1
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Guo R, Xu YL, Zhu JX, Scheer H, Zhao KH. Assembly of CpcL-phycobilisomes. THE PLANT JOURNAL : FOR CELL AND MOLECULAR BIOLOGY 2024; 118:1207-1217. [PMID: 38319793 DOI: 10.1111/tpj.16666] [Citation(s) in RCA: 0] [Impact Index Per Article: 0] [Reference Citation Analysis] [Abstract] [Key Words] [MESH Headings] [Grants] [Track Full Text] [Subscribe] [Scholar Register] [Received: 10/17/2023] [Revised: 12/01/2023] [Accepted: 01/19/2024] [Indexed: 02/08/2024]
Abstract
CpcL-phycobilisomes (CpcL-PBSs) are a reduced type of phycobilisome (PBS) found in several cyanobacteria. They lack the traditional PBS terminal energy emitters, but still show the characteristic red-shifted fluorescence at ~670 nm. We established a method of assembling in vitro a rod-membrane linker protein, CpcL, with phycocyanin, generating complexes with the red-shifted spectral features of CpcL-PBSs. The red-shift arises from the interaction of a conserved key glutamine, Q57 of CpcL in Synechocystis sp. PCC 6803, with a single phycocyanobilin chromophore of trimeric phycocyanin at one of the three β82-sites. This chromophore is the terminal energy acceptor of CpcL-PBSs and donor to the photosystem(s). This mechanism also operates in PBSs from Acaryochloris marina MBIC11017. We then generated multichromic complexes harvesting light over nearly the complete visible range via the replacement of phycocyanobilin chromophores at sites α84 and β153 of phycocyanins by phycoerythrobilin and/or phycourobilin. The results demonstrate the rational design of biliprotein-based light-harvesting elements by engineering CpcL and phycocyanins, which broadens the light-harvesting range and accordingly improves the light-harvesting capacity and may be potentially applied in solar energy harvesting.
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Affiliation(s)
- Rui Guo
- National Key Laboratory of Agricultural Microbiology, Huazhong Agricultural University, Wuhan, 430070, P.R. China
| | - Ya-Li Xu
- National Key Laboratory of Agricultural Microbiology, Huazhong Agricultural University, Wuhan, 430070, P.R. China
| | - Jun-Xun Zhu
- National Key Laboratory of Agricultural Microbiology, Huazhong Agricultural University, Wuhan, 430070, P.R. China
| | - Hugo Scheer
- Department Biologie I, Universität München, Menzinger Str. 67, D-80638, München, Germany
| | - Kai-Hong Zhao
- National Key Laboratory of Agricultural Microbiology, Huazhong Agricultural University, Wuhan, 430070, P.R. China
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2
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Zhang S, Jeffreys LN, Poddar H, Yu Y, Liu C, Patel K, Johannissen LO, Zhu L, Cliff MJ, Yan C, Schirò G, Weik M, Sakuma M, Levy CW, Leys D, Heyes DJ, Scrutton NS. Photocobilins integrate B 12 and bilin photochemistry for enzyme control. Nat Commun 2024; 15:2740. [PMID: 38548733 PMCID: PMC10979010 DOI: 10.1038/s41467-024-46995-1] [Citation(s) in RCA: 0] [Impact Index Per Article: 0] [Reference Citation Analysis] [Abstract] [Key Words] [MESH Headings] [Grants] [Track Full Text] [Figures] [Journal Information] [Subscribe] [Scholar Register] [Received: 05/18/2023] [Accepted: 03/17/2024] [Indexed: 04/01/2024] Open
Abstract
Photoreceptor proteins utilise chromophores to sense light and trigger a biological response. The discovery that adenosylcobalamin (or coenzyme B12) can act as a light-sensing chromophore heralded a new field of B12-photobiology. Although microbial genome analysis indicates that photoactive B12-binding domains form part of more complex protein architectures, regulating a range of molecular-cellular functions in response to light, experimental evidence is lacking. Here we identify and characterise a sub-family of multi-centre photoreceptors, termed photocobilins, that use B12 and biliverdin (BV) to sense light across the visible spectrum. Crystal structures reveal close juxtaposition of the B12 and BV chromophores, an arrangement that facilitates optical coupling. Light-triggered conversion of the B12 affects quaternary structure, in turn leading to light-activation of associated enzyme domains. The apparent widespread nature of photocobilins implies involvement in light regulation of a wider array of biochemical processes, and thus expands the scope for B12 photobiology. Their characterisation provides inspiration for the design of broad-spectrum optogenetic tools and next generation bio-photocatalysts.
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Affiliation(s)
- Shaowei Zhang
- Manchester Institute of Biotechnology and Department of Chemistry, The University of Manchester, 131 Princess Street, Manchester, M1 7DN, UK.
- Department of Biology and Chemistry, College of Sciences, National University of Defense Technology, Changsha, China.
| | - Laura N Jeffreys
- Manchester Institute of Biotechnology and Department of Chemistry, The University of Manchester, 131 Princess Street, Manchester, M1 7DN, UK
| | - Harshwardhan Poddar
- Manchester Institute of Biotechnology and Department of Chemistry, The University of Manchester, 131 Princess Street, Manchester, M1 7DN, UK
| | - Yuqi Yu
- Manchester Institute of Biotechnology and Department of Chemistry, The University of Manchester, 131 Princess Street, Manchester, M1 7DN, UK
| | - Chuanyang Liu
- Department of Biology and Chemistry, College of Sciences, National University of Defense Technology, Changsha, China
| | - Kaylee Patel
- Manchester Institute of Biotechnology and Department of Chemistry, The University of Manchester, 131 Princess Street, Manchester, M1 7DN, UK
| | - Linus O Johannissen
- Manchester Institute of Biotechnology and Department of Chemistry, The University of Manchester, 131 Princess Street, Manchester, M1 7DN, UK
| | - Lingyun Zhu
- Department of Biology and Chemistry, College of Sciences, National University of Defense Technology, Changsha, China
| | - Matthew J Cliff
- Manchester Institute of Biotechnology and Department of Chemistry, The University of Manchester, 131 Princess Street, Manchester, M1 7DN, UK
| | - Cunyu Yan
- Manchester Institute of Biotechnology and Department of Chemistry, The University of Manchester, 131 Princess Street, Manchester, M1 7DN, UK
| | - Giorgio Schirò
- Univ. Grenoble Alpes, CEA, CNRS, Institut de Biologie Structurale, F-38044, Grenoble, France
| | - Martin Weik
- Univ. Grenoble Alpes, CEA, CNRS, Institut de Biologie Structurale, F-38044, Grenoble, France
| | - Michiyo Sakuma
- Manchester Institute of Biotechnology and Department of Chemistry, The University of Manchester, 131 Princess Street, Manchester, M1 7DN, UK
| | - Colin W Levy
- Manchester Institute of Biotechnology and Department of Chemistry, The University of Manchester, 131 Princess Street, Manchester, M1 7DN, UK
| | - David Leys
- Manchester Institute of Biotechnology and Department of Chemistry, The University of Manchester, 131 Princess Street, Manchester, M1 7DN, UK
| | - Derren J Heyes
- Manchester Institute of Biotechnology and Department of Chemistry, The University of Manchester, 131 Princess Street, Manchester, M1 7DN, UK.
| | - Nigel S Scrutton
- Manchester Institute of Biotechnology and Department of Chemistry, The University of Manchester, 131 Princess Street, Manchester, M1 7DN, UK.
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3
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Ling J, Niu Y, Liu D, Li R, Ruan Y, Li X. Inhibition of algal blooms by residual antibiotics in aquatic environments: Design, screening, and validation of antibiotic alternatives. THE SCIENCE OF THE TOTAL ENVIRONMENT 2024; 907:167914. [PMID: 37858809 DOI: 10.1016/j.scitotenv.2023.167914] [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: 09/08/2023] [Revised: 10/14/2023] [Accepted: 10/16/2023] [Indexed: 10/21/2023]
Abstract
Water blooms frequently appear in the aquatic environment with global warming. However, traditional methods for treating water bloom usually require the addition of algaecides, which may lead to secondary environmental pollution problems in the water environment. To solve this problem, researchers have initiated efforts to harness pre-existing chemical substances within aquatic environments to regulate algal blooms, thereby pioneering novel avenues for water body management. Therefore, an integrated approach involving molecular docking, molecular dynamics simulations, three-dimensional quantitative structure-activity relationship (3D-QSAR), and toxicokinetics methods were utilized for the molecular modification of fluoroquinolone antibiotics, to design and screen fluoroquinolone substitutes with improved toxicity of cyanobacteria and green algae, functionality, and environmental friendliness. A total of 143 fluoroquinolone alternatives were designed in this study, and lomefloxacin-6 (LOM6) was found as the optimum alternative to lomefloxacin (LOM), with increased toxicity to cyanobacteria and green algae by 31 % and 72 %. Molecular docking of LOM before and after modification with seven other cyanobacterial and green algal photosynthetic proteins revealed that LOM6 exhibited varying degrees of increased toxicity towards 6 of these photosynthetic proteins, of which 2J96 protein increased the most (136.25 %). It shows that the residual LOM6 in the water environment has a certain inhibitory effect on the algae bloom. In addition, results showed that LOM6 had synergistic toxic effects on cyanobacteria and green algae with other pollutants residual in the aqueous environment, such as trichloroethyl phosphate, triethyl phosphate, perfluorononanoic acid, perfluorooctanoic acid. This indicates that LOM6 has better algal removal effectiveness in aqueous environments where organophosphate flame retardants and perfluorinated compounds exist together. In this paper, a novel method was developed to remove cyanobacteria and green algae in water environment and reduce the secondary pollution through theoretical simulation, which provides theoretical support for the control of water blooms.
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Affiliation(s)
- Jianglong Ling
- School of Public Health, Lanzhou University, Lanzhou 730000, China.
| | - Yong Niu
- National Engineering Laboratory for Lake Pollution Control and Ecological Restoration, State Environmental Protection Key Laboratory for Lake Pollution Control, Chinese Research Academy of Environmental Sciences, Beijing 100012, China.
| | - Di Liu
- Center for Environmental Health Risk Assessment and Research, Chinese Research Academy of Environmental Sciences, Beijing 100012, China.
| | - Rui Li
- Center for Environmental Health Risk Assessment and Research, Chinese Research Academy of Environmental Sciences, Beijing 100012, China.
| | - Ye Ruan
- School of Public Health, Lanzhou University, Lanzhou 730000, China.
| | - Xixi Li
- National Engineering Laboratory for Lake Pollution Control and Ecological Restoration, State Environmental Protection Key Laboratory for Lake Pollution Control, Chinese Research Academy of Environmental Sciences, Beijing 100012, China; Northern Region Persistent Organic Pollution Control (NRPOP) Laboratory, Faculty of Engineering and Applied Science, Memorial University, St. John's A1B 3X5, Canada.
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4
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Zhou LJ, Höppner A, Wang YQ, Hou JY, Scheer H, Zhao KH. Crystallographic and biochemical analyses of a far-red allophycocyanin to address the mechanism of the super-red-shift. PHOTOSYNTHESIS RESEARCH 2024:10.1007/s11120-023-01066-2. [PMID: 38182842 DOI: 10.1007/s11120-023-01066-2] [Citation(s) in RCA: 0] [Impact Index Per Article: 0] [Reference Citation Analysis] [Abstract] [Key Words] [Grants] [Track Full Text] [Subscribe] [Scholar Register] [Received: 09/17/2023] [Accepted: 12/03/2023] [Indexed: 01/07/2024]
Abstract
Far-red absorbing allophycocyanins (APC), identified in cyanobacteria capable of FRL photoacclimation (FaRLiP) and low-light photoacclimation (LoLiP), absorb far-red light, functioning in energy transfer as light-harvesting proteins. We report an optimized method to obtain high purity far-red absorbing allophycocyanin B, AP-B2, of Chroococcidiopsis thermalis sp. PCC7203 by synthesis in Escherichia coli and an improved purification protocol. The crystal structure of the trimer, (PCB-ApcD5/PCB-ApcB2)3, has been resolved to 2.8 Å. The main difference to conventional APCs absorbing in the 650-670 nm range is a largely flat chromophore with the co-planarity extending, in particular, from rings BCD to ring A. This effectively extends the conjugation system of PCB and contributes to the super-red-shifted absorption of the α-subunit (λmax = 697 nm). On complexation with the β-subunit, it is even further red-shifted (λmax, absorption = 707 nm, λmax, emission = 721 nm). The relevance of ring A for this shift is supported by mutagenesis data. A variant of the α-subunit, I123M, has been generated that shows an intense FR-band already in the absence of the β-subunit, a possible model is discussed. Two additional mechanisms are known to red-shift the chromophore spectrum: lactam-lactim tautomerism and deprotonation of the chromophore that both mechanisms appear inconsistent with our data, leaving this question unresolved.
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Affiliation(s)
- Li-Juan Zhou
- National Key Laboratory of Agricultural Microbiology, Huazhong Agricultural University, Wuhan, 430070, The People's Republic of China
| | - Astrid Höppner
- Center for Structural Studies, Heinrich-Heine-Universität, Düsseldorf, Germany
| | - Yi-Qing Wang
- National Key Laboratory of Agricultural Microbiology, Huazhong Agricultural University, Wuhan, 430070, The People's Republic of China
| | - Jian-Yun Hou
- National Key Laboratory of Agricultural Microbiology, Huazhong Agricultural University, Wuhan, 430070, The People's Republic of China
| | - Hugo Scheer
- Department Biologie I, Universität München, Menzinger Str. 67, 80638, Munich, Germany
| | - Kai-Hong Zhao
- National Key Laboratory of Agricultural Microbiology, Huazhong Agricultural University, Wuhan, 430070, The People's Republic of China.
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5
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Golub M, Pieper J. Recent Progress in Solution Structure Studies of Photosynthetic Proteins Using Small-Angle Scattering Methods. Molecules 2023; 28:7414. [PMID: 37959833 PMCID: PMC10650700 DOI: 10.3390/molecules28217414] [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: 09/30/2023] [Revised: 10/27/2023] [Accepted: 10/27/2023] [Indexed: 11/15/2023] Open
Abstract
Utilized for gaining structural insights, small-angle neutron and X-ray scattering techniques (SANS and SAXS, respectively) enable an examination of biomolecules, including photosynthetic pigment-protein complexes, in solution at physiological temperatures. These methods can be seen as instrumental bridges between the high-resolution structural information achieved by crystallography or cryo-electron microscopy and functional explorations conducted in a solution state. The review starts with a comprehensive overview about the fundamental principles and applications of SANS and SAXS, with a particular focus on the recent advancements permitting to enhance the efficiency of these techniques in photosynthesis research. Among the recent developments discussed are: (i) the advent of novel modeling tools whereby a direct connection between SANS and SAXS data and high-resolution structures is created; (ii) the employment of selective deuteration, which is utilized to enhance spatial selectivity and contrast matching; (iii) the potential symbioses with molecular dynamics simulations; and (iv) the amalgamations with functional studies that are conducted to unearth structure-function relationships. Finally, reference is made to time-resolved SANS/SAXS experiments, which enable the monitoring of large-scale structural transformations of proteins in a real-time framework.
