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Krysiak S, Burda K. The Effect of Removal of External Proteins PsbO, PsbP and PsbQ on Flash-Induced Molecular Oxygen Evolution and Its Biphasicity in Tobacco PSII. Curr Issues Mol Biol 2024; 46:7187-7218. [PMID: 39057069 PMCID: PMC11276211 DOI: 10.3390/cimb46070428] [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: 06/02/2024] [Revised: 06/30/2024] [Accepted: 07/02/2024] [Indexed: 07/28/2024] Open
Abstract
The oxygen evolution within photosystem II (PSII) is one of the most enigmatic processes occurring in nature. It is suggested that external proteins surrounding the oxygen-evolving complex (OEC) not only stabilize it and provide an appropriate ionic environment but also create water channels, which could be involved in triggering the ingress of water and the removal of O2 and protons outside the system. To investigate the influence of these proteins on the rate of oxygen release and the efficiency of OEC function, we developed a measurement protocol for the direct measurement of the kinetics of oxygen release from PSII using a Joliot-type electrode. PSII-enriched tobacco thylakoids were used in the experiments. The results revealed the existence of slow and fast modes of oxygen evolution. This observation is model-independent and requires no specific assumptions about the initial distribution of the OEC states. The gradual removal of exogenous proteins resulted in a slowdown of the rapid phase (~ms) of O2 release and its gradual disappearance while the slow phase (~tens of ms) accelerated. The role of external proteins in regulating the biphasicity and efficiency of oxygen release is discussed based on observed phenomena and current knowledge.
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Affiliation(s)
| | - Kvetoslava Burda
- Faculty of Physics and Applied Computer Science, AGH University of Krakow, al. Mickiewicza 30, 30-059 Krakow, Poland;
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Drosou M, Pantazis DA. Comprehensive Evaluation of Models for Ammonia Binding to the Oxygen Evolving Complex of Photosystem II. J Phys Chem B 2024; 128:1333-1349. [PMID: 38299511 PMCID: PMC10875651 DOI: 10.1021/acs.jpcb.3c06304] [Citation(s) in RCA: 0] [Impact Index Per Article: 0] [Reference Citation Analysis] [Abstract] [Grants] [Track Full Text] [Journal Information] [Subscribe] [Scholar Register] [Received: 09/20/2023] [Revised: 01/08/2024] [Accepted: 01/17/2024] [Indexed: 02/02/2024]
Abstract
The identity and insertion pathway of the substrate oxygen atoms that are coupled to dioxygen by the oxygen-evolving complex (OEC) remains a central question toward understanding Nature's water oxidation mechanism. In several studies, ammonia has been used as a small "water analogue" to elucidate the pathway of substrate access to the OEC and to aid in determining which of the oxygen ligands of the tetramanganese cluster are substrates for O-O bond formation. On the basis of structural and spectroscopic investigations, five first-sphere binding modes of ammonia have been suggested, involving either substitution of an existing H2O/OH-/O2- group or addition as an extra ligand to a metal ion of the Mn4CaO5 cluster. Some of these modes, specifically the ones involving substitution, have already been subject to spectroscopy-oriented quantum chemical investigations, whereas more recent suggestions that postulate the addition of ammonia have not been examined so far with quantum chemistry for their agreement with spectroscopic data. Herein, we use a common structural framework and theoretical methodology to evaluate structural models of the OEC that represent all proposed modes of first-sphere ammonia interaction with the OEC in its S2 state. Criteria include energetic, magnetic, kinetic, and spectroscopic properties compared against available experimental EPR, ENDOR, ESEEM, and EDNMR data. Our results show that models featuring ammonia replacing one of the two terminal water ligands on Mn4 align best with experimental data, while they definitively exclude substitution of a bridging μ-oxo ligand as well as incorporation of ammonia as a sixth ligand on Mn1 or Mn4.
