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Chrupková P, van Stokkum IHM, Friedrich T, Moldenhauer M, Budisa N, Tseng HW, Polívka T, Cherepanov DA, Maksimov EG, Kloz M. Raman Vibrational Signatures of Excited States of Echinenone in the Orange Carotenoid Protein (OCP) and Implications for its Photoactivation Mechanism. J Mol Biol 2024:168625. [PMID: 38797429 DOI: 10.1016/j.jmb.2024.168625] [Citation(s) in RCA: 0] [Impact Index Per Article: 0] [Reference Citation Analysis] [Abstract] [Key Words] [Track Full Text] [Journal Information] [Subscribe] [Scholar Register] [Received: 07/13/2023] [Revised: 05/09/2024] [Accepted: 05/17/2024] [Indexed: 05/29/2024]
Abstract
In this study, the vibrational characteristics of optically excited echinenone in various solvents and the Orange Carotenoid Protein (OCP) in red and orange states are systematically investigated through steady-state and time-resolved spectroscopy techniques. Time-resolved experiments, employing both Transient Absorption (TA) and Femtosecond Stimulated Raman Spectroscopy (FSRS), reveal different states in the OCP photoactivation process. The time-resolved studies indicate vibrational signatures of exited states positioned above the S1 state during the initial 140 fs of carotenoid evolution in OCP, an absence of a vibrational signature for the relaxed S1 state of echinenone in OCP, and more robust signatures of a highly excited ground state (GS) in OCP. Differences in S1 state vibration population signatures between OCP and solvents are attributed to distinct conformations of echinenone in OCP and hydrogen bonds at the keto group forming a short-lived intramolecular charge transfer (ICT) state. The vibrational dynamics of the hot GS in OCP show a more pronounced red shift of ground state CC vibration compared to echinenone in solvents, thus suggesting an unusually hot form of GS. The study proposes a hypothesis for the photoactivation mechanism of OCP, emphasizing the high level of vibrational excitation in longitudinal stretching modes as a driving force. In conclusion, the comparison of vibrational signatures reveals unique dynamics of energy dissipation in OCP, providing insights into the photoactivation mechanism and highlighting the impact of the protein environment on carotenoid behavior. The study underscores the importance of vibrational analysis in understanding the intricate processes involved in early phase OCP photoactivation.
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Affiliation(s)
- Petra Chrupková
- The Extreme Light Infrastructure ERIC, ELI Beamlines Facility, Za Radnicí 835, Dolní Břežany, Czech Republic; University of South Bohemia in České Budějovice, Faculty of Science, Branišovská 1760, 370 05 České Budějovice, Czech Republic
| | - Ivo H M van Stokkum
- Vrije Universiteit, Department of Physics and Astronomy, Faculty of Sciences, De Boelelaan 1081, 1081HV Amsterdam, the Netherlands
| | - Thomas Friedrich
- Technische Universität Berlin, Institute of Chemistry PC 14, Straße des 17. Juni 135, 10623 Berlin, Germany
| | - Marcus Moldenhauer
- Technische Universität Berlin, Institute of Chemistry PC 14, Straße des 17. Juni 135, 10623 Berlin, Germany
| | - Nediljko Budisa
- University of Manitoba, Department of Chemistry, 144 Dysart Rd, 360 Parker Building, Winnipeg, MB R3T 2N2, Canada
| | - Hsueh-Wei Tseng
- University of Manitoba, Department of Chemistry, 144 Dysart Rd, 360 Parker Building, Winnipeg, MB R3T 2N2, Canada
| | - Tomáš Polívka
- University of South Bohemia in České Budějovice, Faculty of Science, Branišovská 1760, 370 05 České Budějovice, Czech Republic
| | - Dmitry A Cherepanov
- N.N. Semenov Federal Research Center for Chemical Physics, Russian Academy of Sciences, 142432 Moscow, Russian Federation; Lomonosov Moscow State University, A.N. Belozersky Institute of Physical-Chemical Biology, 119991 Moscow, Russian Federation
| | - Eugene G Maksimov
- Lomonosov Moscow State University, Faculty of Biology, Vorobyovy Gory 1-12, Moscow 119991, Russian Federation
| | - Miroslav Kloz
- The Extreme Light Infrastructure ERIC, ELI Beamlines Facility, Za Radnicí 835, Dolní Břežany, Czech Republic.
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2
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Tsoraev GV, Bukhanko AY, Mamchur AA, Yaroshevich IA, Sluchanko NN, Tseng HW, Moldenhauer M, Budisa N, Friedrich T, Maksimov EG. Intrinsic tryptophan fluorescence quenching by iodine in non-canonical amino acid reveals alteration of the hydrogen bond network in the photoactive orange carotenoid protein. Biochem Biophys Res Commun 2023; 683:149119. [PMID: 37862781 DOI: 10.1016/j.bbrc.2023.10.051] [Citation(s) in RCA: 0] [Impact Index Per Article: 0] [Reference Citation Analysis] [Abstract] [MESH Headings] [Track Full Text] [Journal Information] [Subscribe] [Scholar Register] [Received: 10/03/2023] [Accepted: 10/12/2023] [Indexed: 10/22/2023]
Abstract
The Orange Carotenoid Protein (OCP) regulates cyanobacterial photosynthetic activity through photoactivation in intense light. A hydrogen bonding network involving the keto-carotenoid oxygen and Y201 and W288 residues prevents the spontaneous activation of dark-adapted OCP. To investigate the role of the hydrogen bonds in OCP photocycling, we introduced non-canonical amino acids near the keto-carotenoid, particularly iodine at the meta-position of Y201. This modification significantly increased the yield of red OCP photoproducts, albeit with a shorter lifetime. Changes in tryptophan fluorescence during photocycling influenced by the presence of iodine near W288 revealed interactions between Y201 and W288 in the absence of the carotenoid in the C-domain. We propose that upon the relaxation of red states, a ternary complex with the carotenoid is formed. Analysis of spectral signatures and interaction energies indicates that the specific iodo-tyrosine configuration enhances interactions between the carotenoid and W288.