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Affiliation(s)
| | - Jörg Pieper
- Institute of Physics, University of Tartu, Wilhelm Ostwald Str. 1, 50411 Tartu, Estonia;
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6
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Guo R, Wang S, Niu NN, Xu YL, Zhu JX, Scheer H, Noy D, Zhao KH. Dichromic Allophycocyanin Trimer Covering a Broad Spectral Range (550-660 nm). Chemistry 2023; 29:e202203367. [PMID: 36382427 DOI: 10.1002/chem.202203367] [Citation(s) in RCA: 2] [Impact Index Per Article: 2.0] [Reference Citation Analysis] [Abstract] [Key Words] [Track Full Text] [Journal Information] [Subscribe] [Scholar Register] [Received: 10/30/2022] [Revised: 11/14/2022] [Accepted: 11/15/2022] [Indexed: 11/17/2022]
Abstract
Phycobilisomes, the light-harvesting complexes of cyanobacteria and red algae, are a resource for photosynthetic, photonic and fluorescence labeling elements. They cover an exceptionally broad spectral range, but the complex superstructure and assembly have been an obstacle. By replacing in Synechocystis sp. PCC 6803 the biliverdin reductases, we studied the role of chromophores in the assembly of the phycobilisome core. Introduction of the green-absorbing phycoerythrobilin instead of the red-absorbing phycocyanobilin inhibited aggregation. A novel, trimeric allophycocyanin (Dic-APC) was obtained. In the small (110 kDa) unit, the two chromophores, phycoerythrobilin and phytochromobilin, cover a wide spectral range (550 to 660 nm). Due to efficient energy transfer, it provides an efficient artificial light-harvesting element. Dic-APC was generated in vitro by using the contained core-linker, LC , for template-assisted purification and assembly. Labeling the linker provides a method for targeting Dic-APC.
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Affiliation(s)
- Rui Guo
- State Key Laboratory of Agricultural Microbiology, Huazhong Agricultural University, Wuhan, 430070, P.R. China
| | - Si Wang
- State Key Laboratory of Agricultural Microbiology, Huazhong Agricultural University, Wuhan, 430070, P.R. China
| | - Nan-Nan Niu
- State Key Laboratory of Agricultural Microbiology, Huazhong Agricultural University, Wuhan, 430070, P.R. China
| | - Ya-Li Xu
- State Key Laboratory of Agricultural Microbiology, Huazhong Agricultural University, Wuhan, 430070, P.R. China
| | - Jun-Xun Zhu
- State Key Laboratory of Agricultural Microbiology, Huazhong Agricultural University, Wuhan, 430070, P.R. China
| | - Hugo Scheer
- Department Biologie I, Universität München, Menzinger Str. 67, D-80638, München, Germany
| | - Dror Noy
- MIGAL-Galilee Research Institute S. Industrial Zone, Kiryat Shmona, Israel.,Faculty of Sciences and Technology, Tel-Hai Academic College, Upper Galilee, Israel
| | - Kai-Hong Zhao
- State Key Laboratory of Agricultural Microbiology, Huazhong Agricultural University, Wuhan, 430070, P.R. China
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7
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Vergara-Barros P, Alcorta J, Casanova-Katny A, Nürnberg DJ, Díez B. Compensatory Transcriptional Response of Fischerella thermalis to Thermal Damage of the Photosynthetic Electron Transfer Chain. Molecules 2022; 27:8515. [PMID: 36500606 PMCID: PMC9740203 DOI: 10.3390/molecules27238515] [Citation(s) in RCA: 0] [Impact Index Per Article: 0] [Reference Citation Analysis] [Abstract] [Key Words] [MESH Headings] [Grants] [Track Full Text] [Figures] [Journal Information] [Subscribe] [Scholar Register] [Received: 10/01/2022] [Revised: 11/29/2022] [Accepted: 11/29/2022] [Indexed: 12/11/2022] Open
Abstract
Key organisms in the environment, such as oxygenic photosynthetic primary producers (photosynthetic eukaryotes and cyanobacteria), are responsible for fixing most of the carbon globally. However, they are affected by environmental conditions, such as temperature, which in turn affect their distribution. Globally, the cyanobacterium Fischerella thermalis is one of the main primary producers in terrestrial hot springs with thermal gradients up to 60 °C, but the mechanisms by which F. thermalis maintains its photosynthetic activity at these high temperatures are not known. In this study, we used molecular approaches and bioinformatics, in addition to photophysiological analyses, to determine the genetic activity associated with the energy metabolism of F. thermalis both in situ and in high-temperature (40 °C to 65 °C) cultures. Our results show that photosynthesis of F. thermalis decays with temperature, while increased transcriptional activity of genes encoding photosystem II reaction center proteins, such as PsbA (D1), could help overcome thermal damage at up to 60 °C. We observed that F. thermalis tends to lose copies of the standard G4 D1 isoform while maintaining the recently described D1INT isoform, suggesting a preference for photoresistant isoforms in response to the thermal gradient. The transcriptional activity and metabolic characteristics of F. thermalis, as measured by metatranscriptomics, further suggest that carbon metabolism occurs in parallel with photosynthesis, thereby assisting in energy acquisition under high temperatures at which other photosynthetic organisms cannot survive. This study reveals that, to cope with the harsh conditions of hot springs, F. thermalis has several compensatory adaptations, and provides emerging evidence for mixotrophic metabolism as being potentially relevant to the thermotolerance of this species. Ultimately, this work increases our knowledge about thermal adaptation strategies of cyanobacteria.
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Affiliation(s)
- Pablo Vergara-Barros
- Department of Molecular Genetics and Microbiology, Biological Sciences Faculty, Pontifical Catholic University of Chile, Santiago 8331150, Chile
- Millennium Institute Center for Genome Regulation (CGR), Santiago 8370186, Chile
| | - Jaime Alcorta
- Department of Molecular Genetics and Microbiology, Biological Sciences Faculty, Pontifical Catholic University of Chile, Santiago 8331150, Chile
| | - Angélica Casanova-Katny
- Laboratory of Plant Ecophysiology, Faculty of Natural Resources, Campus Luis Rivas del Canto, Catholic University of Temuco, Temuco 4780000, Chile
| | - Dennis J. Nürnberg
- Institute of Experimental Physics, Freie Universität Berlin, 14195 Berlin, Germany
- Dahlem Centre of Plant Sciences, Freie Universität Berlin, 14195 Berlin, Germany
| | - Beatriz Díez
- Department of Molecular Genetics and Microbiology, Biological Sciences Faculty, Pontifical Catholic University of Chile, Santiago 8331150, Chile
- Millennium Institute Center for Genome Regulation (CGR), Santiago 8370186, Chile
- Center for Climate and Resilience Research (CR)2, Santiago 8370449, Chile
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8
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Liu H. AlphaFold and Structural Mass Spectrometry Enable Interrogations on the Intrinsically Disordered Regions in Cyanobacterial Light-harvesting Complex Phycobilisome. J Mol Biol 2022; 434:167831. [PMID: 36116541 DOI: 10.1016/j.jmb.2022.167831] [Citation(s) in RCA: 4] [Impact Index Per Article: 2.0] [Reference Citation Analysis] [Abstract] [Key Words] [MESH Headings] [Track Full Text] [Journal Information] [Subscribe] [Scholar Register] [Received: 06/03/2022] [Revised: 09/09/2022] [Accepted: 09/12/2022] [Indexed: 11/29/2022]
Abstract
Intrinsically disordered proteins/regions (IDPRs) are a very large and functionally important class of proteins that participate in weak multivalent interactions in protein complexes. They are recalcitrant for interrogations using X-ray crystallography and cryo-EM. The IDPRs observed at the interface of the photosynthetic pigment protein complexes (PPCs) remain much less clear, e.g., the major cyanobacterial light-harvesting complex (PBS) contains an unstructured PB-loop insertion in the phycocyanobilin domain (PB domain) of ApcE (the largest polypeptide in PBS). Here, a joint platform is built to probe such structural domains. This platform is characterized by two-round progressive justifications of in silico models by using the structural mass spectrometry data. First, the AlphaFold-generated 3D structure of the PB domain (containing PB-loop) was justified in the context of PBS. Second, docking the AlphaFold-generated ApcG (a ligand) into the first-step justified structure (a receptor). The final ligand-receptor complex was then subjected to a second-round justification, again, by using unequivocal isotopically-encoded cross-links identified in LC-MS/MS. This work reveals a full-length PB-loop structure modelled in the PBS basal cylinder, free from any spatial conflicts against the other subunits in PBS. The structure of PB domain highlights the close associations of the intrinsically disordered PB-loop with its binding partners in PBS, including ApcG, another IDPR. The PB-loop region involved in the binding of photosystem II (PSII) is also discussed in the context of excitation energy transfer regulation. This work calls attention to the highly disordered, yet interrogatable interface between the light-harvesting antenna complexes and the reaction centers.
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Affiliation(s)
- Haijun Liu
- Department of Biology Washington University in St. Louis, St. Louis, MO 63130, USA.
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9
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Patel SN, Sonani RR, Roy D, Singh NK, Subudhi S, Pabbi S, Madamwar D. Exploring the structural aspects and therapeutic perspectives of cyanobacterial phycobiliproteins. 3 Biotech 2022; 12:224. [PMID: 35975025 PMCID: PMC9375810 DOI: 10.1007/s13205-022-03284-2] [Citation(s) in RCA: 0] [Impact Index Per Article: 0] [Reference Citation Analysis] [Abstract] [Key Words] [Grants] [Track Full Text] [Journal Information] [Subscribe] [Scholar Register] [Received: 03/23/2022] [Accepted: 07/28/2022] [Indexed: 11/01/2022] Open
Abstract
Phycobiliproteins (PBPs) of cyanobacteria and algae possess unique light harvesting capacity which expand the photosynthetically active region (PAR) and allow them to thrive in extreme niches where higher plants cannot. PBPs of cyanobacteria/algae vary in abundance, types, amino acid composition and in structure as a function of species and the habitat that they grow in. In the present review, the key aspects of structure, stability, and spectral properties of PBPs, and their correlation with ecological niche of cyanobacteria are discussed. Besides their role in light-harvesting, PBPs possess antioxidant, anti-aging, neuroprotective, hepatoprotective and anti-inflammatory properties, which can be used in therapeutics. Recent developments in therapeutic applications of PBPs are reviewed with special focus on 'route of PBPs administration' and 'therapeutic potential of PBP-derived peptide and chromophores'.
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Affiliation(s)
- Stuti N. Patel
- P. D. Patel Institute of Applied Sciences, Charotar University of Science and Technology, CHARUSAT Campus, Changa, Anand, Gujarat 388421 India
- Post-Graduate Department of Biosciences, UGC-Centre of Advanced Study, Sardar Patel University, Satellite Campus, Vadtal Road, Bakrol, Anand, Gujarat 388315 India
- Present Address: Małopolska Centre of Biotechnology, Jagiellonian University, 30-387 Kraków, Poland
| | - Ravi R. Sonani
- Present Address: Małopolska Centre of Biotechnology, Jagiellonian University, 30-387 Kraków, Poland
- Department of Biochemistry and Molecular Genetics, University of Virginia, Charlottesville, VA 22908 USA
| | - Diya Roy
- Centre for Conservation and Utilisation of Blue Green Algae (CCUBGA), Division of Microbiology, ICAR - Indian Agricultural Research Institute, New Delhi, 110012 India
| | - Niraj Kumar Singh
- Department of Biotechnology, Shree A. N. Patel PG Institute of Science and Research, Sardar Patel University, Anand, Gujarat 388001 India
- Present Address: Gujarat Biotechnology Research Centre (GBRC), Deaprtment of Science and Technology (DST), Government of Gujarat, Gandhinagar, Gujarat 382011 India
| | - Sanjukta Subudhi
- The Energy and Resources Institute Darbari Seth Block, India Habitat Centre, Lodi Road, New Delhi, 110003 India
| | - Sunil Pabbi
- Centre for Conservation and Utilisation of Blue Green Algae (CCUBGA), Division of Microbiology, ICAR - Indian Agricultural Research Institute, New Delhi, 110012 India
| | - Datta Madamwar
- P. D. Patel Institute of Applied Sciences, Charotar University of Science and Technology, CHARUSAT Campus, Changa, Anand, Gujarat 388421 India
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10
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Hou Y, Höppner A, Rao AG, Lahav Y, Kumar Das P, Ding W, Jiang X, Hu J, Schapiro I, Noy D, Zhao K. Control of a far‐red/near‐infrared spectral switch in an artificial fluorescent biliprotein derived from allophycocyanin. Protein Sci 2022. [DOI: 10.1002/pro.4412] [Citation(s) in RCA: 0] [Impact Index Per Article: 0] [Reference Citation Analysis] [Track Full Text] [Journal Information] [Subscribe] [Scholar Register] [Indexed: 11/10/2022]
Affiliation(s)
- Ya‐Nan Hou
- State Key Laboratory of Agricultural Microbiology Huazhong Agricultural University Wuhan China
| | - Astrid Höppner
- Center for Structural Studies Heinrich‐Heine‐Universität Düsseldorf Germany
| | - Aditya G. Rao
- Fritz Haber Center for Molecular Dynamics Research, Institute for Chemistry The Hebrew University of Jerusalem Jerusalem Israel
| | - Yigal Lahav
- Fritz Haber Center for Molecular Dynamics Research, Institute for Chemistry The Hebrew University of Jerusalem Jerusalem Israel
- MIGAL‐Galilee Research Institute S. Industrial Zone Kiryat Shmona Israel
| | - Prabir Kumar Das
- MIGAL‐Galilee Research Institute S. Industrial Zone Kiryat Shmona Israel
| | - Wen‐Long Ding
- State Key Laboratory of Agricultural Microbiology Huazhong Agricultural University Wuhan China
| | - Xiang‐Xiang Jiang
- State Key Laboratory of Agricultural Microbiology Huazhong Agricultural University Wuhan China
| | - Ji‐Ling Hu
- State Key Laboratory of Agricultural Microbiology Huazhong Agricultural University Wuhan China
| | - Igor Schapiro
- Fritz Haber Center for Molecular Dynamics Research, Institute for Chemistry The Hebrew University of Jerusalem Jerusalem Israel
| | - Dror Noy
- MIGAL‐Galilee Research Institute S. Industrial Zone Kiryat Shmona Israel
- Faculty of Sciences and Technology Tel‐Hai Academic College Upper Galilee Israel
| | - Kai‐Hong Zhao
- State Key Laboratory of Agricultural Microbiology Huazhong Agricultural University Wuhan China
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11
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Dagnino-Leone J, Figueroa CP, Castañeda ML, Youlton AD, Vallejos-Almirall A, Agurto-Muñoz A, Pavón Pérez J, Agurto-Muñoz C. Phycobiliproteins: Structural aspects, functional characteristics, and biotechnological perspectives. Comput Struct Biotechnol J 2022; 20:1506-1527. [PMID: 35422968 PMCID: PMC8983314 DOI: 10.1016/j.csbj.2022.02.016] [Citation(s) in RCA: 24] [Impact Index Per Article: 12.0] [Reference Citation Analysis] [Abstract] [Track Full Text] [Download PDF] [Figures] [Journal Information] [Subscribe] [Scholar Register] [Received: 10/31/2021] [Revised: 02/18/2022] [Accepted: 02/19/2022] [Indexed: 12/13/2022] Open
Abstract
Phycobiliproteins (PBPs) are fluorescent proteins of various colors, including fuchsia, purple-blue and cyan, that allow the capture of light energy in auxiliary photosynthetic complexes called phycobilisomes (PBS). PBPs have several highly preserved structural and physicochemical characteristics. In the PBS context, PBPs function is capture luminous energy in the 450–650 nm range and delivers it to photosystems allowing photosynthesis take place. Besides the energy harvesting function, PBPs also have shown to have multiple biological activities, including antioxidant, antibacterial and antitumours, making them an interesting focus for different biotechnological applications in areas like biomedicine, bioenergy and scientific research. Nowadays, the main sources of PBPs are cyanobacteria and micro and macro algae from the phylum Rhodophyta. Due to the diverse biological activities of PBPs, they have attracted the attention of different industries, such as food, biomedical and cosmetics. This is why a large number of patents related to the production, extraction, purification of PBPs and their application as cosmetics, biopharmaceuticals or diagnostic applications have been generated, looking less ecological impact in the natural prairies of macroalgae and less culture time or higher productivity in cyanobacteria to satisfy the markets and applications that require high amounts of these molecules. In this review, we summarize the main structural characteristics of PBPs, their biosynthesys and biotechnological applications. We also address current trends and future perspectives of the PBPs market.
