IDEAS home Printed from https://ideas.repec.org/a/nat/natcom/v14y2023i1d10.1038_s41467-023-39689-7.html
   My bibliography  Save this article

Cryo-EM and femtosecond spectroscopic studies provide mechanistic insight into the energy transfer in CpcL-phycobilisomes

Author

Listed:
  • Lvqin Zheng

    (Peking University
    Peking University)

  • Zhengdong Zhang

    (Peking University
    Peking University)

  • Hongrui Wang

    (Peking University
    Peking University)

  • Zhenggao Zheng

    (Peking University
    Peking University)

  • Jiayu Wang

    (Chinese Academy of Sciences)

  • Heyuan Liu

    (Chinese Academy of Sciences)

  • Hailong Chen

    (Chinese Academy of Sciences)

  • Chunxia Dong

    (Peking University
    Peking University)

  • Guopeng Wang

    (Peking University)

  • Yuxiang Weng

    (Chinese Academy of Sciences)

  • Ning Gao

    (Peking University
    Peking University)

  • Jindong Zhao

    (Peking University
    Peking University)

Abstract

Phycobilisomes (PBS) are the major light harvesting complexes of photosynthesis in the cyanobacteria and red algae. CpcL-PBS is a type of small PBS in cyanobacteria that transfers energy directly to photosystem I without the core structure. Here we report the cryo-EM structure of the CpcL-PBS from the cyanobacterium Synechocystis sp. PCC 6803 at 2.6-Å resolution. The structure shows the CpcD domain of ferredoxin: NADP+ oxidoreductase is located at the distal end of CpcL-PBS, responsible for its attachment to PBS. With the evidence of ultrafast transient absorption and fluorescence spectroscopy, the roles of individual bilins in energy transfer are revealed. The bilin 1Iβ822 located near photosystem I has an enhanced planarity and is the red-bilin responsible for the direct energy transfer to photosystem I.

Suggested Citation

  • Lvqin Zheng & Zhengdong Zhang & Hongrui Wang & Zhenggao Zheng & Jiayu Wang & Heyuan Liu & Hailong Chen & Chunxia Dong & Guopeng Wang & Yuxiang Weng & Ning Gao & Jindong Zhao, 2023. "Cryo-EM and femtosecond spectroscopic studies provide mechanistic insight into the energy transfer in CpcL-phycobilisomes," Nature Communications, Nature, vol. 14(1), pages 1-10, December.
    • Handle: RePEc:nat:natcom:v:14:y:2023:i:1:d:10.1038_s41467-023-39689-7
    DOI: 10.1038/s41467-023-39689-7
    as

    Download full text from publisher

    File URL: https://www.nature.com/articles/s41467-023-39689-7
    File Function: Abstract
    Download Restriction: no
    File URL: https://libkey.io/10.1038/s41467-023-39689-7?utm_source=ideas
    LibKey link: if access is restricted and if your library uses this service, LibKey will redirect you to where you can use your library subscription to access this item
    ---><---