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Affiliation(s)
- Georgy V Tsoraev
- Faculty of Biology, Lomonosov Moscow State University, Moscow, Russia
| | | | | | | | - Nikolai N Sluchanko
- A.N. Bach Institute of Biochemistry, Federal Research Center of Biotechnology of the Russian Academy of Sciences, Moscow, Russia
| | - Hsueh-Wei Tseng
- Technical University of Berlin, Institute of Chemistry PC 14, Straße des 17. Juni 135, 10623, Berlin, Germany
| | - Marcus Moldenhauer
- Technical University of Berlin, Institute of Chemistry PC 14, Straße des 17. Juni 135, 10623, Berlin, Germany
| | - Nediljko Budisa
- Department of Chemistry, University of Manitoba, Winnipeg, MB, R3T 2N2, Canada
| | - Thomas Friedrich
- Technical University of Berlin, Institute of Chemistry PC 14, Straße des 17. Juni 135, 10623, Berlin, Germany
| | - Eugene G Maksimov
- Faculty of Biology, Lomonosov Moscow State University, Moscow, Russia.
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3
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Tsoraev GV, Bukhanko A, Budylin GS, Shirshin EA, Slonimskiy YB, Sluchanko NN, Kloz M, Cherepanov DA, Shakina YV, Ge B, Moldenhauer M, Friedrich T, Golub M, Pieper J, Maksimov EG, Rubin AB. Stages of OCP-FRP Interactions in the Regulation of Photoprotection in Cyanobacteria, Part 1: Time-Resolved Spectroscopy. J Phys Chem B 2023; 127:1890-1900. [PMID: 36799909 DOI: 10.1021/acs.jpcb.2c07189] [Citation(s) in RCA: 0] [Impact Index Per Article: 0] [Reference Citation Analysis] [Abstract] [Track Full Text] [Journal Information] [Subscribe] [Scholar Register] [Indexed: 02/18/2023]
Abstract
Most cyanobacteria utilize a water-soluble Orange Carotenoid Protein (OCP) to protect their light-harvesting complexes from photodamage. The Fluorescence Recovery Protein (FRP) is used to restore photosynthetic activity by inactivating OCP via dynamic OCP-FRP interactions, a multistage process that remains underexplored. In this work, applying time-resolved spectroscopy, we demonstrate that the interaction of FRP with the photoactivated OCP begins early in the photocycle. Interacting with the compact OCP state, FRP completely prevents the possibility of OCP domain separation and formation of the signaling state capable of interacting with the antenna. The structural element that prevents FRP binding and formation of the complex is the short α-helix at the beginning of the N-terminal domain of OCP, which masks the primary site in the C-terminal domain of OCP. We determined the rate of opening of this site and show that it remains exposed long after the relaxation of the red OCP states. Observations of the OCP transitions on the ms time scale revealed that the relaxation of the orange photocycle intermediates is accompanied by an increase in the interaction of the carotenoid keto group with the hydrogen bond donor tyrosine-201. Our data refine the current model of photoinduced OCP transitions and the interaction of its intermediates with FRP.
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Affiliation(s)
- Georgy V Tsoraev
- Faculty of Biology, M.V. Lomonosov Moscow State University, 119234 Moscow, Russia
| | - Antonina Bukhanko
- Faculty of Biology, M.V. Lomonosov Moscow State University, 119234 Moscow, Russia
| | - Gleb S Budylin
- Faculty of Physics, M.V. Lomonosov Moscow State University, 119991 Moscow, Russia.,Laboratory of Clinical Biophotonics, Scientific and Technological Biomedical Park, Sechenov University, 119435 Moscow, Russia
| | - Evgeny A Shirshin
- Faculty of Physics, M.V. Lomonosov Moscow State University, 119991 Moscow, Russia
| | - Yury B Slonimskiy
- A.N. Bach Institute of Biochemistry, Federal Research Center of Biotechnology of the Russian Academy of Sciences, 119071 Moscow, Russia
| | - Nikolai N Sluchanko
- A.N. Bach Institute of Biochemistry, Federal Research Center of Biotechnology of the Russian Academy of Sciences, 119071 Moscow, Russia
| | - Miroslav Kloz
- ELI-Beamlines, Institute of Physics, Dolní Břežany, 252 41 Czech Republic
| | - Dmitry A Cherepanov
- N.N. Semenov Federal Research Center for Chemical Physics, Russian Academy of Sciences, 142432 Moscow, Russia.,A.N. Belozersky Institute of Physical-Chemical Biology, Moscow State University, 119991 Moscow, Russia
| | | | - Baosheng Ge
- China University of Petroleum (Huadong), College of Chemical Engineering, Qingdao 266580, PR China
| | - Marcus Moldenhauer
- Technische Universität Berlin, Institute of Chemistry PC14, 10623 Berlin, Germany
| | - Thomas Friedrich
- Technische Universität Berlin, Institute of Chemistry PC14, 10623 Berlin, Germany
| | - Maksym Golub
- Institute of Physics, University of Tartu, 50411 Tartu, Estonia
| | - Jörg Pieper
- Institute of Physics, University of Tartu, 50411 Tartu, Estonia
| | - Eugene G Maksimov
- Faculty of Biology, M.V. Lomonosov Moscow State University, 119234 Moscow, Russia
| | - Andrew B Rubin
- Faculty of Biology, M.V. Lomonosov Moscow State University, 119234 Moscow, Russia
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Gayer AV, Yakimov BP, Sluchanko NN, Shirshin EA. Multifarious analytical capabilities of the UV/Vis protein fluorescence in blood plasma. SPECTROCHIMICA ACTA. PART A, MOLECULAR AND BIOMOLECULAR SPECTROSCOPY 2023; 286:122028. [PMID: 36327910 DOI: 10.1016/j.saa.2022.122028] [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: 07/27/2022] [Revised: 10/09/2022] [Accepted: 10/18/2022] [Indexed: 06/16/2023]
Abstract
Autofluorescence of blood plasma has been broadly considered as a prospective disease screening method. However, the assessment of such intrinsic fluorescence is mostly phenomenological, and its origin is still not fully understood, complicating its use in the clinical practice. Here we present the detailed evaluation of analytical capabilities, variability, and formation of blood plasma protein fluorescence based on the open dataset of excitation-emission matrices measured for ∼300 patients with suspected colorectal cancer, and our supporting model experiments. Using high-resolution size-exclusion chromatography coupled with comprehensive spectral analysis, we demonstrate, for the first time, the dominant role of HSA in the formation of blood plasma fluorescence in the visible spectral range (excitation wavelength >350 nm), presumably caused by its oxidative modifications. Furthermore, the diagnostic value of the tryptophan emission, as well as of the tyrosine fluorescence and visible fluorescence of proteins is shown by building a tree-based classification model that uses a small subset of physically interpretable fluorescence features for distinguishing between the control group and cancer patients with >80% accuracy. The obtained results extend current understanding and approaches used for the analysis of blood plasma fluorescence and pave the way for novel autofluorescence-based disease screening methods.