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Affiliation(s)
- Jorge Dagnino-Leone
- Grupo Interdisciplinario de Biotecnología Marina (GIBMAR), Centro de Biotecnología, Universidad de Concepción, Concepción 4030000, Chile
| | - Cristina Pinto Figueroa
- Grupo Interdisciplinario de Biotecnología Marina (GIBMAR), Centro de Biotecnología, Universidad de Concepción, Concepción 4030000, Chile
| | - Mónica Latorre Castañeda
- Grupo Interdisciplinario de Biotecnología Marina (GIBMAR), Centro de Biotecnología, Universidad de Concepción, Concepción 4030000, Chile
| | - Andrea Donoso Youlton
- Grupo Interdisciplinario de Biotecnología Marina (GIBMAR), Centro de Biotecnología, Universidad de Concepción, Concepción 4030000, Chile
| | - Alejandro Vallejos-Almirall
- Grupo Interdisciplinario de Biotecnología Marina (GIBMAR), Centro de Biotecnología, Universidad de Concepción, Concepción 4030000, Chile
| | - Andrés Agurto-Muñoz
- Grupo Interdisciplinario de Biotecnología Marina (GIBMAR), Centro de Biotecnología, Universidad de Concepción, Concepción 4030000, Chile
| | - Jessy Pavón Pérez
- Grupo Interdisciplinario de Biotecnología Marina (GIBMAR), Centro de Biotecnología, Universidad de Concepción, Concepción 4030000, Chile
- Departamento de Ciencia y Tecnología de los Alimentos (CyTA), Facultad de Farmacia, Universidad de Concepción, Concepción 4030000 Chile
| | - Cristian Agurto-Muñoz
- Grupo Interdisciplinario de Biotecnología Marina (GIBMAR), Centro de Biotecnología, Universidad de Concepción, Concepción 4030000, Chile
- Departamento de Ciencia y Tecnología de los Alimentos (CyTA), Facultad de Farmacia, Universidad de Concepción, Concepción 4030000 Chile
- Corresponding author at: Grupo Interdisciplinario de Biotecnología Marina (GIBMAR), Centro de Biotecnología, Universidad de Concepción, Concepción 4030000, Chile.
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12
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Zheng L, Zheng Z, Li X, Wang G, Zhang K, Wei P, Zhao J, Gao N. Structural insight into the mechanism of energy transfer in cyanobacterial phycobilisomes. Nat Commun 2021; 12:5497. [PMID: 34535665 PMCID: PMC8448738 DOI: 10.1038/s41467-021-25813-y] [Citation(s) in RCA: 47] [Impact Index Per Article: 15.7] [Reference Citation Analysis] [Abstract] [Key Words] [Track Full Text] [Download PDF] [Figures] [Journal Information] [Subscribe] [Scholar Register] [Received: 04/22/2021] [Accepted: 09/01/2021] [Indexed: 02/08/2023] Open
Abstract
Phycobilisomes (PBS) are the major light-harvesting machineries for photosynthesis in cyanobacteria and red algae and they have a hierarchical structure of a core and peripheral rods, with both consisting of phycobiliproteins and linker proteins. Here we report the cryo-EM structures of PBS from two cyanobacterial species, Anabaena 7120 and Synechococcus 7002. Both PBS are hemidiscoidal in shape and share a common triangular core structure. While the Anabaena PBS has two additional hexamers in the core linked by the 4th linker domain of ApcE (LCM). The PBS structures predict that, compared with the PBS from red algae, the cyanobacterial PBS could have more direct routes for energy transfer to ApcD. Structure-based systematic mutagenesis analysis of the chromophore environment of ApcD and ApcF subunits reveals that aromatic residues are critical to excitation energy transfer (EET). The structures also suggest that the linker protein could actively participate in the process of EET in both rods and the cores. These results provide insights into the organization of chromophores and the mechanisms of EET within cyanobacterial PBS.
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Affiliation(s)
- Lvqin Zheng
- grid.11135.370000 0001 2256 9319State Key Laboratory of Membrane Biology, National Biomedical Imaging Center, Peking-Tsinghua Center for Life Sciences, School of Life Sciences, Peking University, 100871 Beijing, China
| | - Zhenggao Zheng
- grid.11135.370000 0001 2256 9319State Key Laboratory of Protein and Plant Genetic Engineering, School of Life Sciences, Peking University, 100871 Beijing, China ,grid.410645.20000 0001 0455 0905College of Life Science, Qingdao University, 266071 Qingdao, China
| | - Xiying Li
- grid.11135.370000 0001 2256 9319State Key Laboratory of Protein and Plant Genetic Engineering, School of Life Sciences, Peking University, 100871 Beijing, China
| | - Guopeng Wang
- grid.11135.370000 0001 2256 9319State Key Laboratory of Membrane Biology, National Biomedical Imaging Center, Peking-Tsinghua Center for Life Sciences, School of Life Sciences, Peking University, 100871 Beijing, China
| | - Kun Zhang
- grid.11135.370000 0001 2256 9319State Key Laboratory of Protein and Plant Genetic Engineering, School of Life Sciences, Peking University, 100871 Beijing, China
| | - Peijun Wei
- grid.11135.370000 0001 2256 9319State Key Laboratory of Protein and Plant Genetic Engineering, School of Life Sciences, Peking University, 100871 Beijing, China
| | - Jindong Zhao
- grid.11135.370000 0001 2256 9319State Key Laboratory of Protein and Plant Genetic Engineering, School of Life Sciences, Peking University, 100871 Beijing, China ,grid.429211.d0000 0004 1792 6029Key Laboratory of Phycology of CAS, Institute of Hydrobiology, Chinese Academy of Sciences, 430072 Wuhan, Hubei China
| | - Ning Gao
- grid.11135.370000 0001 2256 9319State Key Laboratory of Membrane Biology, National Biomedical Imaging Center, Peking-Tsinghua Center for Life Sciences, School of Life Sciences, Peking University, 100871 Beijing, China
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13
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Abstract
Phycobilisomes (PBSs) are extremely large chromophore-protein complexes on the stromal side of the thylakoid membrane in cyanobacteria and red algae. The main function of PBSs is light harvesting, and they serve as antennas and transfer the absorbed energy to the reaction centers of two photosynthetic systems (photosystems I and II). PBSs are composed of phycobiliproteins and linker proteins. How phycobiliproteins and linkers are organized in PBSs and how light energy is efficiently harvested and transferred in PBSs are the fundamental questions in the study of photosynthesis. In this review, the structures of the red algae Griffithsia pacifica and Porphyridium purpureum are discussed in detail, along with the functions of linker proteins in phycobiliprotein assembly and in fine-tuning the energy state of chromophores.
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Affiliation(s)
- Sen-Fang Sui
- State Key Laboratory of Membrane Biology, Beijing Advanced Innovation Center for Structural Biology and Frontier Research Center for Biological Structure, School of Life Sciences, Tsinghua University, Beijing 100084, China;
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14
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Rathbone HW, Michie KA, Landsberg MJ, Green BR, Curmi PMG. Scaffolding proteins guide the evolution of algal light harvesting antennas. Nat Commun 2021; 12:1890. [PMID: 33767155 PMCID: PMC7994580 DOI: 10.1038/s41467-021-22128-w] [Citation(s) in RCA: 3] [Impact Index Per Article: 1.0] [Reference Citation Analysis] [Abstract] [Track Full Text] [Download PDF] [Figures] [Journal Information] [Subscribe] [Scholar Register] [Received: 12/13/2020] [Accepted: 02/17/2021] [Indexed: 11/19/2022] Open
Abstract
Photosynthetic organisms have developed diverse antennas composed of chromophorylated proteins to increase photon capture. Cryptophyte algae acquired their photosynthetic organelles (plastids) from a red alga by secondary endosymbiosis. Cryptophytes lost the primary red algal antenna, the red algal phycobilisome, replacing it with a unique antenna composed of αβ protomers, where the β subunit originates from the red algal phycobilisome. The origin of the cryptophyte antenna, particularly the unique α subunit, is unknown. Here we show that the cryptophyte antenna evolved from a complex between a red algal scaffolding protein and phycoerythrin β. Published cryo-EM maps for two red algal phycobilisomes contain clusters of unmodelled density homologous to the cryptophyte-αβ protomer. We modelled these densities, identifying a new family of scaffolding proteins related to red algal phycobilisome linker proteins that possess multiple copies of a cryptophyte-α-like domain. These domains bind to, and stabilise, a conserved hydrophobic surface on phycoerythrin β, which is the same binding site for its primary partner in the red algal phycobilisome, phycoerythrin α. We propose that after endosymbiosis these scaffolding proteins outcompeted the primary binding partner of phycoerythrin β, resulting in the demise of the red algal phycobilisome and emergence of the cryptophyte antenna. Cryptophytes acquired plastids from red algae but replaced the light-harvesting phycobilisome with a unique cryptophyte antenna. Here via analysis of phycobilisome cryo-EM structures, Rathbone et al. propose that the α subunit of the cryptophyte antenna originated from phycobilisome linker proteins
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Affiliation(s)
- Harry W Rathbone
- School of Physics, University of New South Wales, Sydney, NSW, 2052, Australia
| | - Katharine A Michie
- School of Physics, University of New South Wales, Sydney, NSW, 2052, Australia.,Mark Wainwright Analytical Centre, University of New South Wales, Sydney, NSW, 2052, Australia
| | - Michael J Landsberg
- School of Chemistry and Molecular Biosciences, The University of Queensland, St. Lucia, QLD, Australia
| | - Beverley R Green
- Botany Department, University of British Columbia, Vancouver, BC, V6N 3T7, Canada
| | - Paul M G Curmi
- School of Physics, University of New South Wales, Sydney, NSW, 2052, Australia.
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15
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Li M, Du M, Sun R, Zhang W, Hou Y, Li Y. Application of a 2D-QSAR with a sine normalization method for the biodegradation of fluoroquinolones to poison cyanobacteria. ENVIRONMENTAL SCIENCE AND POLLUTION RESEARCH INTERNATIONAL 2021; 28:11302-11316. [PMID: 33118068 DOI: 10.1007/s11356-020-11366-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: 06/12/2020] [Accepted: 10/21/2020] [Indexed: 06/11/2023]
Abstract
Cyanobacteria are photosynthetic autotrophic aquatic prokaryotes. One of the methods for controlling cyanobacterial blooms is to destroy the phycobiliproteins required for photosynthesis. In this study, to improve the biodegradation of the fluoroquinolones through inhibit cyanobacteria, the molecular docking scores of 32 fluoroquinolones (FQs) with four categories of phycobiliproteins from cyanobacteria were calculated after sine normalization to characterize the binding ability between them. A two-dimensional quantitative structure-activity relationship (2D-QSAR) model was constructed based on the comprehensive scores. Danofloxacin (DAN) with the highest comprehensive score was chosen for molecular modification. When docking with four categories of phycobiliproteins from cyanobacteria, the docking values of DAN-11 and DAN-16 were increased up to 35.75%. Moreover, their functional characteristics and environmentally friendly predictive values were improved. When the DAN-11 and DAN-16 molecules docked with the other cyanobacterial phycobiliproteins, indicating that the designed DAN derivatives had general applicability to poison cyanobacteria, the weak interaction forces might increase the binding ability between the DAN derivatives and the receptor phycobiliprotein compared with the target molecule.
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Affiliation(s)
- Minghao Li
- The Moe Key Laboratory of Resources and Environmental Systems Optimization, North China Electric Power University, Beijing, 102206, China
| | - Meijin Du
- The Moe Key Laboratory of Resources and Environmental Systems Optimization, North China Electric Power University, Beijing, 102206, China
| | - Ruihao Sun
- The Moe Key Laboratory of Resources and Environmental Systems Optimization, North China Electric Power University, Beijing, 102206, China
| | - Wenhui Zhang
- The Moe Key Laboratory of Resources and Environmental Systems Optimization, North China Electric Power University, Beijing, 102206, China
| | - Yilin Hou
- The Moe Key Laboratory of Resources and Environmental Systems Optimization, North China Electric Power University, Beijing, 102206, China
| | - Yu Li
- The Moe Key Laboratory of Resources and Environmental Systems Optimization, North China Electric Power University, Beijing, 102206, China.