    References listed on IDEAS

    as
    1. Thomas G. Laughlin & Andrew N. Bayne & Jean-François Trempe & David F. Savage & Karen M. Davies, 2019. "Structure of the complex I-like molecule NDH of oxygenic photosynthesis," Nature, Nature, vol. 566(7744), pages 411-414, February.
    2. Kathryn Tunyasuvunakool & Jonas Adler & Zachary Wu & Tim Green & Michal Zielinski & Augustin Žídek & Alex Bridgland & Andrew Cowie & Clemens Meyer & Agata Laydon & Sameer Velankar & Gerard J. Kleywegt, 2021. "Highly accurate protein structure prediction for the human proteome," Nature, Nature, vol. 596(7873), pages 590-596, August.
    3. Jianfei Ma & Xin You & Shan Sun & Xiaoxiao Wang & Song Qin & Sen-Fang Sui, 2020. "Structural basis of energy transfer in Porphyridium purpureum phycobilisome," Nature, Nature, vol. 579(7797), pages 146-151, March.
    4. Keisuke Kawakami & Tasuku Hamaguchi & Yuu Hirose & Daisuke Kosumi & Makoto Miyata & Nobuo Kamiya & Koji Yonekura, 2022. "Core and rod structures of a thermophilic cyanobacterial light-harvesting phycobilisome," Nature Communications, Nature, vol. 13(1), pages 1-13, December.
    5. María Agustina Domínguez-Martín & Paul V. Sauer & Henning Kirst & Markus Sutter & David Bína & Basil J. Greber & Eva Nogales & Tomáš Polívka & Cheryl A. Kerfeld, 2022. "Structures of a phycobilisome in light-harvesting and photoprotected states," Nature, Nature, vol. 609(7928), pages 835-845, September.
    6. Lvqin Zheng & Zhenggao Zheng & Xiying Li & Guopeng Wang & Kun Zhang & Peijun Wei & Jindong Zhao & Ning Gao, 2021. "Structural insight into the mechanism of energy transfer in cyanobacterial phycobilisomes," Nature Communications, Nature, vol. 12(1), pages 1-11, December.
    7. Jun Zhang & Jianfei Ma & Desheng Liu & Song Qin & Shan Sun & Jindong Zhao & Sen-Fang Sui, 2017. "Structure of phycobilisome from the red alga Griffithsia pacifica," Nature, Nature, vol. 551(7678), pages 57-63, November.
    8. Chunli Zhang & Jin Shuai & Zhaoxing Ran & Jiaohong Zhao & Zhenfang Wu & Rijing Liao & Jian Wu & Weimin Ma & Ming Lei, 2020. "Structural insights into NDH-1 mediated cyclic electron transfer," Nature Communications, Nature, vol. 11(1), pages 1-13, December.
    9. John Jumper & Richard Evans & Alexander Pritzel & Tim Green & Michael Figurnov & Olaf Ronneberger & Kathryn Tunyasuvunakool & Russ Bates & Augustin Žídek & Anna Potapenko & Alex Bridgland & Clemens Me, 2021. "Highly accurate protein structure prediction with AlphaFold," Nature, Nature, vol. 596(7873), pages 583-589, August.
    10. Xiaowei Pan & Duanfang Cao & Fen Xie & Fang Xu & Xiaodong Su & Hualing Mi & Xinzheng Zhang & Mei Li, 2020. "Structural basis for electron transport mechanism of complex I-like photosynthetic NAD(P)H dehydrogenase," Nature Communications, Nature, vol. 11(1), pages 1-11, December.
    Full references (including those not matched with items on IDEAS)

    Citations

    Citations are extracted by the CitEc Project, subscribe to its RSS feed for this item.
    as


    Cited by:

    1. Yu-Zhong Zhang & Kang Li & Bing-Yue Qin & Jian-Ping Guo & Quan-Bao Zhang & Dian-Li Zhao & Xiu-Lan Chen & Jun Gao & Lu-Ning Liu & Long-Sheng Zhao, 2024. "Structure of cryptophyte photosystem II–light-harvesting antennae supercomplex," Nature Communications, Nature, vol. 15(1), pages 1-12, December.
    2. Han-Wei Jiang & Hsiang-Yi Wu & Chun-Hsiung Wang & Cheng-Han Yang & Jui-Tse Ko & Han-Chen Ho & Ming-Daw Tsai & Donald A. Bryant & Fay-Wei Li & Meng-Chiao Ho & Ming-Yang Ho, 2023. "A structure of the relict phycobilisome from a thylakoid-free cyanobacterium," Nature Communications, Nature, vol. 14(1), pages 1-14, December.