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Affiliation(s)
- Alexey V Gayer
- Faculty of Physics, M.V. Lomonosov Moscow State University, 1-2 Leninskie Gory, Moscow 119991, Russia; Laboratory of Clinical Biophotonics, Biomedical Science and Technology Park, Sechenov First Moscow State Medical University, Trubetskaya 8, Moscow 119048, Russia
| | - Boris P Yakimov
- Faculty of Physics, M.V. Lomonosov Moscow State University, 1-2 Leninskie Gory, Moscow 119991, Russia; Laboratory of Clinical Biophotonics, Biomedical Science and Technology Park, Sechenov First Moscow State Medical University, Trubetskaya 8, Moscow 119048, Russia
| | - Nikolai N Sluchanko
- A.N. Bach Institute of Biochemistry, Federal Research Center of Biotechnology of the Russian Academy of Sciences, Moscow 119071, Russia
| | - Evgeny A Shirshin
- Faculty of Physics, M.V. Lomonosov Moscow State University, 1-2 Leninskie Gory, Moscow 119991, Russia; Laboratory of Clinical Biophotonics, Biomedical Science and Technology Park, Sechenov First Moscow State Medical University, Trubetskaya 8, Moscow 119048, Russia.
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5
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Xiang N, Qi X, Hu J, Wang S, Guo X. l-Tryptophan synergistically increased carotenoid accumulation with blue light in maize ( Zea mays L.) sprouts. FOOD CHEMISTRY. MOLECULAR SCIENCES 2023; 6:100161. [PMID: 36691663 PMCID: PMC9860360 DOI: 10.1016/j.fochms.2023.100161] [Citation(s) in RCA: 0] [Impact Index Per Article: 0] [Reference Citation Analysis] [Abstract] [Key Words] [Track Full Text] [Download PDF] [Figures] [Subscribe] [Scholar Register] [Received: 10/03/2022] [Revised: 12/30/2022] [Accepted: 01/07/2023] [Indexed: 01/11/2023]
Abstract
In the present study, l-tryptophan was applied in combination with blue light to modulate carotenoid biosynthesis in maize sprouts. The profiles of carotenoids, chlorophylls, and relative genes in carotenoid biosynthesis and light signaling pathways were studied. l-tryptophan and blue light both promoted the accumulation of carotenoids, and their combination further increased carotenoid content by 120%. l-tryptophan exerted auxin-like effects and stimulated PSY expression in blue light exposure maize sprouts, resulting in increased α- and β- carotenes. l-tryptophan could also play a photoprotective role through the xanthophyll cycle under blue light. In addition, CRY in the light signaling pathway was critical for carotenoid biosynthesis. These findings provide new insights into the regulation of carotenoid biosynthesis and l-tryptophan could be used in conjunction with blue light to fortify carotenoids in maize sprouts.
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Key Words
- Blue light
- CHYB, beta-carotene 3-hydroxylase
- CHYE, carotenoid epsilon hydroxylase
- COP1, constitutive photomorphogenic 1
- CRTISO, carotenoid isomerase
- CRY, cryptochrome
- Carotenoid
- FAD, flavin adenine dinucleotide
- FKF1, flavin-binding kelch repeat F-box protein 1
- GGDP, Geranylgeranyl diphosphate
- HPLC, high-performance liquid chromatography
- HY5, protein long hypocotyl 5
- LCYB, lycopene beta-cyclase
- LCYE, lycopene epsilon-cyclase
- LUT5, LUTEIN DEFICIENT 5
- Light signal
- Maize sprouts
- NXD1, NEOXANTHIN-DEFICIENT 1
- NXS, neoxanthin synthase
- OCP, Orange Carotenoid Protein
- PDS, 15-cis-phytoene desaturase
- PHOT1, phototropin 1
- PIF, phytochrome-interacting factor
- PSY, 15-cis-phytoene synthase
- VDE, violaxanthin de-epoxidase
- Z-ISO, zeta-carotene isomerase
- ZDS, zeta-carotene desaturase
- ZEP, zeaxanthin epoxidase
- l-Tryptophan
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Affiliation(s)
- Nan Xiang
- School of Food Science and Engineering, Guangdong Province Key Laboratory for Green Processing of Natural Products and Product Safety, Engineering Research Center of Starch and Vegetable Protein Processing Ministry of Education, Research Institute for Food Nutrition and Human Health, South China University of Technology, Guangzhou, China
| | - Xitao Qi
- Key Laboratory of Crops Genetics Improvement of Guangdong Province, Crop Research Institute, Guangdong Academy of Agricultural Sciences, Guangzhou 510640, China
| | - Jianguang Hu
- Key Laboratory of Crops Genetics Improvement of Guangdong Province, Crop Research Institute, Guangdong Academy of Agricultural Sciences, Guangzhou 510640, China
| | - Siyun Wang
- Department of Food, Nutrition, and Health, University of British Columbia, Vancouver, BC, Canada
| | - Xinbo Guo
- School of Food Science and Engineering, Guangdong Province Key Laboratory for Green Processing of Natural Products and Product Safety, Engineering Research Center of Starch and Vegetable Protein Processing Ministry of Education, Research Institute for Food Nutrition and Human Health, South China University of Technology, Guangzhou, China,Corresponding author.
