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Title: Structure of photosystem II and substrate binding at room temperature

Authors:
 [1];  [2];  [1];  [1];  [1];  [3];  [1];  [1];  [4];  [5];  [1];  [6];  [7];  [6];  [2];  [2];  [1];  [8];  [3];  [3] more »;  [3];  [3];  [3];  [1];  [1];  [2];  [9];  [9];  [1];  [6];  [6];  [1];  [10];  [11];  [11];  [12];  [11];  [4];  [4];  [4];  [4];  [4];  [4];  [4];  [4];  [4];  [4];  [4];  [13];  [13];  [1];  [1];  [1];  [14];  [11];  [8];  [2];  [15];  [16];  [1];  [17];  [2];  [18];  [6];  [1];  [19];  [1];  [1] « less
  1. Lawrence Berkeley National Lab. (LBNL), Berkeley, CA (United States). Molecular Biophysics and Integrated Bioimaging Division
  2. Humboldt Univ. of Berlin (Germany). Institute of Biology
  3. Umea University (Sweden). Institutionen for Kemi, Kemiskt Biologiskt Centrum
  4. SLAC National Accelerator Lab., Menlo Park, CA (United States). Linac Coherent Light Source (LCLS)
  5. SLAC National Accelerator Lab., Menlo Park, CA (United States). Stanford PULSE Institute and SSRL
  6. SLAC National Accelerator Lab., Menlo Park, CA (United States). Stanford PULSE Institute
  7. SLAC National Accelerator Lab., Menlo Park, CA (United States). Linac Coherent Light Source (LCLS) and Stanford PULSE Institute
  8. Institute for Methods and Instrumentation on Synchrotron Radiation Research, Helmholtz Zentrum, Berlin (Germany)
  9. SLAC National Accelerator Lab., Menlo Park, CA (United States). Stanford Synchrotron Radiation Lightsource (SSRL)
  10. Univ. of Oxford (United Kingdom). Department of Biochemistry; Diamond Light Source Ltd, Harwell Science and Innovation Campus (United Kingdom)
  11. Diamond Light Source Ltd, Harwell Science and Innovation Campus (United Kingdom)
  12. Brookhaven National Lab. (BNL), Upton, NY (United States). National Synchrotron Light Source II (NSLS-II)
  13. Stanford Univ., CA (United States). Department of Molecular and Cellular Physiology and Howard Hughes Medical Institute
  14. STFC Rutherford Appleton Laboratory (United Kingdom). CCP4, Research Complex at Harwell
  15. Stanford Univ., CA (United States). Department of Molecular and Cellular Physiology, Department of Photon Science, and Department of Structural Biology
  16. Stanford Univ., CA (United States). Department of Molecular and Cellular Physiology, Howard Hughes Medical Institute, Department of Photon Science, and Department of Structural Biology
  17. Lawrence Berkeley National Lab. (LBNL), Berkeley, CA (United States). Molecular Biophysics and Integrated Bioimaging Division; Univ. of California, Berkeley, CA (United States). Department of Bioengineering
  18. Umea University (Sweden). Institutionen for Kemi, Kemiskt Biologiskt Centrum; Ångström Laboratory, Uppsala University (Sweden). Department of Chemistry, Molecular Biomimetics
  19. Lawrence Berkeley National Lab. (LBNL), Berkeley, CA (United States). Molecular Biophysics and Integrated Bioimaging Division; SLAC National Accelerator Lab., Menlo Park, CA (United States). Linac Coherent Light Source (LCLS)
Publication Date:
Research Org.:
Brookhaven National Lab. (BNL), Upton, NY (United States); SLAC National Accelerator Lab., Menlo Park, CA (United States)
Sponsoring Org.:
USDOE Office of Science (SC), Basic Energy Sciences (BES)
OSTI Identifier:
1376142
Alternate Identifier(s):
OSTI ID: 1361141
Report Number(s):
BNL-114083-2017-JA
Journal ID: ISSN 0028-0836
Grant/Contract Number:  
SC0012704; AC02-05CH11231; AC02-76SF00515
Resource Type:
Accepted Manuscript
Journal Name:
Nature (London)
Additional Journal Information:
Journal Name: Nature (London); Journal Volume: 540; Journal Issue: 7633; Journal ID: ISSN 0028-0836
Publisher:
Nature Publishing Group
Country of Publication:
United States
Language:
English
Subject:
59 BASIC BIOLOGICAL SCIENCES

