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Triyanto A, Ali N, Salleh H, Setiawan J, Yatim NI. Development of natural dye photosensitizers for dye-sensitized solar cells: a review. ENVIRONMENTAL SCIENCE AND POLLUTION RESEARCH INTERNATIONAL 2024; 31:31679-31690. [PMID: 38649606 DOI: 10.1007/s11356-024-33360-4] [Citation(s) in RCA: 0] [Impact Index Per Article: 0] [Reference Citation Analysis] [Abstract] [Key Words] [MESH Headings] [Track Full Text] [Subscribe] [Scholar Register] [Received: 07/31/2023] [Accepted: 04/12/2024] [Indexed: 04/25/2024]
Abstract
Dye-sensitized solar cell (DSSC) is a photovoltaic device that can be produced from natural source pigments or natural dyes. The selection of natural dyes for DSSC application is currently under research. The utilization of natural dye materials that are easy to obtain, cost-effective, and non-toxic can reduce waste during DSSC fabrication. Natural dyes can be extracted from plants through extraction and chromatography methods. The suitability and viability of utilizing natural dyes as photosensitizers in DSSCs can be predicted using appropriate software simulation by varying related parameters to produce high power conversion efficiency. In this context, the purpose of the review is to highlight the evolution of performance improvement in the development of DSSCs with consideration of natural dye extraction and software simulation. This review also focuses on the results of extracting natural dyes from herbal ingredients, which are still very limited in information, and several parts of herbal plants that can be used as natural dye sources in the future of solid-state DSSCs have been identified. Based on the results of this review, the highest efficiency was obtained for the DSSC that used chlorophyll pigments as natural dyes using Peltophorum pterocarpum leaves with 6.07%, followed by anthocyanin pigments as natural dyes using raspberries (black) fruits with 1.5%, flavonoid pigments as natural dyes using Curcuma longa herbs with 0.64%, and flavonoid pigments as natural dyes using Indigofera tinctoria flowers with 0.46%.
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Affiliation(s)
- Aripin Triyanto
- Electrical Engineering Department, Faculty of Engineering, Pamulang University, South Tangerang, Banten, Indonesia
- Faculty of Ocean Engineering Technology and Informatics, Universiti Malaysia Terengganu, 21030, Kuala Nerus, Terengganu, Malaysia
| | - Nora'aini Ali
- Faculty of Ocean Engineering Technology and Informatics, Universiti Malaysia Terengganu, 21030, Kuala Nerus, Terengganu, Malaysia.
| | - Hasiah Salleh
- Faculty of Ocean Engineering Technology and Informatics, Universiti Malaysia Terengganu, 21030, Kuala Nerus, Terengganu, Malaysia
| | - Jan Setiawan
- Electrical Engineering Department, Faculty of Engineering, Pamulang University, South Tangerang, Banten, Indonesia
- Research Centre for Advanced Materials, Indonesian Research and Innovation Agency, South Tangerang, Banten, Indonesia
| | - Norhafiza I Yatim
- Higher Institution Centre of Excellence (HICoE), Institute of Tropical Aquaculture and Fisheries, Universiti Malaysia Terengganu, 21030, Kuala Nerus, Terengganu, Malaysia
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2
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Adnane F, Soliman SMA, ElZayat E, Abdelsalam EM, Fahmy HM. Evaluation of chlorophyll-loaded mesoporous silica nanoparticles for photodynamic therapy on cancer cell lines. Lasers Med Sci 2024; 39:45. [PMID: 38253944 PMCID: PMC10803611 DOI: 10.1007/s10103-024-03988-2] [Citation(s) in RCA: 0] [Impact Index Per Article: 0] [Reference Citation Analysis] [Abstract] [Key Words] [MESH Headings] [Grants] [Track Full Text] [Journal Information] [Subscribe] [Scholar Register] [Received: 08/11/2023] [Accepted: 01/05/2024] [Indexed: 01/24/2024]
Abstract
Chlorophyll (Chl) is a promising natural photosensitizer (PS) in photodynamic treatment (PDT). Mesoporous silica nanoparticles (MSNs) were chosen to increase the effectiveness of PDT. This study aimed to evaluate the synergistic efficacy of chlorophyll-loaded mesoporous silica nanoparticles (Chl-MSNs) with photodynamic therapy (PDT) and to investigate their potential toxicity in HepG2, MDA-MB-231, and HSF cell lines. Chl-MSNs were prepared via the physical adsorption method. TEM, DLS, and zeta potential examined morphology, size, and surface characteristics. MSNs and Chl-MSNs were characterized using the same techniques. HPLC was used to assess the encapsulation efficiency. At pH 7.4, an in vitro release experiment of Chl-MSNs was performed. Chl, MSNs, and Chl-MSNs were applied to the three cell lines at different concentrations and subjected to red (650 nm) and blue (450-500 nm) lasers. MSNs and Chl-MSNs' sizes were 90.338 ± 38.49 nm and 123.84 ± 15.67 nm, respectively, as obtained by TEM; the hydrodynamic diameter for MSNs (93.69 ± 20.53 nm) and Chl-MSNs (212.95 ± 19.76 nm); and their zeta potential values are - 16.7 ± 2.19 mV and - 18.84 ± 1.40 mV. The encapsulation efficiency of Chl-MSNs was 70%. Chl-MSNs displayed no toxicity in dark conditions but showed excellent photostability under blue and red light exposure. Furthermore, using Chl over Chl-MSNs has a higher PDT efficiency than the tested cell lines. Chl-MSNs have the potential to be an effective delivery system. PDT proved to be an essential technique for cancer treatment. Blue laser is recommended over red laser with Chl and MSNs for destroying cancer cells.
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Affiliation(s)
- Fadya Adnane
- Biotechnology Department, Faculty of Science, Cairo University, Cairo, Egypt.
| | | | - Emad ElZayat
- Biotechnology Department, Faculty of Science, Cairo University, Cairo, Egypt
| | - Essam M Abdelsalam
- Laser Applications in Metrology, Photochemistry, and Agriculture (LAMPA) Department, National Institute of Laser Enhanced Sciences (NILES), Cairo University, Cairo, Egypt
| | - Heba Mohamed Fahmy
- Biophysics Department, Faculty of Science, Cairo University, Cairo, Egypt
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3
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Wang L, Li W, Li F, Zeng M. Mechanism of Enhancing Chlorophyll Photostability through Light-Induced Chlorophyll/Phycocyanin Aggregation. JOURNAL OF AGRICULTURAL AND FOOD CHEMISTRY 2023; 71:19010-19019. [PMID: 37991348 DOI: 10.1021/acs.jafc.3c06096] [Citation(s) in RCA: 0] [Impact Index Per Article: 0] [Reference Citation Analysis] [Abstract] [Key Words] [MESH Headings] [Track Full Text] [Subscribe] [Scholar Register] [Indexed: 11/23/2023]
Abstract
Chlorophyll (Chl) is the most abundant pigment in photosynthetic plants, but it is prone to degradation during processing and storage, limiting its usage in the food industry. This study developed a technique for increasing Chl photostability by light-induced Chl/phycocyanin (PC) triple synergistic aggregation. Under continuous illumination settings, the results revealed that the Chl retention increased to 406% compared to the control. A model of Chl/PC complexes was constructed using multiligand molecular docking, and the aggregation mechanism was investigated by quantum chemistry, which demonstrated that PC could provide an ideal central hydrophobic cavity for Chl aggregates and thus further enhance the aggregation of Chl on the basis of Chl/PC complexes. The core driver of the improved photostability of Chl is photoexcitation-induced Chl aggregates. This study enriches our understanding of the interaction mechanism between PC and Chl, and we hope that this study can provide broader ideas for the development of natural pigment products.
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Affiliation(s)
- Lijuan Wang
- Sanya Institute of Oceanography, Ocean University of China, Sanya 572000, People's Republic of China
- College of Food Science and Engineering, Ocean University of China, Qingdao 266400, People's Republic of China
| | - Wei Li
- Sanya Institute of Oceanography, Ocean University of China, Sanya 572000, People's Republic of China
- College of Food Science and Engineering, Ocean University of China, Qingdao 266400, People's Republic of China
| | - Fangwei Li
- Sanya Institute of Oceanography, Ocean University of China, Sanya 572000, People's Republic of China
- College of Food Science and Engineering, Ocean University of China, Qingdao 266400, People's Republic of China
| | - Mingyong Zeng
- Sanya Institute of Oceanography, Ocean University of China, Sanya 572000, People's Republic of China
- College of Food Science and Engineering, Ocean University of China, Qingdao 266400, People's Republic of China
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Diop M, El-Hayek M, Attard J, Muhieddine A, Veremeienko V, Soorkia S, Carbonnière P, de la Lande A, Soep B, Shafizadeh N. Chlorophyll and pheophytin protonated and deprotonated ions: Observation and theory. J Chem Phys 2023; 159:194308. [PMID: 37987519 DOI: 10.1063/5.0174351] [Citation(s) in RCA: 0] [Impact Index Per Article: 0] [Reference Citation Analysis] [Abstract] [Track Full Text] [Journal Information] [Subscribe] [Scholar Register] [Received: 08/30/2023] [Accepted: 10/30/2023] [Indexed: 11/22/2023] Open
Abstract
Pheophytin a and chlorophyll a have been investigated by electrospray mass spectrometry in the positive and negative modes, in view of the importance of the knowledge of their properties in photosynthesis. Pheophytin and chlorophyll are both observed intensely in the protonated mode, and their main fragmentation route is the loss of their phytyl chain. Pheophytin is observed intact in the negative mode, while under collisions, it is primarily cleaved beyond the phytyl chain and loses the attaching propionate group. Chlorophyll is not detected in normal conditions in the negative mode, but addition of methanol solvent molecule is detected. Fragmentation of this adduct primarily forms a product (-30 amu) that dissociates into dephytyllated deprotonated chlorophyll. Semi-empirical molecular dynamics calculations show that the phytyl chain is unfolded from the chlorin cycle in pheophytin a and folded in chlorophyll a. Density functional theory calculations have been conducted to locate the charges on protonated and deprotonated pheophytin a and chlorophyll a and have found the major location sites that are notably more stable in energy by more than 0.5 eV than the others. The deprotonation site is found identical for pheophytin a and the chlorophyll a-methanol adduct. This is in line with experiment and calculation locating the addition of methanol on a double bond of deprotonated chlorophyll a.
