101
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Anna JM, Scholes GD, van Grondelle R. A Little Coherence in Photosynthetic Light Harvesting. Bioscience 2013. [DOI: 10.1093/biosci/bit002] [Citation(s) in RCA: 31] [Impact Index Per Article: 2.8] [Reference Citation Analysis] [Track Full Text] [Journal Information] [Subscribe] [Scholar Register] [Indexed: 11/13/2022] Open
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102
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Maiuri M, Snellenburg JJ, van Stokkum IHM, Pillai S, WongCarter K, Gust D, Moore TA, Moore AL, van Grondelle R, Cerullo G, Polli D. Ultrafast Energy Transfer and Excited State Coupling in an Artificial Photosynthetic Antenna. J Phys Chem B 2013; 117:14183-90. [DOI: 10.1021/jp401073w] [Citation(s) in RCA: 17] [Impact Index Per Article: 1.5] [Reference Citation Analysis] [Track Full Text] [Journal Information] [Subscribe] [Scholar Register] [Indexed: 11/28/2022]
Affiliation(s)
- M. Maiuri
- IFN-CNR, Dipartimento di Fisica, Politecnico di Milano, Piazza L. da Vinci, 32, 20133 Milano, Italy
| | - J. J. Snellenburg
- Department of Physics
and Astronomy, VU University Amsterdam, De Boelelaan 1081, 1081HV Amsterdam, The Netherlands
| | - I. H. M. van Stokkum
- Department of Physics
and Astronomy, VU University Amsterdam, De Boelelaan 1081, 1081HV Amsterdam, The Netherlands
| | - S. Pillai
- Department of Chemistry & Biochemistry and The Center for Bioenergy and Photosynthesis, Arizona State University, Tempe, Arizona 85287-1605, United States
| | - K. WongCarter
- Department of Chemistry & Biochemistry and The Center for Bioenergy and Photosynthesis, Arizona State University, Tempe, Arizona 85287-1605, United States
| | - D. Gust
- Department of Chemistry & Biochemistry and The Center for Bioenergy and Photosynthesis, Arizona State University, Tempe, Arizona 85287-1605, United States
| | - T. A. Moore
- Department of Chemistry & Biochemistry and The Center for Bioenergy and Photosynthesis, Arizona State University, Tempe, Arizona 85287-1605, United States
| | - A. L. Moore
- Department of Chemistry & Biochemistry and The Center for Bioenergy and Photosynthesis, Arizona State University, Tempe, Arizona 85287-1605, United States
| | - R. van Grondelle
- Department of Physics
and Astronomy, VU University Amsterdam, De Boelelaan 1081, 1081HV Amsterdam, The Netherlands
| | - G. Cerullo
- IFN-CNR, Dipartimento di Fisica, Politecnico di Milano, Piazza L. da Vinci, 32, 20133 Milano, Italy
| | - D. Polli
- IFN-CNR, Dipartimento di Fisica, Politecnico di Milano, Piazza L. da Vinci, 32, 20133 Milano, Italy
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103
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List NH, Curutchet C, Knecht S, Mennucci B, Kongsted J. Toward Reliable Prediction of the Energy Ladder in Multichromophoric Systems: A Benchmark Study on the FMO Light-Harvesting Complex. J Chem Theory Comput 2013; 9:4928-38. [DOI: 10.1021/ct400560m] [Citation(s) in RCA: 42] [Impact Index Per Article: 3.8] [Reference Citation Analysis] [Track Full Text] [Journal Information] [Subscribe] [Scholar Register] [Indexed: 12/22/2022]
Affiliation(s)
- Nanna Holmgaard List
- Department
of Physics, Chemistry and Pharmacy, University of Southern Denmark, Campusvej 55, DK-5230 Odense M, Denmark
| | - Carles Curutchet
- Departament
de Fisicoquímica, Facultat de Farmàcia, Universitat de Barcelona, Av. Joan XXIII s/n, 08028 Barcelona, Spain
| | - Stefan Knecht
- Department
of Physics, Chemistry and Pharmacy, University of Southern Denmark, Campusvej 55, DK-5230 Odense M, Denmark
- Laboratory
of Physical Chemistry, ETH Zürich, Wolfgang-Pauli-Straße 10, 8093 Zürich, Switzerland
| | - Benedetta Mennucci
- Dipartimento
di Chimica e Chimica Industriale, University of Pisa, Via Risorgimento
35, 56126 Pisa, Italy
| | - Jacob Kongsted
- Department
of Physics, Chemistry and Pharmacy, University of Southern Denmark, Campusvej 55, DK-5230 Odense M, Denmark
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104
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van Amerongen H, Croce R. Light harvesting in photosystem II. PHOTOSYNTHESIS RESEARCH 2013; 116:251-63. [PMID: 23595278 PMCID: PMC3824292 DOI: 10.1007/s11120-013-9824-3] [Citation(s) in RCA: 81] [Impact Index Per Article: 7.4] [Reference Citation Analysis] [Abstract] [Key Words] [MESH Headings] [Track Full Text] [Subscribe] [Scholar Register] [Received: 01/27/2013] [Accepted: 04/08/2013] [Indexed: 05/18/2023]
Abstract
Water oxidation in photosynthesis takes place in photosystem II (PSII). This photosystem is built around a reaction center (RC) where sunlight-induced charge separation occurs. This RC consists of various polypeptides that bind only a few chromophores or pigments, next to several other cofactors. It can handle far more photons than the ones absorbed by its own pigments and therefore, additional excitations are provided by the surrounding light-harvesting complexes or antennae. The RC is located in the PSII core that also contains the inner light-harvesting complexes CP43 and CP47, harboring 13 and 16 chlorophyll pigments, respectively. The core is surrounded by outer light-harvesting complexes (Lhcs), together forming the so-called supercomplexes, at least in plants. These PSII supercomplexes are complemented by some "extra" Lhcs, but their exact location in the thylakoid membrane is unknown. The whole system consists of many subunits and appears to be modular, i.e., both its composition and organization depend on environmental conditions, especially on the quality and intensity of the light. In this review, we will provide a short overview of the relation between the structure and organization of pigment-protein complexes in PSII, ranging from individual complexes to entire membranes and experimental and theoretical results on excitation energy transfer and charge separation. It will become clear that time-resolved fluorescence data can provide invaluable information about the organization and functioning of thylakoid membranes. At the end, an overview will be given of unanswered questions that should be addressed in the near future.
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Affiliation(s)
- Herbert van Amerongen
- Laboratory of Biophysics, Wageningen University, P. O. Box 8128, 6700 ET, Wageningen, The Netherlands,
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105
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Renger T, Madjet MEA, Schmidt am Busch M, Adolphs J, Müh F. Structure-based modeling of energy transfer in photosynthesis. PHOTOSYNTHESIS RESEARCH 2013; 116:367-388. [PMID: 23921525 DOI: 10.1007/s11120-013-9893-3] [Citation(s) in RCA: 37] [Impact Index Per Article: 3.4] [Reference Citation Analysis] [Abstract] [MESH Headings] [Grants] [Track Full Text] [Subscribe] [Scholar Register] [Received: 03/02/2013] [Accepted: 07/08/2013] [Indexed: 06/02/2023]
Abstract
We provide a minimal model for a structure-based simulation of excitation energy transfer in pigment-protein complexes (PPCs). In our treatment, the PPC is assembled from its building blocks. The latter are defined such that electron exchange occurs only within, but not between these units. The variational principle is applied to investigate how the Coulomb interaction between building blocks changes the character of the electronic states of the PPC. In this way, the standard exciton Hamiltonian is obtained from first principles and a hierarchy of calculation schemes for the parameters of this Hamiltonian arises. Possible extensions of this approach are discussed concerning (i) the inclusion of dispersive site energy shifts and (ii) the inclusion of electron exchange between pigments. First results on electron exchange within the special pair of photosystem II of cyanobacteria and higher plants are presented and compared with earlier results on purple bacteria. In the last part of this mini-review, the coupling of electronic and nuclear degrees of freedom is considered. First, the standard exciton-vibrational Hamiltonian is parameterized with the help of a normal mode analysis of the PPC. Second, dynamical theories are discussed that exploit this Hamiltonian in the study of dissipative exciton motion.