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6
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Wilson A, Andreeva EA, Niziński S, Talbot L, Hartmann E, Schlichting I, Burdzinski G, Sliwa M, Kirilovsky D, Colletier JP. Structure-function-dynamics relationships in the peculiar Planktothrix PCC7805 OCP1: Impact of his-tagging and carotenoid type. BIOCHIMICA ET BIOPHYSICA ACTA. BIOENERGETICS 2022; 1863:148584. [PMID: 35752265 DOI: 10.1016/j.bbabio.2022.148584] [Citation(s) in RCA: 1] [Impact Index Per Article: 0.5] [Reference Citation Analysis] [Abstract] [Key Words] [MESH Headings] [Track Full Text] [Subscribe] [Scholar Register] [Received: 01/04/2022] [Revised: 05/31/2022] [Accepted: 06/07/2022] [Indexed: 06/15/2023]
Abstract
The orange carotenoid protein (OCP) is a photoactive protein involved in cyanobacterial photoprotection. Here, we report on the functional, spectral and structural characteristics of the peculiar Planktothrix PCC7805 OCP (Plankto-OCP). We show that this OCP variant is characterized by higher photoactivation and recovery rates, and a stronger energy-quenching activity, compared to other OCP studied thus far. We characterize the effect of the functionalizing carotenoid and of his-tagging on these reactions, and identify the time scales on which these modifications affect photoactivation. The presence of a his-tag at the C-terminus has a large influence on photoactivation, thermal recovery and PBS-fluorescence quenching, and likewise for the nature of the carotenoid that additionally affects the yield and characteristics of excited states and the ns-s dynamics of photoactivated OCP. By solving the structures of Plankto-OCP in the ECN- and CAN-functionalized states, each in two closely-related crystal forms, we further unveil the molecular breathing motions that animate Plankto-OCP at the monomer and dimer levels. We finally discuss the structural changes that could explain the peculiar properties of Plankto-OCP.
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Affiliation(s)
- Adjélé Wilson
- Université Paris-Saclay, CEA, CNRS, Institute for Integrative Biology of the Cell (I2BC), 91198 Gif-sur-Yvette, France
| | - Elena A Andreeva
- Univ. Grenoble Alpes, CEA, CNRS, Institut de Biologie Structurale, 38000 Grenoble, France; Max-Planck-Institut für medizinische Forschung, Jahnstrasse 29, 69120 Heidelberg, Germany
| | - Stanisław Niziński
- Univ. Lille, CNRS, UMR 8516, LASIRE, LAboratoire de Spectroscopie pour les Interactions, la Réactivité et l'Environnement, Lille 59000, France; Quantum Electronics Laboratory, Faculty of Physics, Adam Mickiewicz University in Poznań, Uniwersytetu Poznańskiego 2, Poznan 61-614, Poland
| | - Léa Talbot
- Université Paris-Saclay, CEA, CNRS, Institute for Integrative Biology of the Cell (I2BC), 91198 Gif-sur-Yvette, France
| | - Elisabeth Hartmann
- Max-Planck-Institut für medizinische Forschung, Jahnstrasse 29, 69120 Heidelberg, Germany
| | - Ilme Schlichting
- Max-Planck-Institut für medizinische Forschung, Jahnstrasse 29, 69120 Heidelberg, Germany
| | - Gotard Burdzinski
- Quantum Electronics Laboratory, Faculty of Physics, Adam Mickiewicz University in Poznań, Uniwersytetu Poznańskiego 2, Poznan 61-614, Poland
| | - Michel Sliwa
- Univ. Lille, CNRS, UMR 8516, LASIRE, LAboratoire de Spectroscopie pour les Interactions, la Réactivité et l'Environnement, Lille 59000, France.
| | - Diana Kirilovsky
- Université Paris-Saclay, CEA, CNRS, Institute for Integrative Biology of the Cell (I2BC), 91198 Gif-sur-Yvette, France.
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7
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Slonimskiy YB, Zupnik AO, Varfolomeeva LA, Boyko KM, Maksimov EG, Sluchanko NN. A primordial Orange Carotenoid Protein: Structure, photoswitching activity and evolutionary aspects. Int J Biol Macromol 2022; 222:167-180. [PMID: 36165868 DOI: 10.1016/j.ijbiomac.2022.09.131] [Citation(s) in RCA: 0] [Impact Index Per Article: 0] [Reference Citation Analysis] [Abstract] [Key Words] [Track Full Text] [Journal Information] [Subscribe] [Scholar Register] [Received: 08/13/2022] [Revised: 09/13/2022] [Accepted: 09/14/2022] [Indexed: 11/28/2022]
Abstract
Cyanobacteria are photosynthesizing prokaryotes responsible for the Great Oxygenation Event on Earth ~2.5 Ga years ago. They use a specific photoprotective mechanism based on the 35-kDa photoactive Orange Carotenoid Protein (OCP), a promising target for developing novel optogenetic tools and for biomass engineering. The two-domain OCP presumably stems from domain fusion, yet the primitive thylakoid-less cyanobacteria Gloeobacter encodes a complete OCP. Its photosynthesis regulation lacks the so-called Fluorescence Recovery Protein (FRP), which in Synechocystis inhibits OCP-mediated phycobilisome fluorescence quenching, and Gloeobacter OCP belongs to the recently defined, heterogeneous clade OCPX (GlOCPX), the least characterized compared to OCP2 and especially OCP1 clades. Here, we describe the first crystal structure of OCPX, which explains unique functional adaptations of Gloeobacter OCPX compared to OCP1 from Synechocystis. We show that monomeric GlOCPX exploits a remarkable intramolecular locking mechanism stabilizing its dark-adapted state and exhibits drastically accelerated, less temperature-dependent recovery after photoactivation. While GlOCPX quenches Synechocystis phycobilisomes similar to Synechocystis OCP1, it evades interaction with and regulation by FRP from other species and likely uses alternative mechanisms for fluorescence recovery. This analysis of a primordial OCPX sheds light on its evolution, rationalizing renaming and subdivision of the OCPX clade into subclades - OCP3a, OCP3b, OCP3c.
