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Title: X-ray Crystallographic Structure and Oligomerization of Gloeobacter<\em> Rhodopsin

Abstract

Not provided.

Authors:
 [1];  [1];  [1]; ORCiD logo [2]; ORCiD logo [3]; ORCiD logo [4]; ORCiD logo [5]
+ Show Author Affiliations
  1. Univ. of Toronto, ON (Canada), Dept. of Biochemistry
  2. Univ. of Tokyo (Japan), The Institute for Solid State Physics
  3. Nagoya Inst. of Technology (Japan), Dept of Life Science and Applied Chemistry; Nagoya Inst. of Technology (Japan), OptoBioTechnology Research Center
  4. Univ. of Guelph, ON (Canada), Dept. of Physics
  5. Univ. of Toronto, ON (Canada), Dept. of Biochemistry; Univ. of Toronto, ON (Canada), Dept. of Molecular Genetics
Publication Date:
Research Org.:
Argonne National Laboratory (ANL), Argonne, IL (United States)
Sponsoring Org.:
USDOE
OSTI Identifier:
1624483
Grant/Contract Number:  
AC02-06CH11357
Resource Type:
Accepted Manuscript
Journal Name:
Scientific Reports
Additional Journal Information:
Journal Volume: 9; Journal Issue: 1; Journal ID: ISSN 2045-2322
Publisher:
Nature Publishing Group
Country of Publication:
United States
Language:
English
Subject:
Science & Technology - Other Topics

Citation Formats

Morizumi, Takefumi, Ou, Wei-Lin, Van Eps, Ned, Inoue, Keiichi, Kandori, Hideki, Brown, Leonid S., and Ernst, Oliver P. X-ray Crystallographic Structure and Oligomerization of Gloeobacter<\em> Rhodopsin. United States: N. p., 2019. Web. doi:10.1038/s41598-019-47445-5.
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Morizumi, Takefumi, Ou, Wei-Lin, Van Eps, Ned, Inoue, Keiichi, Kandori, Hideki, Brown, Leonid S., & Ernst, Oliver P. X-ray Crystallographic Structure and Oligomerization of Gloeobacter<\em> Rhodopsin. United States. https://doi.org/10.1038/s41598-019-47445-5
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Morizumi, Takefumi, Ou, Wei-Lin, Van Eps, Ned, Inoue, Keiichi, Kandori, Hideki, Brown, Leonid S., and Ernst, Oliver P. Fri . "X-ray Crystallographic Structure and Oligomerization of Gloeobacter<\em> Rhodopsin". United States. https://doi.org/10.1038/s41598-019-47445-5. https://www.osti.gov/servlets/purl/1624483.
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@article{osti_1624483,
title = {X-ray Crystallographic Structure and Oligomerization of Gloeobacter<\em> Rhodopsin},
author = {Morizumi, Takefumi and Ou, Wei-Lin and Van Eps, Ned and Inoue, Keiichi and Kandori, Hideki and Brown, Leonid S. and Ernst, Oliver P.},
abstractNote = {Not provided.},
doi = {10.1038/s41598-019-47445-5},
journal = {Scientific Reports},
number = 1,
volume = 9,
place = {United States},
year = {Fri Aug 02 00:00:00 EDT 2019},
month = {Fri Aug 02 00:00:00 EDT 2019}
}
Copy to clipboard
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https://doi.org/10.1038/s41598-019-47445-5
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Oligomeric Structure of Anabaena Sensory Rhodopsin in a Lipid Bilayer Environment by Combining Solid-State NMR and Long-range DEER Constraints
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Retinal Binding to Apo-Gloeobacter Rhodopsin: The Role of pH and Retinal–Carotenoid Interaction
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Gloeobacter Rhodopsin, Limitation of Proton Pumping at High Electrochemical Load
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Salt bridge in the conserved His-Asp cluster in Gloeobacter rhodopsin contributes to trimer formation
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Conformational equilibria of light-activated rhodopsin in nanodiscs
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Structural basis for Na+ transport mechanism by a light-driven Na+ pump
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X-ray Crystallographic Structure of Thermophilic Rhodopsin: IMPLICATIONS FOR HIGH THERMAL STABILITY AND OPTOGENETIC FUNCTION
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Three-Dimensional Solid-State NMR Study of a Seven-Helical Integral Membrane Proton Pump—Structural Insights
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  • Shi, Lichi; Ahmed, Mumdooh A. M.; Zhang, Wurong
  • Journal of Molecular Biology, Vol. 386, Issue 4
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Solution NMR Structure of Proteorhodopsin
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Reconstitution of Gloeobacter violaceus Rhodopsin with a Light-Harvesting Carotenoid Antenna
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Reconstitution of Gloeobacter Rhodopsin with Echinenone: Role of the 4-Keto Group
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Green Proteorhodopsin Reconstituted into Nanoscale Phospholipid Bilayers (Nanodiscs) as Photoactive Monomers
journal, November 2011