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Affiliation(s)
- Thomas Renger
- Institut für Theoretische Physik, Johannes Kepler Universität Linz, Altenberger Str. 69, 4040, Linz, Austria,
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106
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Feng X, Pan X, Li M, Pieper J, Chang W, Jankowiak R. Spectroscopic Study of the Light-Harvesting CP29 Antenna Complex of Photosystem II—Part I. J Phys Chem B 2013; 117:6585-92. [DOI: 10.1021/jp4004328] [Citation(s) in RCA: 11] [Impact Index Per Article: 1.0] [Reference Citation Analysis] [Track Full Text] [Journal Information] [Subscribe] [Scholar Register] [Indexed: 11/30/2022]
Affiliation(s)
- Ximao Feng
- Department of Chemistry, Kansas State University, Manhattan, Kansas 66506, United
States
| | - Xiaowei Pan
- National Laboratory
of Biomacromolecules, Institute of Biophysics, Chinese Academy of Sciences, Beijing, China
| | - Mei Li
- National Laboratory
of Biomacromolecules, Institute of Biophysics, Chinese Academy of Sciences, Beijing, China
| | - Jörg Pieper
- Institute of Physics, University of Tartu, Tartu, Estonia
| | - Wenrui Chang
- National Laboratory
of Biomacromolecules, Institute of Biophysics, Chinese Academy of Sciences, Beijing, China
| | - Ryszard Jankowiak
- Department of Chemistry, Kansas State University, Manhattan, Kansas 66506, United
States
- Faculty of Applied Physics and Mathematics, Gdańsk University of Technology, Gdańsk,
Poland
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107
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Alia A, Buda F, de Groot HJ, Matysik J. Solid-State NMR of Nanomachines Involved in Photosynthetic Energy Conversion. Annu Rev Biophys 2013; 42:675-99. [DOI: 10.1146/annurev-biophys-083012-130415] [Citation(s) in RCA: 10] [Impact Index Per Article: 0.9] [Reference Citation Analysis] [Abstract] [Track Full Text] [Journal Information] [Subscribe] [Scholar Register] [Indexed: 11/09/2022]
Abstract
Magic-angle spinning NMR, often in combination with photo-CIDNP, is applied to determine how photosynthetic antennae and reaction centers are activated in the ground state to perform their biological function upon excitation by light. Molecular modeling resolves molecular mechanisms by way of computational integration of NMR data with other structure-function analyses. By taking evolutionary historical contingency into account, a better biophysical understanding is achieved. Chlorophyll cofactors and proteins go through self-assembly trajectories that are engineered during evolution and lead to highly homogeneous protein complexes optimized for exciton or charge transfer. Histidine-cofactor interactions allow biological nanomachines to lower energy barriers for light harvesting and charge separation in photosynthetic energy conversion. In contrast, in primordial chlorophyll antenna aggregates, excessive heterogeneity is paired with much less specific characteristics, and both exciton and charge-transfer character are encoded in the ground state.
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Affiliation(s)
- A. Alia
- Solid State NMR, Leiden Institute of Chemistry, Leiden University, Leiden 2300 RB, The Netherlands;, , ,
| | - Francesco Buda
- Solid State NMR, Leiden Institute of Chemistry, Leiden University, Leiden 2300 RB, The Netherlands;, , ,
| | - Huub J.M. de Groot
- Solid State NMR, Leiden Institute of Chemistry, Leiden University, Leiden 2300 RB, The Netherlands;, , ,
| | - Jörg Matysik
- Solid State NMR, Leiden Institute of Chemistry, Leiden University, Leiden 2300 RB, The Netherlands;, , ,
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108
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Novoderezhkin V, van Grondelle R. Spectra and Dynamics in the B800 Antenna: Comparing Hierarchical Equations, Redfield and Förster Theories. J Phys Chem B 2013; 117:11076-90. [DOI: 10.1021/jp400957t] [Citation(s) in RCA: 34] [Impact Index Per Article: 3.1] [Reference Citation Analysis] [Track Full Text] [Journal Information] [Subscribe] [Scholar Register] [Indexed: 12/20/2022]
Affiliation(s)
- Vladimir Novoderezhkin
- A. N. Belozersky Institute
of
Physico-Chemical Biology, Moscow State University, Moscow, Russia
| | - Rienk van Grondelle
- Department
of Physics and Astronomy,
Faculty of Sciences, VU University Amsterdam, Amsterdam, The Netherlands
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109
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Wand A, Gdor I, Zhu J, Sheves M, Ruhman S. Shedding New Light on Retinal Protein Photochemistry. Annu Rev Phys Chem 2013; 64:437-58. [DOI: 10.1146/annurev-physchem-040412-110148] [Citation(s) in RCA: 53] [Impact Index Per Article: 4.8] [Reference Citation Analysis] [Track Full Text] [Journal Information] [Subscribe] [Scholar Register] [Indexed: 11/09/2022]
Affiliation(s)
- Amir Wand
- Institute of Chemistry and the Farkas Center for Light-Induced Processes, The Hebrew University of Jerusalem, Jerusalem 91904, Israel;
| | - Itay Gdor
- Institute of Chemistry and the Farkas Center for Light-Induced Processes, The Hebrew University of Jerusalem, Jerusalem 91904, Israel;
| | - Jingyi Zhu
- Institute of Chemistry and the Farkas Center for Light-Induced Processes, The Hebrew University of Jerusalem, Jerusalem 91904, Israel;
| | - Mordechai Sheves
- Department of Organic Chemistry, The Weizmann Institute of Science, Rehovot 76100, Israel
| | - Sanford Ruhman
- Institute of Chemistry and the Farkas Center for Light-Induced Processes, The Hebrew University of Jerusalem, Jerusalem 91904, Israel;
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110
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Carotenoid–protein interaction alters the S1 energy of hydroxyechinenone in the Orange Carotenoid Protein. BIOCHIMICA ET BIOPHYSICA ACTA-BIOENERGETICS 2013; 1827:248-54. [DOI: 10.1016/j.bbabio.2012.10.005] [Citation(s) in RCA: 53] [Impact Index Per Article: 4.8] [Reference Citation Analysis] [Track Full Text] [Subscribe] [Scholar Register] [Received: 08/10/2012] [Revised: 10/04/2012] [Accepted: 10/08/2012] [Indexed: 11/19/2022]
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111
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Freiberg A, Pajusalu M, Rätsep M. Excitons in intact cells of photosynthetic bacteria. J Phys Chem B 2013; 117:11007-14. [PMID: 23379598 DOI: 10.1021/jp3098523] [Citation(s) in RCA: 16] [Impact Index Per Article: 1.5] [Reference Citation Analysis] [Abstract] [Track Full Text] [Journal Information] [Subscribe] [Scholar Register] [Indexed: 11/29/2022]
Abstract
Live cells and regular crystals seem fundamentally incompatible. Still, effects characteristic to ideal crystals, such as coherent sharing of excitation, have been recently used in many studies to explain the behavior of several photosynthetic complexes, especially the inner workings of the light-harvesting apparatus of the oldest known photosynthetic organisms, the purple bacteria. To this date, there has been no concrete evidence that the same effects are instrumental in real living cells, leaving a possibility that this is an artifact of unnatural study conditions, not a real effect relevant to the biological operation of bacteria. Hereby, we demonstrate survival of collective coherent excitations (excitons) in intact cells of photosynthetic purple bacteria. This is done by using excitation anisotropy spectroscopy for tracking the temperature-dependent evolution of exciton bands in light-harvesting systems of increasing structural complexity. The temperature was gradually raised from 4.5 K to ambient temperature, and the complexity of the systems ranged from detergent-isolated complexes to complete bacterial cells. The results provide conclusive evidence that excitons are indeed one of the key elements contributing to the energetic and dynamic properties of photosynthetic organisms.