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16
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Liu H, Zhang MM, Weisz DA, Cheng M, Pakrasi HB, Blankenship RE. Structure of cyanobacterial phycobilisome core revealed by structural modeling and chemical cross-linking. SCIENCE ADVANCES 2021; 7:7/2/eaba5743. [PMID: 33523959 PMCID: PMC7787483 DOI: 10.1126/sciadv.aba5743] [Citation(s) in RCA: 9] [Impact Index Per Article: 3.0] [Reference Citation Analysis] [Abstract] [Grants] [Track Full Text] [Subscribe] [Scholar Register] [Received: 12/19/2019] [Accepted: 11/16/2020] [Indexed: 05/28/2023]
Abstract
In cyanobacteria and red algae, the structural basis dictating efficient excitation energy transfer from the phycobilisome (PBS) antenna complex to the reaction centers remains unclear. The PBS has several peripheral rods and a central core that binds to the thylakoid membrane, allowing energy coupling with photosystem II (PSII) and PSI. Here, we have combined chemical cross-linking mass spectrometry with homology modeling to propose a tricylindrical cyanobacterial PBS core structure. Our model reveals a side-view crossover configuration of the two basal cylinders, consolidating the essential roles of the anchoring domains composed of the ApcE PB loop and ApcD, which facilitate the energy transfer to PSII and PSI, respectively. The uneven bottom surface of the PBS core contrasts with the flat reducing side of PSII. The extra space between two basal cylinders and PSII provides increased accessibility for regulatory elements, e.g., orange carotenoid protein, which are required for modulating photochemical activity.
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Affiliation(s)
- Haijun Liu
- Department of Chemistry, Washington University in St. Louis, St. Louis, MO 63130, USA.
- Department of Biology, Washington University in St. Louis, St. Louis, MO 63130, USA
- Photosynthetic Antenna Research Center (PARC), Washington University in St. Louis, St. Louis, MO 63130, USA
| | - Mengru M Zhang
- Department of Chemistry, Washington University in St. Louis, St. Louis, MO 63130, USA
| | - Daniel A Weisz
- Department of Biology, Washington University in St. Louis, St. Louis, MO 63130, USA
- Photosynthetic Antenna Research Center (PARC), Washington University in St. Louis, St. Louis, MO 63130, USA
| | - Ming Cheng
- Department of Chemistry, Washington University in St. Louis, St. Louis, MO 63130, USA
| | - Himadri B Pakrasi
- Department of Biology, Washington University in St. Louis, St. Louis, MO 63130, USA
- Photosynthetic Antenna Research Center (PARC), Washington University in St. Louis, St. Louis, MO 63130, USA
| | - Robert E Blankenship
- Department of Chemistry, Washington University in St. Louis, St. Louis, MO 63130, USA
- Department of Biology, Washington University in St. Louis, St. Louis, MO 63130, USA
- Photosynthetic Antenna Research Center (PARC), Washington University in St. Louis, St. Louis, MO 63130, USA
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17
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Kirilovsky D. Modulating Energy Transfer from Phycobilisomes to Photosystems: State Transitions and OCP-Related Non-Photochemical Quenching. PHOTOSYNTHESIS IN ALGAE: BIOCHEMICAL AND PHYSIOLOGICAL MECHANISMS 2020. [DOI: 10.1007/978-3-030-33397-3_14] [Citation(s) in RCA: 2] [Impact Index Per Article: 0.5] [Reference Citation Analysis] [Track Full Text] [Subscribe] [Scholar Register] [Indexed: 12/14/2022]
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18
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Li XD, Tan ZZ, Ding WL, Hou YN, Kong CD, Zhao BQ, Zhao KH. Design of small monomeric and highly bright near-infrared fluorescent proteins. BIOCHIMICA ET BIOPHYSICA ACTA-MOLECULAR CELL RESEARCH 2019; 1866:1608-1617. [DOI: 10.1016/j.bbamcr.2019.06.018] [Citation(s) in RCA: 7] [Impact Index Per Article: 1.4] [Reference Citation Analysis] [Track Full Text] [Subscribe] [Scholar Register] [Received: 03/03/2019] [Revised: 06/21/2019] [Accepted: 06/30/2019] [Indexed: 11/16/2022]
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19
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Alcorta J, Vergara-Barros P, Antonaru LA, Alcamán-Arias ME, Nürnberg DJ, Díez B. Fischerella thermalis: a model organism to study thermophilic diazotrophy, photosynthesis and multicellularity in cyanobacteria. Extremophiles 2019; 23:635-647. [PMID: 31512055 DOI: 10.1007/s00792-019-01125-4] [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: 04/23/2019] [Accepted: 08/05/2019] [Indexed: 01/19/2023]
Abstract
The true-branching cyanobacterium Fischerella thermalis (also known as Mastigocladus laminosus) is widely distributed in hot springs around the world. Morphologically, it has been described as early as 1837. However, its taxonomic placement remains controversial. F. thermalis belongs to the same genus as mesophilic Fischerella species but forms a monophyletic clade of thermophilic Fischerella strains and sequences from hot springs. Their recent divergence from freshwater or soil true-branching species and the ongoing process of specialization inside the thermal gradient make them an interesting evolutionary model to study. F. thermalis is one of the most complex prokaryotes. It forms a cellular network in which the main trichome and branches exchange metabolites and regulators via septal junctions. This species can adapt to a variety of environmental conditions, with its photosynthetic apparatus remaining active in a temperature range from 15 to 58 °C. Together with its nitrogen-fixing ability, this allows it to dominate in hot spring microbial mats and contribute significantly to the de novo carbon and nitrogen input. Here, we review the current knowledge on the taxonomy and distribution of F. thermalis, its morphological complexity, and its physiological adaptations to an extreme environment.
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Affiliation(s)
- Jaime Alcorta
- Department of Molecular Genetics and Microbiology, Pontifical Catholic University of Chile, Avenida Libertador Bernardo O'higgins 340, Casilla 144-D, C.P. 651, 3677, Santiago, Chile
| | - Pablo Vergara-Barros
- Department of Molecular Genetics and Microbiology, Pontifical Catholic University of Chile, Avenida Libertador Bernardo O'higgins 340, Casilla 144-D, C.P. 651, 3677, Santiago, Chile
| | - Laura A Antonaru
- Department of Life Science, Imperial College, London, SW7 2AZ, UK
| | - María E Alcamán-Arias
- Department of Molecular Genetics and Microbiology, Pontifical Catholic University of Chile, Avenida Libertador Bernardo O'higgins 340, Casilla 144-D, C.P. 651, 3677, Santiago, Chile.,Department of Oceanography, University of Concepcion, Concepción, Chile.,Center for Climate and Resilience Research (CR)2, Santiago, Chile
| | - Dennis J Nürnberg
- Department of Life Science, Imperial College, London, SW7 2AZ, UK.,Physics Department, Freie Universität Berlin, Arnimallee 14, 14195, Berlin, Germany
| | - Beatriz Díez
- Department of Molecular Genetics and Microbiology, Pontifical Catholic University of Chile, Avenida Libertador Bernardo O'higgins 340, Casilla 144-D, C.P. 651, 3677, Santiago, Chile. .,Center for Climate and Resilience Research (CR)2, Santiago, Chile.
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20
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Patel HM, Roszak AW, Madamwar D, Cogdell RJ. Crystal structure of phycocyanin from heterocyst-forming filamentous cyanobacterium Nostoc sp. WR13. Int J Biol Macromol 2019; 135:62-68. [DOI: 10.1016/j.ijbiomac.2019.05.099] [Citation(s) in RCA: 3] [Impact Index Per Article: 0.6] [Reference Citation Analysis] [Track Full Text] [Journal Information] [Subscribe] [Scholar Register] [Received: 01/30/2019] [Revised: 05/16/2019] [Accepted: 05/16/2019] [Indexed: 10/26/2022]
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21
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Adir N, Bar-Zvi S, Harris D. The amazing phycobilisome. BIOCHIMICA ET BIOPHYSICA ACTA-BIOENERGETICS 2019; 1861:148047. [PMID: 31306623 DOI: 10.1016/j.bbabio.2019.07.002] [Citation(s) in RCA: 74] [Impact Index Per Article: 14.8] [Reference Citation Analysis] [Abstract] [Key Words] [Track Full Text] [Subscribe] [Scholar Register] [Received: 04/20/2019] [Revised: 06/19/2019] [Accepted: 07/09/2019] [Indexed: 10/26/2022]
Abstract
Cyanobacteria and red-algae share a common light-harvesting complex which is different than all other complexes that serve as photosynthetic antennas - the Phycobilisome (PBS). The PBS is found attached to the stromal side of thylakoid membranes, filling up most of the gap between individual thylakoids. The PBS self assembles from similar homologous protein units that are soluble and contain conserved cysteine residues that covalently bind the light absorbing chromophores, linear tetra-pyrroles. Using similar construction principles, the PBS can be as large as 16.8 MDa (68×45×39nm), as small as 1.2 MDa (24 × 11.5 × 11.5 nm), and in some unique cases smaller still. The PBS can absorb light between 450 nm to 650 nm and in some cases beyond 700 nm, depending on the species, its composition and assembly. In this review, we will present new observations and structures that expand our understanding of the distinctive properties that make the PBS an amazing light harvesting system. At the end we will suggest why the PBS, for all of its excellent properties, was discarded by photosynthetic organisms that arose later in evolution such as green algae and higher plants.
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Affiliation(s)
- Noam Adir
- Schulich Faculty of Chemistry, Technion-Israel Institute of Technology, Haifa 32000, Israel.
| | - Shira Bar-Zvi
- Schulich Faculty of Chemistry, Technion-Israel Institute of Technology, Haifa 32000, Israel
| | - Dvir Harris
- Schulich Faculty of Chemistry, Technion-Israel Institute of Technology, Haifa 32000, Israel
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22
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Liu H, Weisz DA, Zhang MM, Cheng M, Zhang B, Zhang H, Gerstenecker GS, Pakrasi HB, Gross ML, Blankenship RE. Phycobilisomes Harbor FNR L in Cyanobacteria. mBio 2019; 10:e00669-19. [PMID: 31015331 PMCID: PMC6479007 DOI: 10.1128/mbio.00669-19] [Citation(s) in RCA: 20] [Impact Index Per Article: 4.0] [Reference Citation Analysis] [Abstract] [Key Words] [MESH Headings] [Grants] [Track Full Text] [Download PDF] [Figures] [Journal Information] [Subscribe] [Scholar Register] [Received: 03/14/2019] [Accepted: 03/20/2019] [Indexed: 02/06/2023] Open
Abstract
Cyanobacterial phycobilisomes (PBSs) are photosynthetic antenna complexes that harvest light energy and supply it to two reaction centers (RCs) where photochemistry starts. PBSs can be classified into two types, depending on the presence of allophycocyanin (APC): CpcG-PBS and CpcL-PBS. Because the accurate protein composition of CpcL-PBS remains unclear, we describe here its isolation and characterization from the cyanobacterium Synechocystis sp. strain 6803. We found that ferredoxin-NADP+ oxidoreductase (or FNRL), an enzyme involved in both cyclic electron transport and the terminal step of the electron transport chain in oxygenic photosynthesis, is tightly associated with CpcL-PBS as well as with CpcG-PBS. Room temperature and low-temperature fluorescence analyses show a red-shifted emission at 669 nm in CpcL-PBS as a terminal energy emitter without APC. SDS-PAGE and quantitative mass spectrometry reveal an increased content of FNRL and CpcC2, a rod linker protein, in CpcL-PBS compared to that of CpcG-PBS rods, indicative of an elongated CpcL-PBS rod length and its potential functional differences from CpcG-PBS. Furthermore, we combined isotope-encoded cross-linking mass spectrometry with computational protein structure predictions and structural modeling to produce an FNRL-PBS binding model that is supported by two cross-links between K69 of FNRL and the N terminus of CpcB, one component in PBS, in both CpcG-PBS and CpcL-PBS (cross-link 1), and between the N termini of FNRL and CpcB (cross-link 2). Our data provide a novel functional assembly form of phycobiliproteins and a molecular-level description of the close association of FNRL with phycocyanin in both CpcG-PBS and CpcL-PBS.IMPORTANCE Cyanobacterial light-harvesting complex PBSs are essential for photochemistry in light reactions and for balancing energy flow to carbon fixation in the form of ATP and NADPH. We isolated a new type of PBS without an allophycocyanin core (i.e., CpcL-PBS). CpcL-PBS contains both a spectral red-shifted chromophore, enabling efficient energy transfer to chlorophyll molecules in the reaction centers, and an increased FNRL content with various rod lengths. Identification of a close association of FNRL with both CpcG-PBS and CpcL-PBS brings new insight to its regulatory role for fine-tuning light energy transfer and carbon fixation through both noncyclic and cyclic electron transport.