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Affiliation(s)
- Maria Drosou
- Max-Planck-Institut
für Kohlenforschung, Kaiser-Wilhelm-Platz 1, Mülheim an der Ruhr 45470, Germany
- Inorganic
Chemistry Laboratory, National and Kapodistrian
University of Athens, Panepistimiopolis, Zografou 15771, Greece
| | - Dimitrios A. Pantazis
- Max-Planck-Institut
für Kohlenforschung, Kaiser-Wilhelm-Platz 1, Mülheim an der Ruhr 45470, Germany
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Saito K, Nishio S, Asada M, Mino H, Ishikita H. Insights into the protonation state and spin structure for the g = 2 multiline electron paramagnetic resonance signal of the oxygen-evolving complex. PNAS NEXUS 2023; 2:pgad244. [PMID: 37564363 PMCID: PMC10411963 DOI: 10.1093/pnasnexus/pgad244] [Citation(s) in RCA: 2] [Impact Index Per Article: 2.0] [Reference Citation Analysis] [Abstract] [Track Full Text] [Figures] [Subscribe] [Scholar Register] [Received: 04/19/2023] [Revised: 06/08/2023] [Accepted: 07/18/2023] [Indexed: 08/12/2023]
Abstract
In photosystem II (PSII), one-electron oxidation of the most stable oxidation state of the Mn4CaO5 cluster (S1) leads to formation of two distinct states, the open-cubane S2 conformation [Mn1(III)Mn2(IV)Mn3(IV)Mn4(IV)] with low spin and the closed-cubane S2 conformation [Mn1(IV)Mn2(IV)Mn3(IV)Mn4(III)] with high spin. In electron paramagnetic resonance (EPR) spectroscopy, the open-cubane S2 conformation exhibits a g = 2 multiline signal. However, its protonation state remains unclear. Here, we investigated the protonation state of the open-cubane S2 conformation by calculating exchange couplings in the presence of the PSII protein environment and simulating the pulsed electron-electron double resonance (PELDOR). When a ligand water molecule, which forms an H-bond with D1-Asp61 (W1), is deprotonated at dangling Mn4(IV), the first-exited energy (34 cm-1) in manifold spin excited states aligns with the observed value in temperature-dependent pulsed EPR analyses, and the PELDOR signal is best reproduced. Consequently, the g = 2 multiline signal observed in EPR corresponds to the open-cubane S2 conformation with the deprotonated W1 (OH-).
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Affiliation(s)
- Keisuke Saito
- Department of Applied Chemistry, The University of Tokyo, 7-3-1 Hongo, Bunkyo-ku, Tokyo 113-8654, Japan
- Research Center for Advanced Science and Technology, The University of Tokyo, 4-6-1 Komaba, Meguro-ku, Tokyo 153-8904, Japan
| | - Shunya Nishio
- Department of Applied Chemistry, The University of Tokyo, 7-3-1 Hongo, Bunkyo-ku, Tokyo 113-8654, Japan
| | - Mizue Asada
- Instrument Center, Institute for Molecular Science, 38 Nishigo-Naka, Myodaiji, Okazaki 444-8585, Japan
| | - Hiroyuki Mino
- Division of Material Science, Graduate School of Science, Nagoya University,Furo-cho, Chikusa-ku, 464-8602 Nagoya, Aichi, Japan
| | - Hiroshi Ishikita
- Department of Applied Chemistry, The University of Tokyo, 7-3-1 Hongo, Bunkyo-ku, Tokyo 113-8654, Japan
- Research Center for Advanced Science and Technology, The University of Tokyo, 4-6-1 Komaba, Meguro-ku, Tokyo 153-8904, Japan
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Kosaki S, Mino H. Molecular Structure Related to an S = 5/2 High-Spin S 2 State Manganese Cluster of Photosystem II Investigated by Q-Band Pulse EPR Spectroscopy. J Phys Chem B 2023. [PMID: 37463845 DOI: 10.1021/acs.jpcb.3c01656] [Citation(s) in RCA: 0] [Impact Index Per Article: 0] [Reference Citation Analysis] [Abstract] [Track Full Text] [Journal Information] [Subscribe] [Scholar Register] [Indexed: 07/20/2023]
Abstract
The high-spin S2 state of the photosynthetic oxygen-evolving cluster Mn4CaO5, corresponding to the g = 4.1 signal for X-band electron paramagnetic resonance (EPR), was investigated using Q-band pulsed EPR, which detected a main peak at g = 3.10 and satellite peaks at 5.25, 4.55, and 2.80. We evaluated the spin state as the zero-field splitting of D = 0.465 cm-1 and E/D = 0.245 with S = 5/2. The temperature dependence of the T1 relaxation time revealed that the excited-state energy was 28.7 cm-1 higher than that of the S = 5/2 ground state. By comparing present quantum mechanical (QM) calculation models, a closed-cubane structure with the protonation state of two oxygens, W1 (= OH-) and W2 (= H2O), was the most probable structure for the S = 5/2 state. The three-pulse electron spin-echo envelope modulation (ESEEM) detected the nuclear signal, which was assigned to nitrogen as His332 ligated to the Mn1 ion. The obtained hyperfine constant for the nitrogen signal was significantly reduced from that in the S = 1/2 low-spin state. These results indicate that the S = 5/2 spin state arises from the closed-cubane structure.