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Affiliation(s)
- Yury B Slonimskiy
- A.N. Bach Institute of Biochemistry, Federal Research Center of Biotechnology of the Russian Academy of Sciences, 119071 Moscow, Russian Federation
| | - Andrei O Zupnik
- A.N. Bach Institute of Biochemistry, Federal Research Center of Biotechnology of the Russian Academy of Sciences, 119071 Moscow, Russian Federation
| | - Larisa A Varfolomeeva
- A.N. Bach Institute of Biochemistry, Federal Research Center of Biotechnology of the Russian Academy of Sciences, 119071 Moscow, Russian Federation
| | - Konstantin M Boyko
- A.N. Bach Institute of Biochemistry, Federal Research Center of Biotechnology of the Russian Academy of Sciences, 119071 Moscow, Russian Federation
| | - Eugene G Maksimov
- M.V. Lomonosov Moscow State University, Faculty of Biology, 119991 Moscow, Russian Federation
| | - Nikolai N Sluchanko
- A.N. Bach Institute of Biochemistry, Federal Research Center of Biotechnology of the Russian Academy of Sciences, 119071 Moscow, Russian Federation.
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8
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Niziński S, Schlichting I, Colletier JP, Kirilovsky D, Burdzinski G, Sliwa M. Is orange carotenoid protein photoactivation a single-photon process? BIOPHYSICAL REPORTS 2022; 2:100072. [PMID: 36425326 PMCID: PMC9680785 DOI: 10.1016/j.bpr.2022.100072] [Citation(s) in RCA: 2] [Impact Index Per Article: 1.0] [Reference Citation Analysis] [Abstract] [Track Full Text] [Download PDF] [Figures] [Subscribe] [Scholar Register] [Received: 04/18/2022] [Accepted: 08/17/2022] [Indexed: 06/16/2023]
Abstract
In all published photoactivation mechanisms of orange carotenoid protein (OCP), absorption of a single photon by the orange dark state starts a cascade of red-shifted OCP ground-state intermediates that subsequently decay within hundreds of milliseconds, resulting in the formation of the final red form OCPR, which is the biologically active form that plays a key role in cyanobacteria photoprotection. A major challenge in deducing the photoactivation mechanism is to create a uniform description explaining both single-pulse excitation experiments, involving single-photon absorption, and continuous light irradiation experiments, where the red-shifted OCP intermediate species may undergo re-excitation. We thus investigated photoactivation of Synechocystis OCP using stationary irradiation light with a biologically relevant photon flux density coupled with nanosecond laser pulse excitation. The kinetics of photoactivation upon continuous and nanosecond pulse irradiation light show that the OCPR formation quantum yield increases with photon flux density; thus, a simple single-photon model cannot describe the data recorded for OCP in vitro. The results strongly suggest a consecutive absorption of two photons involving a red intermediate with ≈100 millisecond lifetime. This intermediate is required in the photoactivation mechanism and formation of the red active form OCPR.
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Affiliation(s)
- Stanisław Niziński
- Quantum Electronics Laboratory, Faculty of Physics, Adam Mickiewicz University in Poznań, Poznan, Poland
- Univ. Lille, CNRS, UMR 8516 - LASIRE, Laboratoire Avancé de Spectroscopie pour les Interactions, la Réactivité et l’Environnement, Lille, France
| | - Ilme Schlichting
- Max-Planck-Institut für medizinische Forschung, Heidelberg, Germany
| | | | - Diana Kirilovsky
- Université Paris-Saclay, CEA, CNRS, Institute for Integrative Biology of the Cell (I2BC), Gif-sur-Yvette, France
| | - Gotard Burdzinski
- Quantum Electronics Laboratory, Faculty of Physics, Adam Mickiewicz University in Poznań, Poznan, Poland
| | - Michel Sliwa
- Univ. Lille, CNRS, UMR 8516 - LASIRE, Laboratoire Avancé de Spectroscopie pour les Interactions, la Réactivité et l’Environnement, Lille, France
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9
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Oligomerization processes limit photoactivation and recovery of the Orange Carotenoid Protein. Biophys J 2022; 121:2849-2872. [PMID: 35794830 PMCID: PMC9388578 DOI: 10.1016/j.bpj.2022.07.004] [Citation(s) in RCA: 1] [Impact Index Per Article: 0.5] [Reference Citation Analysis] [Abstract] [Track Full Text] [Journal Information] [Subscribe] [Scholar Register] [Received: 02/04/2022] [Revised: 05/17/2022] [Accepted: 07/01/2022] [Indexed: 11/23/2022] Open
Abstract
The Orange Carotenoid Protein (OCP) is a photoactive protein involved in cyanobacterial photoprotection, by quenching of the excess of light harvested energy. The photoactivation mechanism remains elusive, in part due to absence of data pertaining to the timescales over which protein structural changes take place. It also remains unclear whether or not oligomerization of the dark-adapted and light-adapted OCP could play a role in the regulation of its energy quenching activity. Here, we probed photo-induced structural changes in OCP by a combination of static and time-resolved X-ray scattering and steady-state and transient optical spectroscopy in the visible range. Our results suggest that oligomerization partakes in regulation of the OCP photocycle, with different oligomers slowing down the overall thermal recovery of the dark-adapted state of OCP. They furthermore reveal that upon non-photoproductive excitation, a numbed-state forms, which remains in a non-photoexcitable structural state for at least ∼0.5 μs after absorption of a first photon.