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Affiliation(s)
- Haijun Liu
- Department of Biology, Washington University in St. Louis, St. Louis, Missouri, USA
- Photosynthetic Antenna Research Center (PARC), Washington University in St. Louis, St. Louis, Missouri, USA
- Department of Chemistry, Washington University in St. Louis, St. Louis, Missouri, USA
| | - Daniel A Weisz
- Department of Biology, Washington University in St. Louis, St. Louis, Missouri, USA
- Photosynthetic Antenna Research Center (PARC), Washington University in St. Louis, St. Louis, Missouri, USA
| | - Mengru M Zhang
- Department of Chemistry, Washington University in St. Louis, St. Louis, Missouri, USA
| | - Ming Cheng
- Photosynthetic Antenna Research Center (PARC), Washington University in St. Louis, St. Louis, Missouri, USA
- Department of Chemistry, Washington University in St. Louis, St. Louis, Missouri, USA
| | - Bojie Zhang
- Department of Chemistry, Washington University in St. Louis, St. Louis, Missouri, USA
| | - Hao Zhang
- Photosynthetic Antenna Research Center (PARC), Washington University in St. Louis, St. Louis, Missouri, USA
- Department of Chemistry, Washington University in St. Louis, St. Louis, Missouri, USA
| | - Gary S Gerstenecker
- Photosynthetic Antenna Research Center (PARC), Washington University in St. Louis, St. Louis, Missouri, USA
- Department of Chemistry, Washington University in St. Louis, St. Louis, Missouri, USA
| | - Himadri B Pakrasi
- Department of Biology, Washington University in St. Louis, St. Louis, Missouri, USA
- Photosynthetic Antenna Research Center (PARC), Washington University in St. Louis, St. Louis, Missouri, USA
| | - Michael L Gross
- Photosynthetic Antenna Research Center (PARC), Washington University in St. Louis, St. Louis, Missouri, USA
- Department of Chemistry, Washington University in St. Louis, St. Louis, Missouri, USA
| | - Robert E Blankenship
- Department of Biology, Washington University in St. Louis, St. Louis, Missouri, USA
- Photosynthetic Antenna Research Center (PARC), Washington University in St. Louis, St. Louis, Missouri, USA
- Department of Chemistry, Washington University in St. Louis, St. Louis, Missouri, USA
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23
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The role of far-red spectral states in the energy regulation of phycobilisomes. BIOCHIMICA ET BIOPHYSICA ACTA-BIOENERGETICS 2019; 1860:341-349. [DOI: 10.1016/j.bbabio.2019.01.007] [Citation(s) in RCA: 5] [Impact Index Per Article: 1.0] [Reference Citation Analysis] [Track Full Text] [Subscribe] [Scholar Register] [Received: 09/07/2018] [Revised: 12/18/2018] [Accepted: 01/26/2019] [Indexed: 11/19/2022]
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Zlenko DV, Elanskaya IV, Lukashev EP, Bolychevtseva YV, Suzina NE, Pojidaeva ES, Kononova IA, Loktyushkin AV, Stadnichuk IN. Role of the PB-loop in ApcE and phycobilisome core function in cyanobacterium Synechocystis sp. PCC 6803. BIOCHIMICA ET BIOPHYSICA ACTA-BIOENERGETICS 2019; 1860:155-166. [DOI: 10.1016/j.bbabio.2018.10.004] [Citation(s) in RCA: 18] [Impact Index Per Article: 3.6] [Reference Citation Analysis] [Track Full Text] [Subscribe] [Scholar Register] [Received: 06/25/2018] [Revised: 10/04/2018] [Accepted: 10/29/2018] [Indexed: 11/30/2022]
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Temperature modulates Fischerella thermalis ecotypes in Porcelana Hot Spring. Syst Appl Microbiol 2018; 41:531-543. [PMID: 30041921 DOI: 10.1016/j.syapm.2018.05.006] [Citation(s) in RCA: 10] [Impact Index Per Article: 1.7] [Reference Citation Analysis] [Abstract] [Key Words] [Track Full Text] [Journal Information] [Subscribe] [Scholar Register] [Received: 12/14/2017] [Revised: 05/18/2018] [Accepted: 05/23/2018] [Indexed: 11/21/2022]
Abstract
In the Porcelana Hot Spring (Northern Patagonia), true-branching cyanobacteria are the dominant primary producers in microbial mats, and they are mainly responsible for carbon and nitrogen fixation. However, little is known about their metabolic and genomic adaptations at high temperatures. Therefore, in this study, a total of 81 Fischerella thermalis strains (also known as Mastigocladus laminosus) were isolated from mat samples in a thermal gradient between 61-46°C. The complementary use of proteomic comparisons from these strains, and comparative genomics of F. thermalis pangenomes, suggested that at least two different ecotypes were present within these populations. MALDI-TOF MS analysis separated the strains into three clusters; two with strains obtained from mats within the upper temperature range (61 and 54°C), and a third obtained from mats within the lower temperature range (51 and 46°C). Both groups possessed different but synonymous nifH alleles. The main proteomic differences were associated with the abundance of photosynthesis-related proteins. Three F. thermalis metagenome assembled genomes (MAGs) were described from 66, 58 and 48°C metagenomes. These pangenomes indicated a divergence of orthologous genes and a high abundance of exclusive genes at 66°C. These results improved the current understanding of thermal adaptation of F. thermalis and the evolution of these thermophilic cyanobacterial species.
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Elanskaya IV, Zlenko DV, Lukashev EP, Suzina NE, Kononova IA, Stadnichuk IN. Phycobilisomes from the mutant cyanobacterium Synechocystis sp. PCC 6803 missing chromophore domain of ApcE. BIOCHIMICA ET BIOPHYSICA ACTA-BIOENERGETICS 2018; 1859:280-291. [DOI: 10.1016/j.bbabio.2018.01.003] [Citation(s) in RCA: 14] [Impact Index Per Article: 2.3] [Reference Citation Analysis] [Track Full Text] [Subscribe] [Scholar Register] [Received: 08/23/2017] [Revised: 12/22/2017] [Accepted: 01/16/2018] [Indexed: 10/18/2022]
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Gwizdala M, Krüger TPJ, Wahadoszamen M, Gruber JM, van Grondelle R. Phycocyanin: One Complex, Two States, Two Functions. J Phys Chem Lett 2018; 9:1365-1371. [PMID: 29504765 DOI: 10.1021/acs.jpclett.8b00621] [Citation(s) in RCA: 11] [Impact Index Per Article: 1.8] [Reference Citation Analysis] [Abstract] [Track Full Text] [Journal Information] [Subscribe] [Scholar Register] [Indexed: 05/15/2023]
Abstract
Solar energy captured by pigments embedded in light-harvesting complexes can be transferred to neighboring pigments, dissipated, or emitted as fluorescence. Only when it reaches a reaction center is the excitation energy stabilized in the form of a charge separation and converted into chemical energy. Well-directed and regulated energy transfer within the network of pigments is therefore of crucial importance for the success of the photosynthetic processes. Using single-molecule spectroscopy, we show that phycocyanin can dynamically switch between two spectrally distinct states originating from two different conformations. Unexpectedly, one of the two states has a red-shifted emission spectrum. This state is not involved in energy dissipation; instead, we propose that it is involved in direct energy transfer to photosystem I. Finally, our findings suggest that the function of linker proteins in phycobilisomes is to stabilize one state or the other, thus controlling the light-harvesting functions of phycocyanin.
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Affiliation(s)
- Michal Gwizdala
- Department of Physics , University of Pretoria , Pretoria 0023 , South Africa
- Department of Physics and Astronomy , Vrije Universiteit Amsterdam , Amsterdam 1081 HV , The Netherlands
| | - Tjaart P J Krüger
- Department of Physics , University of Pretoria , Pretoria 0023 , South Africa
| | - Md Wahadoszamen
- Department of Physics and Astronomy , Vrije Universiteit Amsterdam , Amsterdam 1081 HV , The Netherlands
- Department of Physics , University of Dhaka , Dhaka 1000 , Bangladesh
| | - J Michael Gruber
- Department of Physics and Astronomy , Vrije Universiteit Amsterdam , Amsterdam 1081 HV , The Netherlands
| | - Rienk van Grondelle
- Department of Physics and Astronomy , Vrije Universiteit Amsterdam , Amsterdam 1081 HV , The Netherlands
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van Stokkum IHM, Gwizdala M, Tian L, Snellenburg JJ, van Grondelle R, van Amerongen H, Berera R. A functional compartmental model of the Synechocystis PCC 6803 phycobilisome. PHOTOSYNTHESIS RESEARCH 2018; 135:87-102. [PMID: 28721458 PMCID: PMC5784004 DOI: 10.1007/s11120-017-0424-5] [Citation(s) in RCA: 23] [Impact Index Per Article: 3.8] [Reference Citation Analysis] [Abstract] [Key Words] [MESH Headings] [Grants] [Track Full Text] [Subscribe] [Scholar Register] [Received: 04/03/2017] [Accepted: 07/11/2017] [Indexed: 05/28/2023]
Abstract
In the light-harvesting antenna of the Synechocystis PCC 6803 phycobilisome (PB), the core consists of three cylinders, each composed of four disks, whereas each of the six rods consists of up to three hexamers (Arteni et al., Biochim Biophys Acta 1787(4):272-279, 2009). The rods and core contain phycocyanin and allophycocyanin pigments, respectively. Together these pigments absorb light between 400 and 650 nm. Time-resolved difference absorption spectra from wild-type PB and rod mutants have been measured in different quenching and annihilation conditions. Based upon a global analysis of these data and of published time-resolved emission spectra, a functional compartmental model of the phycobilisome is proposed. The model describes all experiments with a common set of parameters. Three annihilation time constants are estimated, 3, 25, and 147 ps, which represent, respectively, intradisk, interdisk/intracylinder, and intercylinder annihilation. The species-associated difference absorption and emission spectra of two phycocyanin and two allophycocyanin pigments are consistently estimated, as well as all the excitation energy transfer rates. Thus, the wild-type PB containing 396 pigments can be described by a functional compartmental model of 22 compartments. When the interhexamer equilibration within a rod is not taken into account, this can be further simplified to ten compartments, which is the minimal model. In this model, the slowest excitation energy transfer rates are between the core cylinders (time constants 115-145 ps), and between the rods and the core (time constants 68-115 ps).
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Affiliation(s)
- Ivo H M van Stokkum
- Faculty of Sciences, Institute for Lasers, Life and Biophotonics, VU University Amsterdam, De Boelelaan 1081, 1081 HV, Amsterdam, The Netherlands.
| | - Michal Gwizdala
- Faculty of Sciences, Institute for Lasers, Life and Biophotonics, VU University Amsterdam, De Boelelaan 1081, 1081 HV, Amsterdam, The Netherlands
- Department of Physics, University of Pretoria, Pretoria, South Africa
| | - Lijin Tian
- Faculty of Sciences, Institute for Lasers, Life and Biophotonics, VU University Amsterdam, De Boelelaan 1081, 1081 HV, Amsterdam, The Netherlands
- Laboratory of Biophysics, Wageningen University, Wageningen, The Netherlands
| | - Joris J Snellenburg
- Faculty of Sciences, Institute for Lasers, Life and Biophotonics, VU University Amsterdam, De Boelelaan 1081, 1081 HV, Amsterdam, The Netherlands
| | - Rienk van Grondelle
- Faculty of Sciences, Institute for Lasers, Life and Biophotonics, VU University Amsterdam, De Boelelaan 1081, 1081 HV, Amsterdam, The Netherlands
| | | | - Rudi Berera
- Faculty of Sciences, Institute for Lasers, Life and Biophotonics, VU University Amsterdam, De Boelelaan 1081, 1081 HV, Amsterdam, The Netherlands
- Department of Food Sciences, Faculty of Agriculture, Kagawa University, Miki-cho, Kagawa, 761-0795, Japan
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Harris D, Bar-Zvi S, Lahav A, Goldshmid I, Adir N. The Structural Basis for the Extraordinary Energy-Transfer Capabilities of the Phycobilisome. Subcell Biochem 2018; 87:57-82. [PMID: 29464557 DOI: 10.1007/978-981-10-7757-9_3] [Citation(s) in RCA: 6] [Impact Index Per Article: 1.0] [Reference Citation Analysis] [Abstract] [Key Words] [MESH Headings] [Track Full Text] [Journal Information] [Subscribe] [Scholar Register] [Indexed: 06/08/2023]
Abstract
Light absorption is the initial step in the photosynthetic process. In all species, most of the light is absorbed by dedicated pigment-protein complexes called light harvesting complexes or antenna complexes. In the case of cyanobacteria and red-algae, photosynthetic organisms found in a wide variety of ecological niches, the major antenna is called the Phycobilisome (PBS). The PBS has many unique characteristics that sets it apart from the antenna complexes of other organisms (bacteria, algae and plants). These differences include the type of light absorbing chromophores, the protein environment of the chromophores, the method of assembly and association and the intercellular location with respect to the photosynthetic reaction centers (RCs). Since the final goal of all antenna complexes is the same - controlled absorption and transfer of the energy of the sun to the RCs, the unique structural and chemical differences of the PBS also require unique energy transfer mechanisms and pathways. In this review we will describe in detail the structural facets that lead to a mature PBS, followed by an attempt to understand the energy transfer properties of the PBS as they have been measured experimentally.
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Affiliation(s)
- Dvir Harris
- The Schulich Faculty of Chemistry, Technion - Israel Institute of Technology, Haifa, Israel
| | - Shira Bar-Zvi
- The Schulich Faculty of Chemistry, Technion - Israel Institute of Technology, Haifa, Israel
| | - Avital Lahav
- The Schulich Faculty of Chemistry, Technion - Israel Institute of Technology, Haifa, Israel
| | - Itay Goldshmid
- The Schulich Faculty of Chemistry, Technion - Israel Institute of Technology, Haifa, Israel
| | - Noam Adir
- The Schulich Faculty of Chemistry, Technion - Israel Institute of Technology, Haifa, Israel.