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Affiliation(s)
- Shinya Kosaki
- Division of Materials Science, Graduate School of Science, Nagoya University, Furo-cho, Chikusa-ku, 464-8602 Nagoya, Aichi, Japan
| | - Hiroyuki Mino
- Division of Materials Science, Graduate School of Science, Nagoya University, Furo-cho, Chikusa-ku, 464-8602 Nagoya, Aichi, Japan
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Drosou M, Comas-Vilà G, Neese F, Salvador P, Pantazis DA. Does Serial Femtosecond Crystallography Depict State-Specific Catalytic Intermediates of the Oxygen-Evolving Complex? J Am Chem Soc 2023; 145:10604-10621. [PMID: 37137865 DOI: 10.1021/jacs.3c00489] [Citation(s) in RCA: 7] [Impact Index Per Article: 7.0] [Reference Citation Analysis] [Abstract] [Track Full Text] [Journal Information] [Subscribe] [Scholar Register] [Indexed: 05/05/2023]
Abstract
Recent advances in serial femtosecond crystallography (SFX) of photosystem II (PSII), enabled by X-ray free electron lasers (XFEL), provided the first geometric models of distinct intermediates in the catalytic S-state cycle of the oxygen-evolving complex (OEC). These models are obtained by flash-advancing the OEC from the dark-stable state (S1) to more oxidized intermediates (S2 and S3), eventually cycling back to the most reduced S0. However, the interpretation of these models is controversial because geometric parameters within the Mn4CaO5 cluster of the OEC do not exactly match those expected from coordination chemistry for the spectroscopically verified manganese oxidation states of the distinct S-state intermediates. Here we focus on the first catalytic transition, S1 → S2, which represents a one-electron oxidation of the OEC. Combining geometric and electronic structure criteria, including a novel effective oxidation state approach, we analyze existing 1-flash (1F) SFX-XFEL crystallographic models that should depict the S2 state of the OEC. We show that the 1F/S2 equivalence is not obvious, because the Mn oxidation states and total unpaired electron counts encoded in these models are not fully consistent with those of a pure S2 state and with the nature of the S1 → S2 transition. Furthermore, the oxidation state definition in two-flashed (2F) structural models is practically impossible to elucidate. Our results advise caution in the extraction of electronic structure information solely from the literal interpretation of crystallographic models and call for re-evaluation of structural and mechanistic interpretations that presume exact correspondence of such models to specific catalytic intermediates of the OEC.
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Affiliation(s)
- Maria Drosou
- Max-Planck-Institut für Kohlenforschung Kaiser-Wilhelm-Platz 1, 45470, Mülheim an der Ruhr, Germany
| | - Gerard Comas-Vilà
- Institute of Computational Chemistry and Catalysis, Chemistry Department, University of Girona, Montilivi Campus, Girona, Catalonia 17003, Spain
| | - Frank Neese
- Max-Planck-Institut für Kohlenforschung Kaiser-Wilhelm-Platz 1, 45470, Mülheim an der Ruhr, Germany
| | - Pedro Salvador
- Institute of Computational Chemistry and Catalysis, Chemistry Department, University of Girona, Montilivi Campus, Girona, Catalonia 17003, Spain
| | - Dimitrios A Pantazis
- Max-Planck-Institut für Kohlenforschung Kaiser-Wilhelm-Platz 1, 45470, Mülheim an der Ruhr, Germany
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Yamaguchi K, Shoji M, Isobe H, Kawakami T, Miyagawa K, Suga M, Akita F, Shen JR. Geometric, electronic and spin structures of the CaMn4O5 catalyst for water oxidation in oxygen-evolving photosystem II. Interplay between experiments and theoretical computations. Coord Chem Rev 2022. [DOI: 10.1016/j.ccr.2022.214742] [Citation(s) in RCA: 1] [Impact Index Per Article: 0.5] [Reference Citation Analysis] [Track Full Text] [Journal Information] [Subscribe] [Scholar Register] [Indexed: 11/15/2022]