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10
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Tseng HW, Moldenhauer M, Friedrich T, Maksimov EG, Budisa N. Probing the spectral signatures of orange carotenoid protein by orthogonal translation with aromatic non-canonical amino acids. Biochem Biophys Res Commun 2022; 607:96-102. [DOI: 10.1016/j.bbrc.2022.03.118] [Citation(s) in RCA: 0] [Impact Index Per Article: 0] [Reference Citation Analysis] [Track Full Text] [Journal Information] [Subscribe] [Scholar Register] [Received: 03/09/2022] [Revised: 03/21/2022] [Accepted: 03/23/2022] [Indexed: 11/02/2022]
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11
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Niziński S, Wilson A, Uriarte LM, Ruckebusch C, Andreeva EA, Schlichting I, Colletier JP, Kirilovsky D, Burdzinski G, Sliwa M. Unifying Perspective of the Ultrafast Photodynamics of Orange Carotenoid Proteins from Synechocystis: Peril of High-Power Excitation, Existence of Different S* States, and Influence of Tagging. JACS AU 2022; 2:1084-1095. [PMID: 35647603 PMCID: PMC9131370 DOI: 10.1021/jacsau.1c00472] [Citation(s) in RCA: 1] [Impact Index Per Article: 0.5] [Reference Citation Analysis] [Abstract] [Key Words] [Grants] [Track Full Text] [Download PDF] [Figures] [Subscribe] [Scholar Register] [Received: 10/22/2021] [Revised: 02/02/2022] [Accepted: 02/03/2022] [Indexed: 06/15/2023]
Abstract
A substantial number of Orange Carotenoid Protein (OCP) studies have aimed to describe the evolution of singlet excited states leading to the formation of a photoactivated form, OCPR. The most recent one suggests that 3 ps-lived excited states are formed after the sub-100 fs decay of the initial S2 state. The S* state, which has the longest reported lifetime of a few to tens of picoseconds, is considered to be the precursor of the first red photoproduct P1. Here, we report the ultrafast photodynamics of the OCP from Synechocystis PCC 6803 carried out using visible-near infrared femtosecond time-resolved absorption spectroscopy as a function of the excitation pulse power and wavelength. We found that a carotenoid radical cation can form even at relatively low excitation power, obscuring the determination of photoactivation yields for P1. Moreover, the comparison of green (540 nm) and blue (470 nm) excitations revealed the existence of an hitherto uncharacterized excited state, denoted as S∼, living a few tens of picoseconds and formed only upon 470 nm excitation. Because neither the P1 quantum yield nor the photoactivation speed over hundreds of seconds vary under green and blue continuous irradiation, this S∼ species is unlikely to be involved in the photoactivation mechanism leading to OCPR. We also addressed the effect of His-tagging at the N- or C-termini on the excited-state photophysical properties. Differences in spectral signatures and lifetimes of the different excited states were observed at a variance with the usual assumption that His-tagging hardly influences protein dynamics and function. Altogether our results advocate for the careful consideration of the excitation power and His-tag position when comparing the photoactivation of different OCP variants and beg to revisit the notion that S* is the precursor of photoactivated OCPR.
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Affiliation(s)
- Stanisław Niziński
- Quantum
Electronics Laboratory, Faculty of Physics, Adam Mickiewicz University in Poznań, Uniwersytetu Poznańskiego 2, Poznan 61-614, Poland
- Univ.
Lille, CNRS, UMR 8516, LASIRE, LAboratoire de Spectroscopie pour les
Interactions, la Réactivité et l’Environnement, Lille 59000, France
| | - Adjéle Wilson
- Université
Paris-Saclay, CEA, CNRS, Institute for Integrative Biology of the
Cell (I2BC), Gif-sur-Yvette 91198, France
| | - Lucas M. Uriarte
- Univ.
Lille, CNRS, UMR 8516, LASIRE, LAboratoire de Spectroscopie pour les
Interactions, la Réactivité et l’Environnement, Lille 59000, France
| | - Cyril Ruckebusch
- Univ.
Lille, CNRS, UMR 8516, LASIRE, LAboratoire de Spectroscopie pour les
Interactions, la Réactivité et l’Environnement, Lille 59000, France
| | - Elena A. Andreeva
- Univ.
Grenoble Alpes, CEA, CNRS, Institut de Biologie Structurale, Grenoble 38000, France
- Max-Planck-Institut
für Medizinische Forschung, Jahnstrasse 29, Heidelberg 69120, Germany
| | - Ilme Schlichting
- Max-Planck-Institut
für Medizinische Forschung, Jahnstrasse 29, Heidelberg 69120, Germany
| | | | - Diana Kirilovsky
- Université
Paris-Saclay, CEA, CNRS, Institute for Integrative Biology of the
Cell (I2BC), Gif-sur-Yvette 91198, France
| | - Gotard Burdzinski
- Quantum
Electronics Laboratory, Faculty of Physics, Adam Mickiewicz University in Poznań, Uniwersytetu Poznańskiego 2, Poznan 61-614, Poland
| | - Michel Sliwa
- Univ.