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Affiliation(s)
- Arvi Freiberg
- Institute of Physics, University of Tartu , Riia 142, Tartu 51014, Estonia
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112
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Wells KL, Zhang Z, Rouxel JR, Tan HS. Measuring the Spectral Diffusion of Chlorophyll a Using Two-Dimensional Electronic Spectroscopy. J Phys Chem B 2013; 117:2294-9. [DOI: 10.1021/jp310154y] [Citation(s) in RCA: 34] [Impact Index Per Article: 3.1] [Reference Citation Analysis] [Track Full Text] [Journal Information] [Subscribe] [Scholar Register] [Indexed: 01/18/2023]
Affiliation(s)
- Kym L. Wells
- Division of
Chemistry and Biological
Chemistry, School of Physical and Mathematical Sciences, Nanyang Technological University, Singapore 637371,
Singapore
| | - Zhengyang Zhang
- Division of
Chemistry and Biological
Chemistry, School of Physical and Mathematical Sciences, Nanyang Technological University, Singapore 637371,
Singapore
| | - Jérémy R. Rouxel
- Division of
Chemistry and Biological
Chemistry, School of Physical and Mathematical Sciences, Nanyang Technological University, Singapore 637371,
Singapore
- Laboratoire de
Nanotechnologie
et d’Instrumentation Optique, Université de Technologie de Troyes−Centre National de la Recherche Scientifique (FRE2671), 12 rue Marie Curie, BP 2060, 10010 Troyes
Cedex, France
| | - Howe-Siang Tan
- Division of
Chemistry and Biological
Chemistry, School of Physical and Mathematical Sciences, Nanyang Technological University, Singapore 637371,
Singapore
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113
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Viani L, Curutchet C, Mennucci B. Spatial and Electronic Correlations in the PE545 Light-Harvesting Complex. J Phys Chem Lett 2013; 4:372-377. [PMID: 26281726 DOI: 10.1021/jz301987u] [Citation(s) in RCA: 22] [Impact Index Per Article: 2.0] [Reference Citation Analysis] [Abstract] [Key Words] [Track Full Text] [Journal Information] [Subscribe] [Scholar Register] [Indexed: 06/04/2023]
Abstract
The recent discovery of long-lasting quantum coherence effects in photosynthetic pigment-protein complexes has challenged our view of the role that protein motions play in light-harvesting processes. Several groups have suggested that correlated fluctuations involving the pigments site energies and couplings could be at the origin of such unexpected behavior. Here we combine molecular dynamics simulations with quantum mechanics/molecular mechanics calculations to analyze the degree of correlated fluctuations in the PE545 complex of Rhodomonas sp. strain CS24. We find that correlations between the motions of the chromophores, which are significantly assisted by the water solvent, do not translate into appreciable site energy correlations but do lead to significant cross-correlations of energies and couplings. Such behavior, not observed in a recent study on the Fenna-Mathews-Olson complex, seems to provide phycobiliproteins with an additional fundamental mechanism to control quantum coherence and light-harvesting efficiency compared with chlorophyll-containing complexes.
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Affiliation(s)
- Lucas Viani
- †Dipartimento di Chimica e Chimica Industriale, Università di Pisa, via Risorgimento 35, 56126 Pisa, Italy
| | - Carles Curutchet
- ‡Departament de Fisicoquímica, Facultat de Farmàcia, Universitat de Barcelona, Av. Joan XXIII s/n, 08028 Barcelona, Spain
| | - Benedetta Mennucci
- †Dipartimento di Chimica e Chimica Industriale, Università di Pisa, via Risorgimento 35, 56126 Pisa, Italy
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114
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Renger T, Müh F. Understanding photosynthetic light-harvesting: a bottom up theoretical approach. Phys Chem Chem Phys 2013; 15:3348-71. [PMID: 23361062 DOI: 10.1039/c3cp43439g] [Citation(s) in RCA: 125] [Impact Index Per Article: 11.4] [Reference Citation Analysis] [Abstract] [Track Full Text] [Journal Information] [Subscribe] [Scholar Register] [Indexed: 11/21/2022]
Abstract
We discuss a bottom up approach for modeling photosynthetic light-harvesting. Methods are reviewed for a full structure-based parameterization of the Hamiltonian of pigment-protein complexes (PPCs). These parameters comprise (i) the local transition energies of the pigments in their binding sites in the protein, the site energies; (ii) the couplings between optical transitions of the pigments, the excitonic couplings; and (iii) the spectral density characterizing the dynamic modulation of pigment transition energies and excitonic couplings by protein vibrations. Starting with quantum mechanics perturbation theory, we provide a microscopic foundation for the standard PPC Hamiltonian and relate the expressions obtained for its matrix elements to quantities that can be calculated with classical molecular mechanics/electrostatics approaches including the whole PPC in atomic detail and using charge and transition densities obtained with quantum chemical calculations on the isolated building blocks of the PPC. In the second part of this perspective, the Hamiltonian is utilized to describe the quantum dynamics of excitons. Situations are discussed that differ in the relative strength of excitonic and exciton-vibrational coupling. The predictive power of the approaches is demonstrated in application to different PPCs, and challenges for future work are outlined.
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Affiliation(s)
- Thomas Renger
- Institut für Theoretische Physik, Johannes Kepler Universität Linz, Linz, Austria.
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115
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Duffy CDP, Valkunas L, Ruban AV. Light-harvesting processes in the dynamic photosynthetic antenna. Phys Chem Chem Phys 2013; 15:18752-70. [DOI: 10.1039/c3cp51878g] [Citation(s) in RCA: 29] [Impact Index Per Article: 2.6] [Reference Citation Analysis] [Track Full Text] [Journal Information] [Subscribe] [Scholar Register] [Indexed: 11/21/2022]
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116
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Anna JM, Ostroumov EE, Maghlaoui K, Barber J, Scholes GD. Two-Dimensional Electronic Spectroscopy Reveals Ultrafast Downhill Energy Transfer in Photosystem I Trimers of the Cyanobacterium Thermosynechococcus elongatus. J Phys Chem Lett 2012; 3:3677-84. [PMID: 26291095 DOI: 10.1021/jz3018013] [Citation(s) in RCA: 27] [Impact Index Per Article: 2.3] [Reference Citation Analysis] [Abstract] [Key Words] [Track Full Text] [Journal Information] [Subscribe] [Scholar Register] [Indexed: 05/27/2023]
Abstract
Two-dimensional electronic spectroscopy (2DES) was used to investigate the ultrafast energy-transfer dynamics of trimeric photosystem I of the cyanobacterium Thermosynechococcus elongatus. We demonstrate the ability of 2DES to resolve dynamics in a large pigment-protein complex containing ∼300 chromophores with both high frequency and time resolution. Monitoring the waiting-time-dependent changes of the line shape of the inhomogeneously broadened Qy(0-0) transition, we directly observe downhill energy equilibration on the 50 fs time scale.
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Affiliation(s)
- Jessica M Anna
- †Department of Chemistry, Institute for Optical Sciences and Centre for Quantum Information and Quantum Control, University of Toronto, 80 St. George Street, Toronto, Ontario, M5S 3H6, Canada
| | - Evgeny E Ostroumov
- †Department of Chemistry, Institute for Optical Sciences and Centre for Quantum Information and Quantum Control, University of Toronto, 80 St. George Street, Toronto, Ontario, M5S 3H6, Canada
| | - Karim Maghlaoui
- ‡Division of Molecular Bioscience, Department of Life Sciences, Imperial College London, Sir Ernst Chain Building - Wolfson Laboratories, South Kensington Campus, London, SW7 2AZ, United Kingdom
| | - James Barber
- ‡Division of Molecular Bioscience, Department of Life Sciences, Imperial College London, Sir Ernst Chain Building - Wolfson Laboratories, South Kensington Campus, London, SW7 2AZ, United Kingdom
| | - Gregory D Scholes
- †Department of Chemistry, Institute for Optical Sciences and Centre for Quantum Information and Quantum Control, University of Toronto, 80 St. George Street, Toronto, Ontario, M5S 3H6, Canada
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117
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Ottiger P, Leutwyler S. Excitonic splitting and coherent electronic energy transfer in the gas-phase benzoic acid dimer. J Chem Phys 2012. [DOI: 10.1063/1.4767400] [Citation(s) in RCA: 14] [Impact Index Per Article: 1.2] [Reference Citation Analysis] [Track Full Text] [Journal Information] [Subscribe] [Scholar Register] [Indexed: 11/14/2022] Open
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118
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Molecular response in one-photon absorption via natural thermal light vs. pulsed laser excitation. Proc Natl Acad Sci U S A 2012; 109:19575-8. [PMID: 23150567 DOI: 10.1073/pnas.1211209109] [Citation(s) in RCA: 114] [Impact Index Per Article: 9.5] [Reference Citation Analysis] [Abstract] [Track Full Text] [Journal Information] [Subscribe] [Scholar Register] [Indexed: 11/18/2022] Open
Abstract
Photoinduced biological processes occur via one-photon absorption in natural light, which is weak, continuous wave, and incoherent, but are often studied in the laboratory using pulsed coherent light. Here, we compare the response of a molecule to these two very different sources within a quantized radiation field picture. The latter is shown to induce coherent time evolution in the molecule, whereas the former does not. As a result, the coherent time dependence observed in the laboratory experiments will not be relevant to the natural biological process. Emphasis is placed on resolving confusions regarding this issue that are shown to arise from aspects of quantum measurement and from a lack of appreciation of the proper description of the absorbed photon.