Citation Formats

Young, Iris D., Ibrahim, Mohamed, Chatterjee, Ruchira, Gul, Sheraz, Fuller, Franklin D., Koroidov, Sergey, Brewster, Aaron S., Tran, Rosalie, Alonso-Mori, Roberto, Kroll, Thomas, Michels-Clark, Tara, Laksmono, Hartawan, Sierra, Raymond G., Stan, Claudiu A., Hussein, Rana, Zhang, Miao, Douthit, Lacey, Kubin, Markus, de Lichtenberg, Casper, Vo Pham, Long, Nilsson, Håkan, Cheah, Mun Hon, Shevela, Dmitriy, Saracini, Claudio, Bean, Mackenzie A., Seuffert, Ina, Sokaras, Dimosthenis, Weng, Tsu-Chien, Pastor, Ernest, Weninger, Clemens, Fransson, Thomas, Lassalle, Louise, Bräuer, Philipp, Aller, Pierre, Docker, Peter T., Andi, Babak, Orville, Allen M., Glownia, James M., Nelson, Silke, Sikorski, Marcin, Zhu, Diling, Hunter, Mark S., Lane, Thomas J., Aquila, Andy, Koglin, Jason E., Robinson, Joseph, Liang, Mengning, Boutet, Sébastien, Lyubimov, Artem Y., Uervirojnangkoorn, Monarin, Moriarty, Nigel W., Liebschner, Dorothee, Afonine, Pavel V., Waterman, David G., Evans, Gwyndaf, Wernet, Philippe, Dobbek, Holger, Weis, William I., Brunger, Axel T., Zwart, Petrus H., Adams, Paul D., Zouni, Athina, Messinger, Johannes, Bergmann, Uwe, Sauter, Nicholas K., Kern, Jan, Yachandra, Vittal K., and Yano, Junko. Structure of photosystem II and substrate binding at room temperature. United States: N. p., 2016. Web. https://doi.org/10.1038/nature20161.
Young, Iris D., Ibrahim, Mohamed, Chatterjee, Ruchira, Gul, Sheraz, Fuller, Franklin D., Koroidov, Sergey, Brewster, Aaron S., Tran, Rosalie, Alonso-Mori, Roberto, Kroll, Thomas, Michels-Clark, Tara, Laksmono, Hartawan, Sierra, Raymond G., Stan, Claudiu A., Hussein, Rana, Zhang, Miao, Douthit, Lacey, Kubin, Markus, de Lichtenberg, Casper, Vo Pham, Long, Nilsson, Håkan, Cheah, Mun Hon, Shevela, Dmitriy, Saracini, Claudio, Bean, Mackenzie A., Seuffert, Ina, Sokaras, Dimosthenis, Weng, Tsu-Chien, Pastor, Ernest, Weninger, Clemens, Fransson, Thomas, Lassalle, Louise, Bräuer, Philipp, Aller, Pierre, Docker, Peter T., Andi, Babak, Orville, Allen M., Glownia, James M., Nelson, Silke, Sikorski, Marcin, Zhu, Diling, Hunter, Mark S., Lane, Thomas J., Aquila, Andy, Koglin, Jason E., Robinson, Joseph, Liang, Mengning, Boutet, Sébastien, Lyubimov, Artem Y., Uervirojnangkoorn, Monarin, Moriarty, Nigel W., Liebschner, Dorothee, Afonine, Pavel V., Waterman, David G., Evans, Gwyndaf, Wernet, Philippe, Dobbek, Holger, Weis, William I., Brunger, Axel T., Zwart, Petrus H., Adams, Paul D., Zouni, Athina, Messinger, Johannes, Bergmann, Uwe, Sauter, Nicholas K., Kern, Jan, Yachandra, Vittal K., & Yano, Junko. Structure of photosystem II and substrate binding at room temperature. United States. https://doi.org/10.1038/nature20161