Lille, CNRS, UMR 8516, LASIRE, LAboratoire de Spectroscopie pour les
Interactions, la Réactivité et l’Environnement, Lille 59000, France
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12
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UV Excitation of Carotenoid Binding Proteins OCP and HCP: Excited‐State Dynamics and Product Formation. CHEMPHOTOCHEM 2021. [DOI: 10.1002/cptc.202100194] [Citation(s) in RCA: 2] [Impact Index Per Article: 0.7] [Reference Citation Analysis] [Track Full Text] [Journal Information] [Subscribe] [Scholar Register] [Indexed: 11/07/2022]
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13
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Bondanza M, Jacquemin D, Mennucci B. Excited States of Xanthophylls Revisited: Toward the Simulation of Biologically Relevant Systems. J Phys Chem Lett 2021; 12:6604-6612. [PMID: 34251826 PMCID: PMC8311646 DOI: 10.1021/acs.jpclett.1c01929] [Citation(s) in RCA: 6] [Impact Index Per Article: 2.0] [Reference Citation Analysis] [Abstract] [MESH Headings] [Grants] [Track Full Text] [Figures] [Journal Information] [Subscribe] [Scholar Register] [Received: 06/16/2021] [Accepted: 07/08/2021] [Indexed: 06/13/2023]
Abstract
Xanthophylls are a class of oxygen-containing carotenoids, which play a fundamental role in light-harvesting pigment-protein complexes and in many photoresponsive proteins. The complexity of the manifold of the electronic states and the large sensitivity to the environment still prevent a clear and coherent interpretation of their photophysics and photochemistry. In this Letter, we compare cutting-edge ab initio methods (CC3 and DMRG/NEVPT2) with time-dependent DFT and semiempirical CI (SECI) on model keto-carotenoids and show that SECI represents the right compromise between accuracy and computational cost to be applied to real xanthophylls in their biological environment. As an example, we investigate canthaxanthin in the orange carotenoid protein and show that the conical intersections between excited states and excited-ground states are mostly determined by the effective bond length alternation coordinate, which is significantly tuned by the protein through geometrical constraints and electrostatic effects.
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Affiliation(s)
- Mattia Bondanza
- Dipartimento
di Chimica e Chimica Industriale, University
of Pisa, via G. Moruzzi 13, 56124 Pisa, Italy
| | - Denis Jacquemin
- Université
de Nantes, CNRS, CEISAM UMR 6230, F-44000 Nantes, France
| | - Benedetta Mennucci
- Dipartimento
di Chimica e Chimica Industriale, University
of Pisa, via G. Moruzzi 13, 56124 Pisa, Italy
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14
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Yaroshevich IA, Maksimov EG, Sluchanko NN, Zlenko DV, Stepanov AV, Slutskaya EA, Slonimskiy YB, Botnarevskii VS, Remeeva A, Gushchin I, Kovalev K, Gordeliy VI, Shelaev IV, Gostev FE, Khakhulin D, Poddubnyy VV, Gostev TS, Cherepanov DA, Polívka T, Kloz M, Friedrich T, Paschenko VZ, Nadtochenko VA, Rubin AB, Kirpichnikov MP. Role of hydrogen bond alternation and charge transfer states in photoactivation of the Orange Carotenoid Protein. Commun Biol 2021; 4:539. [PMID: 33972665 PMCID: PMC8110590 DOI: 10.1038/s42003-021-02022-3] [Citation(s) in RCA: 19] [Impact Index Per Article: 6.3] [Reference Citation Analysis] [Abstract] [Track Full Text] [Download PDF] [Figures] [Journal Information] [Subscribe] [Scholar Register] [Received: 09/03/2020] [Accepted: 03/16/2021] [Indexed: 11/17/2022] Open
Abstract
Here, we propose a possible photoactivation mechanism of a 35-kDa blue light-triggered photoreceptor, the Orange Carotenoid Protein (OCP), suggesting that the reaction involves the transient formation of a protonated ketocarotenoid (oxocarbenium cation) state. Taking advantage of engineering an OCP variant carrying the Y201W mutation, which shows superior spectroscopic and structural properties, it is shown that the presence of Trp201 augments the impact of one critical H-bond between the ketocarotenoid and the protein. This confers an unprecedented homogeneity of the dark-adapted OCP state and substantially increases the yield of the excited photoproduct S*, which is important for the productive photocycle to proceed. A 1.37 Å crystal structure of OCP Y201W combined with femtosecond time-resolved absorption spectroscopy, kinetic analysis, and deconvolution of the spectral intermediates, as well as extensive quantum chemical calculations incorporating the effect of the local electric field, highlighted the role of charge-transfer states during OCP photoconversion. Yaroshevich et al. present a chemical reaction mechanism of a 35-kDa blue light-triggered photoreceptor, the Orange Carotenoid Protein (OCP). They find that photoactivation critically involves the transient formation of a protonated ketocarotenoid (oxocarbenium cation) state. This study suggests the role of charge-transfer states during OCP photoconversion.
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Affiliation(s)
- Igor A Yaroshevich
- Faculty of Biology, M.V. Lomonosov Moscow State University, Moscow, Russia
| | - Eugene G Maksimov
- Faculty of Biology, M.V. Lomonosov Moscow State University, Moscow, Russia. .,A.N. Bach Institute of Biochemistry, Federal Research Center of Biotechnology of the Russian Academy of Sciences, Moscow, Russia.