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119
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Curutchet C, Novoderezhkin VI, Kongsted J, Muñoz-Losa A, van Grondelle R, Scholes GD, Mennucci B. Energy Flow in the Cryptophyte PE545 Antenna Is Directed by Bilin Pigment Conformation. J Phys Chem B 2012; 117:4263-73. [DOI: 10.1021/jp305033d] [Citation(s) in RCA: 43] [Impact Index Per Article: 3.6] [Reference Citation Analysis] [Track Full Text] [Journal Information] [Subscribe] [Scholar Register] [Indexed: 02/08/2023]
Affiliation(s)
- Carles Curutchet
- Departament de Fisicoquímica,
Facultat de Farmàcia, Universitat de Barcelona, Av. Joan XXIII s/n, 08028 Barcelona, Spain
| | | | - Jacob Kongsted
- Department
of Physics, Chemistry
and Pharmacy, University of Southern Denmark, Campusvej 55, DK-5230 Odense M, Denmark
| | - Aurora Muñoz-Losa
- Dipartimento di Chimica e Chimica
Industriale, Università di Pisa,
via Risorgimento 35, 56126 Pisa, Italy
| | - Rienk van Grondelle
- Department of Physics and Astronomy,
Faculty of Sciences, VU University Amsterdam, Amsterdam, The Netherlands
| | - Gregory D. Scholes
- Department of Chemistry, 80 St. George
Street, Institute for Optical Sciences, and Centre for Quantum Information
and Quantum Control, University of Toronto, Toronto, Ontario, M5S 3H6 Canada
| | - Benedetta Mennucci
- Dipartimento di Chimica e Chimica
Industriale, Università di Pisa,
via Risorgimento 35, 56126 Pisa, Italy
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120
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Caprasecca S, Curutchet C, Mennucci B. Toward a Unified Modeling of Environment and Bridge-Mediated Contributions to Electronic Energy Transfer: A Fully Polarizable QM/MM/PCM Approach. J Chem Theory Comput 2012; 8:4462-73. [DOI: 10.1021/ct300620w] [Citation(s) in RCA: 66] [Impact Index Per Article: 5.5] [Reference Citation Analysis] [Track Full Text] [Journal Information] [Subscribe] [Scholar Register] [Indexed: 01/31/2023]
Affiliation(s)
- Stefano Caprasecca
- Dipartimento di Chimica e Chimica Industriale, University of Pisa,
Via Risorgimento 35, 56126 Pisa, Italy
| | - Carles Curutchet
- Departament de Fisicoquímica, Facultat de
Farmàcia, Universitat de Barcelona Av. Joan XXIII s/n, 08028
Barcelona, Spain
| | - Benedetta Mennucci
- Dipartimento di Chimica e Chimica Industriale, University of Pisa,
Via Risorgimento 35, 56126 Pisa, Italy
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121
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Ottiger P, Leutwyler S, Köppel H. Vibrational quenching of excitonic splittings in H-bonded molecular dimers: the electronic Davydov splittings cannot match experiment. J Chem Phys 2012; 136:174308. [PMID: 22583231 DOI: 10.1063/1.4705119] [Citation(s) in RCA: 43] [Impact Index Per Article: 3.6] [Reference Citation Analysis] [Abstract] [Track Full Text] [Journal Information] [Subscribe] [Scholar Register] [Indexed: 01/22/2023] Open
Abstract
The S(1)/S(2) state exciton splittings of symmetric doubly hydrogen-bonded gas-phase dimers provide spectroscopic benchmarks for the excited-state electronic couplings between UV chromophores. These have important implications for electronic energy transfer in multichromophoric systems ranging from photosynthetic light-harvesting antennae to photosynthetic reaction centers, conjugated polymers, molecular crystals, and nucleic acids. We provide laser spectroscopic data on the S(1)/S(2) excitonic splitting Δ(exp) of the doubly H-bonded o-cyanophenol (oCP) dimer and compare to the splittings of the dimers of (2-aminopyridine)(2), [(2AP)(2)], (2-pyridone)(2), [(2PY)(2)], (benzoic acid)(2), [(BZA)(2)], and (benzonitrile)(2), [(BN)(2)]. The experimental S(1)/S(2) excitonic splittings are Δ(exp) = 16.4 cm(-1) for (oCP)(2), 11.5 cm(-1) for (2AP)(2), 43.5 cm(-1) for (2PY)(2), and <1 cm(-1) for (BZA)(2). In contrast, the vertical S(1)/S(2) energy gaps Δ(calc) calculated by the approximate second-order coupled cluster (CC2) method for the same dimers are 10-40 times larger than the Δ(exp) values. The qualitative failure of this and other ab initio methods to reproduce the exciton splitting Δ(exp) arises from the Born-Oppenheimer (BO) approximation, which implicitly assumes the strong-coupling case and cannot be employed to evaluate excitonic splittings of systems that are in the weak-coupling limit. Given typical H-bond distances and oscillator strengths, the majority of H-bonded dimers lie in the weak-coupling limit. In this case, the monomer electronic-vibrational coupling upon electronic excitation must be accounted for; the excitonic splittings arise between the vibronic (and not the electronic) transitions. The discrepancy between the BO-based splittings Δ(calc) and the much smaller experimental Δ(exp) values is resolved by taking into account the quenching of the BO splitting by the intramolecular vibronic coupling in the monomer S(1) ← S(0) excitation. The vibrational quenching factors Γ for the five dimers (oCP)(2), (2AP)(2), (2AP)(2), (BN)(2), and (BZA)(2) lie in the range Γ = 0.03-0.2. The quenched excitonic splittings Γ[middle dot]Δ(calc) are found to be in very good agreement with the observed splittings Δ(exp). The vibrational quenching approach predicts reliable Δ(exp) values for the investigated dimers, confirms the importance of vibrational quenching of the electronic Davydov splittings, and provides a sound basis for predicting realistic exciton splittings in multichromophoric systems.
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Affiliation(s)
- Philipp Ottiger
- Departement für Chemie und Biochemie, Universität Bern, Freiestrasse 3, CH-3012 Bern, Switzerland
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122
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Hötzer B, Medintz IL, Hildebrandt N. Fluorescence in nanobiotechnology: sophisticated fluorophores for novel applications. SMALL (WEINHEIM AN DER BERGSTRASSE, GERMANY) 2012; 8:2297-326. [PMID: 22678833 DOI: 10.1002/smll.201200109] [Citation(s) in RCA: 99] [Impact Index Per Article: 8.3] [Reference Citation Analysis] [Abstract] [MESH Headings] [Track Full Text] [Subscribe] [Scholar Register] [Received: 01/17/2012] [Revised: 02/22/2012] [Indexed: 05/26/2023]
Abstract
Nanobiotechnology is one of the fastest growing and broadest-ranged interdisciplinary subfields of the nanosciences. Countless hybrid bio-inorganic composites are currently being pursued for various uses, including sensors for medical and diagnostic applications, light- and energy-harvesting devices, along with multifunctional architectures for electronics and advanced drug-delivery. Although many disparate biological and nanoscale materials will ultimately be utilized as the functional building blocks to create these devices, a common element found among a large proportion is that they exert or interact with light. Clearly continuing development will rely heavily on incorporating many different types of fluorophores into these composite materials. This review covers the growing utility of different classes of fluorophores in nanobiotechnology, from both a photophysical and a chemical perspective. For each major structural or functional class of fluorescent probe, several representative applications are provided, and the necessary technological background for acquiring the desired nano-bioanalytical information are presented.