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Saito K, Mino H, Nishio S, Ishikita H. Protonation structure of the closed-cubane conformation of the O 2-evolving complex in photosystem II. PNAS NEXUS 2022; 1:pgac221. [PMID: 36712340 PMCID: PMC9802176 DOI: 10.1093/pnasnexus/pgac221] [Citation(s) in RCA: 6] [Impact Index Per Article: 3.0] [Reference Citation Analysis] [Abstract] [Track Full Text] [Figures] [Subscribe] [Scholar Register] [Received: 03/22/2022] [Accepted: 09/27/2022] [Indexed: 11/17/2022]
Abstract
In photosystem II (PSII), one-electron oxidation of the most stable state of the oxygen-evolving Mn4CaO5 cluster (S1) leads to the S2 state formation, Mn1(III)Mn2(IV)Mn3(IV)Mn4(IV) (open-cubane S2) or Mn1(IV)Mn2(IV)Mn3(IV)Mn4(III) (closed-cubane S2). In electron paramagnetic resonance (EPR) spectroscopy, the g = 4.1 signal is not observed in cyanobacterial PSII but in plant PSII, whereas the g = 4.8 signal is observed in cyanobacterial PSII and extrinsic-subunit-depleted plant PSII. Here, we investigated the closed-cubane S2 conformation, a candidate for a higher spin configuration that accounts for g > 4.1 EPR signal, considering all pairwise exchange couplings in the PSII protein environment (i.e. instead of considering only a single exchange coupling between the [Mn3(CaO4)] cubane region and the dangling Mn4 site). Only when a ligand water molecule that forms an H-bond with D1-Asp61 (W1) is deprotonated at dangling Mn4(IV), the g = 4.1 EPR spectra can be reproduced using the cyanobacterial PSII crystal structure. The closed-cubane S2 is less stable than the open-cubane S2 in cyanobacterial PSII, which may explain why the g = 4.1 EPR signal is absent in cyanobacterial PSII.
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Affiliation(s)
| | - Hiroyuki Mino
- Division of Material Science, Graduate School of Science, Nagoya University, Furo-cho, Chikusa-ku, Nagoya 464-8602, Japan
| | - Shunya Nishio
- Department of Applied Chemistry, The University of Tokyo, 7-3-1 Hongo, Bunkyo-ku, Tokyo 113-8654, Japan
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Mino H. Temperature dependence of the formation of the g ~ 5 EPR signal in the oxygen evolving complex of photosystem II. PHOTOSYNTHESIS RESEARCH 2022; 152:207-212. [PMID: 35437616 DOI: 10.1007/s11120-022-00916-9] [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: 10/31/2021] [Accepted: 03/15/2022] [Indexed: 06/14/2023]
Abstract
The temperature dependence of the formation of the g ~ 5 S2 state electron paramagnetic resonance (EPR) signal in photosystem II (PSII) was investigated. The g ~ 5 signal was produced at an illumination above 200 K. The half inhibition temperature of the formation of the g ~ 5 EPR signal was approximately 215 K. The half inhibition temperature is close to that of the transition from the S2 state-to-S3 state in the untreated PSII, and not to that of the transition from S1 state -to-S2 state in the untreated PSII. The upshift of the half inhibition temperature of the transition from the S1 state -to-S2 state (g ~ 5) reflects the structural change upon transition from the S1 state to the S2 state. The activation energy of the g ~ 5 state formation was estimated as 40.7 ± 4.4 kJ/mol, which is comparable to the reported activation energy for the S2 formation in the untreated PSII. The activation enthalpy and entropy were estimated to be 39.0 ± 4.4 kJ/mol and - 103 ± 19 J/mol K at 210 K, respectively. Based on these parameters, the formation process of the g ~ 5 state is discussed in this study.
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Affiliation(s)
- Hiroyuki Mino
- Division of Material Science, Graduate School of Science, Nagoya University, Furo-cho, Chikusa-ku, Nagoya, Aichi, 464-8602, Japan.