| | - Nikolai N Sluchanko
- A.N. Bach Institute of Biochemistry, Federal Research Center of Biotechnology of the Russian Academy of Sciences, Moscow, Russia
| | - Dmitry V Zlenko
- Faculty of Biology, M.V. Lomonosov Moscow State University, Moscow, Russia
| | - Alexey V Stepanov
- M.M. Shemyakin and Yu.A. Ovchinnikov Institute of Bioorganic Chemistry, Russian Academy of Sciences, Moscow, Russia
| | - Ekaterina A Slutskaya
- Faculty of Biology, M.V. Lomonosov Moscow State University, Moscow, Russia.,M.M. Shemyakin and Yu.A. Ovchinnikov Institute of Bioorganic Chemistry, Russian Academy of Sciences, Moscow, Russia
| | - Yury B Slonimskiy
- Faculty of Biology, M.V. Lomonosov Moscow State University, Moscow, Russia.,A.N. Bach Institute of Biochemistry, Federal Research Center of Biotechnology of the Russian Academy of Sciences, Moscow, Russia
| | - Viacheslav S Botnarevskii
- Faculty of Biology, M.V. Lomonosov Moscow State University, Moscow, Russia.,A.N. Bach Institute of Biochemistry, Federal Research Center of Biotechnology of the Russian Academy of Sciences, Moscow, Russia
| | - Alina Remeeva
- Research Center for Molecular Mechanisms of Aging and Age-Related Diseases, Moscow Institute of Physics and Technology, Dolgoprudny, Russia
| | - Ivan Gushchin
- Research Center for Molecular Mechanisms of Aging and Age-Related Diseases, Moscow Institute of Physics and Technology, Dolgoprudny, Russia
| | - Kirill Kovalev
- Research Center for Molecular Mechanisms of Aging and Age-Related Diseases, Moscow Institute of Physics and Technology, Dolgoprudny, Russia.,Institut de Biologie Structurale J.-P. Ebel, Université Grenoble Alpes-CEA-CNRS, Grenoble, France.,Institute of Biological Information Processing (IBI-7: Structural Biochemistry), Forschungszentrum Jülich, Jülich, Germany.,JuStruct: Jülich Center for Structural Biology, Forschungszentrum Jülich, Jülich, Germany.,Institute of Crystallography, RWTH Aachen University, Aachen, Germany
| | - Valentin I Gordeliy
- Research Center for Molecular Mechanisms of Aging and Age-Related Diseases, Moscow Institute of Physics and Technology, Dolgoprudny, Russia.,Institut de Biologie Structurale J.-P. Ebel, Université Grenoble Alpes-CEA-CNRS, Grenoble, France.,Institute of Biological Information Processing (IBI-7: Structural Biochemistry), Forschungszentrum Jülich, Jülich, Germany.,JuStruct: Jülich Center for Structural Biology, Forschungszentrum Jülich, Jülich, Germany
| | - Ivan V Shelaev
- N.N. Semenov Federal Research Center for Chemical Physics, Russian Academy of Sciences, Moscow, Russia
| | - Fedor E Gostev
- N.N. Semenov Federal Research Center for Chemical Physics, Russian Academy of Sciences, Moscow, Russia
| | | | | | - Timofey S Gostev
- Faculty of Biology, M.V. Lomonosov Moscow State University, Moscow, Russia
| | - Dmitry A Cherepanov
- N.N. Semenov Federal Research Center for Chemical Physics, Russian Academy of Sciences, Moscow, Russia.,A.N. Belozersky Institute of Physical-Chemical Biology, Moscow State University, Moscow, Russia
| | - Tomáš Polívka
- Institute of Physics, Faculty of Science, University of South Bohemia, České Budějovice, Czech Republic
| | - Miroslav Kloz
- ELI-Beamlines, Institute of Physics, Praha, Czech Republic
| | - Thomas Friedrich
- Technische Universität Berlin, Institute of Chemistry PC14, Berlin, Germany
| | | | - Victor A Nadtochenko
- N.N. Semenov Federal Research Center for Chemical Physics, Russian Academy of Sciences, Moscow, Russia
| | - Andrew B Rubin
- Faculty of Biology, M.V. Lomonosov Moscow State University, Moscow, Russia
| | - Mikhail P Kirpichnikov
- Faculty of Biology, M.V. Lomonosov Moscow State University, Moscow, Russia.,M.M. Shemyakin and Yu.A. Ovchinnikov Institute of Bioorganic Chemistry, Russian Academy of Sciences, Moscow, Russia
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15
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Bondanza M, Cupellini L, Faccioli P, Mennucci B. Molecular Mechanisms of Activation in the Orange Carotenoid Protein Revealed by Molecular Dynamics. J Am Chem Soc 2020; 142:21829-21841. [PMID: 33332967 PMCID: PMC7775743 DOI: 10.1021/jacs.0c10461] [Citation(s) in RCA: 12] [Impact Index Per Article: 3.0] [Reference Citation Analysis] [Abstract] [Track Full Text] [Download PDF] [Figures] [Journal Information] [Subscribe] [Scholar Register] [Indexed: 11/30/2022]
Abstract
![]()
Light-harvesting
in photosynthesis is accompanied by photoprotective
processes. In cyanobacteria, the photoprotective role is played by
a specialized complex, the orange carotenoid protein, which is activated
by strong blue-green light. This photoactivation involves a unique
series of structural changes which terminate with an opening of the
complex into two separate domains, one of which acts as a quencher
for the light-harvesting complexes. Many experimental studies have
tried to reveal the molecular mechanisms through which the energy
absorbed by the carotenoid finally leads to the large conformational
change of the complex. Here, for the first time, these mechanisms
are revealed by simulating at the atomistic level the whole dynamics
of the complex through an effective combination of enhanced sampling
techniques. On the basis of our findings, we can conclude that the
carotenoid does not act as a spring that, releasing its internal strain,
induces the dissociation, as was previously proposed, but as a “latch”
locking together the two domains. The photochemically triggered displacement
of the carotenoid breaks this balance, allowing the complex to dissociate.
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Affiliation(s)
- Mattia Bondanza
- Dipartimento di Chimica e Chimica Industriale, University of Pisa, via G. Moruzzi 13, 56124 Pisa, Italy
| | - Lorenzo Cupellini
- Dipartimento di Chimica e Chimica Industriale, University of Pisa, via G. Moruzzi 13, 56124 Pisa, Italy
| | - Pietro Faccioli
- Physics Department, Trento University, Via Sommarive 14, 38128 Povo, Trento, Italy
| | - Benedetta Mennucci
- Dipartimento di Chimica e Chimica Industriale, University of Pisa, via G. Moruzzi 13, 56124 Pisa, Italy
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