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Affiliation(s)
- Benjamin Hötzer
- NanoBioPhotonics, Institut d'Electronique Fondamentale, Université Paris-Sud, 91405 Orsay Cedex, France
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123
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Exciton annihilation as a probe of the light-harvesting antenna transition into the photoprotective mode. Chem Phys 2012. [DOI: 10.1016/j.chemphys.2012.05.002] [Citation(s) in RCA: 19] [Impact Index Per Article: 1.6] [Reference Citation Analysis] [Track Full Text] [Journal Information] [Subscribe] [Scholar Register] [Indexed: 11/18/2022]
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124
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Marin A, van Stokkum IH, Novoderezhkin VI, van Grondelle R. Excitation-induced polarization decay in the plant light-harvesting complex LHCII. J Photochem Photobiol A Chem 2012. [DOI: 10.1016/j.jphotochem.2011.12.026] [Citation(s) in RCA: 7] [Impact Index Per Article: 0.6] [Reference Citation Analysis] [Track Full Text] [Journal Information] [Subscribe] [Scholar Register] [Indexed: 11/29/2022]
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125
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Wu N, Sun KW, Chang Z, Zhao Y. Resonant energy transfer assisted by off-diagonal coupling. J Chem Phys 2012; 136:124513. [DOI: 10.1063/1.3697817] [Citation(s) in RCA: 11] [Impact Index Per Article: 0.9] [Reference Citation Analysis] [Track Full Text] [Journal Information] [Subscribe] [Scholar Register] [Indexed: 11/14/2022] Open
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126
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Wong CY, Alvey RM, Turner DB, Wilk KE, Bryant DA, Curmi PMG, Silbey RJ, Scholes GD. Electronic coherence lineshapes reveal hidden excitonic correlations in photosynthetic light harvesting. Nat Chem 2012; 4:396-404. [DOI: 10.1038/nchem.1302] [Citation(s) in RCA: 97] [Impact Index Per Article: 8.1] [Reference Citation Analysis] [Track Full Text] [Journal Information] [Subscribe] [Scholar Register] [Received: 07/21/2011] [Accepted: 02/10/2012] [Indexed: 12/11/2022]
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127
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Müh F, Renger T. Refined structure-based simulation of plant light-harvesting complex II: linear optical spectra of trimers and aggregates. BIOCHIMICA ET BIOPHYSICA ACTA-BIOENERGETICS 2012; 1817:1446-60. [PMID: 22387396 DOI: 10.1016/j.bbabio.2012.02.016] [Citation(s) in RCA: 45] [Impact Index Per Article: 3.8] [Reference Citation Analysis] [Abstract] [Track Full Text] [Subscribe] [Scholar Register] [Received: 09/27/2011] [Revised: 02/09/2012] [Accepted: 02/15/2012] [Indexed: 11/27/2022]
Abstract
Linear optical spectra of solubilized trimers and small lamellar aggregates of the major light-harvesting complex II (LHCII) of higher plants are simulated employing excitonic couplings and site energies of chlorophylls (Chls) computed on the basis of the two crystal structures by a combined quantum chemical/electrostatic approach. A good agreement between simulation and experiment is achieved (except for the circular dichroism in the Chl b region), if vibronic transitions of Chls are taken into account. Site energies are further optimized by refinement fits of optical spectra. The differences between refined and directly calculated values are not significant enough to decide, whether the crystal structures are closer to trimers or aggregates. Changes in the linear dichroism spectrum upon aggregation are related to site energy shifts of Chls b601, b607, a603, a610, and a613, and are interpreted in terms of conformational changes of violaxanthin and the two luteins involving their ionone rings. Chl a610 is the energy sink at 77K in both conformations. An analysis of absorption spectra of trimers perpendicular and parallel to the C(3)-axis (van Amerongen et al. Biophys. J. 67 (1994) 837-847) shows that only Chl a604 close to neoxanthin is significantly reoriented in trimers compared to the crystal structures. Whether this pigment is orientated in aggregates as in the crystal structures, can presently not be determined faithfully. To finally decide about pigment reorientations that could be of relevance for non-photochemical quenching, further polarized absorption and fluorescence measurements of aggregates or detergent-depleted LHCII would be helpful. This article is part of a Special Issue entitled: Photosynthesis Research for Sustainability: from Natural to Artificial.
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Affiliation(s)
- Frank Müh
- Johannes Kepler Universitat Linz, Linz, Austria.
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128
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Lewis KLM, Ogilvie JP. Probing Photosynthetic Energy and Charge Transfer with Two-Dimensional Electronic Spectroscopy. J Phys Chem Lett 2012; 3:503-10. [PMID: 26286055 DOI: 10.1021/jz201592v] [Citation(s) in RCA: 71] [Impact Index Per Article: 5.9] [Reference Citation Analysis] [Abstract] [Track Full Text] [Journal Information] [Subscribe] [Scholar Register] [Indexed: 05/19/2023]
Abstract
Two-dimensional electronic spectroscopy (2DES) has emerged as a powerful method for elucidating the structure-function relationship in photosynthetic systems. In this Perspective, we discuss features of two-dimensional spectroscopy that make it highly suited to address questions about the underlying electronic structure that guides energy- and charge-transfer processes in light-harvesting materials. We briefly describe a pulse-shaping-based implementation of two-dimensional spectroscopy that is making the method widely accessible to problems spanning frequency regimes from the ultraviolet to the mid-infrared. We illustrate the utility of 2DES in the context of our recent studies of the primary energy-transfer and charge separation events in the photosystem II reaction center, discussing remaining challenges and speculating about exciting future directions for the field of multidimensional spectroscopy.
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Affiliation(s)
- Kristin L M Lewis
- Department of Physics and Biophysics, University of Michigan, Ann Arbor, Michigan 48109-1040, United States
| | - Jennifer P Ogilvie
- Department of Physics and Biophysics, University of Michigan, Ann Arbor, Michigan 48109-1040, United States
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129
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Ishida Y, Masui D, Tachibana H, Inoue H, Shimada T, Takagi S. Controlling the microadsorption structure of porphyrin dye assembly on clay surfaces using the "size-matching rule" for constructing an efficient energy transfer system. ACS APPLIED MATERIALS & INTERFACES 2012; 4:811-816. [PMID: 22216897 DOI: 10.1021/am201465a] [Citation(s) in RCA: 18] [Impact Index Per Article: 1.5] [Reference Citation Analysis] [Abstract] [Track Full Text] [Subscribe] [Scholar Register] [Indexed: 05/31/2023]
Abstract
The microadsorption structure of two kinds of porphyrin molecules on an anionic clay surface was investigated by photochemical energy transfer reaction. Three procedures were examined for the preparation of the clay/porphyrin complexes: (i) coadsorption (CA) method, (ii) sequential adsorption (SA) method, and (iii) independent adsorption (IA) method as described in the text. Efficient and moderate energy transfer reactions were observed in the CA and SA complexes, respectively. On the contrary, the energy transfer did not occur in the IA complex. These results indicate that the microadsorption structure of the two kinds of porphyrin on the clay mineral surface resulting from the sample preparation methods, affects the energy transfer efficiency. As a result, it was revealed that (i) the adsorbed porphyrins can move on the clay mineral surface but cannot move from one clay surface to another clay sheet, and (ii) the integration structure of two kinds of porphyrin is more stable than the segregation structure in the present system. This unusual structure originated from an extremely strong electrostatic interaction between the porphyrin and the clay mineral as a result of a "size-matching rule". These unique strongly fixed dye assemblies on the clay mineral surface, in which the aggregation and segregation of dyes are suppressed, is very promising and attractive for constructing efficient photochemical reaction systems.
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Affiliation(s)
- Yohei Ishida
- Department of Applied Chemistry, Graduate Course of Urban Environmental Sciences, Tokyo Metropolitan University, Minami-ohsawa 1-1, Hachiohji, Tokyo 192-0397 Japan
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130
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Sinayskiy I, Marais A, Petruccione F, Ekert A. Decoherence-assisted transport in a dimer system. PHYSICAL REVIEW LETTERS 2012; 108:020602. [PMID: 22324665 DOI: 10.1103/physrevlett.108.020602] [Citation(s) in RCA: 8] [Impact Index Per Article: 0.7] [Reference Citation Analysis] [Abstract] [Track Full Text] [Subscribe] [Scholar Register] [Received: 03/09/2011] [Revised: 07/07/2011] [Indexed: 05/31/2023]
Abstract
The dynamics of a dimer coupled to two different environments, each in a spin star configuration under the influence of decoherence, is studied. The exact analytical expression for the transition probability in the dimer system is obtained for different situations, i.e., independent and correlated environments. In all cases considered, it is shown that there exist well-defined ranges of parameters for which decoherent interaction with the environment assists energy transfer in the dimer system. In particular, we find that correlated environments can assist energy transfer more efficiently than separate baths.
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Affiliation(s)
- I Sinayskiy
- School of Physics and National Institute for Theoretical Physics, University of KwaZulu-Natal, Durban, South Africa
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131
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Koyama T, Miyata Y, Asaka K, Shinohara H, Saito Y, Nakamura A. Ultrafast energy transfer of one-dimensional excitons between carbon nanotubes: a femtosecond time-resolved luminescence study. Phys Chem Chem Phys 2012; 14:1070-84. [DOI: 10.1039/c1cp22781e] [Citation(s) in RCA: 25] [Impact Index Per Article: 2.1] [Reference Citation Analysis] [Track Full Text] [Journal Information] [Subscribe] [Scholar Register] [Indexed: 11/21/2022]
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132
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Pachón LA, Brumer P. Computational methodologies and physical insights into electronic energy transfer in photosynthetic light-harvesting complexes. Phys Chem Chem Phys 2012; 14:10094-108. [DOI: 10.1039/c2cp40815e] [Citation(s) in RCA: 82] [Impact Index Per Article: 6.8] [Reference Citation Analysis] [Track Full Text] [Journal Information] [Subscribe] [Scholar Register] [Indexed: 12/15/2022]
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133
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Knox RS. Förster's resonance excitation transfer theory: not just a formula. JOURNAL OF BIOMEDICAL OPTICS 2012; 17:011003. [PMID: 22352637 DOI: 10.1117/1.jbo.17.1.011003] [Citation(s) in RCA: 18] [Impact Index Per Article: 1.5] [Reference Citation Analysis] [Abstract] [MESH Headings] [Track Full Text] [Subscribe] [Scholar Register] [Indexed: 05/31/2023]
Abstract
After 65 years of increasing scrutiny and application, Theodor Förster's treatment of resonance excitation transfer is widely quoted and has acquired the acronym FRET, in which "F" originally and rather curiously stood for "fluorescence." In this brief and mostly qualitative survey, we review some of its history, mention its important limitations, and relate some personal encounters with Förster.