    Most related items

    These are the items that most often cite the same works as this one and are cited by the same works as this one.
    1. Han-Wei Jiang & Hsiang-Yi Wu & Chun-Hsiung Wang & Cheng-Han Yang & Jui-Tse Ko & Han-Chen Ho & Ming-Daw Tsai & Donald A. Bryant & Fay-Wei Li & Meng-Chiao Ho & Ming-Yang Ho, 2023. "A structure of the relict phycobilisome from a thylakoid-free cyanobacterium," Nature Communications, Nature, vol. 14(1), pages 1-14, December.
    2. Keisuke Kawakami & Tasuku Hamaguchi & Yuu Hirose & Daisuke Kosumi & Makoto Miyata & Nobuo Kamiya & Koji Yonekura, 2022. "Core and rod structures of a thermophilic cyanobacterial light-harvesting phycobilisome," Nature Communications, Nature, vol. 13(1), pages 1-13, December.
    3. Zhiyuan Mao & Xingyue Li & Zhenhua Li & Liangliang Shen & Xiaoyi Li & Yanyan Yang & Wenda Wang & Tingyun Kuang & Jian-Ren Shen & Guangye Han, 2024. "Structure and distinct supramolecular organization of a PSII-ACPII dimer from a cryptophyte alga Chroomonas placoidea," Nature Communications, Nature, vol. 15(1), pages 1-14, December.
    4. Xing Zhang & Yanan Xiao & Xin You & Shan Sun & Sen-Fang Sui, 2024. "In situ structural determination of cyanobacterial phycobilisome–PSII supercomplex by STAgSPA strategy," Nature Communications, Nature, vol. 15(1), pages 1-11, December.
    5. Ye Yuan & Lei Chen & Kexu Song & Miaomiao Cheng & Ling Fang & Lingfei Kong & Lanlan Yu & Ruonan Wang & Zhendong Fu & Minmin Sun & Qian Wang & Chengjun Cui & Haojue Wang & Jiuyang He & Xiaonan Wang & Y, 2024. "Stable peptide-assembled nanozyme mimicking dual antifungal actions," Nature Communications, Nature, vol. 15(1), pages 1-17, December.
    6. Ivica Odorčić & Mohamed Belal Hamed & Sam Lismont & Lucía Chávez-Gutiérrez & Rouslan G. Efremov, 2024. "Apo and Aβ46-bound γ-secretase structures provide insights into amyloid-β processing by the APH-1B isoform," Nature Communications, Nature, vol. 15(1), pages 1-14, December.
    7. Stella Vitt & Simone Prinz & Martin Eisinger & Ulrich Ermler & Wolfgang Buckel, 2022. "Purification and structural characterization of the Na+-translocating ferredoxin: NAD+ reductase (Rnf) complex of Clostridium tetanomorphum," Nature Communications, Nature, vol. 13(1), pages 1-11, December.
    8. Pierre Azoulay & Joshua Krieger & Abhishek Nagaraj, 2024. "Old Moats for New Models: Openness, Control, and Competition in Generative AI," NBER Chapters, in: Entrepreneurship and Innovation Policy and the Economy, volume 4, National Bureau of Economic Research, Inc.
    9. Riya Shah & Thomas C. Panagiotou & Gregory B. Cole & Trevor F. Moraes & Brigitte D. Lavoie & Christopher A. McCulloch & Andrew Wilde, 2024. "The DIAPH3 linker specifies a β-actin network that maintains RhoA and Myosin-II at the cytokinetic furrow," Nature Communications, Nature, vol. 15(1), pages 1-17, December.
    10. Yashan Yang & Qianqian Shao & Mingcheng Guo & Lin Han & Xinyue Zhao & Aohan Wang & Xiangyun Li & Bo Wang & Ji-An Pan & Zhenguo Chen & Andrei Fokine & Lei Sun & Qianglin Fang, 2024. "Capsid structure of bacteriophage ΦKZ provides insights into assembly and stabilization of jumbo phages," Nature Communications, Nature, vol. 15(1), pages 1-12, December.
    11. Bret M. Boyd & Ian James & Kevin P. Johnson & Robert B. Weiss & Sarah E. Bush & Dale H. Clayton & Colin Dale, 2024. "Stochasticity, determinism, and contingency shape genome evolution of endosymbiotic bacteria," Nature Communications, Nature, vol. 15(1), pages 1-14, December.
    12. Jun-Yu Si & Yuan-Mei Chen & Ye-Hui Sun & Meng-Xue Gu & Mei-Ling Huang & Lu-Lu Shi & Xiao Yu & Xiao Yang & Qing Xiong & Cheng-Bao Ma & Peng Liu & Zheng-Li Shi & Huan Yan, 2024. "Sarbecovirus RBD indels and specific residues dictating multi-species ACE2 adaptiveness," Nature Communications, Nature, vol. 15(1), pages 1-15, December.
    13. Deyun Qiu & Jinxin V. Pei & James E. O. Rosling & Vandana Thathy & Dongdi Li & Yi Xue & John D. Tanner & Jocelyn Sietsma Penington & Yi Tong Vincent Aw & Jessica Yi Han Aw & Guoyue Xu & Abhai K. Tripa, 2022. "A G358S mutation in the Plasmodium falciparum Na+ pump PfATP4 confers clinically-relevant resistance to cipargamin," Nature Communications, Nature, vol. 13(1), pages 1-18, December.