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Shi Y, Cao X, Hu D, Gao H. Highly Branched Polymers with Layered Structures that Mimic Light‐Harvesting Processes. Angew Chem Int Ed Engl 2017; 57:516-520. [DOI: 10.1002/anie.201709492] [Citation(s) in RCA: 35] [Impact Index Per Article: 5.0] [Reference Citation Analysis] [Track Full Text] [Journal Information] [Subscribe] [Scholar Register] [Received: 09/13/2017] [Revised: 10/17/2017] [Indexed: 01/10/2023]
Affiliation(s)
- Yi Shi
- Department of Chemistry and Biochemistry University of Notre Dame 305C McCourtney Hall Notre Dame IN 46556 USA
| | - Xiaosong Cao
- Department of Chemistry and Biochemistry University of Notre Dame 305C McCourtney Hall Notre Dame IN 46556 USA
| | - Daqiao Hu
- Department of Chemistry and Biochemistry University of Notre Dame 305C McCourtney Hall Notre Dame IN 46556 USA
| | - Haifeng Gao
- Department of Chemistry and Biochemistry University of Notre Dame 305C McCourtney Hall Notre Dame IN 46556 USA
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31
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Shi Y, Cao X, Hu D, Gao H. Highly Branched Polymers with Layered Structures that Mimic Light‐Harvesting Processes. Angew Chem Int Ed Engl 2017. [DOI: 10.1002/ange.201709492] [Citation(s) in RCA: 15] [Impact Index Per Article: 2.1] [Reference Citation Analysis] [Track Full Text] [Journal Information] [Subscribe] [Scholar Register] [Indexed: 01/31/2023]
Affiliation(s)
- Yi Shi
- Department of Chemistry and Biochemistry University of Notre Dame 305C McCourtney Hall Notre Dame IN 46556 USA
| | - Xiaosong Cao
- Department of Chemistry and Biochemistry University of Notre Dame 305C McCourtney Hall Notre Dame IN 46556 USA
| | - Daqiao Hu
- Department of Chemistry and Biochemistry University of Notre Dame 305C McCourtney Hall Notre Dame IN 46556 USA
| | - Haifeng Gao
- Department of Chemistry and Biochemistry University of Notre Dame 305C McCourtney Hall Notre Dame IN 46556 USA
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32
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Structure of phycobilisome from the red alga Griffithsia pacifica. Nature 2017; 551:57-63. [DOI: 10.1038/nature24278] [Citation(s) in RCA: 143] [Impact Index Per Article: 20.4] [Reference Citation Analysis] [Track Full Text] [Journal Information] [Subscribe] [Scholar Register] [Received: 05/31/2017] [Accepted: 09/11/2017] [Indexed: 12/12/2022]
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Grzyb J, Gieczewska K, Łabuz J, Sztatelman O. Detailed characterization of Synechocystis PCC 6803 ferredoxin:NADP + oxidoreductase interaction with model membranes. BIOCHIMICA ET BIOPHYSICA ACTA-BIOMEMBRANES 2017; 1860:281-291. [PMID: 29038021 DOI: 10.1016/j.bbamem.2017.10.012] [Citation(s) in RCA: 3] [Impact Index Per Article: 0.4] [Reference Citation Analysis] [Abstract] [Key Words] [Subscribe] [Scholar Register] [Received: 03/10/2017] [Revised: 10/08/2017] [Accepted: 10/10/2017] [Indexed: 11/15/2022]
Abstract
Direct interaction of ferredoxin:NADP+ oxidoreductase (FNR) with thylakoid membranes was postulated as a part of the cyclic electron flow mechanism. In vitro binding of FNR to digalactosyldiacylglycerol and monogalactosyldiacylglycerol membranes was also shown. In this paper we deal with the latter interaction in more detail describing the effect for two FNR forms of Synechocystis PCC 6803. The so-called short FNR (sFNR) is homologous to FNR from higher plant chloroplasts. The long FNR (lFNR) form contains an additional domain, responsible for the interaction with phycobilisomes. We compare the binding of both sFNR and lFNR forms to native and non-native lipids. We also include factors which could modulate this process: pH change, temperature change, presence of ferredoxin, NADP+ and NADPH and heavy metals. For the lFNR, we also include phycobilisomes as a modulating factor. The membrane binding is generally faster at lower pH. The sFNR was binding faster than lFNR. Ferredoxin isoforms with higher midpoint potential, as well as NADPH and NADP+, weakened the binding. Charged lipids and high phosphate promoted the binding. Heavy metal ions decreased the rate of membrane binding only when FNR was preincubated with them before injection beneath the monolayer. FNR binding was limited to surface lipid groups and did not influence hydrophobic chain packing. Taken together, FNR interaction with lipids appears to be non-specific, with an electrostatic component. This suggests that the direct FNR interaction with lipids is most likely not a factor in directing electron transfer, but should be taken into account during in vitro studies.
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Affiliation(s)
- Joanna Grzyb
- Department of Biophysics, Faculty of Biotechnology, University of Wroclaw, F. Joliot Curie 14a, PL-50383 Wroclaw, Poland; Laboratory of Biological Physics, Institute of Physics Polish Academy of Sciences, Aleja Lotników 32/46, PL-02668 Warsaw, Poland.
| | - Katarzyna Gieczewska
- Department of Plant Anatomy and Cytology, Faculty of Biology, University of Warsaw, Miecznikowa 1, PL-02096 Warsaw, Poland; Department of Biophysics, Institute of Physics, Maria Sklodowska-Curie University, M. Sklodowska-Curie sq. 5, PL-20031 Lublin, Poland
| | - Justyna Łabuz
- Laboratory of Photobiology, Malopolska Centre of Biotechnology, Jagiellonian University, Gronostajowa 7A, PL-30387 Krakow, Poland
| | - Olga Sztatelman
- Department of Plant Biochemistry, Institute of Biochemistry and Biophysics, Polish Academy of Sciences, Pawińskiego 5a, PL-02106 Warszawa, Poland
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Pieper J, Rätsep M, Golub M, Schmitt FJ, Artene P, Eckert HJ. Excitation energy transfer in phycobiliproteins of the cyanobacterium Acaryochloris marina investigated by spectral hole burning. PHOTOSYNTHESIS RESEARCH 2017; 133:225-234. [PMID: 28560566 DOI: 10.1007/s11120-017-0396-5] [Citation(s) in RCA: 5] [Impact Index Per Article: 0.7] [Reference Citation Analysis] [Abstract] [Key Words] [MESH Headings] [Track Full Text] [Subscribe] [Scholar Register] [Received: 10/17/2016] [Accepted: 05/06/2017] [Indexed: 06/07/2023]
Abstract
The cyanobacterium Acaryochloris marina developed two types of antenna complexes, which contain chlorophyll-d (Chl d) and phycocyanobilin (PCB) as light-harvesting pigment molecules, respectively. The latter membrane-extrinsic complexes are denoted as phycobiliproteins (PBPs). Spectral hole burning was employed to study excitation energy transfer and electron-phonon coupling in PBPs. The data reveal a rich spectral substructure with a total of four low-energy electronic states whose absorption bands peak at 633, 644, 654, and at about 673 nm. The electronic states at ~633 and 644 nm can be tentatively attributed to phycocyanin (PC) and allophycocyanin (APC), respectively. The remaining low-energy electronic states including the terminal emitter at 673 nm may be associated with different isoforms of PC, APC, or the linker protein. Furthermore, the hole burning data reveal a large number of excited state vibrational frequencies, which are characteristic for the chromophore PCB. In summary, the results are in good agreement with the low-energy level structure of PBPs and electron-phonon coupling parameters reported by Gryliuk et al. (BBA 1837:1490-1499, 2014) based on difference fluorescence line-narrowing experiments.
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Affiliation(s)
- Jörg Pieper
- Institute of Physics, University of Tartu, W. Ostwaldi 1, 50411, Tartu, Estonia.
| | - Margus Rätsep
- Institute of Physics, University of Tartu, W. Ostwaldi 1, 50411, Tartu, Estonia
| | - Maksym Golub
- Institute of Physics, University of Tartu, W. Ostwaldi 1, 50411, Tartu, Estonia
| | - Franz-Josef Schmitt
- Max-Volmer-Laboratories for Biophysical Chemistry, Technical University Berlin, Berlin, Germany
| | - Petrica Artene
- Institute of Physics, University of Tartu, W. Ostwaldi 1, 50411, Tartu, Estonia
| | - Hann-Jörg Eckert
- Max-Volmer-Laboratories for Biophysical Chemistry, Technical University Berlin, Berlin, Germany
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35
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Zlenko DV, Galochkina TV, Krasilnikov PM, Stadnichuk IN. Coupled rows of PBS cores and PSII dimers in cyanobacteria: symmetry and structure. PHOTOSYNTHESIS RESEARCH 2017; 133:245-260. [PMID: 28365856 DOI: 10.1007/s11120-017-0362-2] [Citation(s) in RCA: 8] [Impact Index Per Article: 1.1] [Reference Citation Analysis] [Abstract] [Key Words] [MESH Headings] [Track Full Text] [Subscribe] [Scholar Register] [Received: 10/13/2016] [Accepted: 02/23/2017] [Indexed: 05/26/2023]
Abstract
Phycobilisome (PBS) is a giant water-soluble photosynthetic antenna transferring the energy of absorbed light mainly to the photosystem II (PSII) in cyanobacteria. Under the low light conditions, PBSs and PSII dimers form coupled rows where each PBS is attached to the cytoplasmic surface of PSII dimer, and PBSs come into contact with their face surfaces (state 1). The model structure of the PBS core that we have developed earlier by comparison and combination of different fine allophycocyanin crystals, as reported in Zlenko et al. (Photosynth Res 130(1):347-356, 2016b), provides a natural way of the PBS core face-to-face stacking. According to our model, the structure of the protein-protein contact between the neighboring PBS cores in the rows is the same as the contact between the APC hexamers inside the PBS core. As a result, the rates of energy transfer between the cores can occur, and the row of PBS cores acts as an integral PBS "supercore" providing energy transfer between the individual PBS cores. The PBS cores row pitch in our elaborated model (12.4 nm) is very close to the PSII dimers row pitch obtained by the electron microscopy (12.2 nm) that allowed to unite a model of the PBS cores row with a model of the PSII dimers row. Analyzing the resulting model, we have determined the most probable locations of ApcD and ApcE terminal emitter subunits inside the bottom PBS core cylinders and also revealed the chlorophyll molecules of PSII gathering energy from the PBS.
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Affiliation(s)
- Dmitry V Zlenko
- Biological Faculty of M.V. Lomonosov Moscow State University, Lenin Hills, 1/12, Moscow, Russia, 119991.
- K.A. Timiryazev Institute of Plant Physiology RAS, Botanicheskaya St, 35, Moscow, Russia, 127276.
| | - Tatiana V Galochkina
- Biological Faculty of M.V. Lomonosov Moscow State University, Lenin Hills, 1/12, Moscow, Russia, 119991
- INRIA Team Dracula, INRIA Antenne Lyon la Doua, 69603, Villeurbanne, France
- Institut Camille Jordan, UMR 5208 CNRS, University Lyon 1, 69622, Villeurbanne, France
| | - Pavel M Krasilnikov
- Biological Faculty of M.V. Lomonosov Moscow State University, Lenin Hills, 1/12, Moscow, Russia, 119991
- K.A. Timiryazev Institute of Plant Physiology RAS, Botanicheskaya St, 35, Moscow, Russia, 127276
| | - Igor N Stadnichuk
- K.A. Timiryazev Institute of Plant Physiology RAS, Botanicheskaya St, 35, Moscow, Russia, 127276
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Xu QZ, Tang QY, Han JX, Ding WL, Zhao BQ, Zhou M, Gärtner W, Scheer H, Zhao KH. Chromophorylation (in Escherichia coli) of allophycocyanin B subunits from far-red light acclimated Chroococcidiopsis thermalis sp. PCC7203. Photochem Photobiol Sci 2017; 16:1153-1161. [PMID: 28594045 DOI: 10.1039/c7pp00066a] [Citation(s) in RCA: 6] [Impact Index Per Article: 0.9] [Reference Citation Analysis] [Abstract] [Track Full Text] [Journal Information] [Subscribe] [Scholar Register] [Indexed: 12/19/2022]
Abstract
Cyanobacterial phycobilisomes funnel the harvested light energy to the reaction centers via two terminal emitters, allophycocyanin B and the core-membrane linker. ApcD is the α-subunit of allophycocyanin B responsible for its red-shifted absorbance (λmax 665 nm). Far-red photo-acclimated cyanobacteria contain certain allophycocyanins that show even further red-shifted absorbances (λmax > 700 nm). We studied the chromophorylation of the three far-red induced ApcD subunits ApcD2, ApcD3 and ApcD4 from Chroococcidiopsis thermalis sp. PCC7203 during the expression in E. coli. The complex behavior emphasizes that a variety of factors contribute to the spectral red-shift. Only ApcD2 bound phycocyanobilin covalently at the canonical position C81, while ApcD3 and ApcD4 gave only traces of stable products. The product of ApcD2 was, however, heterogeneous. The major fraction had a broad absorption around 560 nm and double-peaked fluorescence at 615 and 670 nm. A minor fraction was similar to the product of conventional ApcD, with maximal absorbance around 610 nm and fluorescence around 640 nm. The heterogeneity was lost in C65 and C132 variants; in these variants only the conventional product was formed. With ApcD4, a red-shifted product carrying non-covalently bound phycocyanobilin could be detected in the supernatant after cell lysis. While this chromophore was lost during purification, it could be stabilized by co-assembly with a far-red light-induced β-subunit, ApcB3.
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Affiliation(s)
- Qian-Zhao Xu
- State Key Laboratory of Agricultural Microbiology, Huazhong Agricultural University, Wuhan 430070, P.R. China.
| | - Qi-Ying Tang
- State Key Laboratory of Agricultural Microbiology, Huazhong Agricultural University, Wuhan 430070, P.R. China.
| | - Jia-Xin Han
- State Key Laboratory of Agricultural Microbiology, Huazhong Agricultural University, Wuhan 430070, P.R. China.
| | - Wen-Long Ding
- State Key Laboratory of Agricultural Microbiology, Huazhong Agricultural University, Wuhan 430070, P.R. China.
| | - Bao-Qing Zhao
- State Key Laboratory of Agricultural Microbiology, Huazhong Agricultural University, Wuhan 430070, P.R. China.
| | - Ming Zhou
- State Key Laboratory of Agricultural Microbiology, Huazhong Agricultural University, Wuhan 430070, P.R. China.
| | - Wolfgang Gärtner
- Max-Planck-Institute for Chemical Energy Conversion, Stiftstrasse 34-36, D-45470 Mülheim, Germany
| | - Hugo Scheer
- Department Biologie I, Universität München, D-80638 München, Germany
| | - Kai-Hong Zhao
- State Key Laboratory of Agricultural Microbiology, Huazhong Agricultural University, Wuhan 430070, P.R. China.
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Nganou C, Lackner G, Teschome B, Deen MJ, Adir N, Pouhe D, Lupascu DC, Mkandawire M. Energy Transfer Kinetics in Photosynthesis as an Inspiration for Improving Organic Solar Cells. ACS APPLIED MATERIALS & INTERFACES 2017; 9:19030-19039. [PMID: 28497947 DOI: 10.1021/acsami.7b04028] [Citation(s) in RCA: 2] [Impact Index Per Article: 0.3] [Reference Citation Analysis] [Abstract] [Key Words] [MESH Headings] [Track Full Text] [Subscribe] [Scholar Register] [Indexed: 06/07/2023]
Abstract
Clues to designing highly efficient organic solar cells may lie in understanding the architecture of light-harvesting systems and exciton energy transfer (EET) processes in very efficient photosynthetic organisms. Here, we compare the kinetics of excitation energy tunnelling from the intact phycobilisome (PBS) light-harvesting antenna system to the reaction center in photosystem II in intact cells of the cyanobacterium Acaryochloris marina with the charge transfer after conversion of photons into photocurrent in vertically aligned carbon nanotube (va-CNT) organic solar cells with poly(3-hexyl)thiophene (P3HT) as the pigment. We find that the kinetics in electron hole creation following excitation at 600 nm in both PBS and va-CNT solar cells to be 450 and 500 fs, respectively. The EET process has a 3 and 14 ps pathway in the PBS, while in va-CNT solar cell devices, the charge trapping in the CNT takes 11 and 258 ps. We show that the main hindrance to efficiency of va-CNT organic solar cells is the slow migration of the charges after exciton formation.