Young, Iris D., Ibrahim, Mohamed, Chatterjee, Ruchira, Gul, Sheraz, Fuller, Franklin D., Koroidov, Sergey, Brewster, Aaron S., Tran, Rosalie, Alonso-Mori, Roberto, Kroll, Thomas, Michels-Clark, Tara, Laksmono, Hartawan, Sierra, Raymond G., Stan, Claudiu A., Hussein, Rana, Zhang, Miao, Douthit, Lacey, Kubin, Markus, de Lichtenberg, Casper, Vo Pham, Long, Nilsson, Håkan, Cheah, Mun Hon, Shevela, Dmitriy, Saracini, Claudio, Bean, Mackenzie A., Seuffert, Ina, Sokaras, Dimosthenis, Weng, Tsu-Chien, Pastor, Ernest, Weninger, Clemens, Fransson, Thomas, Lassalle, Louise, Bräuer, Philipp, Aller, Pierre, Docker, Peter T., Andi, Babak, Orville, Allen M., Glownia, James M., Nelson, Silke, Sikorski, Marcin, Zhu, Diling, Hunter, Mark S., Lane, Thomas J., Aquila, Andy, Koglin, Jason E., Robinson, Joseph, Liang, Mengning, Boutet, Sébastien, Lyubimov, Artem Y., Uervirojnangkoorn, Monarin, Moriarty, Nigel W., Liebschner, Dorothee, Afonine, Pavel V., Waterman, David G., Evans, Gwyndaf, Wernet, Philippe, Dobbek, Holger, Weis, William I., Brunger, Axel T., Zwart, Petrus H., Adams, Paul D., Zouni, Athina, Messinger, Johannes, Bergmann, Uwe, Sauter, Nicholas K., Kern, Jan, Yachandra, Vittal K., and Yano, Junko. Mon . "Structure of photosystem II and substrate binding at room temperature". United States. https://doi.org/10.1038/nature20161. https://www.osti.gov/servlets/purl/1376142.
@article{osti_1376142,
title = {Structure of photosystem II and substrate binding at room temperature},
author = {Young, Iris D. and Ibrahim, Mohamed and Chatterjee, Ruchira and Gul, Sheraz and Fuller, Franklin D. and Koroidov, Sergey and Brewster, Aaron S. and Tran, Rosalie and Alonso-Mori, Roberto and Kroll, Thomas and Michels-Clark, Tara and Laksmono, Hartawan and Sierra, Raymond G. and Stan, Claudiu A. and Hussein, Rana and Zhang, Miao and Douthit, Lacey and Kubin, Markus and de Lichtenberg, Casper and Vo Pham, Long and Nilsson, Håkan and Cheah, Mun Hon and Shevela, Dmitriy and Saracini, Claudio and Bean, Mackenzie A. and Seuffert, Ina and Sokaras, Dimosthenis and Weng, Tsu-Chien and Pastor, Ernest and Weninger, Clemens and Fransson, Thomas and Lassalle, Louise and Bräuer, Philipp and Aller, Pierre and Docker, Peter T. and Andi, Babak and Orville, Allen M. and Glownia, James M. and Nelson, Silke and Sikorski, Marcin and Zhu, Diling and Hunter, Mark S. and Lane, Thomas J. and Aquila, Andy and Koglin, Jason E. and Robinson, Joseph and Liang, Mengning and Boutet, Sébastien and Lyubimov, Artem Y. and Uervirojnangkoorn, Monarin and Moriarty, Nigel W. and Liebschner, Dorothee and Afonine, Pavel V. and Waterman, David G. and Evans, Gwyndaf and Wernet, Philippe and Dobbek, Holger and Weis, William I. and Brunger, Axel T. and Zwart, Petrus H. and Adams, Paul D. and Zouni, Athina and Messinger, Johannes and Bergmann, Uwe and Sauter, Nicholas K. and Kern, Jan and Yachandra, Vittal K. and Yano, Junko},
abstractNote = {},
doi = {10.1038/nature20161},
journal = {Nature (London)},
number = 7633,
volume = 540,
place = {United States},
year = {2016},
month = {11}
}