  • Ranaghan, Matthew J.; Schwall, Christine T.; Alder, Nathan N.
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Glutamic Acid 204 is the Terminal Proton Release Group at the Extracellular Surface of Bacteriorhodopsin
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Structural Insight into Proteorhodopsin Oligomers
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Diversification and spectral tuning in marine proteorhodopsins
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Symmetry-Constrained Analysis of Pulsed Double Electron–Electron Resonance (DEER) Spectroscopy Reveals the Dynamic Nature of the KcsA Activation Gate
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Structural Role of Bacterioruberin in the Trimeric Structure of Archaerhodopsin-2
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Inward H + pump xenorhodopsin: Mechanism and alternative optogenetic approach
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Engineering an Inward Proton Transport from a Bacterial Sensor Rhodopsin
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Bicelle crystallization: a new method for crystallizing membrane proteins yields a monomeric bacteriorhodopsin structure
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Crystallization of bacteriorhodopsin from bicelle formulations at room temperature
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Cytoplasmic Shuttling of Protons in Anabaena Sensory Rhodopsin: Implications for Signaling Mechanism
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Rotamer libraries of spin labelled cysteines for protein studies
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Solution NMR Structure of Proteorhodopsin
journal, October 2011

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PARP1 exhibits enhanced association and catalytic efficiency with γH2A.X-nucleosome
journal, December 2019

Cavin1 intrinsically disordered domains are essential for fuzzy electrostatic interactions and caveola formation
journal, February 2021

An SHR–SCR module specifies legume cortical cell fate to enable nodulation
journal, December 2020

Inward H + pump xenorhodopsin: Mechanism and alternative optogenetic approach
text, January 2017

pH-Dependent Transitions in Xanthorhodopsin
journal, November 2006

Rotamer libraries of spin labelled cysteines for protein studies
text, January 2011

PHENIX: a comprehensive Python-based system for macromolecular structure solution.
text, January 2010

  • Adams, Paul D.; Afonine, Pavel V.; Bunkóczi, Gábor
  • Apollo - University of Cambridge Repository
  • DOI: 10.17863/cam.45787

Structure and mechanisms of sodium-pumping KR2 rhodopsin
text, January 2019

Solution NMR Structure of Proteorhodopsin
journal, October 2011

  • Reckel, Sina; Gottstein, Daniel; Stehle, Jochen
  • Angewandte Chemie, Vol. 123, Issue 50
  • DOI: 10.1002/ange.201105648

Structure of bacteriorhodopsin at 1.55 Å resolution
journal, August 1999

  • Luecke, Hartmut; Schobert, Brigitte; Richter, Hans-Thomas
  • Journal of Molecular Biology, Vol. 291, Issue 4
  • DOI: 10.1006/jmbi.1999.3027

Bicelle crystallization: a new method for crystallizing membrane proteins yields a monomeric bacteriorhodopsin structure
journal, February 2002

Bacteriorhodopsin monomers pump protons
journal, December 1979

Recent advances in biophysical studies of rhodopsins – Oligomerization, folding, and structure
journal, November 2017

