• Energy Research
• chemical sciences close

Structure-based calculations are combined with quantitative modeling of spectra and energy transfer dynamics to detemine the energy transfer scheme of the PE545 principal light-harvesting antenna of the cryptomonad Rhodomonas CS24. We use a recently developed quantum-mechanics/molecular mechanics (QM/MM) method that allows us to account for pigment-protein interactions at atomic detail in site energies, transition dipole moments, and electronic couplings. In addition, conformational flexibility of the pigment-protein complex is accounted for through molecular dynamics (MD) simulations. We find that conformational disorder largely smoothes the large energetic differences predicted from the crystal structure between the pseudosymmetric pairs PEB50/61C-PEB50/61D and PEB82C-PEB82D. Moreover, we find that, in contrast to chlorophyll-based photosynthetic complexes, pigment composition and conformation play a major role in defining the energy ladder in the PE545 complex, rather than specific pigment-protein interactions. This is explained by the remarkable conformational flexibility of the eight bilin pigments in PE545, characterized by a quasi-linear arrangement of four pyrrole units. The MD-QM/MM site energies allow us to reproduce the main features of the spectra, and minor adjustments of the energies of the three red-most pigments DBV19A, DBV19B, and PEB82D allow us to model the spectra of PE545 with a similar quality compared to our original model (model E from Novoderezhkin et al. Biophys. J.2010, 99, 344), which was extracted from the spectral and kinetic fit. Moreover, the fit of the transient absorption kinetics is even better in the new structure-based model. The largest difference between our previous and present results is that the MD-QM/MM calculations predict a much smaller gap between the PEB50/61C and PEB50/61D sites, in better accord with chemical intuition. We conclude that the current adjusted MD-QM/MM energies are more reliable in order to explore the spectral properties and energy transfer dynamics in the PE545 complex.

We compare various theoretical approaches that are frequently used for modeling the excitation dynamics in photosynthetic light-harvesting complexes. As an example, we calculate the dynamics in the major light-harvesting complex from higher plants using the standard Redfield theory, the coherent modified Redfield theory combined with the generalized Forster theory, and the scaled hierarchical equation of motion (HEOM). The modified Redfield and coherent modified Redfield theories predict unrealistically fast transfers between weakly coupled and isoenergetic sites due to the secular character of these approaches. This shortcoming can be excluded by the artificial breaking of exciton mixing between these sites and invoking a generalized Forster theory to calculate the transfers between them. A critical cutoff indicating which exciton couplings should be broken is dependent on the energy gap between the corresponding sites (and therefore can be different for different parts of the complex). An adequate determination of the strongly coupled compartments of the whole complex allows us to obtain a quantitatively correct description with the combined Redfield-Forster approach, resulting in kinetics not much different from the exact HEOM solution.