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Affiliation(s)
- M Diop
- Université Paris-Saclay, CNRS, Institut des Sciences Moléculaires d' Orsay, 91405 Orsay, France
| | - M El-Hayek
- Université Paris Saclay, CNRS, Institut de Chimie Physique, UMR 8000, 91405 Orsay, France
| | - J Attard
- Université Paris Saclay, CNRS, Institut de Chimie Physique, UMR 8000, 91405 Orsay, France
- Institut des sciences analytiques et de physico-chimie pour l'environnement et les materiaux (IPREM), Pau, France
| | - A Muhieddine
- Université Paris-Saclay, CNRS, Institut des Sciences Moléculaires d' Orsay, 91405 Orsay, France
| | - V Veremeienko
- Université Paris-Saclay, CEA, CNRS, Institute for Integrative Biology of the Cell (I2BC), 91198 Gif-sur-Yvette, France
| | - S Soorkia
- Université Paris-Saclay, CNRS, Institut des Sciences Moléculaires d' Orsay, 91405 Orsay, France
| | - Ph Carbonnière
- Institut des sciences analytiques et de physico-chimie pour l'environnement et les materiaux (IPREM), Pau, France
| | - A de la Lande
- Université Paris Saclay, CNRS, Institut de Chimie Physique, UMR 8000, 91405 Orsay, France
| | - B Soep
- Université Paris-Saclay, CNRS, Institut des Sciences Moléculaires d' Orsay, 91405 Orsay, France
| | - N Shafizadeh
- Université Paris-Saclay, CNRS, Institut des Sciences Moléculaires d' Orsay, 91405 Orsay, France
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Sen S, Visscher L. Towards the description of charge transfer states in solubilised LHCII using subsystem DFT. PHOTOSYNTHESIS RESEARCH 2023; 156:39-57. [PMID: 35988131 PMCID: PMC10070235 DOI: 10.1007/s11120-022-00950-7] [Citation(s) in RCA: 2] [Impact Index Per Article: 2.0] [Reference Citation Analysis] [Abstract] [Key Words] [MESH Headings] [Grants] [Track Full Text] [Subscribe] [Scholar Register] [Received: 04/11/2022] [Accepted: 08/04/2022] [Indexed: 05/05/2023]
Abstract
Light harvesting complex II (LHCII) in plants and green algae have been shown to adapt their absorption properties, depending on the concentration of sunlight, switching between a light harvesting and a non-harvesting or quenched state. In a recent work, combining classical molecular dynamics (MD) simulations with quantum chemical calculations (Liguori et al. in Sci Rep 5:15661, 2015) on LHCII, it was shown that the Chl611-Chl612 cluster of the terminal emitter domain can play an important role in modifying the spectral properties of the complex. In that work the importance of charge transfer (CT) effects was highlighted, in re-shaping the absorption intensity of the chlorophyll dimer. Here in this work, we investigate the combined effect of the local excited (LE) and CT states in shaping the energy landscape of the chlorophyll dimer. Using subsystem Density Functional Theory over the classical [Formula: see text]s MD trajectory we look explicitly into the excitation energies of the LE and the CT states of the dimer and their corresponding couplings. Upon doing so, we observe a drop in the excitation energies of the CT states, accompanied by an increase in the couplings between the LE/LE and the LE/CT states facilitated by a shorter interchromophoric distance upon equilibration. Both these changes in conjunction, effectively produces a red-shift of the low-lying mixed exciton/CT states of the supramolecular chromophore pair.
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Affiliation(s)
- Souloke Sen
- Division of Theoretical Chemistry, Faculty of Sciences, Vrije Universiteit Amsterdam, De Boelelaan 1083, 1081 HV Amsterdam, The Netherlands
| | - Lucas Visscher
- Division of Theoretical Chemistry, Faculty of Sciences, Vrije Universiteit Amsterdam, De Boelelaan 1083, 1081 HV Amsterdam, The Netherlands
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Li F, Yang Z, Shen S, Wang Z, Zhang Y. Ternary synergistic aggregation of chlorophyll/Soy protein isolate improves chlorophyll stability. Food Hydrocoll 2023. [DOI: 10.1016/j.foodhyd.2023.108662] [Citation(s) in RCA: 0] [Impact Index Per Article: 0] [Reference Citation Analysis] [Track Full Text] [Journal Information] [Subscribe] [Scholar Register] [Indexed: 03/14/2023]
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7
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Silva PJ, Osswald-Claro M, Castro Mendonça R. How to tune the absorption spectrum of chlorophylls to enable better use of the available solar spectrum. PEERJ PHYSICAL CHEMISTRY 2022. [DOI: 10.7717/peerj-pchem.26] [Citation(s) in RCA: 0] [Impact Index Per Article: 0] [Reference Citation Analysis] [Abstract] [Track Full Text] [Journal Information] [Subscribe] [Scholar Register] [Indexed: 12/23/2022] Open
Abstract
Photon capture by chlorophylls and other chromophores in light-harvesting complexes and photosystems is the driving force behind the light reactions of photosynthesis. Excitation of photosystem II allows it to receive electrons from the water-oxidizing oxygen-evolution complex and to transfer them to an electron-transport chain that generates a transmembrane electrochemical gradient and ultimately reduces plastocyanin, which donates its electron to photosystem I. Subsequently, excitation of photosystem I leads to electron transfer to a ferredoxin which can either reduce plastocyanin again (in so-called “cyclical electron-flow”) and release energy for the maintenance of the electrochemical gradient, or reduce NADP+ to NADPH. Although photons in the far-red (700–750 nm) portion of the solar spectrum carry enough energy to enable the functioning of the photosynthetic electron-transfer chain, most extant photosystems cannot usually take advantage of them due to only absorbing light with shorter wavelengths. In this work, we used computational methods to characterize the spectral and redox properties of 49 chlorophyll derivatives, with the aim of finding suitable candidates for incorporation into synthetic organisms with increased ability to use far-red photons. The data offer a simple and elegant explanation for the evolutionary selection of chlorophylls a, b, c, and d among all easily-synthesized singly-substituted chlorophylls, and identified one novel candidate (2,12-diformyl chlorophyll a) with an absorption peak shifted 79 nm into the far-red (relative to chlorophyll a) with redox characteristics fully suitable to its possible incorporation into photosystem I (though not photosystem II). chlorophyll d is shown by our data to be the most suitable candidate for incorporation into far-red utilizing photosystem II, and several candidates were found with red-shifted Soret bands that allow the capture of larger amounts of blue and green light by light harvesting complexes.
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Affiliation(s)
- Pedro J. Silva
- UCIBIO@REQUIMTE, BioSIM, Departamento de Biomedicina, Faculdade de Medicina, Universidade do Porto, Porto, Portugal
- FP-I3ID,FP-BHS, Fac. de Ciências da Saúde, Universidade Fernando Pessoa, Porto, Portugal
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Kathiravan I, Sankaranarayanan S, Balasundaram J, Subramaniam B. Experimentation of dyes extracted from the peels of red banana and aloe vera as sensitizers for TiO 2-based dye-sensitized solar cells. ENVIRONMENTAL SCIENCE AND POLLUTION RESEARCH INTERNATIONAL 2022; 29:83897-83906. [PMID: 35773615 DOI: 10.1007/s11356-022-21509-y] [Citation(s) in RCA: 0] [Impact Index Per Article: 0] [Reference Citation Analysis] [Abstract] [Key Words] [MESH Headings] [Track Full Text] [Subscribe] [Scholar Register] [Received: 02/09/2022] [Accepted: 06/12/2022] [Indexed: 06/15/2023]
Abstract
As an attempt of utilizing the peels to extract dye sensitizers for dye-sensitized solar cell (DSSC), the peels of red banana (fruit) and aloe vera (leaf) were used in this study. As far as we know, for the first time the peels of red banana and aloe vera are being used as sensitizer for DSSC. Acetone and ethanol were used as solvent in extracting dyes from these peels. For the four extracted dyes, UV-visible and Fourier transform infra-red spectroscopic studies were carried out to know their absorption range and the functional groups present in it. DSSCs were made by using these extracted dyes as sensitizer and commercially available TiO2 as semiconductor oxide. XRD and SEM were recorded for the prepared TiO2 paste. To know about the performance of these solar cells, J-V characterization was taken and the efficiency of the DSSCs were determined. It was seen that among all the four DSSCs prepared, the DSSC made with the dye taken from aloe vera peel by using ethanol as solvent showed the higher efficiency of 0.679%.
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Affiliation(s)
- Inbarajan Kathiravan
- Energy and Nano Research Laboratory, Department of Physics, Karpagam Academy of Higher Education, Eachanari Post, Pollachi Main Road, Coimbatore, Tamilnadu, 641 021, India
| | - Sowmya Sankaranarayanan
- Energy and Nano Research Laboratory, Department of Physics, Karpagam Academy of Higher Education, Eachanari Post, Pollachi Main Road, Coimbatore, Tamilnadu, 641 021, India
| | - Janarthanan Balasundaram
- Energy and Nano Research Laboratory, Department of Physics, Karpagam Academy of Higher Education, Eachanari Post, Pollachi Main Road, Coimbatore, Tamilnadu, 641 021, India.
| | - Bhuvana Subramaniam
- Department of Physics, Dr. N. G. P. Institute of Technology, Coimbatore, Tamilnadu, 641 048, India
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Förster A, Visscher L. Quasiparticle Self-Consistent GW-Bethe-Salpeter Equation Calculations for Large Chromophoric Systems. J Chem Theory Comput 2022; 18:6779-6793. [PMID: 36201788 PMCID: PMC9648197 DOI: 10.1021/acs.jctc.2c00531] [Citation(s) in RCA: 5] [Impact Index Per Article: 2.5] [Reference Citation Analysis] [Abstract] [Track Full Text] [Download PDF] [Figures] [Journal Information] [Subscribe] [Scholar Register] [Indexed: 11/30/2022]
Abstract
![]()
The GW-Bethe–Salpeter equation
(BSE) method
is promising for calculating the low-lying excitonic states of molecular
systems. However, so far it has only been applied to rather small
molecules and in the commonly implemented diagonal approximations
to the electronic self-energy, it depends on a mean-field starting
point. We describe here an implementation of the self-consistent and
starting-point-independent quasiparticle self-consistent (qsGW)-BSE approach, which is suitable for calculations on
large molecules. We herein show that eigenvalue-only self-consistency
can lead to an unfaithful description of some excitonic states for
chlorophyll dimers while the qsGW-BSE vertical excitation
energies (VEEs) are in excellent agreement with spectroscopic experiments
for chlorophyll monomers and dimers measured in the gas phase. Furthermore,
VEEs from time-dependent density functional theory calculations tend
to disagree with experimental values and using different range-separated
hybrid (RSH) kernels does change the VEEs by up to 0.5 eV. We use
the new qsGW-BSE implementation to calculate the
lowest excitation energies of the six chromophores of the photosystem
II (PSII) reaction center (RC) with nearly 2000 correlated electrons.
