E204Q mutant. In this model, asp96, asp85, and thr89 as well as most of the retinal chromophore and the Schiff base link of lys216 were treated quantum mechanically while the rest of the atoms were treated molecular mechanically. A channel was found in the X-ray structure allowing a water chain to form between the asp96 and Schiff base. In the present study, a chain of four waters from asp96 to the Schiff base N coupled with one branching water supports proton transfer as a concerted event in about 3.5 ps. With both a neutral asp85 and a branched water, the dynamics is now found to be more complicated than observed in the initial study for the transition from the photocycle late M state to the N state. Proton transfer is also observed from the Schiff base back to asp96 demonstrating that there is no effective barrier to proton transfer larger than kT in a strong H-bonded network. The binding of the branched water to the four water chains can dynamically hinder the proton transfer.  相似文献   

15.
The BLUF (blue light sensor using flavin adenine dinucleotide) domain is widely studied as a prototype for proton coupled electron transfer (PCET) reactions in biological systems. In this work, the photo-induced concerted PCET reaction from the light state of the AppA BLUF domain is investigated. To model the simultaneous transfer of two protons in the reaction, two-dimensional potential energy surfaces for the double proton transfer are first calculated for the locally excited and charge transfer states, which are then used to obtain the vibrational wave function overlaps and the vibrational energy levels. Contributions to the PCET rate constant from each pair of vibronic states are then analyzed using the theory based on the Fermi's golden rule. We show that, the recently proposed light state structure of the BLUF domain with a tautomerized Gln63 residue is consistent with the concerted transfer of one electron and two protons. It is also found that, thermal fluctuations of the protein structure, especially the proton donor-acceptor distances, play an important role in determining the PCET reaction rate. © 2018 Wiley Periodicals, Inc.  相似文献   

16.
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.  相似文献   

17.
A homologous series of four molecules in which a phenol unit is linked covalently to a rhenium(I) tricarbonyl diimine photooxidant via a variable number of p-xylene spacers (n = 0-3) was synthesized and investigated. The species with a single p-xylene spacer was structurally characterized to get some benchmark distances. Photoexcitation of the metal complex in the shortest dyad (n = 0) triggers release of the phenolic proton to the acetonitrile/water solvent mixture; a H/D kinetic isotope effect (KIE) of 2.0 ± 0.4 is associated with this process. Thus, the shortest dyad basically acts like a photoacid. The next two longer dyads (n = 1, 2) exhibit intramolecular photoinduced phenol-to-rhenium electron transfer in the rate-determining excited-state deactivation step, and there is no significant KIE in this case. For the dyad with n = 1, transient absorption spectroscopy provided evidence for release of the phenolic proton to the solvent upon oxidation of the phenol by intramolecular photoinduced electron transfer. Subsequent thermal charge recombination is associated with a H/D KIE of 3.6 ± 0.4 and therefore is likely to involve proton motion in the rate-determining reaction step. Thus, some of the longer dyads (n = 1, 2) exhibit photoinduced proton-coupled electron transfer (PCET), albeit in a stepwise (electron transfer followed by proton transfer) rather than concerted manner. Our study demonstrates that electronically strongly coupled donor-acceptor systems may exhibit significantly different photoinduced PCET chemistry than electronically weakly coupled donor-bridge-acceptor molecules.  相似文献   

18.
The mechanism for tyrosyl radical generation in the [Re(P-Y)(phen)(CO)3]PF6 complex is investigated with a multistate continuum theory for proton-coupled electron transfer (PCET) reactions. Both water and the phosphate buffer are considered as potential proton acceptors. The calculations indicate that the model in which the proton acceptor is the phosphate buffer species HPO(4)2- can successfully reproduce the experimentally observed pH dependence of the overall rate and H/D kinetic isotope effect, whereas the model in which the proton acceptor is water is not physically reasonable for this system. The phosphate buffer species HPO4(2-) is favored over water as the proton acceptor in part because the proton donor-acceptor distance is approximately 0.2 A smaller for the phosphate acceptor due to its negative charge. The physical quantities impacting the overall rate constant, including the reorganization energies, reaction free energies, activation free energies, and vibronic couplings for the various pairs of reactant/product vibronic states, are analyzed for both hydrogen and deuterium transfer. The dominant contribution to the rate arises from nonadiabatic transitions between the ground reactant vibronic state and the third product vibronic state for hydrogen transfer and the fourth product vibronic state for deuterium transfer. These contributions dominate over contributions from lower product states because of the larger vibronic coupling, which arises from the greater overlap between the reactant and product vibrational wave functions. These calculations provide insight into the fundamental mechanism of tyrosyl radical generation, which plays an important role in a wide range of biologically important processes.  相似文献   

19.
卢涛  李象远 《化学学报》2008,66(4):433-436
用CHARMM程序以细菌紫红质1R84晶体为模型, 模拟了在等温定容条件下细菌紫红质在1 ps过程中的变化, 分析了与质子传递相关的ASP85, ASP212和水分子与视黄醛间氢键的结构变化情况. 考虑到氨基酸残基和席夫碱质子的不同距离, 考察了EC和PC两种结构的变化情况, 探讨了紫红质中质子传递的可能途径. 模拟结果表明1R84中可能的质子连续传递的机理是质子由席夫碱向水传递, 再由水向ASP85传递. 发现Asp212在模拟过程中保持EC结构, 这样可能更有利于顺序质子传递.  相似文献   

20.
Three phenols with pendant, hydrogen-bonded bases (HOAr-B) have been oxidized in MeCN with various one-electron oxidants. The bases are a primary amine (-CPh(2)NH(2)), an imidazole, and a pyridine. The product of chemical and quasi-reversible electrochemical oxidations in each case is the phenoxyl radical in which the phenolic proton has transferred to the base, (*)OAr-BH(+), a proton-coupled electron transfer (PCET) process. The redox potentials for these oxidations are lower than for other phenols, predominately from the driving force for proton movement. One-electron oxidation of the phenols occurs by a concerted proton-electron transfer (CPET) mechanism, based on thermochemical arguments, isotope effects, and DeltaDeltaG(++)/DeltaDeltaG degrees . The data rule out stepwise paths involving initial electron transfer to form the phenol radical cations [(*)(+)HOAr-B] or initial proton transfer to give the zwitterions [(-)OAr-BH(+)]. The rate constant for heterogeneous electron transfer from HOAr-NH(2) to a platinum electrode has been derived from electrochemical measurements. For oxidations of HOAr-NH(2), the dependence of the solution rate constants on driving force, on temperature, and on the nature of the oxidant, and the correspondence between the homogeneous and heterogeneous rate constants, are all consistent with the application of adiabatic Marcus theory. The CPET reorganization energies, lambda = 23-56 kcal mol(-)(1), are large in comparison with those for electron transfer reactions of aromatic compounds. The reactions are not highly non-adiabatic, based on minimum values of H(rp) derived from the temperature dependence of the rate constants. These are among the first detailed analyses of CPET reactions where the proton and electron move to different sites.  相似文献   

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