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Miyagawa K, Shoji M, Isobe H, Kawakami T, Nakajima T, Yamaguchi K. Relative energies among proton-shifted S2 isomers in the photosystem II revealed by DLPNO coupled cluster and hybrid DFT calculations. Proton transfer coupled spin transitions of the CaMn4Ox cluster in OEC of PSII. Chem Phys Lett 2022. [DOI: 10.1016/j.cplett.2022.139357] [Citation(s) in RCA: 2] [Impact Index Per Article: 1.0] [Reference Citation Analysis] [Track Full Text] [Journal Information] [Subscribe] [Scholar Register] [Indexed: 11/03/2022]
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Bunіo LV, Tsvilynyuk OM. Influence of crude oil pollution on the content and electrophoretic spectrum of proteins in Carex hirta plants at the initial stages of vegetative development. REGULATORY MECHANISMS IN BIOSYSTEMS 2021. [DOI: 10.15421/022163] [Citation(s) in RCA: 0] [Impact Index Per Article: 0] [Reference Citation Analysis] [Abstract] [Track Full Text] [Journal Information] [Subscribe] [Scholar Register] [Indexed: 11/05/2022] Open
Abstract
The role of proteins in the general adaptive response of Carex hirta plants to soil pollution by crude oil has been studied. It was established that a possible element of the process of adaptation of C. hirta plants to combined stress – conditions of soil polluted by crude oil – may be the synthesis of stress proteins – high molecular weight of more than 60 kD and low molecular weight, not exceeding 22–45 kD. The synthesis of all 5 HSP families was detected in the leaves and rhizomes, and only sHSP (starting from Mr 32 kD), Hsp 60 and Hsp 100 proteins were synthesized in the roots under the influence of crude oil pollution. The development of C. hirta adaptation syndrome under the influence of crude oil pollution of the soil was promoted by enhanced synthesis of proteins with Mr 85, 77, 64, 60 and 27 kD in the leaves, 118 and 41 kD in the rhizomes and proteins with Mr 105, 53, 50 and 43 kD in the roots of the plants. The decrease in the amount of proteins with Mr 91, 45, 28 kD in the leaves, proteins with Mr 85, 76 and 23 kD in rhizomes and proteins with Mr 64 and 39 in the roots of C. hirta plants under conditions of crude oil polluted soil could be a consequence of inhibition of synthesis or degradation of protein molecules providing the required level of low molecular weight protective compounds in cells. The root system and rhizomes of C. hirta plants undergo a greater crude oil load, which leads to increased protein synthesis in these organs and decreased in the leaves, correspondingly. However, a decrease in protein content in the leaves may indicate their outflow in the roots and rhizomes. Сrude oil contaminated soil as a polycomponent stressor accelerated the aging of leaves of C. hirta plants, which could be caused by increased synthesis of ABA. ABA in its turn induced the synthesis of leaf-specific protein with Mr 27 kD. These proteins bind significant amounts of water with their hydrate shells maintaining the high water holding capacity of the cytoplasm under drought conditions. ABA inhibits the mRNA synthesis and their corresponding proteins, which are characteristic under normal conditions, and induces the expression of genes and, consequently, the synthesis of specific proteins including 27 kD protein. By stimulating the expression of individual genes and the synthesis of new polypeptides, ABA promotes the formation of protective reactions and increases the resistance of plants to crude oil pollution.
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Baituti B, Odisitse S. A Computational Study of the S 2 State in the Oxygen-Evolving Complex of Photosystem II by Electron Paramagnetic Resonance Spectroscopy. Molecules 2021; 26:2699. [PMID: 34064533 PMCID: PMC8125536 DOI: 10.3390/molecules26092699] [Citation(s) in RCA: 0] [Impact Index Per Article: 0] [Reference Citation Analysis] [Abstract] [Key Words] [MESH Headings] [Grants] [Track Full Text] [Download PDF] [Figures] [Journal Information] [Subscribe] [Scholar Register] [Received: 03/25/2021] [Revised: 04/22/2021] [Accepted: 04/24/2021] [Indexed: 11/16/2022] Open
Abstract
The S2 state produces two basic electron paramagnetic resonance signal types due to the manganese cluster in oxygen-evolving complex, which are influenced by the solvents, and cryoprotectant added to the photosystem II samples. It is presumed that a single manganese center oxidation occurs on S1 → S2 state transition. The S2 state has readily visible multiline and g4.1 electron paramagnetic resonance signals and hence it has been the most studied of all the Kok cycle intermediates due to the ease of experimental preparation and stability. The S2 state was studied using electron paramagnetic resonance spectroscopy at X-band frequencies. The aim of this study was to determine the spin states of the g4.1 signal. The multiline signal was observed to arise from a ground state spin ½ centre while the g4.1 signal generated at ≈140 K NIR illumination was proposed to arise from a spin 52 center with rhombic distortion. The 'ground' state g4.1 signal was generated solely or by conversion from the multiline. The data analysis methods used involved numerical simulations of the experimental spectra on relevant models of the oxygen-evolving complex cluster. A strong focus in this paper was on the 'ground' state g4.1 signal, whether it is a rhombic 52 spin state signal or an axial 32 spin state signal. The data supported an X-band CW-EPR-generated g4.1 signal as originating from a near rhombic spin 5/2 of the S2 state of the PSII manganese cluster.
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Affiliation(s)
- Bernard Baituti
- Department of Chemical and Forensic Science, Faculty of Science, Botswana International University of Science and Technology, Private Bag 16, Palapye, Botswana;
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