Using more than 11,000 (6000) basis functions, the calculation could
be completed in less than 5 (2) days on a single modern compute node.
In agreement with previous TD-DFT calculations using RSH kernels on
models that also do not include environmental effects, our qsGW-BSE calculations only yield states with local characters
in the low-energy spectrum of the hexameric complex. Earlier works
with RSH kernels have demonstrated that the protein environment facilitates
the experimentally observed interchromophoric charge transfer. Therefore,
future research will need to combine correlation effects beyond TD-DFT
with an explicit treatment of environmental electrostatics.
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Affiliation(s)
- Arno Förster
- Theoretical Chemistry, Vrije Universiteit, De Boelelaan 1083, NL-1081 HVAmsterdam, The Netherlands
| | - Lucas Visscher
- Theoretical Chemistry, Vrije Universiteit, De Boelelaan 1083, NL-1081 HVAmsterdam, The Netherlands
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Li J, Olevano V. Bethe-Salpeter equation insights into the photo-absorption function and exciton structure of chlorophyll a and b in light-harvesting complex II. JOURNAL OF PHOTOCHEMISTRY AND PHOTOBIOLOGY. B, BIOLOGY 2022; 232:112475. [PMID: 35644069 DOI: 10.1016/j.jphotobiol.2022.112475] [Citation(s) in RCA: 0] [Impact Index Per Article: 0] [Reference Citation Analysis] [Abstract] [Key Words] [Track Full Text] [Subscribe] [Scholar Register] [Received: 01/30/2022] [Revised: 05/09/2022] [Accepted: 05/16/2022] [Indexed: 10/18/2022]
Abstract
The photo-absorption process and the excitation of chlorophyll (Chl) is the primary and essential step of photosynthesis in green plants. By solving the Bethe-Salpeter equation (BSE) on top of the GW approximation within ab initio many-body perturbation theory, we calculate the photo-absorption function and the excitons structure of Chl a and b in their in vivo conformations as measured by X-ray diffraction in the light-harvesting complex (LHC) II. BSE optical absorption spectra are in good agreement with the experiment and we discuss residual discrepancies. The experimental evidence of multiple Chla forms in vivo is explained by BSE. The Chla and Chlb BSE exciton wavefunctions present important charge-transfer differences on the Soret band. Q excitons are almost identical, apart from charge (both electron and hole) localization on the Chlb C7 aldheide formyl group, absent on the Chla methyl C7, that is exactly the group where the two chlorophylls differ.
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Affiliation(s)
- Jing Li
- Univ. Grenoble Alpes, Grenoble 38000, France; CEA, Leti, Minatec Campus, Grenoble 38054, France; CNRS, Institut Néel, Grenoble 38042, France; ETSF, Nano-Bio-Pharma Spectroscopy group, Grenoble 38000, France.
| | - Valerio Olevano
- Univ. Grenoble Alpes, Grenoble 38000, France; CNRS, Institut Néel, Grenoble 38042, France; ETSF, Nano-Bio-Pharma Spectroscopy group, Grenoble 38000, France.
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11
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Götze JP, Anders F, Petry S, Felix Witte J, Lokstein H. Spectral Characterization of the Main Pigments in the Plant Photosynthetic Apparatus by Theory and Experiment. Chem Phys 2022. [DOI: 10.1016/j.chemphys.2022.111517] [Citation(s) in RCA: 0] [Impact Index Per Article: 0] [Reference Citation Analysis] [Track Full Text] [Journal Information] [Subscribe] [Scholar Register] [Indexed: 11/17/2022]
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12
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Gruber E, Teiwes R, Kjær C, Brøndsted Nielsen S, Andersen LH. Tuning fast excited-state decay by ligand attachment in isolated chlorophyll a. Phys Chem Chem Phys 2021; 24:149-155. [PMID: 34901981 DOI: 10.1039/d1cp04356k] [Citation(s) in RCA: 4] [Impact Index Per Article: 1.3] [Reference Citation Analysis] [Abstract] [Track Full Text] [Journal Information] [Subscribe] [Scholar Register] [Indexed: 01/17/2023]
Abstract
Excited-state dynamics plays a key role for light harvesting and energy transport in photosynthetic proteins but it is nontrivial to separate the intrinsic photophysics of the light-absorbers (chlorophylls) from interactions with the protein matrix. Here we study chlorophyll a (4-coordinate complex) and axially ligated chlorophyll a (5-coordinate complex) isolated in vacuo applying mass spectrometry to shed light on the intrinsic dynamics in the absence of nearby chlorophylls, carotenoids, amino acids, and water molecules. The 4-coordinate complexes are tagged by quaternary ammonium ions while the charge is provided by a formate ligand in the case of 5-coordinate complexes. Regardless of excitation to the Soret band or the Q band, a fast ps decay is observed, which is ascribed to the decay of the lowest excited singlet state either by intersystem crossing (ISC) to nearby triplet states or by excited-state relaxation on the excited-state potential-energy surface. The lifetime of the first excited state is 15 ps with Mg2+ at the chlorophyll center, but only 1.7 ps when formate is attached to Mg2+. When the Soret band is excited, an initial sup-ps relaxation is observed which is ascribed to fast internal conversion to the first excited state. With respect to ISC, two factors seem to play a role for the reduced lifetime of the formate-chlorophyll complex: (i) The Mg ion is pulled out of the porphyrin plane thus reducing the symmetry of the chromophore, and (ii) the first excited state (Q band) and T3 are tuned almost into resonance by the ligand, which increases the singlet-triplet mixing.
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Affiliation(s)
- Elisabeth Gruber
- Department of Physics and Astronomy, Aarhus University, Aarhus 8000C, Denmark.
| | - Ricky Teiwes
- Department of Physics and Astronomy, Aarhus University, Aarhus 8000C, Denmark.
| | - Christina Kjær
- Department of Physics and Astronomy, Aarhus University, Aarhus 8000C, Denmark.
| | | | - Lars H Andersen
- Department of Physics and Astronomy, Aarhus University, Aarhus 8000C, Denmark.
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Sirohiwal A, Pantazis DA. Electrostatic profiling of photosynthetic pigments: implications for directed spectral tuning. Phys Chem Chem Phys 2021; 23:24677-24684. [PMID: 34708851 DOI: 10.1039/d1cp02580e] [Citation(s) in RCA: 2] [Impact Index Per Article: 0.7] [Reference Citation Analysis] [Abstract] [Track Full Text] [Journal Information] [Subscribe] [Scholar Register] [Indexed: 11/21/2022]
Abstract
Photosynthetic pigment-protein complexes harvest solar energy with a high quantum efficiency. Protein scaffolds are known to tune the spectral properties of embedded pigments principally through structured electrostatic environments. Although the physical nature of electrostatic tuning is straightforward, the precise spatial principles of electrostatic preorganization remain poorly explored for different protein matrices and incompletely characterized with respect to the intrinsic properties of different photosynthetic pigments. In this work, we study the electronic structure features associated with the lowest excited state of a series of eight naturally occurring (bacterio)chlorophylls and pheophytins to describe the precise topological differences in electrostatic potentials and hence determine intrinsic differences in the expected mode and impact of electrostatic tuning. The difference electrostatic potentials between the ground and first excited states are used as fingerprints. Both the spatial profile and the propensity for spectral tuning are found to be unique for each pigment, indicating spatially and directionally distinct modes of electrostatic tuning. The results define a specific partitioning of the protein matrix around each pigment as an aid to identify regions with a maximal impact on spectral tuning and have direct implications for dimensionality reduction in protein design and engineering. Thus, a quantum mechanical basis is provided for understanding, predicting, and ultimately designing sequence-modified or pigment-exchanged biological systems, as suggested for selected examples of pigment-reconstituted proteins.
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Affiliation(s)
- Abhishek Sirohiwal
- Max-Planck-Institut für Kohlenforschung, Kaiser-Wilhelm-Platz 1, 45470 Mülheim an der Ruhr, Germany.
| | - Dimitrios A Pantazis
- Max-Planck-Institut für Kohlenforschung, Kaiser-Wilhelm-Platz 1, 45470 Mülheim an der Ruhr, Germany.
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Srivastava R. Physicochemical, antioxidant properties of carotenoids and its optoelectronic and interaction studies with chlorophyll pigments. Sci Rep 2021; 11:18365. [PMID: 34526535 PMCID: PMC8443628 DOI: 10.1038/s41598-021-97747-w] [Citation(s) in RCA: 12] [Impact Index Per Article: 4.0] [Reference Citation Analysis] [Abstract] [Key Words] [MESH Headings] [Track Full Text] [Download PDF] [Figures] [Journal Information] [Subscribe] [Scholar Register] [Received: 04/13/2021] [Accepted: 07/28/2021] [Indexed: 11/13/2022] Open
Abstract
The physicochemical and antioxidant properties of seven carotenoids: antheraxanthin, β-carotene, neoxanthin, peridinin, violaxanthin, xanthrophyll and zeaxanthin were studied by theoretical means. Then the Optoelectronic properties and interaction of chlorophyll-carotenoid complexes are analysed by TDDFT and IGMPLOT. Global reactivity descriptors for carotenoids and chlorophyll (Chla, Chlb) are calculated via conceptual density functional theory (CDFT). The higher HOMO-LUMO (HL) gap indicated structural stability of carotenoid, chlorophyll and chlorophyll-carotenoid complexes. The chemical hardness for carotenoids and Chlorophyll is found to be lower in the solvent medium than in the gas phase. Results showed that carotenoids can be used as good reactive nucleophile due to lower µ and ω. As proton affinities (PAs) are much lower than the bond dissociation enthalpies (BDEs), it is anticipated that direct antioxidant activity in these carotenoids is mainly due to the sequential proton loss electron transfer (SPLET) mechanism with dominant solvent effects. Also lower PAs of carotenoid suggest that antioxidant activity by the SPLET mechanism should be a result of a balance between proclivities to transfer protons. Reaction rate constant with Transition-State Theory (TST) were estimated for carotenoid-Chlorophyll complexes in gas phase. Time dependent Density Functional Theory (TDDFT) showed that all the chlorophyll (Chla, Chlb)-carotenoid complexes show absorption wavelength in the visible region. The lower S1-T1 adiabatic energy gap indicated ISC transition from S1 to T1 state.