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Affiliation(s)
- Robert S Knox
- University of Rochester, Department of Physics and Astronomy, Rochester, New York 14627-0171, USA.
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134
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Schlau-Cohen GS, Fleming GR. Structure, Dynamics, and Function in the Major Light-Harvesting Complex of Photosystem II. Aust J Chem 2012. [DOI: 10.1071/ch12022] [Citation(s) in RCA: 7] [Impact Index Per Article: 0.6] [Reference Citation Analysis] [Abstract] [Track Full Text] [Journal Information] [Subscribe] [Scholar Register] [Indexed: 11/23/2022]
Abstract
In natural light-harvesting systems, pigment-protein complexes (PPC) convert sunlight to chemical energy with near unity quantum efficiency. PPCs exhibit emergent properties that cannot be simply extrapolated from knowledge of their component parts. In this Perspective, we examine the design principles of PPCs, focussing on the major light-harvesting complex of Photosystem II (LHCII), the most abundant PPC in green plants. Studies using two-dimensional electronic spectroscopy (2DES) provide an incisive tool to probe the electronic, energetic, and spatial landscapes that enable the efficiency observed in photosynthetic light-harvesting. Using the information about energy transfer pathways, quantum effects, and excited state geometry contained within 2D spectra, the excited state properties can be linked back to the molecular structure. This understanding of the structure-function relationships of natural systems constitutes a step towards a blueprint for the construction of artificial light-harvesting devices that can reproduce the efficacy of natural systems.
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135
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Wahadoszamen M, Berera R, Ara AM, Romero E, van Grondelle R. Identification of two emitting sites in the dissipative state of the major light harvesting antenna. Phys Chem Chem Phys 2011; 14:759-66. [PMID: 22120671 DOI: 10.1039/c1cp23059j] [Citation(s) in RCA: 75] [Impact Index Per Article: 5.8] [Reference Citation Analysis] [Abstract] [Track Full Text] [Journal Information] [Subscribe] [Scholar Register] [Indexed: 12/20/2022]
Abstract
In order to cope with the deleterious effects of excess light, photosynthetic organisms have developed remarkable strategies where the excess energy is dissipated as heat by the antenna system. In higher plants one main player in the process is the major light harvesting antenna of Photosystem II (PSII), LHCII. In this paper we applied Stark fluorescence spectroscopy to LHCII in different quenching states to investigate the possible contribution of charge-transfer states to the quenching. We find that in the quenched state the fluorescence displays a remarkable sensitivity to the applied electric field. The resulting field-induced emission spectra reveal the presence of two distinct energy dissipating sites both characterized by a strong but spectrally very different response to the applied electric field. We propose the two states to originate from chlorophyll-chlorophyll and chlorophyll-carotenoid charge transfer interactions coupled to the chlorophyll exciton state in the terminal emitter locus and discuss these findings in the light of the different models proposed to be responsible for energy dissipation in photosynthesis.
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Affiliation(s)
- Md Wahadoszamen
- Division of Physics and Astronomy, Department of Biophysics, VU University Amsterdam, Amsterdam, The Netherlands.
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136
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Herascu N, Ahmouda S, Picorel R, Seibert M, Jankowiak R, Zazubovich V. Effects of the Distributions of Energy or Charge Transfer Rates on Spectral Hole Burning in Pigment–Protein Complexes at Low Temperatures. J Phys Chem B 2011; 115:15098-109. [DOI: 10.1021/jp208142k] [Citation(s) in RCA: 15] [Impact Index Per Article: 1.2] [Reference Citation Analysis] [Track Full Text] [Journal Information] [Subscribe] [Scholar Register] [Indexed: 11/30/2022]
Affiliation(s)
- Nicoleta Herascu
- Department of Physics, Concordia University, 7141 Sherbrooke Street West, Montreal, Quebec H4B 1R6 Canada
| | - Somaya Ahmouda
- Department of Physics, Concordia University, 7141 Sherbrooke Street West, Montreal, Quebec H4B 1R6 Canada
| | - Rafael Picorel
- Estacion Experimental Aula Dei (CSIC), Avda. Montañana, 50059 Zaragoza, Spain
- National Renewable Energy Laboratory, Golden, Colorado 80401, United States
| | - Michael Seibert
- National Renewable Energy Laboratory, Golden, Colorado 80401, United States
| | - Ryszard Jankowiak
- Department of Chemistry, Kansas State University, Manhattan, Kansas 66506, United States
| | - Valter Zazubovich
- Department of Physics, Concordia University, 7141 Sherbrooke Street West, Montreal, Quebec H4B 1R6 Canada
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137
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König C, Neugebauer J. Quantum chemical description of absorption properties and excited-state processes in photosynthetic systems. Chemphyschem 2011; 13:386-425. [PMID: 22287108 DOI: 10.1002/cphc.201100408] [Citation(s) in RCA: 96] [Impact Index Per Article: 7.4] [Reference Citation Analysis] [Abstract] [Track Full Text] [Journal Information] [Subscribe] [Scholar Register] [Received: 05/25/2011] [Indexed: 11/07/2022]
Abstract
The theoretical description of the initial steps in photosynthesis has gained increasing importance over the past few years. This is caused by more and more structural data becoming available for light-harvesting complexes and reaction centers which form the basis for atomistic calculations and by the progress made in the development of first-principles methods for excited electronic states of large molecules. In this Review, we discuss the advantages and pitfalls of theoretical methods applicable to photosynthetic pigments. Besides methodological aspects of excited-state electronic-structure methods, studies on chlorophyll-type and carotenoid-like molecules are discussed. We also address the concepts of exciton coupling and excitation-energy transfer (EET) and compare the different theoretical methods for the calculation of EET coupling constants. Applications to photosynthetic light-harvesting complexes and reaction centers based on such models are also analyzed.
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Affiliation(s)
- Carolin König
- Institute for Physical and Theoretical Chemistry, Technical University Braunschweig, Braunschweig, Germany
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138
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139
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Novoderezhkin V, Marin A, van Grondelle R. Intra- and inter-monomeric transfers in the light harvesting LHCII complex: the Redfield-Förster picture. Phys Chem Chem Phys 2011; 13:17093-103. [PMID: 21866281 DOI: 10.1039/c1cp21079c] [Citation(s) in RCA: 114] [Impact Index Per Article: 8.8] [Reference Citation Analysis] [Abstract] [Track Full Text] [Journal Information] [Subscribe] [Scholar Register] [Indexed: 12/11/2022]
Abstract
We further develop the model of energy transfer in the LHCII trimer based on a quantitative fit of the linear spectra (including absorption (OD), linear dichroism (LD), circular dichroism (CD), and fluorescence (FL)) and transient absorption (TA) kinetics upon 650 nm and 662 nm excitation. The spectral shapes and relaxation/migration rates have been calculated using the combined Redfield-Förster approach capable of correctly describing fast relaxation within strongly coupled chlorophyll (Chl) a and b clusters and slow migration between them. Within each monomeric subunit of the trimeric complex there is fast (sub-ps) conversion from Chl's b to Chl's a at the stromal side accompanied by slow (>10 ps) equilibration between the stromal- and lumenal-side Chl a clusters in combination with slow (>13 ps) population of Chl's a from the 'bottleneck' Chl a604 site. The connection between monomeric subunits is determined by exciton coupling between the stromal-side Chl's b from the two adjacent subunits (Chl b601'-608-609 cluster) making a simultaneous fast (sub-ps) population of the Chl's a possible from both subunits. Final equilibration occurs via slow (>20 ps) migration between the Chl a clusters located on different monomeric subunits. This migration includes up-hill transfers from the red-most Chl a610-611-612 clusters located at the peripheral side in each subunit to the Chl a602-603 dimers located at the inner side of the trimeric LHCII complex.
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Affiliation(s)
- Vladimir Novoderezhkin
- A. N. Belozersky Institute of Physico-Chemical Biology, Moscow State University, Leninskie Gory, 119992, Moscow, Russia.
