A1 Journal article (refereed)
Predictive First-principles Modeling of a Photosynthetic Antenna Protein : The Fenna-Matthews-Olson Complex (2020)


Kim, Yongbin; Morozov, Dmitry; Stadnytskyi, Valentyn; Savikhin, Sergei; Slipchenko, Lyudmila (2020). Predictive First-principles Modeling of a Photosynthetic Antenna Protein : The Fenna-Matthews-Olson Complex. Journal of Physical Chemistry Letters, 11 (5), 1636-1643. DOI: 10.1021/acs.jpclett.9b03486


JYU authors or editors


Publication details

All authors or editors: Kim, Yongbin; Morozov, Dmitry; Stadnytskyi, Valentyn; Savikhin, Sergei; Slipchenko, Lyudmila

Journal or series: Journal of Physical Chemistry Letters

eISSN: 1948-7185

Publication year: 2020

Volume: 11

Issue number: 5

Pages range: 1636-1643

Publisher: American Chemical Society

Publication country: United States

Publication language: English

DOI: http://doi.org/10.1021/acs.jpclett.9b03486

Open Access: Publication channel is not openly available

Publication is parallel published (JYX): https://jyx.jyu.fi/handle/123456789/67903


Abstract

High efficiency of light harvesting in photosynthetic pigment-protein complexes is governed by evolutionary-perfected protein-assisted tuning of individual pigment properties and inter-pigment interactions. Due to the large number of spectrally overlapping pigments in a typical photosynthetic complex, experimental methods often fail to unambiguously identify individual chromophore properties. Here we report a first principles-based modeling protocol capable of predicting properties of pigments in protein environment to a high precision. The technique was applied to successfully uncover electronic properties of the Fenna-Matthews-Olson (FMO) pigment-protein complex. Each of the three subunits of the FMO complex contains eight strongly coupled bacteriochlorophyll a (BChl a) pigments. The excitonic structure of FMO can be described by an electronic Hamiltonian containing excitation (site) energies of BChl a pigments and electronic couplings between them. Several such Hamiltonians have been developed in the past based on the information from various spectroscopic measurements of FMO; however, fine details of the excitonic structure and energy transfer in FMO, especially assignments of short-lived high-energy sites, remain elusive. Utilizing polarizable embedding QM/MM with the effective fragment potentials (EFP) we were able to compute the electronic Hamiltonian of FMO that is in general agreement with previously reported empirical Hamiltonians and quantitatively reproduces experimental absorption and circular dichroism (CD) spectra of the FMO protein. The developed computational protocol is sufficiently simple and can be utilized for predictive modeling of other wild type and mutated photosynthetic pigment-protein complexes.


Keywords: proteins; pigments; modelling (creation related to information); spectroscopy

Free keywords: pigment-protein complex; Fenna-Matthews-Olson protein; QM/MM; QM/EFP; effective fragment potential; polarizable embedding


Contributing organizations


Related projects

Excitation energy transfer in chemical and biological systems
Morozov, Dmitry
Academy of Finland
01/09/2015-31/08/2018


Ministry reporting: Yes

Reporting Year: 2020

Preliminary JUFO rating: 3


Last updated on 2020-18-08 at 13:11