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Affiliation(s)
- Ruby Srivastava
- CSIR-Centre for Cellular and Molecular Biology, Hyderabad, India.
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15
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Sen S, Mascoli V, Liguori N, Croce R, Visscher L. Understanding the Relation between Structural and Spectral Properties of Light-Harvesting Complex II. J Phys Chem A 2021; 125:4313-4322. [PMID: 33979158 PMCID: PMC8165694 DOI: 10.1021/acs.jpca.1c01467] [Citation(s) in RCA: 5] [Impact Index Per Article: 1.7] [Reference Citation Analysis] [Abstract] [MESH Headings] [Track Full Text] [Download PDF] [Figures] [Journal Information] [Subscribe] [Scholar Register] [Received: 02/17/2021] [Revised: 04/01/2021] [Indexed: 11/28/2022]
Abstract
Light-harvesting complex II (LHCII) is a pigment-protein complex present in higher plants and green algae. LHCII represents the main site of light absorption, and its role is to transfer the excitation energy toward the photosynthetic reaction centers, where primary energy conversion reactions take place. The optical properties of LHCII are known to depend on protein conformation. However, the relation between the structural and spectroscopic properties of the pigments is not fully understood yet. In this respect, previous classical molecular dynamics simulations of LHCII in a model membrane [Sci. Rep. 2015, 5, 1-10] have shown that the configuration and excitonic coupling of a chlorophyll (Chl) dimer functioning as the main terminal emitter of the complex are particularly sensitive to conformational changes. Here, we use quantum chemistry calculations to investigate in greater detail the effect of pigment-pigment interactions on the excited-state landscape. While most previous studies have used a local picture in which electrons are localized on single pigments, here we achieve a more accurate description of the Chl dimer by adopting a supramolecular picture where time-dependent density functional theory is applied to the whole system at once. Our results show that specific dimer configurations characterized by shorter inter-pigment distances can result in a sizable intensity decrease (up to 36%) of the Chl absorption bands in the visible spectral region. Such a decrease can be predicted only when accounting for Chl-Chl charge-transfer excitations, which is possible using the above-mentioned supramolecular approach. The charge-transfer character of the excitations is quantified by two types of analyses: one focusing on the composition of the excitations and the other directly on the observable total absorption intensities.
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Affiliation(s)
- Souloke Sen
- Amsterdam Center for Multiscale Modeling, Division of Theoretical Chemistry, Faculty of Sciences, Vrije Universiteit Amsterdam, De Boelelaan 1083, 1081 HV Amsterdam, The Netherlands
| | - Vincenzo Mascoli
- Biophysics of Photosynthesis, Dep. Physics and Astronomy, Faculty of Sciences, Vrije Universiteit Amsterdam, De Boelelaan 1083, 1081 HV Amsterdam, The Netherlands
| | - Nicoletta Liguori
- Biophysics of Photosynthesis, Dep. Physics and Astronomy, Faculty of Sciences, Vrije Universiteit Amsterdam, De Boelelaan 1083, 1081 HV Amsterdam, The Netherlands
| | - Roberta Croce
- Biophysics of Photosynthesis, Dep. Physics and Astronomy, Faculty of Sciences, Vrije Universiteit Amsterdam, De Boelelaan 1083, 1081 HV Amsterdam, The Netherlands
| | - Lucas Visscher
- Amsterdam Center for Multiscale Modeling, Division of Theoretical Chemistry, Faculty of Sciences, Vrije Universiteit Amsterdam, De Boelelaan 1083, 1081 HV Amsterdam, The Netherlands
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16
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Lahav Y, Noy D, Schapiro I. Spectral tuning of chlorophylls in proteins - electrostatics vs. ring deformation. Phys Chem Chem Phys 2021; 23:6544-6551. [PMID: 33690760 DOI: 10.1039/d0cp06582j] [Citation(s) in RCA: 16] [Impact Index Per Article: 5.3] [Reference Citation Analysis] [Abstract] [Track Full Text] [Journal Information] [Subscribe] [Scholar Register] [Indexed: 01/06/2023]
Abstract
In photosynthetic complexes, tuning of chlorophyll light-absorption spectra by the protein environment is crucial to their efficiency and robustness. Recombinant type II water soluble chlorophyll-binding proteins from Brassicaceae (WSCPs) are useful for studying spectral tuning mechanisms due to their symmetric homotetramer structure, and the ability to rigorously modify the chlorophyll's protein surroundings. Our previous comparison of the crystal structures of two WSCP homologues suggested that protein-induced chlorophyll ring deformation is the predominant spectral tuning mechanism. Here, we implement a more rigorous analysis based on hybrid quantum mechanics and molecular mechanics calculations to quantify the relative contributions of geometrical and electrostatic factors to the absorption spectra of WSCP-chlorophyll complexes. We show that when considering conformational dynamics, geometry distortions such as chlorophyll ring deformation accounts for about one-third of the spectral shift, whereas the direct polarization of the electron density accounts for the remaining two-thirds. From a practical perspective, protein electrostatics is easier to manipulate than chlorophyll conformations, thus, it may be more readily implemented in designing artificial protein-chlorophyll complexes.
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Affiliation(s)
- Yigal Lahav
- Fritz Haber Centre for Molecular Dynamics Research, Institute of Chemistry, Hebrew University of Jerusalem, Israel.
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17
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Sirohiwal A, Neese F, Pantazis DA. How Can We Predict Accurate Electrochromic Shifts for Biochromophores? A Case Study on the Photosynthetic Reaction Center. J Chem Theory Comput 2021; 17:1858-1873. [PMID: 33566610 PMCID: PMC8023663 DOI: 10.1021/acs.jctc.0c01152] [Citation(s) in RCA: 8] [Impact Index Per Article: 2.7] [Reference Citation Analysis] [Abstract] [MESH Headings] [Track Full Text] [Download PDF] [Figures] [Journal Information] [Subscribe] [Scholar Register] [Received: 11/02/2020] [Indexed: 01/28/2023]
Abstract
Protein-embedded chromophores are responsible for light harvesting, excitation energy transfer, and charge separation in photosynthesis. A critical part of the photosynthetic apparatus are reaction centers (RCs), which comprise groups of (bacterio)chlorophyll and (bacterio)pheophytin molecules that transform the excitation energy derived from light absorption into charge separation. The lowest excitation energies of individual pigments (site energies) are key for understanding photosynthetic systems, and form a prime target for quantum chemistry. A major theoretical challenge is to accurately describe the electrochromic (Stark) shifts in site energies produced by the inhomogeneous electric field of the protein matrix. Here, we present large-scale quantum mechanics/molecular mechanics calculations of electrochromic shifts for the RC chromophores of photosystem II (PSII) using various quantum chemical methods evaluated against the domain-based local pair natural orbital (DLPNO) implementation of the similarity-transformed equation of motion coupled cluster theory with single and double excitations (STEOM-CCSD). We show that certain range-separated density functionals (ωΒ97, ωΒ97X-V, ωΒ2PLYP, and LC-BLYP) correctly reproduce RC site energy shifts with time-dependent density functional theory (TD-DFT). The popular CAM-B3LYP functional underestimates the shifts and is not recommended. Global hybrid functionals are too insensitive to the environment and should be avoided, while nonhybrid functionals are strictly nonapplicable. Among the applicable approximate coupled cluster methods, the canonical versions of CC2 and ADC(2) were found to deviate significantly from the reference results both for the description of the lowest excited state and for the electrochromic shifts. By contrast, their spin-component-scaled (SCS) and particularly the scale-opposite-spin (SOS) variants compare well with the reference DLPNO-STEOM-CCSD and the best range-separated DFT methods. The emergence of RC excitation asymmetry is discussed in terms of intrinsic and protein electrostatic potentials. In addition, we evaluate a minimal structural scaffold of PSII, the D1-D2-CytB559 RC complex often employed in experimental studies, and show that it would have the same site energy distribution of RC chromophores as the full PSII supercomplex, but only under the unlikely conditions that the core protein organization and cofactor arrangement remain identical to those of the intact enzyme.