  • Brown, Leonid S.; Ernst, Oliver P.
  • Biochimica et Biophysica Acta (BBA) - Proteins and Proteomics, Vol. 1865, Issue 11
  • DOI: 10.1016/j.bbapap.2017.08.007

The Photocycle and Proton Translocation Pathway in a Cyanobacterial Ion-Pumping Rhodopsin
journal, February 2009

Structural Insight into Proteorhodopsin Oligomers
journal, January 2013

Gloeobacter Rhodopsin, Limitation of Proton Pumping at High Electrochemical Load
journal, November 2013

Salt bridge in the conserved His-Asp cluster in Gloeobacter rhodopsin contributes to trimer formation
journal, January 2013

Characterizing Molecular Interactions in Different Bacteriorhodopsin Assemblies by Single-molecule Force Spectroscopy
journal, January 2006

  • Sapra, K. Tanuj; Besir, Hüseyin; Oesterhelt, Dieter
  • Journal of Molecular Biology, Vol. 355, Issue 4
  • DOI: 10.1016/j.jmb.2005.10.080

Cytoplasmic Shuttling of Protons in Anabaena Sensory Rhodopsin: Implications for Signaling Mechanism
journal, May 2006

  • Shi, Lichi; Yoon, Sa Ryong; Bezerra, Arandi G.
  • Journal of Molecular Biology, Vol. 358, Issue 3
  • DOI: 10.1016/j.jmb.2006.02.036

Folding and Assembly of Proteorhodopsin
journal, February 2008

  • Klyszejko, Adriana L.; Shastri, Sarika; Mari, Stefania A.
  • Journal of Molecular Biology, Vol. 376, Issue 1
  • DOI: 10.1016/j.jmb.2007.11.030

Structural Role of Bacterioruberin in the Trimeric Structure of Archaerhodopsin-2
journal, February 2008

Three-Dimensional Solid-State NMR Study of a Seven-Helical Integral Membrane Proton Pump—Structural Insights
journal, March 2009

  • Shi, Lichi; Ahmed, Mumdooh A. M.; Zhang, Wurong
  • Journal of Molecular Biology, Vol. 386, Issue 4
  • DOI: 10.1016/j.jmb.2009.01.011

Functional Consequences of the Oligomeric Assembly of Proteorhodopsin
journal, March 2015

  • Hussain, Sunyia; Kinnebrew, Maia; Schonenbach, Nicole S.
  • Journal of Molecular Biology, Vol. 427, Issue 6
  • DOI: 10.1016/j.jmb.2015.01.004

Oligomeric Structure of Anabaena Sensory Rhodopsin in a Lipid Bilayer Environment by Combining Solid-State NMR and Long-range DEER Constraints
journal, June 2017

  • Milikisiyants, Sergey; Wang, Shenlin; Munro, Rachel A.
  • Journal of Molecular Biology, Vol. 429, Issue 12
  • DOI: 10.1016/j.jmb.2017.05.005

Determining the Oligomeric Structure of Proteorhodopsin by Gd3+-Based Pulsed Dipolar Spectroscopy of Multiple Distances
journal, November 2014

Comparison of the Dynamics of the Primary Events of Bacteriorhodopsin in Its Trimeric and Monomeric States
journal, September 2002

Retinal Binding to Apo-Gloeobacter Rhodopsin: The Role of pH and Retinal–Carotenoid Interaction
journal, November 2017

  • Jana, Sankar; Eliash, Tamar; Jung, Kwang-Hwan
  • The Journal of Physical Chemistry B, Vol. 121, Issue 48
  • DOI: 10.1021/acs.jpcb.7b07523

Reconstitution of Gloeobacter Rhodopsin with Echinenone: Role of the 4-Keto Group
journal, November 2010

  • Balashov, Sergei P.; Imasheva, Eleonora S.; Choi, Ah Reum
  • Biochemistry, Vol. 49, Issue 45
  • DOI: 10.1021/bi1014166

Green Proteorhodopsin Reconstituted into Nanoscale Phospholipid Bilayers (Nanodiscs) as Photoactive Monomers
journal, November 2011