    14. Shuo-Shuo Liu & Tian-Xia Jiang & Fan Bu & Ji-Lan Zhao & Guang-Fei Wang & Guo-Heng Yang & Jie-Yan Kong & Yun-Fan Qie & Pei Wen & Li-Bin Fan & Ning-Ning Li & Ning Gao & Xiao-Bo Qiu, 2024. "Molecular mechanisms underlying the BIRC6-mediated regulation of apoptosis and autophagy," Nature Communications, Nature, vol. 15(1), pages 1-16, December.
    15. Ahrum Son & Hyunsoo Kim & Jolene K. Diedrich & Casimir Bamberger & Daniel B. McClatchy & Stuart A. Lipton & John R. Yates, 2024. "Using in vivo intact structure for system-wide quantitative analysis of changes in proteins," Nature Communications, Nature, vol. 15(1), pages 1-17, December.
    16. Justin N. Vaughn & Sandra E. Branham & Brian Abernathy & Amanda M. Hulse-Kemp & Adam R. Rivers & Amnon Levi & William P. Wechter, 2022. "Graph-based pangenomics maximizes genotyping density and reveals structural impacts on fungal resistance in melon," Nature Communications, Nature, vol. 13(1), pages 1-14, December.
    17. Eliza S. Nieweglowska & Axel F. Brilot & Melissa Méndez-Moran & Claire Kokontis & Minkyung Baek & Junrui Li & Yifan Cheng & David Baker & Joseph Bondy-Denomy & David A. Agard, 2023. "The ϕPA3 phage nucleus is enclosed by a self-assembling 2D crystalline lattice," Nature Communications, Nature, vol. 14(1), pages 1-12, December.
    18. Sash Lopaticki & Robyn McConville & Alan John & Niall Geoghegan & Shihab Deen Mohamed & Lisa Verzier & Ryan W. J. Steel & Cindy Evelyn & Matthew T. O’Neill & Niccolay Madiedo Soler & Nichollas E. Scot, 2022. "Tryptophan C-mannosylation is critical for Plasmodium falciparum transmission," Nature Communications, Nature, vol. 13(1), pages 1-18, December.
    19. Radoslaw Pluta & Eric Aragón & Nicholas A. Prescott & Lidia Ruiz & Rebeca A. Mees & Blazej Baginski & Julia R. Flood & Pau Martin-Malpartida & Joan Massagué & Yael David & Maria J. Macias, 2022. "Molecular basis for DNA recognition by the maternal pioneer transcription factor FoxH1," Nature Communications, Nature, vol. 13(1), pages 1-15, December.
    20. Xinheng He & Lifen Zhao & Yinping Tian & Rui Li & Qinyu Chu & Zhiyong Gu & Mingyue Zheng & Yusong Wang & Shaoning Li & Hualiang Jiang & Yi Jiang & Liuqing Wen & Dingyan Wang & Xi Cheng, 2024. "Highly accurate carbohydrate-binding site prediction with DeepGlycanSite," Nature Communications, Nature, vol. 15(1), pages 1-13, December.

    More about this item

    Statistics

    Access and download statistics

    Corrections

    All material on this site has been provided by the respective publishers and authors. You can help correct errors and omissions. When requesting a correction, please mention this item's handle: RePEc:nat:natcom:v:14:y:2023:i:1:d:10.1038_s41467-023-39689-7. See general information about how to correct material in RePEc.

    If you have authored this item and are not yet registered with RePEc, we encourage you to do it here. This allows to link your profile to this item. It also allows you to accept potential citations to this item that we are uncertain about.

    If CitEc recognized a bibliographic reference but did not link an item in RePEc to it, you can help with this form .

    If you know of missing items citing this one, you can help us creating those links by adding the relevant references in the same way as above, for each refering item. If you are a registered author of this item, you may also want to check the "citations" tab in your RePEc Author Service profile, as there may be some citations waiting for confirmation.

    For technical questions regarding this item, or to correct its authors, title, abstract, bibliographic or download information, contact: Sonal Shukla or Springer Nature Abstracting and Indexing (email available below). General contact details of provider: http://www.nature.com .

    Please note that corrections may take a couple of weeks to filter through the various RePEc services.

    IDEAS is a RePEc service. RePEc uses bibliographic data supplied by the respective publishers.