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Affiliation(s)
- Abhishek Sirohiwal
- Max-Planck-Institut
für Kohlenforschung, Kaiser-Wilhelm-Platz 1, 45470 Mülheim an der Ruhr, Germany
- Fakultät
für Chemie und Biochemie, Ruhr-Universität
Bochum, 44780 Bochum, Germany
| | - Frank Neese
- Max-Planck-Institut
für Kohlenforschung, Kaiser-Wilhelm-Platz 1, 45470 Mülheim an der Ruhr, Germany
| | - Dimitrios A. Pantazis
- Max-Planck-Institut
für Kohlenforschung, Kaiser-Wilhelm-Platz 1, 45470 Mülheim an der Ruhr, Germany
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18
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Schubert K, Guo M, Atak K, Dörner S, Bülow C, von Issendorff B, Klumpp S, Lau JT, Miedema PS, Schlathölter T, Techert S, Timm M, Wang X, Zamudio-Bayer V, Schwob L, Bari S. The electronic structure and deexcitation pathways of an isolated metalloporphyrin ion resolved by metal L-edge spectroscopy. Chem Sci 2021; 12:3966-3976. [PMID: 34163667 PMCID: PMC8179464 DOI: 10.1039/d0sc06591a] [Citation(s) in RCA: 2] [Impact Index Per Article: 0.7] [Reference Citation Analysis] [Abstract] [Grants] [Track Full Text] [Download PDF] [Figures] [Journal Information] [Subscribe] [Scholar Register] [Received: 12/01/2020] [Accepted: 01/23/2021] [Indexed: 11/21/2022] Open
Abstract
The local electronic structure of the metal-active site and the deexcitation pathways of metalloporphyrins are crucial for numerous applications but difficult to access by commonly employed techniques. Here, we applied near-edge X-ray absorption mass spectrometry and quantum-mechanical restricted active space calculations to investigate the electronic structure of the metal-active site of the isolated cobalt(iii) protoporphyrin IX cation (CoPPIX+) and its deexcitation pathways upon resonant absorption at the cobalt L-edge. The experiments were carried out in the gas phase, thus allowing for control over the chemical state and molecular environment of the metalloporphyrin. The obtained mass spectra reveal that resonant excitations of CoPPIX+ at the cobalt L3-edge lead predominantly to the formation of the intact radical dication and doubly charged fragments through losses of charged and neutral side chains from the macrocycle. The comparison between experiment and theory shows that CoPPIX+ is in a 3A2g triplet ground state and that competing excitations to metal-centred non-bonding and antibonding σ* molecular orbitals lead to distinct deexcitation pathways.
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Affiliation(s)
- Kaja Schubert
- Deutsches Elektronen-Synchrotron DESY 22607 Hamburg Germany
| | - Meiyuan Guo
- Division of Chemical Physics, Chemical Center, Lund University SE-221 00 Lund Sweden
| | - Kaan Atak
- Deutsches Elektronen-Synchrotron DESY 22607 Hamburg Germany
| | - Simon Dörner
- Deutsches Elektronen-Synchrotron DESY 22607 Hamburg Germany
| | - Christine Bülow
- Abteilung für Hochempfindliche Röntgenspektroskopie, Helmholtz-Zentrum Berlin für Materialien und Energie 12489 Berlin Germany
| | - Bernd von Issendorff
- Physikalisches Institut, Albert-Ludwigs-Universität Freiburg 79104 Freiburg Germany
| | - Stephan Klumpp
- Deutsches Elektronen-Synchrotron DESY 22607 Hamburg Germany
| | - J Tobias Lau
- Abteilung für Hochempfindliche Röntgenspektroskopie, Helmholtz-Zentrum Berlin für Materialien und Energie 12489 Berlin Germany
- Physikalisches Institut, Albert-Ludwigs-Universität Freiburg 79104 Freiburg Germany
| | | | - Thomas Schlathölter
- Zernike Institute for Advanced Materials, University of Groningen 9747 AG Groningen The Netherlands
| | - Simone Techert
- Deutsches Elektronen-Synchrotron DESY 22607 Hamburg Germany
- Institut für Röntgenphysik, Georg-August-Universität Göttingen 37077 Göttingen Germany
| | - Martin Timm
- Abteilung für Hochempfindliche Röntgenspektroskopie, Helmholtz-Zentrum Berlin für Materialien und Energie 12489 Berlin Germany
| | - Xin Wang
- Zernike Institute for Advanced Materials, University of Groningen 9747 AG Groningen The Netherlands
| | - Vicente Zamudio-Bayer
- Abteilung für Hochempfindliche Röntgenspektroskopie, Helmholtz-Zentrum Berlin für Materialien und Energie 12489 Berlin Germany
| | - Lucas Schwob
- Deutsches Elektronen-Synchrotron DESY 22607 Hamburg Germany
| | - Sadia Bari
- Deutsches Elektronen-Synchrotron DESY 22607 Hamburg Germany
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19
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Furlan C, Berenbeim JA, Dessent CEH. Photoproducts of the Photodynamic Therapy Agent Verteporfin Identified via Laser Interfaced Mass Spectrometry. Molecules 2020; 25:molecules25225280. [PMID: 33198255 PMCID: PMC7696214 DOI: 10.3390/molecules25225280] [Citation(s) in RCA: 2] [Impact Index Per Article: 0.5] [Reference Citation Analysis] [Abstract] [Key Words] [MESH Headings] [Track Full Text] [Download PDF] [Figures] [Journal Information] [Subscribe] [Scholar Register] [Received: 10/14/2020] [Revised: 11/08/2020] [Accepted: 11/09/2020] [Indexed: 12/12/2022] Open
Abstract
Verteporfin, a free base benzoporphyrin derivative monoacid ring A, is a photosensitizing drug for photodynamic therapy (PDT) used in the treatment of the wet form of macular degeneration and activated by red light of 689 nm. Here, we present the first direct study of its photofragmentation channels in the gas phase, conducted using a laser interfaced mass spectrometer across a broad photoexcitation range from 250 to 790 nm. The photofragmentation channels are compared with the collision-induced dissociation (CID) products revealing similar dissociation pathways characterized by the loss of the carboxyl and ester groups. Complementary solution-phase photolysis experiments indicate that photobleaching occurs in verteporfin in acetonitrile; a notable conclusion, as photoinduced activity in Verteporfin was not thought to occur in homogenous solvent conditions. These results provide unique new information on the thermal break-down products and photoproducts of this light-triggered drug.
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20
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Sirohiwal A, Berraud-Pache R, Neese F, Izsák R, Pantazis DA. Accurate Computation of the Absorption Spectrum of Chlorophyll a with Pair Natural Orbital Coupled Cluster Methods. J Phys Chem B 2020; 124:8761-8771. [PMID: 32930590 PMCID: PMC7584356 DOI: 10.1021/acs.jpcb.0c05761] [Citation(s) in RCA: 55] [Impact Index Per Article: 13.8] [Reference Citation Analysis] [Abstract] [Track Full Text] [Download PDF] [Figures] [Journal Information] [Subscribe] [Scholar Register] [Indexed: 02/06/2023]
Abstract
![]()
The
ability to accurately compute low-energy excited states of
chlorophylls is critically important for understanding the vital roles
they play in light harvesting, energy transfer, and photosynthetic
charge separation. The challenge for quantum chemical methods arises
both from the intrinsic complexity of the electronic structure problem
and, in the case of biological models, from the need to account for
protein–pigment interactions. In this work, we report electronic
structure calculations of unprecedented accuracy for the low-energy
excited states in the Q and B bands of chlorophyll a. This is achieved by using the newly developed domain-based local
pair natural orbital (DLPNO) implementation of the similarity transformed
equation of motion coupled cluster theory with single and double excitations
(STEOM-CCSD) in combination with sufficiently large and flexible basis
sets. The results of our DLPNO–STEOM-CCSD calculations are
compared with more approximate approaches. The results demonstrate
that, in contrast to time-dependent density functional theory, the
DLPNO–STEOM-CCSD method provides a balanced performance for
both absorption bands. In addition to vertical excitation energies,
we have calculated the vibronic spectrum for the Q and B bands through
a combination of DLPNO–STEOM-CCSD and ground-state density
functional theory frequency calculations. These results serve as a
basis for comparison with gas-phase experiments.
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Affiliation(s)
- Abhishek Sirohiwal
- Max-Planck-Institut für Kohlenforschung, Kaiser-Wilhelm-Platz 1, 45470 Mülheim an der Ruhr, Germany.,Fakultät für Chemie und Biochemie, Ruhr-Universität Bochum, 44780 Bochum, Germany
| | - Romain Berraud-Pache
- Max-Planck-Institut für Kohlenforschung, Kaiser-Wilhelm-Platz 1, 45470 Mülheim an der Ruhr, Germany
| | - Frank Neese
- Max-Planck-Institut für Kohlenforschung, Kaiser-Wilhelm-Platz 1, 45470 Mülheim an der Ruhr, Germany
| | - Róbert Izsák
- Max-Planck-Institut für Kohlenforschung, Kaiser-Wilhelm-Platz 1, 45470 Mülheim an der Ruhr, Germany
| | - Dimitrios A Pantazis
- Max-Planck-Institut für Kohlenforschung, Kaiser-Wilhelm-Platz 1, 45470 Mülheim an der Ruhr, Germany
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21
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Kjær C, Gruber E, Nielsen SB, Andersen LH. Color tuning of chlorophyll a and b pigments revealed from gas-phase spectroscopy. Phys Chem Chem Phys 2020; 22:20331-20336. [PMID: 32895686 DOI: 10.1039/d0cp03210g] [Citation(s) in RCA: 6] [Impact Index Per Article: 1.5] [Reference Citation Analysis] [Abstract] [Track Full Text] [Journal Information] [Subscribe] [Scholar Register] [Indexed: 01/13/2023]
Abstract
Chlorophyll (Chl) pigments are responsible for vital mechanisms in photosynthetic proteins: light harvesting, energy transfer and charge separation. A complex interplay between the Chl molecule and its microenvironment determines its transition energy. Interactions such as excitonic coupling with one or more pigments (Chls or carotenoids), axial ligation to the magnesium center, or electrostatic interactions between Chl and nearby amino-acid residues all influence the photophysical properties. Here we use time-resolved photodissociation action spectroscopy to determine transition energies of Chla/b complexes in vacuo to directly compare the impact of a negatively charged axial ligand (formate) to that of exciton coupling between two Chls. Experiments carried out at the electrostatic ion storage ring ELISA allow dissociation to be sampled on hundreds of milliseconds time scale. Absorption-band maxima of Chla-formate complexes are found at 433 ± 4 nm/2.86 ± 0.03 eV (Soret band) and in the region 654-675 nm/1.84-1.90 eV (Q band) and those of Chla dimers tagged by a quaternary ammonium ion at 419 ± 5 nm/2.96 ± 0.04 eV (Soret band) and 647 nm/1.92 eV (Q band). The axial ligand strongly affects the Chla transition energies causing redshifts of 0.21 eV of the Soret band and 0.04-0.1 eV of the Q band compared to Chla tagged by a quaternary ammonium. Slightly smaller shifts were found in case of Chlb. The redshifts are approximately twice that induced by excitonic coupling between two Chlas, also tagged by a quaternary ammonium ion. Axial ligation brings the absorption by isolated Chls very close to that of photosynthetic proteins.