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Affiliation(s)
- Collins Nganou
- Verschuren Centre for Sustainability in Energy and the Environment, Cape Breton University , 1250 Grand Lake Road, Sydney, Nova Scotia B1P 6L2, Canada
| | - Gerhard Lackner
- Institute for Materials Science, University of Duisburg-Essen and Centre for Nanointegration Duisburg-Essen (CeNIDE) , Essen 45141, Germany
| | - Bezu Teschome
- Institute of Ion Beam Physics and Materials Research, Helmholtz-Zentrum Dresden-Rossendorf , 01328 Dresden, Germany
| | - M Jamal Deen
- Electrical and Computer Engineering, McMaster University , 1280 Main Street, West Hamilton, Ontario L8S 4K1, Canada
| | - Noam Adir
- Schulich Faculty of Chemistry, Technion-Israel Institute of Technology , Haifa, 32000 Israel
| | - David Pouhe
- Reutlingen University of Applied Sciences , Alteburgstrase 150, 72762 Reutlingen, Germany
| | - Doru C Lupascu
- Institute for Materials Science, University of Duisburg-Essen and Centre for Nanointegration Duisburg-Essen (CeNIDE) , Essen 45141, Germany
| | - Martin Mkandawire
- Verschuren Centre for Sustainability in Energy and the Environment, Cape Breton University , 1250 Grand Lake Road, Sydney, Nova Scotia B1P 6L2, Canada
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Dagnino-Leone J, Figueroa M, Mella C, Vorphal MA, Kerff F, Vásquez AJ, Bunster M, Martínez-Oyanedel J. Structural models of the different trimers present in the core of phycobilisomes from Gracilaria chilensis based on crystal structures and sequences. PLoS One 2017; 12:e0177540. [PMID: 28542288 PMCID: PMC5436742 DOI: 10.1371/journal.pone.0177540] [Citation(s) in RCA: 11] [Impact Index Per Article: 1.6] [Reference Citation Analysis] [Abstract] [MESH Headings] [Grants] [Track Full Text] [Download PDF] [Figures] [Journal Information] [Subscribe] [Scholar Register] [Received: 02/02/2017] [Accepted: 04/28/2017] [Indexed: 11/25/2022] Open
Abstract
Phycobilisomes (PBS) are accessory light harvesting protein complexes that directionally transfer energy towards photosystems. Phycobilisomes are organized in a central core and rods radiating from it. Components of phycobilisomes in Gracilaria chilensis (Gch) are Phycobiliproteins (PBPs), Phycoerythrin (PE), and Phycocyanin (PC) in the rods, while Allophycocyanin (APC) is found in the core, and linker proteins (L). The function of such complexes depends on the structure of each component and their interaction. The core of PBS from cyanobacteria is mainly composed by cylinders of trimers of α and β subunits forming heterodimers of Allophycocyanin, and other components of the core including subunits αII and β18. As for the linkers, Linker core (LC) and Linker core membrane (LCM) are essential for the final emission towards photoreaction centers. Since we have previously focused our studies on the rods of the PBS, in the present article we investigated the components of the core in the phycobilisome from the eukaryotic algae, Gracilaria chilensis and their organization into trimers. Transmission electron microscopy provided the information for a three cylinders core, while the three dimensional structure of Allophycocyanin purified from Gch was determined by X-ray diffraction method and the biological unit was determined as a trimer by size exclusion chromatography. The protein sequences of all the components of the core were obtained by sequencing the corresponding genes and their expression confirmed by transcriptomic analysis. These subunits have seldom been reported in red algae, but not in Gracilaria chilensis. The subunits not present in the crystallographic structure were modeled to build the different composition of trimers. This article proposes structural models for the different types of trimers present in the core of phycobilisomes of Gch as a first step towards the final model for energy transfer in this system.
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Affiliation(s)
- Jorge Dagnino-Leone
- Departamento de Bioquímica y Biología Molecular, Facultad de Ciencias Biológicas, Universidad de Concepción, Concepción, Chile
| | - Maximiliano Figueroa
- Departamento de Bioquímica y Biología Molecular, Facultad de Ciencias Biológicas, Universidad de Concepción, Concepción, Chile
| | - Claudia Mella
- Departamento de Bioquímica y Biología Molecular, Facultad de Ciencias Biológicas, Universidad de Concepción, Concepción, Chile
| | - María Alejandra Vorphal
- Departamento de Bioquímica y Biología Molecular, Facultad de Ciencias Biológicas, Universidad de Concepción, Concepción, Chile
| | - Frédéric Kerff
- Centre d'Ingéniérie des Protéines, Université de Liège, Liège, Belgium
| | - Aleikar José Vásquez
- Departamento de Bioquímica y Biología Molecular, Facultad de Ciencias Biológicas, Universidad de Concepción, Concepción, Chile
| | - Marta Bunster
- Departamento de Bioquímica y Biología Molecular, Facultad de Ciencias Biológicas, Universidad de Concepción, Concepción, Chile
| | - José Martínez-Oyanedel
- Departamento de Bioquímica y Biología Molecular, Facultad de Ciencias Biológicas, Universidad de Concepción, Concepción, Chile
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39
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De novo transcriptome analysis of the red seaweed Gracilaria chilensis and identification of linkers associated with phycobilisomes. Mar Genomics 2017; 31:17-19. [DOI: 10.1016/j.margen.2016.11.001] [Citation(s) in RCA: 6] [Impact Index Per Article: 0.9] [Reference Citation Analysis] [Track Full Text] [Journal Information] [Subscribe] [Scholar Register] [Received: 10/07/2016] [Revised: 10/29/2016] [Accepted: 11/07/2016] [Indexed: 11/22/2022]
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40
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Solution structure and excitation energy transfer in phycobiliproteins of Acaryochloris marina investigated by small angle scattering. BIOCHIMICA ET BIOPHYSICA ACTA-BIOENERGETICS 2017; 1858:318-324. [PMID: 28131736 DOI: 10.1016/j.bbabio.2017.01.010] [Citation(s) in RCA: 14] [Impact Index Per Article: 2.0] [Reference Citation Analysis] [Abstract] [Key Words] [Track Full Text] [Subscribe] [Scholar Register] [Received: 10/18/2016] [Revised: 01/09/2017] [Accepted: 01/24/2017] [Indexed: 11/22/2022]
Abstract
The structure of phycobiliproteins of the cyanobacterium Acaryochloris marina was investigated in buffer solution at physiological temperatures, i.e. under the same conditions applied in spectroscopic experiments, using small angle neutron scattering. The scattering data of intact phycobiliproteins in buffer solution containing phosphate can be well described using a cylindrical shape with a length of about 225Å and a diameter of approximately 100Å. This finding is qualitatively consistent with earlier electron microscopy studies reporting a rod-like shape of the phycobiliproteins with a length of about 250 (M. Chen et al., FEBS Letters 583, 2009, 2535) or 300Å (J. Marquart et al., FEBS Letters 410, 1997, 428). In contrast, phycobiliproteins dissolved in buffer lacking phosphate revealed a splitting of the rods into cylindrical subunits with a height of 28Å only, but also a pronounced sample aggregation. Complementary small angle neutron and X-ray scattering experiments on phycocyanin suggest that the cylindrical subunits may represent either trimeric phycocyanin or trimeric allophycocyanin. Our findings are in agreement with the assumption that a phycobiliprotein rod with a total height of about 225Å can accommodate seven trimeric phycocyanin subunits and one trimeric allophycocyanin subunit, each of which having a height of about 28Å. The structural information obtained by small angle neutron and X-ray scattering can be used to interpret variations in the low-energy region of the 4.5K absorption spectra of phycobiliproteins dissolved in buffer solutions containing and lacking phosphate, respectively.
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Zlenko DV, Krasilnikov PM, Stadnichuk IN. Structural modeling of the phycobilisome core and its association with the photosystems. PHOTOSYNTHESIS RESEARCH 2016; 130:347-356. [PMID: 27121945 DOI: 10.1007/s11120-016-0264-8] [Citation(s) in RCA: 19] [Impact Index Per Article: 2.4] [Reference Citation Analysis] [Abstract] [Key Words] [MESH Headings] [Track Full Text] [Subscribe] [Scholar Register] [Received: 12/31/2015] [Accepted: 04/14/2016] [Indexed: 06/05/2023]
Abstract
The phycobilisome (PBS) is a major light-harvesting complex in cyanobacteria and red algae. To obtain the detailed structure of the hemidiscoidal PBS core composed of allophycocyanin (APC) and minor polypeptide components, we analyzed all nine available 3D structures of APCs from different photosynthetic species and found several variants of crystal packing that potentially correspond to PBS core organization. Combination of face-to-face APC trimer crystal packing with back-to-back APC hexamer packing suggests two variants of the tricylindrical PBS core. To choose one of these structures, a computational model of the PBS core complex and photosystem II (PSII) dimer with minimized distance between the terminal PBS emitters and neighboring antenna chlorophylls was built. In the selected model, the distance between two types of pigments does not exceed 37 Å corresponding to the Förster mechanism of energy transfer. We also propose a model of PBS and photosystem I (PSI) monomer interaction showing a possibility of supercomplex formation and direct energy transfer from the PBS to PSI.
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Affiliation(s)
- D V Zlenko
- Biological faculty, M.V. Lomonosov Moscow State University, Lenin hills, 1/12, Moscow, Russia, 119991.
| | - Pavel M Krasilnikov
- Biological faculty, M.V. Lomonosov Moscow State University, Lenin hills, 1/12, Moscow, Russia, 119991
| | - Igor N Stadnichuk
- K.A. Timiryazev Institute of Plant Physiology RAS, Botanicheskaya st, 35, Moscow, Russia, 127276
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42
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Gwizdala M, Berera R, Kirilovsky D, van Grondelle R, Krüger TP. Controlling Light Harvesting with Light. J Am Chem Soc 2016; 138:11616-22. [DOI: 10.1021/jacs.6b04811] [Citation(s) in RCA: 43] [Impact Index Per Article: 5.4] [Reference Citation Analysis] [Track Full Text] [Journal Information] [Subscribe] [Scholar Register] [Indexed: 02/08/2023]
Affiliation(s)
- Michal Gwizdala
- Department
of Physics and Astronomy, VU Amsterdam, 1081 HV Amsterdam, The Netherlands
| | - Rudi Berera
- Department
of Food Sciences, Faculty of Agriculture, Kagawa University, Miki-cho, Kagawa 761-0795, Japan
| | - Diana Kirilovsky
- Centre National de la Recherche Scientifique (CNRS), I2BC, UMR 9198, 91191 Gif-sur-Yvette, France
- Commissariat
à l’Energie Atomique (CEA), Institut de Biologie et Technologies de Saclay (iBiTec-S), 91191 Gif-sur-Yvette, France
| | - Rienk van Grondelle
- Department
of Physics and Astronomy, VU Amsterdam, 1081 HV Amsterdam, The Netherlands
- Department
of Physics, University of Pretoria, 0028 Hatfield, South Africa
| | - Tjaart P.J. Krüger
- Department
of Physics, University of Pretoria, 0028 Hatfield, South Africa
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43
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Orange carotenoid protein burrows into the phycobilisome to provide photoprotection. Proc Natl Acad Sci U S A 2016; 113:E1655-62. [PMID: 26957606 DOI: 10.1073/pnas.1523680113] [Citation(s) in RCA: 68] [Impact Index Per Article: 8.5] [Reference Citation Analysis] [Abstract] [Key Words] [Track Full Text] [Journal Information] [Subscribe] [Scholar Register] [Indexed: 11/18/2022] Open
Abstract
In cyanobacteria, photoprotection from overexcitation of photochemical centers can be obtained by excitation energy dissipation at the level of the phycobilisome (PBS), the cyanobacterial antenna, induced by the orange carotenoid protein (OCP). A single photoactivated OCP bound to the core of the PBS affords almost total energy dissipation. The precise mechanism of OCP energy dissipation is yet to be fully determined, and one question is how the carotenoid can approach any core phycocyanobilin chromophore at a distance that can promote efficient energy quenching. We have performed intersubunit cross-linking using glutaraldehyde of the OCP and PBS followed by liquid chromatography coupled to tandem mass spectrometry (LC/MS-MS) to identify cross-linked residues. The only residues of the OCP that cross-link with the PBS are situated in the linker region, between the N- and C-terminal domains and a single C-terminal residue. These links have enabled us to construct a model of the site of OCP binding that differs from previous models. We suggest that the N-terminal domain of the OCP burrows tightly into the PBS while leaving the OCP C-terminal domain on the exterior of the complex. Further analysis shows that the position of the small core linker protein ApcC is shifted within the cylinder cavity, serving to stabilize the interaction between the OCP and the PBS. This is confirmed by a ΔApcC mutant. Penetration of the N-terminal domain can bring the OCP carotenoid to within 5-10 Å of core chromophores; however, alteration of the core structure may be the actual source of energy dissipation.
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Nganou C, David L, Adir N, Mkandawire M. Linker proteins enable ultrafast excitation energy transfer in the phycobilisome antenna system of Thermosynechococcus vulcanus. Photochem Photobiol Sci 2016; 15:31-44. [DOI: 10.1039/c5pp00285k] [Citation(s) in RCA: 20] [Impact Index Per Article: 2.5] [Reference Citation Analysis] [Abstract] [Track Full Text] [Journal Information] [Subscribe] [Scholar Register] [Indexed: 01/20/2023]
Abstract
Comparison of kinetics of photoexcitation migration from PC620 to APC Core in extracted and intact pentacyclic phycobilisomes ofT. vulcanus. The extracted PBS does not have linker protein, while intact has them and they facilitate the migration.