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    • DOI: 10.1002/anie.201903738

    Rationalizing the 2.25 Å Resolution Crystal Structure of the Water Oxidising Complex of Photosystem II in the S 3 State
    journal, August 2017


    Across the Board: Licheng Sun on the Mechanism of O−O Bond Formation in Photosystem II
    journal, June 2019


    Local Structural Modification of Ca2+-Depleted Photosystem II Detected by Proton Matrix ENDOR
    journal, April 2018


    Unequal misses during the flash-induced advancement of photosystem II: effects of the S state and acceptor side cycles
    journal, September 2018

    • Pham, Long Vo; Janna Olmos, Julian David; Chernev, Petko
    • Photosynthesis Research, Vol. 139, Issue 1-3
    • DOI: 10.1007/s11120-018-0574-0

    Effect of sucrose-bound polynuclear iron oxyhydroxide nanoparticles on the efficiency of electron transport in the photosystem II membranes
    journal, May 2019


    International conference on “Photosynthesis and Hydrogen Energy Research for Sustainability-2019”: in honor of Tingyun Kuang, Anthony Larkum, Cesare Marchetti, and Kimiyuki Satoh
    journal, November 2019

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    • Photosynthesis Research, Vol. 146, Issue 1-3
    • DOI: 10.1007/s11120-019-00687-w

    Light-induced structural changes and the site of O=O bond formation in PSII caught by XFEL
    journal, February 2017

    • Suga, Michihiro; Akita, Fusamichi; Sugahara, Michihiro
    • Nature, Vol. 543, Issue 7643
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    Multi-wavelength anomalous diffraction de novo phasing using a two-colour X-ray free-electron laser with wide tunability
    journal, October 2017


    Photoswitching mechanism of a fluorescent protein revealed by time-resolved crystallography and transient absorption spectroscopy
    journal, February 2020

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    • Nature Communications, Vol. 11, Issue 1
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    The development of molecular water oxidation catalysts
    journal, April 2019

    • Matheu, Roc; Garrido-Barros, Pablo; Gil-Sepulcre, Marcos
    • Nature Reviews Chemistry, Vol. 3, Issue 5
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    Structures of the intermediates of Kok’s photosynthetic water oxidation clock
    journal, November 2018


    What Mn K β spectroscopy reveals concerning the oxidation states of the Mn cluster in photosystem II
    journal, January 2017

    • Petrie, Simon; Stranger, Rob; Pace, Ron J.
    • Phys. Chem. Chem. Phys., Vol. 19, Issue 40
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    On the photocatalytic cycle of water splitting with small manganese oxides and the roles of water clusters as direct sources of oxygen molecules
    journal, January 2018

    • Yamamoto, Kentaro; Takatsuka, Kazuo
    • Physical Chemistry Chemical Physics, Vol. 20, Issue 9
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    How to make an efficient and robust molecular catalyst for water oxidation
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    Water oxidation by a manganese–potassium cluster: Mn oxide as a kinetically dominant “true” catalyst for water oxidation
    journal, January 2018

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    • Catalysis Science & Technology, Vol. 8, Issue 17
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    Efficient hydrogen production using photosystem I enhanced by artificial light harvesting dye
    journal, January 2019

    • Nagakawa, Haruki; Takeuchi, Ayano; Takekuma, Yuya
    • Photochemical & Photobiological Sciences, Vol. 18, Issue 2
    • DOI: 10.1039/c8pp00426a

    Significance of hydrogen bonding networks in the proton-coupled electron transfer reactions of photosystem II from a quantum-mechanics perspective
    journal, January 2019

    • Chai, Jun; Zheng, Zhaoyang; Pan, Hui
    • Physical Chemistry Chemical Physics, Vol. 21, Issue 17
    • DOI: 10.1039/c9cp00868c

    Inner-shell X-ray absorption spectra of the cationic series NH y + ( y = 0–3)
    journal, January 2019

    • Bari, Sadia; Inhester, Ludger; Schubert, Kaja
    • Physical Chemistry Chemical Physics, Vol. 21, Issue 30
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    Co-existence of ferro- and antiferromagnetic interactions in a hexanuclear mixed-valence CoIII2MnII2MnIV2 cluster sustained by a multidentate Schiff base ligand
    journal, January 2019

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    • Dalton Transactions, Vol. 48, Issue 31
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    Artificial photosynthesis – concluding remarks
    journal, January 2019


    Pentanuclear iron catalysts for water oxidation: substituents provide two routes to control onset potentials
    journal, January 2019

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    • Chemical Science, Vol. 10, Issue 17
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    A synthetic manganese–calcium cluster similar to the catalyst of Photosystem II: challenges for biomimetic water oxidation
    journal, January 2020

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    • Dalton Transactions
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    Perspective: Opportunities for ultrafast science at SwissFEL
    journal, November 2017

    • Abela, Rafael; Beaud, Paul; van Bokhoven, Jeroen A.
    • Structural Dynamics, Vol. 4, Issue 6
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    D1-Asn-298 in photosystem II is involved in a hydrogen-bond network near the redox-active tyrosine Y Z for proton exit during water oxidation
    journal, October 2017

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    Theory of chemical bonds in metalloenzymes XXI. Possible mechanisms of water oxidation in oxygen evolving complex of photosystem II
    journal, December 2017


    The Macromolecular Femtosecond Crystallography Instrument at the Linac Coherent Light Source
    journal, February 2019