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Affiliation(s)
- Christina Kjær
- Department of Physics and Astronomy, Aarhus University, Denmark.
| | - Elisabeth Gruber
- Department of Physics and Astronomy, Aarhus University, Denmark.
| | | | - Lars H Andersen
- Department of Physics and Astronomy, Aarhus University, Denmark.
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22
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Carter-Fenk K, Herbert JM. State-Targeted Energy Projection: A Simple and Robust Approach to Orbital Relaxation of Non-Aufbau Self-Consistent Field Solutions. J Chem Theory Comput 2020; 16:5067-5082. [DOI: 10.1021/acs.jctc.0c00502] [Citation(s) in RCA: 38] [Impact Index Per Article: 9.5] [Reference Citation Analysis] [Track Full Text] [Journal Information] [Subscribe] [Scholar Register] [Indexed: 12/28/2022]
Affiliation(s)
- Kevin Carter-Fenk
- Department of Chemistry and Biochemistry, The Ohio State University, Columbus, Ohio 43210, United States
| | - John M. Herbert
- Department of Chemistry and Biochemistry, The Ohio State University, Columbus, Ohio 43210, United States
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23
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Wang Q, He Y, Li J. Conjoint Analysis of SMRT- and Illumina-Based RNA-Sequencing Data of Fenneropenaeus chinensis Provides Insight Into Sex-Biased Expression Genes Involved in Sexual Dimorphism. Front Genet 2019; 10:1175. [PMID: 31803244 PMCID: PMC6872642 DOI: 10.3389/fgene.2019.01175] [Citation(s) in RCA: 4] [Impact Index Per Article: 0.8] [Reference Citation Analysis] [Abstract] [Key Words] [Track Full Text] [Download PDF] [Figures] [Journal Information] [Subscribe] [Scholar Register] [Received: 07/14/2019] [Accepted: 10/24/2019] [Indexed: 12/15/2022] Open
Abstract
Fenneropenaeus chinensis (F. chinensis) is one of the most commercially important cultured shrimps in China. The adult F. chinensis exhibit sexual dimorphism in growth and body color. In this research, we profiled the whole transcriptome of F. chinensis by using single molecule real-time-based full-length transcriptome sequencing. We further performed Illumina-based short reads RNA-seq on muscle and gonad of two sexes to detect the sex-biased expression genes. In muscle, we observed significantly more female-biased transcripts. With the differentially expressed transcripts (DETs) in muscle, some pathways related to the energy metabolism were enriched, which may be responsible for the difference of growth. We also digged out a pathway named porphyrin and chlorophyll metabolism. It was speculated to relevant to the difference of body color between the two sexes of shrimp. Interestingly, almost all DETs in these pathways were female-biased expression in muscle, which could explain the phenomenon of better growth performance and darker body color in female. In gonad, several pathways involved in reproduction were enriched. For instance, some female-biased DETs participated in the arachidonic acid metabolism, which was reported crucial in female reproduction. In conclusion, our studies identified abundant sex-biased expression transcripts and important pathways involved in sexual dimorphism by using the RNA-seq method. It provided a basis for future researches on the sexual dimorphism of F. chinensis.
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Affiliation(s)
- Qiong Wang
- Key Laboratory for Sustainable Utilization of Marine Fisheries Resources, Ministry of Agriculture and Rural Affairs, Yellow Sea Fisheries Research Institute, Chinese Academy of Fishery Sciences, Qingdao, China.,Function Laboratory for Marine Fisheries Science and Food Production Processes, Qingdao National Laboratory for Marine Science and Technology, Qingdao, China
| | - Yuying He
- Key Laboratory for Sustainable Utilization of Marine Fisheries Resources, Ministry of Agriculture and Rural Affairs, Yellow Sea Fisheries Research Institute, Chinese Academy of Fishery Sciences, Qingdao, China.,Function Laboratory for Marine Fisheries Science and Food Production Processes, Qingdao National Laboratory for Marine Science and Technology, Qingdao, China
| | - Jian Li
- Key Laboratory for Sustainable Utilization of Marine Fisheries Resources, Ministry of Agriculture and Rural Affairs, Yellow Sea Fisheries Research Institute, Chinese Academy of Fishery Sciences, Qingdao, China.,Function Laboratory for Marine Fisheries Science and Food Production Processes, Qingdao National Laboratory for Marine Science and Technology, Qingdao, China
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24
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Preciado-Rivas MR, Mowbray DJ, Lyon K, Larsen AH, Milne BF. Optical excitations of chlorophyll a and b monomers and dimers. J Chem Phys 2019; 151:174102. [PMID: 31703510 DOI: 10.1063/1.5121721] [Citation(s) in RCA: 7] [Impact Index Per Article: 1.4] [Reference Citation Analysis] [Abstract] [Track Full Text] [Journal Information] [Subscribe] [Scholar Register] [Indexed: 12/28/2022] Open
Abstract
A necessary first step in the development of technologies such as artificial photosynthesis is understanding the photoexcitation process within the basic building blocks of naturally occurring light harvesting complexes (LHCs). The most important of these building blocks in biological LHCs such as LHC II from green plants are the chlorophyll a (Chl a) and chlorophyll b (Chl b) chromophores dispersed throughout the protein matrix. However, efforts to describe such systems are still hampered by the lack of computationally efficient and accurate methods that are able to describe optical absorption in large biomolecules. In this work, we employ a highly efficient linear combination of atomic orbitals (LCAOs) to represent the Kohn-Sham (KS) wave functions at the density functional theory (DFT) level and perform time-dependent density functional theory (TDDFT) calculations in either the reciprocal space and frequency domain (LCAO-TDDFT-k-ω) or real space and time domain (LCAO-TDDFT-r-t) of the optical absorption spectra of Chl a and b monomers and dimers. We find that our LCAO-TDDFT-k-ω and LCAO-TDDFT-r-t calculations reproduce results obtained with a plane-wave (PW) representation of the KS wave functions (PW-TDDFT-k-ω) but with a significant reduction in computational effort. Moreover, by applying the Gritsenko, van Leeuwen, van Lenthe, and Baerends solid and correlation derivative discontinuity correction Δx to the KS eigenenergies, with both LCAO-TDDFT-k-ω and LCAO-TDDFT-r-t methods, we are able to semiquantitatively reproduce the experimentally measured photoinduced dissociation results. This work opens the path to first principles calculations of optical excitations in macromolecular systems.
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Affiliation(s)
| | - Duncan John Mowbray
- School of Physical Sciences and Nanotechnology, Yachay Tech University, Urcuquí 100119, Ecuador
| | - Keenan Lyon
- Department of Applied Mathematics, University of Waterloo, Waterloo, Ontario N2L 3G1, Canada
| | - Ask Hjorth Larsen
- Nano-Bio Spectroscopy Group and ETSF Scientific Development Centre, Departamento de Física de Materiales, Universidad del País Vasco UPV/EHU, E-20018 San Sebastián, Spain
| | - Bruce Forbes Milne
- Nano-Bio Spectroscopy Group and ETSF Scientific Development Centre, Departamento de Física de Materiales, Universidad del País Vasco UPV/EHU, E-20018 San Sebastián, Spain
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25
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Schelter I, Foerster JM, Gardiner AT, Roszak AW, Cogdell RJ, Ullmann GM, de Queiroz TB, Kümmel S. Assessing density functional theory in real-time and real-space as a tool for studying bacteriochlorophylls and the light-harvesting complex 2. J Chem Phys 2019; 151:134114. [DOI: 10.1063/1.5116779] [Citation(s) in RCA: 8] [Impact Index Per Article: 1.6] [Reference Citation Analysis] [Track Full Text] [Journal Information] [Subscribe] [Scholar Register] [Indexed: 02/04/2023] Open
Affiliation(s)
- Ingo Schelter
- Theoretical Physics IV, University of Bayreuth, Bayreuth, Germany
| | - Johannes M. Foerster
- Theoretical Physics IV and Computational Biochemistry, University of Bayreuth, Bayreuth, Germany
| | | | - Aleksander W. Roszak
- Institute of Molecular, Cell and Systems Biology, University of Glasgow, Glasgow, United Kingdom
| | - Richard J. Cogdell
- Institute of Molecular, Cell and Systems Biology, University of Glasgow, Glasgow, United Kingdom
| | | | | | - Stephan Kümmel
- Theoretical Physics IV, University of Bayreuth, Bayreuth, Germany
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26
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Gruber E, Kjaer C, Nielsen SB, Andersen LH. Intrinsic Photophysics of Light-harvesting Charge-tagged Chlorophyll a and b Pigments. Chemistry 2019; 25:9153-9158. [PMID: 31095797 DOI: 10.1002/chem.201901786] [Citation(s) in RCA: 15] [Impact Index Per Article: 3.0] [Reference Citation Analysis] [Abstract] [Key Words] [Track Full Text] [Journal Information] [Subscribe] [Scholar Register] [Received: 04/17/2019] [Revised: 05/15/2019] [Indexed: 12/20/2022]
Abstract
Chlorophylls a and b (Chla/b) are responsible for light-harvesting by photosynthetic proteins in plants. They display broad absorption in the visible region with multiple bands, due to the asymmetry of the macrocycle and strong vibronic coupling. Their photophysics relies on the microenvironment, with regard to transition energies as well as quenching of triplet states. Here, we firmly establish the splitting of the Q and Soret bands into x- and y- polarized bands for the isolated molecules in vacuo, and resolve vibronic features. Storage-ring experiments reveal that dissociation of photoexcited charge-tagged complexes occurs over several milliseconds, but with two different time constants. A fast decay is ascribed to dissociation after internal conversion and a slow decay to the population of a triplet state that acts as a bottleneck. Support for the latter is provided by pump-probe experiments, where a second laser pulse probes the long-lived triplet state.