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140
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Renger T, Madjet ME, Knorr A, Müh F. How the molecular structure determines the flow of excitation energy in plant light-harvesting complex II. JOURNAL OF PLANT PHYSIOLOGY 2011; 168:1497-1509. [PMID: 21330003 DOI: 10.1016/j.jplph.2011.01.004] [Citation(s) in RCA: 43] [Impact Index Per Article: 3.3] [Reference Citation Analysis] [Abstract] [MESH Headings] [Track Full Text] [Subscribe] [Scholar Register] [Received: 09/25/2010] [Revised: 01/07/2011] [Accepted: 01/10/2011] [Indexed: 05/30/2023]
Abstract
Excitation energy transfer in the light-harvesting complex II of higher plants is modeled using excitonic couplings and local transition energies determined from structure-based calculations recently (Müh et al., 2010). A theory is introduced that implicitly takes into account protein induced dynamic localization effects of the exciton wavefunction between weakly coupled optical and vibronic transitions of different pigments. Linear and non-linear optical spectra are calculated and compared with experimental data reaching qualitative agreement. High-frequency intramolecular vibrational degrees of freedom are found important for ultrafast subpicosecond excitation energy transfer between chlorophyll (Chl) b and Chla, since they allow for fast dissipation of the excess energy. The slower ps component of this transfer is due to the monomeric excited state of Chlb 605. The majority of exciton relaxation in the Chla spectral region is characterized by slow ps exciton equilibration between the Chla domains within one layer and between the lumenal and stromal layers in the 10-20ps time range. Subpicosecond exciton relaxation in the Chla region is only found within the terminal emitter domain (Chls a 610/611/612) and within the Chla 613/614 dimer. Deviations between measured and calculated exciton state life times are obtained for the intermediate spectral region between the main absorbance bands of Chla and Chlb that indicate that besides Chlb 608 another pigment should absorb there. Possible candidates, so far not identified by structure-based calculations, but by fitting of optical spectra and mutagenesis studies, are discussed. Additional mutagenesis studies are suggested to resolve this issue.
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Affiliation(s)
- T Renger
- Institut für Theoretische Physik, Johannes Kepler Universität Linz, Altenberger Strasse 69, Linz, Austria.
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141
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Olbrich C, Jansen TLC, Liebers J, Aghtar M, Strümpfer J, Schulten K, Knoester J, Kleinekathöfer U. From atomistic modeling to excitation transfer and two-dimensional spectra of the FMO light-harvesting complex. J Phys Chem B 2011; 115:8609-21. [PMID: 21635010 PMCID: PMC3140161 DOI: 10.1021/jp202619a] [Citation(s) in RCA: 183] [Impact Index Per Article: 14.1] [Reference Citation Analysis] [Abstract] [MESH Headings] [Grants] [Track Full Text] [Journal Information] [Subscribe] [Scholar Register] [Indexed: 02/07/2023]
Abstract
The experimental observation of long-lived quantum coherences in the Fenna-Matthews-Olson (FMO) light-harvesting complex at low temperatures has challenged general intuition in the field of complex molecular systems and provoked considerable theoretical effort in search of explanations. Here we report on room-temperature calculations of the excited-state dynamics in FMO using a combination of molecular dynamics simulations and electronic structure calculations. Thus we obtain trajectories for the Hamiltonian of this system which contains time-dependent vertical excitation energies of the individual bacteriochlorophyll molecules and their mutual electronic couplings. The distribution of energies and couplings is analyzed together with possible spatial correlations. It is found that in contrast to frequent assumptions the site energy distribution is non-Gaussian. In a subsequent step, averaged wave packet dynamics is used to determine the exciton dynamics in the system. Finally, with the time-dependent Hamiltonian, linear and two-dimensional spectra are determined. The thus-obtained linear absorption line shape agrees well with experimental observation and is largely determined by the non-Gaussian site energy distribution. The two-dimensional spectra are in line with what one would expect by extrapolation of the experimental observations at lower temperatures and indicate almost total loss of long-lived coherences.
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142
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Croce R, van Amerongen H. Light-harvesting and structural organization of Photosystem II: From individual complexes to thylakoid membrane. JOURNAL OF PHOTOCHEMISTRY AND PHOTOBIOLOGY B-BIOLOGY 2011; 104:142-53. [DOI: 10.1016/j.jphotobiol.2011.02.015] [Citation(s) in RCA: 114] [Impact Index Per Article: 8.8] [Reference Citation Analysis] [Track Full Text] [Subscribe] [Scholar Register] [Received: 01/10/2011] [Revised: 02/16/2011] [Accepted: 02/17/2011] [Indexed: 10/18/2022]
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143
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van Oort B, Maréchal A, Ruban AV, Robert B, Pascal AA, de Ruijter NCA, van Grondelle R, van Amerongen H. Different crystal morphologies lead to slightly different conformations of light-harvesting complex II as monitored by variations of the intrinsic fluorescence lifetime. Phys Chem Chem Phys 2011; 13:12614-22. [PMID: 21670839 DOI: 10.1039/c1cp20331b] [Citation(s) in RCA: 24] [Impact Index Per Article: 1.8] [Reference Citation Analysis] [Abstract] [Track Full Text] [Journal Information] [Subscribe] [Scholar Register] [Indexed: 11/21/2022]
Abstract
In 2005, it was found that the fluorescence of crystals of the major light-harvesting complex LHCII of green plants is significantly quenched when compared to the fluorescence of isolated LHCII (A. A. Pascal et al., Nature, 2005, 436, 134-137). The Raman spectrum of crystallized LHCII was also found to be different from that of isolated LHCII but very similar to that of aggregated LHCII, which has often been considered a good model system for studying nonphotochemical quenching (NPQ), the major protection mechanism of plants against photodamage in high light. It was proposed that in the crystal LHCII adopts a similar (quenching) conformation as during NPQ and indeed similar changes in the Raman spectrum were observed during NPQ in vivo (A. V. Ruban et al., Nature, 2007, 450, 575-579). We now compared the fluorescence of various types of crystals, differing in morphology and age. Each type gave rise to its own characteristic mono-exponential fluorescence lifetime, which was 5 to 10 times shorter than that of isolated LHCII. This indicates that fluorescence is not quenched by random impurities and packing defects (as proposed recently by T. Barros et al., EMBO Journal, 2009, 28, 298-306), but that LHCII adopts a particular structure in each crystal type, that leads to fluorescence quenching. Most interestingly, the extent of quenching appears to depend on the crystal morphology, indicating that also the crystal structure depends on this crystal morphology but at the moment no data are available to correlate the crystals' structural changes to changes in fluorescence lifetime.
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Affiliation(s)
- Bart van Oort
- VU University Amsterdam, Faculty of Sciences, Department of Physics and Astronomy, De Boelelaan 1081, 1081 HV Amsterdam, The Netherlands.
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Ho FM. Structural and mechanistic investigations of photosystem II through computational methods. BIOCHIMICA ET BIOPHYSICA ACTA-BIOENERGETICS 2011; 1817:106-20. [PMID: 21565158 DOI: 10.1016/j.bbabio.2011.04.009] [Citation(s) in RCA: 29] [Impact Index Per Article: 2.2] [Reference Citation Analysis] [Abstract] [MESH Headings] [Track Full Text] [Subscribe] [Scholar Register] [Received: 01/25/2011] [Revised: 03/22/2011] [Accepted: 04/02/2011] [Indexed: 11/17/2022]
Abstract
The advent of oxygenic photosynthesis through water oxidation by photosystem II (PSII) transformed the planet, ultimately allowing the evolution of aerobic respiration and an explosion of ecological diversity. The importance of this enzyme to life on Earth has ironically been paralleled by the elusiveness of a detailed understanding of its precise catalytic mechanism. Computational investigations have in recent years provided more and more insights into the structural and mechanistic details that underlie the workings of PSII. This review will present an overview of some of these studies, focusing on those that have aimed at elucidating the mechanism of water oxidation at the CaMn₄ cluster in PSII, and those exploring the features of the structure and dynamics of this enzyme that enable it to catalyse this energetically demanding reaction. This article is part of a Special Issue entitled: Photosystem II.
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Affiliation(s)
- Felix M Ho
- Deparment of Photochemistry and Molecular Sciences, Angström Laboratory, Uppsala University, Sweden.