    • Sierra, Raymond G.; Batyuk, Alexander; Sun, Zhibin
    • Journal of Synchrotron Radiation, Vol. 26, Issue 2
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    Structure-factor amplitude reconstruction from serial femtosecond crystallography of two-dimensional membrane-protein crystals
    journal, January 2019


    Radiation damage in protein crystallography at X-ray free-electron lasers
    journal, January 2019


    Why we need to know the structure of phosphorylated chloroplast light-harvesting complex II
    journal, May 2017


    ‘Birth defects’ of photosystem II make it highly susceptible to photodamage during chloroplast biogenesis
    journal, February 2019

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    • Physiologia Plantarum, Vol. 166, Issue 1
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    Dynamic pH‐induced conformational changes of the PsbO protein in the fluctuating acidity of the thylakoid lumen
    journal, March 2019

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    • Physiologia Plantarum, Vol. 166, Issue 1
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    Reactive oxygen species leave a damage trail that reveals water channels in Photosystem II
    journal, November 2017

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    Short-wavelength free-electron laser sources and science: a review
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    • Deutsches Elektronen-Synchrotron, DESY, Hamburg
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    Recent Advances in Ultrafast Structural Techniques
    journal, April 2019


    Advances in X-ray free electron laser (XFEL) diffraction data processing applied to the crystal structure of the synaptotagmin-1 / SNARE complex
    journal, October 2016

    • Lyubimov, Artem Y.; Uervirojnangkoorn, Monarin; Zeldin, Oliver B.
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    Evolution from S 3 to S 4 States of the Oxygen-Evolving Complex in Photosystem II Monitored by Quantum Mechanics/Molecular Mechanics (QM/MM) Dynamics
    journal, June 2018

    • Narzi, Daniele; Capone, Matteo; Bovi, Daniele
    • Chemistry - A European Journal, Vol. 24, Issue 42
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    The Two Alternative Oxidation State Assignments of Manganese Ions: What S2 CW-EPR Multiline (ML) Signal Simulations Reveal?
    journal, February 2020


    Water oxidation in photosystem II
    journal, June 2019


    Drop-on-demand sample delivery for studying biocatalysts in action at X-ray free-electron lasers
    journal, February 2017

    • Fuller, Franklin D.; Gul, Sheraz; Chatterjee, Ruchira
    • Nature Methods, Vol. 14, Issue 4
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    Capturing an initial intermediate during the P450nor enzymatic reaction using time-resolved XFEL crystallography and caged-substrate
    journal, November 2017

    • Tosha, Takehiko; Nomura, Takashi; Nishida, Takuma
    • Nature Communications, Vol. 8, Article No. 1585
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    Hydrophilicity and oxophilicity of the isolated CaMn 4 O 5 cationic cluster modeling inorganic core of the oxygen-evolving complex
    journal, January 2019

    • Zhang, Yufei; Masuzaki, Daigo; Mafuné, Fumitaka
    • Chemical Communications, Vol. 55, Issue 95
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    Microfluidics: From crystallization to serial time-resolved crystallography
    journal, May 2017

    • Sui, Shuo; Perry, Sarah L.
    • Structural Dynamics, Vol. 4, Issue 3
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    A novel chlorophyll protein complex in the repair cycle of photosystem II
    journal, October 2019

    • Weisz, Daniel A.; Johnson, Virginia M.; Niedzwiedzki, Dariusz M.
    • Proceedings of the National Academy of Sciences, Vol. 116, Issue 43
    • DOI: 10.1073/pnas.1909644116

    XFELs for structure and dynamics in biology
    journal, May 2017


    Where is crystallography going?
    journal, February 2018

    • Grimes, Jonathan M.; Hall, David R.; Ashton, Alun W.
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    Using sound pulses to solve the crystal-harvesting bottleneck
    journal, October 2018

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    Sample delivery for serial crystallography at free-electron lasers and synchrotrons
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    Perspective: Opportunities for ultrafast science at SwissFEL
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    Calcium, conformational selection, and redox-active tyrosine YZ in the photosynthetic oxygen-evolving cluster
    journal, May 2018

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    Structure-factor amplitude reconstruction from serial femtosecond crystallography of two-dimensional membrane-protein crystals
    text, January 2019

    • Casadei, Cecilia M.; Nass, Karol; Barty, Anton
    • Deutsches Elektronen-Synchrotron, DESY, Hamburg
    • DOI: 10.3204/pubdb-2018-04823