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Affiliation(s)
| | - Christina Kjaer
- Department of Physics and Astronomy, Aarhus University, Denmark
| | | | - Lars H Andersen
- Department of Physics and Astronomy, Aarhus University, Denmark
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27
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Carotenoid Production by Dunaliella salina under Red Light. Antioxidants (Basel) 2019; 8:antiox8050123. [PMID: 31067695 PMCID: PMC6562933 DOI: 10.3390/antiox8050123] [Citation(s) in RCA: 44] [Impact Index Per Article: 8.8] [Reference Citation Analysis] [Abstract] [Key Words] [Track Full Text] [Download PDF] [Figures] [Journal Information] [Subscribe] [Scholar Register] [Received: 04/18/2019] [Revised: 04/29/2019] [Accepted: 05/05/2019] [Indexed: 12/27/2022] Open
Abstract
The halotolerant photoautotrophic marine microalga Dunaliella salina is one of the richest sources of natural carotenoids. Here we investigated the effects of high intensity blue, red and white light from light emitting diodes (LED) on the production of carotenoids by strains of D. salina under nutrient sufficiency and strict temperature control favouring growth. Growth in high intensity red light was associated with carotenoid accumulation and a high rate of oxygen uptake. On transfer to blue light, a massive drop in carotenoid content was recorded along with very high rates of photo-oxidation. In high intensity blue light, growth was maintained at the same rate as in red or white light, but without carotenoid accumulation; transfer to red light stimulated a small increase in carotenoid content. The data support chlorophyll absorption of red light photons to reduce plastoquinone in photosystem II, coupled to phytoene desaturation by plastoquinol:oxygen oxidoreductase, with oxygen as electron acceptor. Partitioning of electrons between photosynthesis and carotenoid biosynthesis would depend on both red photon flux intensity and phytoene synthase upregulation by the red light photoreceptor, phytochrome. Red light control of carotenoid biosynthesis and accumulation reduces the rate of formation of reactive oxygen species (ROS) as well as increases the pool size of anti-oxidant.
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Kotkowiak M, Dudkowiak A, Fiedor L. Intrinsic Photoprotective Mechanisms in Chlorophylls. Angew Chem Int Ed Engl 2017. [DOI: 10.1002/ange.201705357] [Citation(s) in RCA: 3] [Impact Index Per Article: 0.4] [Reference Citation Analysis] [Track Full Text] [Journal Information] [Subscribe] [Scholar Register] [Indexed: 12/31/2022]
Affiliation(s)
- Michał Kotkowiak
- Faculty of Technical Physics; Poznan University of Technology; Piotrowo 3 60-965 Poznan Poland
| | - Alina Dudkowiak
- Faculty of Technical Physics; Poznan University of Technology; Piotrowo 3 60-965 Poznan Poland
| | - Leszek Fiedor
- Faculty of Biochemistry, Biophysics and Biotechnology; Jagiellonian University; Gronostajowa 7 30-387 Krakow Poland
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Kotkowiak M, Dudkowiak A, Fiedor L. Intrinsic Photoprotective Mechanisms in Chlorophylls. Angew Chem Int Ed Engl 2017; 56:10457-10461. [DOI: 10.1002/anie.201705357] [Citation(s) in RCA: 17] [Impact Index Per Article: 2.4] [Reference Citation Analysis] [Track Full Text] [Journal Information] [Subscribe] [Scholar Register] [Received: 05/24/2017] [Indexed: 11/12/2022]
Affiliation(s)
- Michał Kotkowiak
- Faculty of Technical Physics; Poznan University of Technology; Piotrowo 3 60-965 Poznan Poland
| | - Alina Dudkowiak
- Faculty of Technical Physics; Poznan University of Technology; Piotrowo 3 60-965 Poznan Poland
| | - Leszek Fiedor
- Faculty of Biochemistry, Biophysics and Biotechnology; Jagiellonian University; Gronostajowa 7 30-387 Krakow Poland
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30
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A pathway for protective quenching in antenna proteins of Photosystem II. Sci Rep 2017; 7:2523. [PMID: 28566748 PMCID: PMC5451436 DOI: 10.1038/s41598-017-02892-w] [Citation(s) in RCA: 18] [Impact Index Per Article: 2.6] [Reference Citation Analysis] [Abstract] [Track Full Text] [Download PDF] [Figures] [Journal Information] [Subscribe] [Scholar Register] [Received: 02/01/2017] [Accepted: 04/19/2017] [Indexed: 11/08/2022] Open
Abstract
Photosynthesis is common in nature, converting sunlight energy into proton motive force and reducing power. The increased spectral range absorption of light exerted by pigments (i.e. chlorophylls, Chls) within Light Harvesting Complexes (LHCs) proves an important advantage under low light conditions. However, in the exposure to excess light, oxidative damages and ultimately cell death can occur. A down-regulatory mechanism, thus, has been evolved (non-photochemical quenching, NPQ). The mechanistic details of its major component (qE) are missing at the atomic scale. The research herein, initiates on solid evidence from the current NPQ state of the art, and reveals a detailed atomistic view by large scale Molecular Dynamics, Metadynamics and ab initio Simulations. The results demonstrate a complete picture of an elaborate common molecular design. All probed antenna proteins (major LHCII from spinach-pea, CP29 from spinach) show striking plasticity in helix-D, under NPQ conditions. This induces changes in Qy bands in excitation and absorption spectra of the near-by pigment pair (Chl613-614) that could emerge as a new quenching site. Zeaxanthin enhances this plasticity (and possibly the quenching) even at milder NPQ conditions.
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31
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Anda A, De Vico L, Hansen T. Intermolecular Modes between LH2 Bacteriochlorophylls and Protein Residues: The Effect on the Excitation Energies. J Phys Chem B 2017; 121:5499-5508. [PMID: 28485594 DOI: 10.1021/acs.jpcb.7b02071] [Citation(s) in RCA: 17] [Impact Index Per Article: 2.4] [Reference Citation Analysis] [Abstract] [Track Full Text] [Journal Information] [Subscribe] [Scholar Register] [Indexed: 11/28/2022]
Abstract
Light-harvesting system 2 (LH2) executes the primary processes of photosynthesis in purple bacteria; photon absorption, and energy transportation to the reaction center. A detailed mechanistic insight into these operations is obscured by the complexity of the light-harvesting systems, particularly by the chromophore-environment interaction. In this work, we focus on the effects of the protein residues that are ligated to the bacteriochlorophylls (BChls) and construct potential energy surfaces of the ground and first optically excited state for the various BChl-residue systems where we in each case consider two degrees of freedom in the intermolecular region. We find that the excitation energies are only slightly affected by the considered modes. In addition, we see that axial ligands and hydrogen-bonded residues have opposite effects on both excitation energies and oscillator strengths by comparing to the isolated BChls. Our results indicate that only a small part of the chromophore-environment interaction can be associated with the intermolecular region between a BChl and an adjacent residue, but that it may be possible to selectively raise or lower the excitation energy at the axial and planar residue positions, respectively.
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Affiliation(s)
- André Anda
- Department of Chemistry, H. C. Ørsted Institute, University of Copenhagen , Universitetsparken 5, DK-2100 Copenhagen, Denmark
| | - Luca De Vico
- Department of Chemistry, H. C. Ørsted Institute, University of Copenhagen , Universitetsparken 5, DK-2100 Copenhagen, Denmark.,Department of Biotechnology, Chemistry and Pharmacy, University of Siena , via Aldo Moro 2, 53100 Siena, Italy
| | - Thorsten Hansen
- Department of Chemistry, H. C. Ørsted Institute, University of Copenhagen , Universitetsparken 5, DK-2100 Copenhagen, Denmark
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32
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Wellman SMJ, Jockusch RA. Tuning the Intrinsic Photophysical Properties of Chlorophylla. Chemistry 2017; 23:7728-7736. [DOI: 10.1002/chem.201605167] [Citation(s) in RCA: 12] [Impact Index Per Article: 1.7] [Reference Citation Analysis] [Track Full Text] [Journal Information] [Subscribe] [Scholar Register] [Received: 11/06/2016] [Indexed: 12/31/2022]
Affiliation(s)
- Sydney M. J. Wellman
- Department of Chemistry; University of Toronto; 80 St. George Street Toronto Ontario M5S 3H6 Canada
| | - Rebecca A. Jockusch
- Department of Chemistry; University of Toronto; 80 St. George Street Toronto Ontario M5S 3H6 Canada
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33
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López-Tarifa P, Liguori N, van den Heuvel N, Croce R, Visscher L. Coulomb couplings in solubilised light harvesting complex II (LHCII): challenging the ideal dipole approximation from TDDFT calculations. Phys Chem Chem Phys 2017; 19:18311-18320. [DOI: 10.1039/c7cp03284f] [Citation(s) in RCA: 19] [Impact Index Per Article: 2.7] [Reference Citation Analysis] [Abstract] [Track Full Text] [Journal Information] [Subscribe] [Scholar Register] [Indexed: 11/21/2022]
Abstract
We investigate the coulomb coupling interactions of natural chromophores in the solubilised light harvesting complex II (LHCII) using DFT quantum chemistry calculations.
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Affiliation(s)
- P. López-Tarifa
- Amsterdam Center for Multiscale Modeling
- Dep. Theoretical Chemistry
- Faculty of Sciences
- VU University Amsterdam
- 1081 HV Amsterdam
| | - Nicoletta Liguori
- Laboratory of Biophysics of Photosynthesis
- Dep. Physics and Astronomy
- Faculty of Sciences
- VU University Amsterdam
- 1081 HV Amsterdam
| | - Naudin van den Heuvel
- Van 't Hoff Institute for Molecular Sciences
- University of Amsterdam
- 1098 XH Amsterdam
- The Netherlands
| | - Roberta Croce
- Laboratory of Biophysics of Photosynthesis
- Dep. Physics and Astronomy
- Faculty of Sciences
- VU University Amsterdam
- 1081 HV Amsterdam
| | - Lucas Visscher
- Amsterdam Center for Multiscale Modeling
- Dep. Theoretical Chemistry
- Faculty of Sciences
- VU University Amsterdam
- 1081 HV Amsterdam
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34
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Kjær C, Stockett MH, Pedersen BM, Nielsen SB. Strong Impact of an Axial Ligand on the Absorption by Chlorophyll a and b Pigments Determined by Gas-Phase Ion Spectroscopy Experiments. J Phys Chem B 2016; 120:12105-12110. [PMID: 27933942 DOI: 10.1021/acs.jpcb.6b10547] [Citation(s) in RCA: 10] [Impact Index Per Article: 1.3] [Reference Citation Analysis] [Abstract] [MESH Headings] [Track Full Text] [Journal Information] [Subscribe] [Scholar Register] [Indexed: 02/05/2023]
Abstract
The microenvironments in photosynthetic proteins affect the absorption by chlorophyll (Chl) pigments. It is, however, a challenge to disentangle the impact on the transition energies of different perturbations, for example, the global electrostatics of the protein (nonbonded environmental effects), exciton coupling between Chl's, conformational variations, and binding of an axial ligand to the magnesium center. This is needed to distinguish between the two most commonly proposed mechanisms for energy transport in photosynthetic proteins, relying on either weakly or strongly coupled pigments. Here, on the basis of photodissociation action spectroscopy, we establish that the redshift of the Soret absorption band due to binding of a negatively charged carboxylate (as present in aspartic acid and glutamic acid residues) is 0.1-0.2 eV for Chl a and b. This effect is almost enough to reproduce the well-known green color of plants and can account for the strong spectral variation between Chl's. The experimental data serve to benchmark future high-level calculations of excited-state energies. Finally, we demonstrate that complexes between Chl a and histidine, tagged by a quaternary ammonium ion, can be made in the gas phase by electrospray ionization, but more work is needed to produce enough ions for gas-phase spectroscopy.