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Affiliation(s)
- C. Nganou
- Verschuren Centre for Sustainability in Energy and the Environment
- Cape Breton University
- Sydney
- Canada
- Department of Chemistry
| | - L. David
- Schulich Faculty of Chemistry
- Technion-Israel Institute of Technology
- Haifa
- Israel
| | - N. Adir
- Schulich Faculty of Chemistry
- Technion-Israel Institute of Technology
- Haifa
- Israel
| | - M. Mkandawire
- Verschuren Centre for Sustainability in Energy and the Environment
- Cape Breton University
- Sydney
- Canada
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45
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Dissecting pigment architecture of individual photosynthetic antenna complexes in solution. Proc Natl Acad Sci U S A 2015; 112:13880-5. [PMID: 26438850 DOI: 10.1073/pnas.1514027112] [Citation(s) in RCA: 29] [Impact Index Per Article: 3.2] [Reference Citation Analysis] [Abstract] [Key Words] [Track Full Text] [Journal Information] [Subscribe] [Scholar Register] [Indexed: 11/18/2022] Open
Abstract
Oligomerization plays a critical role in shaping the light-harvesting properties of many photosynthetic pigment-protein complexes, but a detailed understanding of this process at the level of individual pigments is still lacking. To study the effects of oligomerization, we designed a single-molecule approach to probe the photophysical properties of individual pigment sites as a function of protein assembly state. Our method, based on the principles of anti-Brownian electrokinetic trapping of single fluorescent proteins, step-wise photobleaching, and multiparameter spectroscopy, allows pigment-specific spectroscopic information on single multipigment antennae to be recorded in a nonperturbative aqueous environment with unprecedented detail. We focus on the monomer-to-trimer transformation of allophycocyanin (APC), an important antenna protein in cyanobacteria. Our data reveal that the two chemically identical pigments in APC have different roles. One (α) is the functional pigment that red-shifts its spectral properties upon trimer formation, whereas the other (β) is a "protective" pigment that persistently quenches the excited state of α in the prefunctional, monomer state of the protein. These results show how subtleties in pigment organization give rise to functionally important aspects of energy transfer and photoprotection in antenna complexes. The method developed here should find immediate application in understanding the emergent properties of other natural and artificial light-harvesting systems.
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46
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Chang L, Liu X, Li Y, Liu CC, Yang F, Zhao J, Sui SF. Structural organization of an intact phycobilisome and its association with photosystem II. Cell Res 2015; 25:726-37. [PMID: 25998682 DOI: 10.1038/cr.2015.59] [Citation(s) in RCA: 93] [Impact Index Per Article: 10.3] [Reference Citation Analysis] [Abstract] [Track Full Text] [Journal Information] [Subscribe] [Scholar Register] [Received: 05/18/2014] [Revised: 11/24/2014] [Accepted: 01/29/2015] [Indexed: 11/09/2022] Open
Abstract
Phycobilisomes (PBSs) are light-harvesting antennae that transfer energy to photosynthetic reaction centers in cyanobacteria and red algae. PBSs are supermolecular complexes composed of phycobiliproteins (PBPs) that bear chromophores for energy absorption and linker proteins. Although the structures of some individual components have been determined using crystallography, the three-dimensional structure of an entire PBS complex, which is critical for understanding the energy transfer mechanism, remains unknown. Here, we report the structures of an intact PBS and a PBS in complex with photosystem II (PSII) from Anabaena sp. strain PCC 7120 using single-particle electron microscopy in combination with biochemical and molecular analyses. In the PBS structure, all PBP trimers and the conserved linker protein domains were unambiguously located, and the global distribution of all chromophores was determined. We provide evidence that ApcE and ApcF are critical for the formation of a protrusion at the bottom of PBS, which plays an important role in mediating PBS interaction with PSII. Our results provide insights into the molecular architecture of an intact PBS at different assembly levels and provide the basis for understanding how the light energy absorbed by PBS is transferred to PSII.
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Affiliation(s)
- Leifu Chang
- 1] State Key Laboratory of Biomembrane and Membrane Biotechnology, Tsinghua University, Beijing 100084, China [2] Center for Structural Biology, School of Life Sciences, Tsinghua University, Beijing 100084, China [3] Current address: MRC Laboratory of Molecular Biology, Cambridge, CB2 0QH, UK
| | - Xianwei Liu
- State Key Laboratory of Protein and Plant Genetic Engineering, College of Life Sciences, Peking University, Beijing 100871, China
| | - Yanbing Li
- State Key Laboratory of Protein and Plant Genetic Engineering, College of Life Sciences, Peking University, Beijing 100871, China
| | - Cui-Cui Liu
- 1] State Key Laboratory of Biomembrane and Membrane Biotechnology, Tsinghua University, Beijing 100084, China [2] Center for Structural Biology, School of Life Sciences, Tsinghua University, Beijing 100084, China
| | - Fan Yang
- 1] State Key Laboratory of Biomembrane and Membrane Biotechnology, Tsinghua University, Beijing 100084, China [2] Center for Structural Biology, School of Life Sciences, Tsinghua University, Beijing 100084, China
| | - Jindong Zhao
- 1] State Key Laboratory of Protein and Plant Genetic Engineering, College of Life Sciences, Peking University, Beijing 100871, China [2] Key Laboratory of Phycology of CAS, Institute of Hydrobiology, Chinese Academy of Sciences, Wuhan, Hubei 430072, China
| | - Sen-Fang Sui
- 1] State Key Laboratory of Biomembrane and Membrane Biotechnology, Tsinghua University, Beijing 100084, China [2] Center for Structural Biology, School of Life Sciences, Tsinghua University, Beijing 100084, China
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47
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Crystal Structure of Allophycocyanin from Marine Cyanobacterium Phormidium sp. A09DM. PLoS One 2015; 10:e0124580. [PMID: 25923120 PMCID: PMC4414346 DOI: 10.1371/journal.pone.0124580] [Citation(s) in RCA: 23] [Impact Index Per Article: 2.6] [Reference Citation Analysis] [Abstract] [Track Full Text] [Download PDF] [Figures] [Journal Information] [Subscribe] [Scholar Register] [Received: 01/31/2015] [Accepted: 03/03/2015] [Indexed: 12/12/2022] Open
Abstract
Isolated phycobilisome (PBS) sub-assemblies have been widely subjected to X-ray crystallography analysis to obtain greater insights into the structure-function relationship of this light harvesting complex. Allophycocyanin (APC) is the phycobiliprotein always found in the PBS core complex. Phycocyanobilin (PCB) chromophores, covalently bound to conserved Cys residues of α- and β- subunits of APC, are responsible for solar energy absorption from phycocyanin and for transfer to photosynthetic apparatus. In the known APC structures, heterodimers of α- and β- subunits (known as αβ monomers) assemble as trimer or hexamer. We here for the first time report the crystal structure of APC isolated from a marine cyanobacterium (Phormidium sp. A09DM). The crystal structure has been refined against all the observed data to the resolution of 2.51 Å to Rwork (Rfree) of 0.158 (0.229) with good stereochemistry of the atomic model. The Phormidium protein exists as a trimer of αβ monomers in solution and in crystal lattice. The overall tertiary structures of α- and β- subunits, and trimeric quaternary fold of the Phormidium protein resemble the other known APC structures. Also, configuration and conformation of the two covalently bound PCB chromophores in the marine APC are same as those observed in fresh water cyanobacteria and marine red algae. More hydrophobic residues, however, constitute the environment of the chromophore bound to α-subunit of the Phormidium protein, owing mainly to amino acid substitutions in the marine protein.
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48
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Archuleta TL, Spiller BW. A gatekeeper chaperone complex directs translocator secretion during type three secretion. PLoS Pathog 2014; 10:e1004498. [PMID: 25375170 PMCID: PMC4222845 DOI: 10.1371/journal.ppat.1004498] [Citation(s) in RCA: 19] [Impact Index Per Article: 1.9] [Reference Citation Analysis] [Abstract] [MESH Headings] [Grants] [Track Full Text] [Download PDF] [Figures] [Journal Information] [Subscribe] [Scholar Register] [Received: 07/25/2014] [Accepted: 10/02/2014] [Indexed: 11/18/2022] Open
Abstract
Many Gram-negative bacteria use Type Three Secretion Systems (T3SS) to deliver effector proteins into host cells. These protein delivery machines are composed of cytosolic components that recognize substrates and generate the force needed for translocation, the secretion conduit, formed by a needle complex and associated membrane spanning basal body, and translocators that form the pore in the target cell. A defined order of secretion in which needle component proteins are secreted first, followed by translocators, and finally effectors, is necessary for this system to be effective. While the secreted effectors vary significantly between organisms, the ∼20 individual protein components that form the T3SS are conserved in many pathogenic bacteria. One such conserved protein, referred to as either a plug or gatekeeper, is necessary to prevent unregulated effector release and to allow efficient translocator secretion. The mechanism by which translocator secretion is promoted while effector release is inhibited by gatekeepers is unknown. We present the structure of the Chlamydial gatekeeper, CopN, bound to a translocator-specific chaperone. The structure identifies a previously unknown interface between gatekeepers and translocator chaperones and reveals that in the gatekeeper-chaperone complex the canonical translocator-binding groove is free to bind translocators. Structure-based mutagenesis of the homologous complex in Shigella reveals that the gatekeeper-chaperone-translocator complex is essential for translocator secretion and for the ordered secretion of translocators prior to effectors. Type Three Secretion Systems (T3SS) are essential virulence factors found in many pathogenic Gram-negative bacteria. These machines aid infection by delivering bacterial proteins into host cells where these proteins modulate host processes and help establish a niche for the bacteria. Protein delivery occurs in a highly regulated manner in which proteins involved in early steps in infection, or necessary to build the secretion conduit, are typically secreted before other substrates, a phenomenon termed secretion hierarchy. This study presents the structure of a molecular complex that physically links one class of early substrates, components of the secretion pore termed translocators, to a gatekeeper protein, a protein that has been implicated in the secretion hierarchy. Disruption of this interaction in Shigella disrupts the secretion of translocators, while supporting increased secretion of effectors, resulting in phenotypes indistinguishable from a gatekeeper deletion, and leading to the conclusion that a gatekeeper-chaperone-translocator complex is a critical component of the T3SS.
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Affiliation(s)
- Tara L. Archuleta
- Chemical and Physical Biology Program, Vanderbilt University School of Medicine, Nashville, Tennessee, United States of America
| | - Benjamin W. Spiller
- Department of Pathology, Microbiology and Immunology, Vanderbilt University School of Medicine, Nashville, Tennessee, United States of America
- Department of Pharmacology, Vanderbilt University School of Medicine, Nashville, Tennessee, United States of America
- * E-mail:
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49
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Ren Y, Melhem O, Li Y, Chi B, Han X, Zhu H, Feng L, Wan J, Xu X. Clarifying and illustrating the electronic energy transfer pathways in trimeric and hexameric aggregation state of cyanobacteria allophycocyanin within the framework of Förster theory. J Comput Chem 2014; 36:137-45. [DOI: 10.1002/jcc.23770] [Citation(s) in RCA: 7] [Impact Index Per Article: 0.7] [Reference Citation Analysis] [Track Full Text] [Journal Information] [Subscribe] [Scholar Register] [Received: 07/10/2014] [Revised: 09/25/2014] [Accepted: 10/10/2014] [Indexed: 12/22/2022]
Affiliation(s)
- Yanliang Ren
- Key Laboratory of Pesticide & Chemical Biology (CCNU), Ministry of Education, Department of Chemistry; Central China Normal University; Wuhan 430079 People's Republic of China
| | - Osama Melhem
- Key Laboratory of Pesticide & Chemical Biology (CCNU), Ministry of Education, Department of Chemistry; Central China Normal University; Wuhan 430079 People's Republic of China
| | - Yongjian Li
- Key Laboratory of Pesticide & Chemical Biology (CCNU), Ministry of Education, Department of Chemistry; Central China Normal University; Wuhan 430079 People's Republic of China
| | - Bo Chi
- Key Laboratory of Pesticide & Chemical Biology (CCNU), Ministry of Education, Department of Chemistry; Central China Normal University; Wuhan 430079 People's Republic of China
| | - Xinya Han
- Key Laboratory of Pesticide & Chemical Biology (CCNU), Ministry of Education, Department of Chemistry; Central China Normal University; Wuhan 430079 People's Republic of China
| | - Hao Zhu
- Key Laboratory of Pesticide & Chemical Biology (CCNU), Ministry of Education, Department of Chemistry; Central China Normal University; Wuhan 430079 People's Republic of China
| | - Lingling Feng
- Key Laboratory of Pesticide & Chemical Biology (CCNU), Ministry of Education, Department of Chemistry; Central China Normal University; Wuhan 430079 People's Republic of China
| | - Jian Wan
- Key Laboratory of Pesticide & Chemical Biology (CCNU), Ministry of Education, Department of Chemistry; Central China Normal University; Wuhan 430079 People's Republic of China
| | - Xin Xu
- Shanghai Key Laboratory of Molecular Catalysis and Innovative Materials; Ministry of Education (MOE) Laboratory for Computational Physical Science, Department of Chemistry, Fudan University; Shanghai 200433 People's Republic of China
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50
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Tal O, Trabelcy B, Gerchman Y, Adir N. Investigation of phycobilisome subunit interaction interfaces by coupled cross-linking and mass spectrometry. J Biol Chem 2014; 289:33084-97. [PMID: 25296757 DOI: 10.1074/jbc.m114.595942] [Citation(s) in RCA: 16] [Impact Index Per Article: 1.6] [Reference Citation Analysis] [Abstract] [Key Words] [Track Full Text] [Journal Information] [Subscribe] [Scholar Register] [Indexed: 11/06/2022] Open
Abstract
The phycobilisome (PBS) is an extremely large light-harvesting complex, common in cyanobacteria and red algae, composed of rods and core substructures. These substructures are assembled from chromophore-bearing phycocyanin and allophycocyanin subunits, nonpigmented linker proteins and in some cases additional subunits. To date, despite the determination of crystal structures of isolated PBS components, critical questions regarding the interaction and energy flow between rods and core are still unresolved. Additionally, the arrangement of minor PBS components located inside the core cylinders is unknown. Different models of the general architecture of the PBS have been proposed, based on low resolution images from electron microscopy or high resolution crystal structures of isolated components. This work presents a model of the assembly of the rods onto the core arrangement and for the positions of inner core components, based on cross-linking and mass spectrometry analysis of isolated, functional intact Thermosynechococcus vulcanus PBS, as well as functional cross-linked adducts. The experimental results were utilized to predict potential docking interactions of different protein pairs. Combining modeling and cross-linking results, we identify specific interactions within the PBS subcomponents that enable us to suggest possible functional interactions between the chromophores of the rods and the core and improve our understanding of the assembly, structure, and function of PBS.
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Affiliation(s)
- Ofir Tal
- From the Schulich Faculty of Chemistry, Technion-Israel Institute of Technology, Haifa, 32000, Israel and
| | - Beny Trabelcy
- the Department of Biology, Faculty of Natural Sciences, University of Haifa at Oranim, 36006 Tivon, Israel
| | - Yoram Gerchman
- the Department of Biology, Faculty of Natural Sciences, University of Haifa at Oranim, 36006 Tivon, Israel
| | - Noam Adir
- From the Schulich Faculty of Chemistry, Technion-Israel Institute of Technology, Haifa, 32000, Israel and
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