  • Ranaghan, Matthew J.; Schwall, Christine T.; Alder, Nathan N.
  • Journal of the American Chemical Society, Vol. 133, Issue 45
  • DOI: 10.1021/ja2070957

Symmetry-Constrained Analysis of Pulsed Double Electron–Electron Resonance (DEER) Spectroscopy Reveals the Dynamic Nature of the KcsA Activation Gate
journal, September 2012

  • Dalmas, Olivier; Hyde, H. Clark; Hulse, Raymond E.
  • Journal of the American Chemical Society, Vol. 134, Issue 39
  • DOI: 10.1021/ja3069038

Engineering an Inward Proton Transport from a Bacterial Sensor Rhodopsin
journal, November 2009

  • Kawanabe, Akira; Furutani, Yuji; Jung, Kwang-Hwan
  • Journal of the American Chemical Society, Vol. 131, Issue 45
  • DOI: 10.1021/ja904855g

Structural basis for Na+ transport mechanism by a light-driven Na+ pump
journal, April 2015

  • Kato, Hideaki E.; Inoue, Keiichi; Abe-Yoshizumi, Rei
  • Nature, Vol. 521, Issue 7550
  • DOI: 10.1038/nature14322

Oligomeric states of microbial rhodopsins determined by high-speed atomic force microscopy and circular dichroic spectroscopy
journal, May 2018

Characterization and phylogenetic analysis of the complete mitochondrial genome of the pathogenic fungus Ilyonectria destructans
journal, February 2022

Conformational equilibria of light-activated rhodopsin in nanodiscs
journal, April 2017

  • Van Eps, Ned; Caro, Lydia N.; Morizumi, Takefumi
  • Proceedings of the National Academy of Sciences, Vol. 114, Issue 16
  • DOI: 10.1073/pnas.1620405114

Lipid patches in membrane protein oligomers: Crystal structure of the bacteriorhodopsin-lipid complex
journal, September 1998

  • Essen, L. - O.; Siegert, R.; Lehmann, W. D.
  • Proceedings of the National Academy of Sciences, Vol. 95, Issue 20
  • DOI: 10.1073/pnas.95.20.11673

Glutamic Acid 204 is the Terminal Proton Release Group at the Extracellular Surface of Bacteriorhodopsin
journal, November 1995

  • Brown, Leonid S.; Sasaki, Jun; Kandori, Hideki
  • Journal of Biological Chemistry, Vol. 270, Issue 45
  • DOI: 10.1074/jbc.270.45.27122

Structural Mechanism for Light-driven Transport by a New Type of Chloride Ion Pump, Nonlabens marinus Rhodopsin-3
journal, June 2016

  • Hosaka, Toshiaki; Yoshizawa, Susumu; Nakajima, Yu
  • Journal of Biological Chemistry, Vol. 291, Issue 34
  • DOI: 10.1074/jbc.m116.728220

Diversification and spectral tuning in marine proteorhodopsins
journal, April 2003

pH-Dependent Transitions in Xanthorhodopsin
journal, November 2006

Halorhodopsin from Natronomonas pharaonis Forms a Trimer Even in the Presence of a Detergent, Dodecyl-β-d-maltoside
journal, January 2009

Inward H + pump xenorhodopsin: Mechanism and alternative optogenetic approach
journal, September 2017

  • Shevchenko, Vitaly; Mager, Thomas; Kovalev, Kirill
  • Science Advances, Vol. 3, Issue 9
  • DOI: 10.1126/sciadv.1603187

Structure and mechanisms of sodium-pumping KR2 rhodopsin
journal, April 2019

  • Kovalev, Kirill; Polovinkin, Vitaly; Gushchin, Ivan
  • Science Advances, Vol. 5, Issue 4
  • DOI: 10.1126/sciadv.aav2671

PHENIX: a comprehensive Python-based system for macromolecular structure solution.
text, January 2010

  • Adams, Paul D.; Afonine, Pavel V.; Bunkóczi, Gábor
  • Apollo - University of Cambridge Repository
  • DOI: 10.17863/cam.45787

Rotamer libraries of spin labelled cysteines for protein studies
text, January 2011

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