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145
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Krüger TPJ, Ilioaia C, Valkunas L, van Grondelle R. Fluorescence Intermittency from the Main Plant Light-Harvesting Complex: Sensitivity to the Local Environment. J Phys Chem B 2011; 115:5083-95. [DOI: 10.1021/jp109833x] [Citation(s) in RCA: 61] [Impact Index Per Article: 4.7] [Reference Citation Analysis] [Track Full Text] [Journal Information] [Subscribe] [Scholar Register] [Indexed: 02/05/2023]
Affiliation(s)
- Tjaart P. J. Krüger
- Department of Physics and Astronomy, Faculty of Sciences, VU University Amsterdam, De Boelelaan 1081, 1081 HV Amsterdam, The Netherlands
| | - Cristian Ilioaia
- Department of Physics and Astronomy, Faculty of Sciences, VU University Amsterdam, De Boelelaan 1081, 1081 HV Amsterdam, The Netherlands
| | - Leonas Valkunas
- Institute of Physics, Center for Physical Sciences and Technology, Savanoriu 231, LT-02300 Vilnius, Lithuania and Department of Theoretical Physics, Faculty of Physics, Vilnius University, Sauletekio 9, LT-10222 Vilnius, Lithuania
| | - Rienk van Grondelle
- Department of Physics and Astronomy, Faculty of Sciences, VU University Amsterdam, De Boelelaan 1081, 1081 HV Amsterdam, The Netherlands
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146
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Marin A, Passarini F, Croce R, van Grondelle R. Energy transfer pathways in the CP24 and CP26 antenna complexes of higher plant photosystem II: a comparative study. Biophys J 2011; 99:4056-65. [PMID: 21156149 DOI: 10.1016/j.bpj.2010.10.034] [Citation(s) in RCA: 17] [Impact Index Per Article: 1.3] [Reference Citation Analysis] [Abstract] [Track Full Text] [Journal Information] [Subscribe] [Scholar Register] [Received: 08/01/2010] [Revised: 10/11/2010] [Accepted: 10/19/2010] [Indexed: 10/18/2022] Open
Abstract
Antenna complexes are key components of plant photosynthesis, the process that converts sunlight, CO2, and water into oxygen and sugars. We report the first (to our knowledge) femtosecond transient absorption study on the light-harvesting pigment-protein complexes CP26 (Lhcb5) and CP24 (Lhcb6) of Photosystem II. The complexes are excited at three different wavelengths in the chlorophyll (Chl) Qy region. Both complexes show a single subpicosecond Chl b to Chl a transfer process. In addition, a reduction in the population of the intermediate states (in the 660-670 nm range) as compared to light-harvesting complex II is correlated in CP26 to the absence of both Chls a604 and b605. However, Chl forms around 670 nm are still present in the Chl a Qy range, which undergoes relaxation with slow rates (10-15 ps). This reduction in intermediate-state amplitude CP24 shows a distinctive narrow band at 670 nm connected with Chls b and decaying to the low-energy Chl a states in 3-5 ps. This 670 nm band, which is fully populated in 0.6 ps together with the Chl a low-energy states, is proposed to originate from Chl 602 or 603. In this study, we monitored the energy flow within two minor complexes, and our results may help elucidate these structures in the future.
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Affiliation(s)
- Alessandro Marin
- Faculty of Sciences, Vrije Universiteit Amsterdam, Amsterdam, The Netherlands
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147
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Womick JM, Liu H, Moran AM. Exciton Delocalization and Energy Transport Mechanisms in R-Phycoerythrin. J Phys Chem A 2011; 115:2471-82. [DOI: 10.1021/jp111720a] [Citation(s) in RCA: 10] [Impact Index Per Article: 0.8] [Reference Citation Analysis] [Track Full Text] [Journal Information] [Subscribe] [Scholar Register] [Indexed: 01/15/2023]
Affiliation(s)
- Jordan M. Womick
- Department of Chemistry, The University of North Carolina at Chapel Hill, Chapel Hill, North Carolina 27599, United States
| | - Haoming Liu
- Department of Chemistry, The University of North Carolina at Chapel Hill, Chapel Hill, North Carolina 27599, United States
| | - Andrew M. Moran
- Department of Chemistry, The University of North Carolina at Chapel Hill, Chapel Hill, North Carolina 27599, United States
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148
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Calzaferri G, Méallet‐Renault R, Brühwiler D, Pansu R, Dolamic I, Dienel T, Adler P, Li H, Kunzmann A. Designing Dye–Nanochannel Antenna Hybrid Materials for Light Harvesting, Transport and Trapping. Chemphyschem 2011; 12:580-94. [DOI: 10.1002/cphc.201000947] [Citation(s) in RCA: 88] [Impact Index Per Article: 6.8] [Reference Citation Analysis] [Track Full Text] [Journal Information] [Subscribe] [Scholar Register] [Received: 11/12/2010] [Indexed: 12/12/2022]
Affiliation(s)
- Gion Calzaferri
- Department of Chemistry and Biochemistry, University of Bern, Freiestrasse 3, CH‐3012 Bern (Switzerland), Fax: (+41) 31 631 3994
| | - Rachel Méallet‐Renault
- PPSM, ENS Cachan, CNRS, UniverSud, 61 av President Wilson, F‐94230 Cachan (France), Fax: (+33) 147 402 454
| | - Dominik Brühwiler
- Institute of Inorganic Chemistry, University of Zürich, Winterthurerstrasse 190, CH‐8057 Zürich (Switzerland), Fax: (+41) 44 635 6802
| | - Robert Pansu
- PPSM, ENS Cachan, CNRS, UniverSud, 61 av President Wilson, F‐94230 Cachan (France), Fax: (+33) 147 402 454
| | - Igor Dolamic
- Institute of Inorganic Chemistry, University of Zürich, Winterthurerstrasse 190, CH‐8057 Zürich (Switzerland), Fax: (+41) 44 635 6802
| | - Thomas Dienel
- Institute of Inorganic Chemistry, University of Zürich, Winterthurerstrasse 190, CH‐8057 Zürich (Switzerland), Fax: (+41) 44 635 6802
| | - Pauline Adler
- PPSM, ENS Cachan, CNRS, UniverSud, 61 av President Wilson, F‐94230 Cachan (France), Fax: (+33) 147 402 454
| | - Huanrong Li
- School of Chemical Engineering and Technology, Hebei University of Technology, Tianjin 300130 (China), Fax: (+86) 222 656 4294
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149
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Novoderezhkin VI, Romero E, Dekker JP, van Grondelle R. Multiple charge-separation pathways in photosystem II: modeling of transient absorption kinetics. Chemphyschem 2011; 12:681-8. [PMID: 21322104 DOI: 10.1002/cphc.201000830] [Citation(s) in RCA: 91] [Impact Index Per Article: 7.0] [Reference Citation Analysis] [Abstract] [Track Full Text] [Journal Information] [Subscribe] [Scholar Register] [Received: 10/05/2011] [Revised: 01/17/2011] [Indexed: 11/11/2022]
Abstract
We explain the transient absorption kinetics (E. Romero, I. H. M. van Stokkum, V. I. Novoderezhkin, J. P. Dekker, R. van Grondelle, Biochemistry 2010, 49, 4300) measured for isolated reaction centers of photosystem II at 77 K upon excitation of the primary donor band (680 nm). The excited-state dynamics is modeled on the basis of the exciton states of 6 cofactors coupled to 4 charge-transfer (CT) states. One CT state (corresponding to charge separation within the special pair) is supposed to be strongly coupled with the excited states, whereas the other radical pairs are supposed to be localized. Relaxation within the strongly coupled manifold and transfer to localized CT's are described by the modified Redfield and generalized Förster theories, respectively. A simultaneous and quantitative fit of the 680, 545, and 460 nm kinetics (corresponding to respectively the Q(y) transitions of the red-most cofactors, Q(x) transition of pheophytin, and pheophytin anion absorption) enables us to define the pathways and time scales of primary electron transfer. A consistent modeling of the data is only possible with a Scheme where charge separation occurs from both the accessory chlorophyll and from the special pair, giving rise to fast and slow components of the pheophytin anion formation, respectively.
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Affiliation(s)
- Vladimir I Novoderezhkin
- Institute of Physico-Chemical Biology, Moscow State University, Leninsky Gory, 119992, Moscow, Russia
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150
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Novoderezhkin VI, Cohen Stuart TA, van Grondelle R. Dynamics of Exciton Relaxation in LH2 Antenna Probed by Multipulse Nonlinear Spectroscopy. J Phys Chem A 2011; 115:3834-44. [DOI: 10.1021/jp108187m] [Citation(s) in RCA: 22] [Impact Index Per Article: 1.7] [Reference Citation Analysis] [Track Full Text] [Journal Information] [Subscribe] [Scholar Register] [Indexed: 11/30/2022]
Affiliation(s)
- Vladimir I. Novoderezhkin
- A. N. Belozersky Institute of Physico-Chemical Biology, Moscow State University, Leninskie Gory, 119992 Moscow, Russia
| | - Thomas A. Cohen Stuart
- Department of Biophysics, Faculty of Sciences, Vrije Universiteit, De Boelelaan 1081, 1081 HV Amsterdam, The Netherlands
| | - Rienk van Grondelle
- Department of Biophysics, Faculty of Sciences, Vrije Universiteit, De Boelelaan 1081, 1081 HV Amsterdam, The Netherlands
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