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Affiliation(s)
- Christina Kjær
- Department of Physics and Astronomy, Aarhus University , DK-8000 Aarhus, Denmark
| | - Mark H Stockett
- Department of Physics and Astronomy, Aarhus University , DK-8000 Aarhus, Denmark
| | - Bjarke M Pedersen
- Department of Physics and Astronomy, Aarhus University , DK-8000 Aarhus, Denmark
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35
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Seifert B, Zude-Sasse M. High hydrostatic pressure effects on spectral-optical variables of the chlorophyll pool in climacteric fruit. Lebensm Wiss Technol 2016. [DOI: 10.1016/j.lwt.2016.06.011] [Citation(s) in RCA: 5] [Impact Index Per Article: 0.6] [Reference Citation Analysis] [Track Full Text] [Journal Information] [Subscribe] [Scholar Register] [Indexed: 12/19/2022]
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36
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Milne BF, Kjaer C, Houmøller J, Stockett MH, Toker Y, Rubio A, Nielsen SB. On the Exciton Coupling between Two Chlorophyll Pigments in the Absence of a Protein Environment: Intrinsic Effects Revealed by Theory and Experiment. Angew Chem Int Ed Engl 2016; 55:6248-51. [DOI: 10.1002/anie.201601979] [Citation(s) in RCA: 18] [Impact Index Per Article: 2.3] [Reference Citation Analysis] [Track Full Text] [Journal Information] [Subscribe] [Scholar Register] [Received: 02/25/2016] [Indexed: 11/10/2022]
Affiliation(s)
- Bruce F. Milne
- CFisUC, Department of Physics; University of Coimbra; Rua Larga 3004-516 Coimbra Portugal
| | - Christina Kjaer
- Department of Physics and Astronomy; Aarhus University; Ny Munkegade DK-8000 Aarhus C Denmark
| | - Jørgen Houmøller
- Department of Physics and Astronomy; Aarhus University; Ny Munkegade DK-8000 Aarhus C Denmark
| | - Mark H. Stockett
- Department of Physics and Astronomy; Aarhus University; Ny Munkegade DK-8000 Aarhus C Denmark
| | - Yoni Toker
- Institute of Nanotechnology and Advanced Materials; Bar-Ilan University; Ramat-Gan 5290002 Israel
| | - Angel Rubio
- Max Planck Institute for the Structure and Dynamics of Matter; Luruper Chaussee 149 22761 Hamburg Germany
- Nano-Bio Spectroscopy Group and ETSF; Universidad del País Vasco, CFM CSIC-UPV/EHU-MPC & DIPC; 20018 San Sebastián Spain
| | - Steen Brøndsted Nielsen
- Department of Physics and Astronomy; Aarhus University; Ny Munkegade DK-8000 Aarhus C Denmark
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37
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Milne BF, Kjaer C, Houmøller J, Stockett MH, Toker Y, Rubio A, Nielsen SB. On the Exciton Coupling between Two Chlorophyll Pigments in the Absence of a Protein Environment: Intrinsic Effects Revealed by Theory and Experiment. Angew Chem Int Ed Engl 2016. [DOI: 10.1002/ange.201601979] [Citation(s) in RCA: 3] [Impact Index Per Article: 0.4] [Reference Citation Analysis] [Track Full Text] [Journal Information] [Subscribe] [Scholar Register] [Indexed: 11/07/2022]
Affiliation(s)
- Bruce F. Milne
- CFisUC, Department of Physics; University of Coimbra; Rua Larga 3004-516 Coimbra Portugal
| | - Christina Kjaer
- Department of Physics and Astronomy; Aarhus University; Ny Munkegade DK-8000 Aarhus C Denmark
| | - Jørgen Houmøller
- Department of Physics and Astronomy; Aarhus University; Ny Munkegade DK-8000 Aarhus C Denmark
| | - Mark H. Stockett
- Department of Physics and Astronomy; Aarhus University; Ny Munkegade DK-8000 Aarhus C Denmark
| | - Yoni Toker
- Institute of Nanotechnology and Advanced Materials; Bar-Ilan University; Ramat-Gan 5290002 Israel
| | - Angel Rubio
- Max Planck Institute for the Structure and Dynamics of Matter; Luruper Chaussee 149 22761 Hamburg Germany
- Nano-Bio Spectroscopy Group and ETSF; Universidad del País Vasco, CFM CSIC-UPV/EHU-MPC & DIPC; 20018 San Sebastián Spain
| | - Steen Brøndsted Nielsen
- Department of Physics and Astronomy; Aarhus University; Ny Munkegade DK-8000 Aarhus C Denmark
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38
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Anda A, Hansen T, De Vico L. Multireference Excitation Energies for Bacteriochlorophylls A within Light Harvesting System 2. J Chem Theory Comput 2016; 12:1305-13. [DOI: 10.1021/acs.jctc.5b01104] [Citation(s) in RCA: 28] [Impact Index Per Article: 3.5] [Reference Citation Analysis] [Track Full Text] [Journal Information] [Subscribe] [Scholar Register] [Indexed: 01/18/2023]
Affiliation(s)
- André Anda
- Department of Chemistry, Copenhagen University, Universitetsparken 5, DK-2100, Copenhagen Ø, Denmark
| | - Thorsten Hansen
- Department of Chemistry, Copenhagen University, Universitetsparken 5, DK-2100, Copenhagen Ø, Denmark
| | - Luca De Vico
- Department of Chemistry, Copenhagen University, Universitetsparken 5, DK-2100, Copenhagen Ø, Denmark
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39
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Jornet-Somoza J, Alberdi-Rodriguez J, Milne BF, Andrade X, Marques MAL, Nogueira F, Oliveira MJT, Stewart JJP, Rubio A. Insights into colour-tuning of chlorophyll optical response in green plants. Phys Chem Chem Phys 2015; 17:26599-606. [PMID: 26250099 PMCID: PMC4598288 DOI: 10.1039/c5cp03392f] [Citation(s) in RCA: 41] [Impact Index Per Article: 4.6] [Reference Citation Analysis] [Abstract] [MESH Headings] [Grants] [Track Full Text] [Journal Information] [Subscribe] [Scholar Register] [Indexed: 01/12/2023]
Abstract
First-principles calculations within the framework of real-space time-dependent density functional theory have been performed for the complete chlorophyll (Chl) network of the light-harvesting complex from green plants, LHC-II. A local-dipole analysis method developed for this work has made possible the studies of the optical response of individual Chl molecules subjected to the influence of the remainder of the chromophore network. The spectra calculated using our real-space TDDFT method agree with previous suggestions that weak interaction with the protein microenvironment should produce only minor changes in the absorption spectrum of Chl chromophores in LHC-II. In addition, relative shifting of Chl absorption energies leads the stromal and lumenal sides of LHC-II to absorb in slightly different parts of the visible spectrum providing greater coverage of the available light frequencies. The site-specific alterations in Chl excitation energies support the existence of intrinsic energy transfer pathways within the LHC-II complex.
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40
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Stockett MH, Musbat L, Kjær C, Houmøller J, Toker Y, Rubio A, Milne BF, Brøndsted Nielsen S. The Soret absorption band of isolated chlorophyll a and b tagged with quaternary ammonium ions. Phys Chem Chem Phys 2015; 17:25793-8. [DOI: 10.1039/c5cp01513h] [Citation(s) in RCA: 34] [Impact Index Per Article: 3.8] [Reference Citation Analysis] [Abstract] [Track Full Text] [Journal Information] [Subscribe] [Scholar Register] [Indexed: 12/19/2022]
Abstract
The true colors of chlorophyll a and b, isolated in vacuo, are revealed from a combination of gas-phase ion spectroscopy and TD-DFT calculations.
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Affiliation(s)
- Mark H. Stockett
- Department of Physics and Astronomy
- Aarhus University
- DK-8000 Aarhus C
- Denmark
| | - Lihi Musbat
- Institute of Nanotechnology and Advanced Materials
- Bar-Ilan University
- Ramat-Gan 290002
- Israel
| | - Christina Kjær
- Department of Physics and Astronomy
- Aarhus University
- DK-8000 Aarhus C
- Denmark
| | - Jørgen Houmøller
- Department of Physics and Astronomy
- Aarhus University
- DK-8000 Aarhus C
- Denmark
| | - Yoni Toker
- Institute of Nanotechnology and Advanced Materials
- Bar-Ilan University
- Ramat-Gan 290002
- Israel
| | - Angel Rubio
- Max Planck Institute for the Structure and Dynamics of Mattere and Center for Free-Electron Laser Science
- 22761 Hamburg
- Germany
- Nano-Bio Spectroscopy Group and ETSF
- Dpto. Fisica de Materiales
| | - Bruce F. Milne
- Nano-Bio Spectroscopy Group and ETSF
- Dpto. Fisica de Materiales
- Universidad del País Vasco
- CFM CSIC-UPV/EHU-MPC & DIPC
- 20018 San Sebastián
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