Literature DB >> 27126043

Structure of a bd oxidase indicates similar mechanisms for membrane-integrated oxygen reductases.

Schara Safarian1, Chitra Rajendran2, Hannelore Müller1, Julia Preu1, Julian D Langer3, Sergey Ovchinnikov4, Taichiro Hirose5, Tomoichirou Kusumoto5, Junshi Sakamoto5, Hartmut Michel6.   

Abstract

The cytochrome bd oxidases are terminal oxidases that are present in bacteria and archaea. They reduce molecular oxygen (dioxygen) to water, avoiding the production of reactive oxygen species. In addition to their contribution to the proton motive force, they mediate viability under oxygen-related stress conditions and confer tolerance to nitric oxide, thus contributing to the virulence of pathogenic bacteria. Here we present the atomic structure of the bd oxidase from Geobacillus thermodenitrificans, revealing a pseudosymmetrical subunit fold. The arrangement and order of the heme cofactors support the conclusions from spectroscopic measurements that the cleavage of the dioxygen bond may be mechanistically similar to that in the heme-copper-containing oxidases, even though the structures are completely different.
Copyright © 2016, American Association for the Advancement of Science.

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Year:  2016        PMID: 27126043      PMCID: PMC5515584          DOI: 10.1126/science.aaf2477

Source DB:  PubMed          Journal:  Science        ISSN: 0036-8075            Impact factor:   47.728


  30 in total

1.  The Protein Data Bank.

Authors:  H M Berman; J Westbrook; Z Feng; G Gilliland; T N Bhat; H Weissig; I N Shindyalov; P E Bourne
Journal:  Nucleic Acids Res       Date:  2000-01-01       Impact factor: 16.971

2.  Resonance Raman spectroscopic identification of a histidine ligand of b595 and the nature of the ligation of chlorin d in the fully reduced Escherichia coli cytochrome bd oxidase.

Authors:  J Sun; M A Kahlow; T M Kaysser; J P Osborne; J J Hill; R J Rohlfs; R Hille; R B Gennis; T M Loehr
Journal:  Biochemistry       Date:  1996-02-20       Impact factor: 3.162

3.  Glutamates 99 and 107 in transmembrane helix III of subunit I of cytochrome bd are critical for binding of the heme b595-d binuclear center and enzyme activity.

Authors:  Tatsushi Mogi; Sachiko Endou; Satoru Akimoto; Mayumi Morimoto-Tadokoro; Hideto Miyoshi
Journal:  Biochemistry       Date:  2006-12-08       Impact factor: 3.162

Review 4.  Photosynthetic reaction centers.

Authors:  J P Allen; J C Williams
Journal:  FEBS Lett       Date:  1998-10-30       Impact factor: 4.124

5.  Time-resolved electrometric and optical studies on cytochrome bd suggest a mechanism of electron-proton coupling in the di-heme active site.

Authors:  Ilya Belevich; Vitaliy B Borisov; Jie Zhang; Ke Yang; Alexander A Konstantinov; Robert B Gennis; Michael I Verkhovsky
Journal:  Proc Natl Acad Sci U S A       Date:  2005-02-22       Impact factor: 11.205

6.  Mutation of cytochrome bd quinol oxidase results in reduced stationary phase survival, iron deprivation, metal toxicity and oxidative stress in Azotobacter vinelandii.

Authors:  S E Edwards; C S Loder; G Wu; H Corker; B W Bainbridge; S Hill; R K Poole
Journal:  FEMS Microbiol Lett       Date:  2000-04-01       Impact factor: 2.742

7.  Structure at 2.8 A resolution of cytochrome c oxidase from Paracoccus denitrificans.

Authors:  S Iwata; C Ostermeier; B Ludwig; H Michel
Journal:  Nature       Date:  1995-08-24       Impact factor: 49.962

8.  Crystallographic studies of Xe and Kr binding within the large internal cavity of cytochrome ba3 from Thermus thermophilus: structural analysis and role of oxygen transport channels in the heme-Cu oxidases.

Authors:  V Mitch Luna; Ying Chen; James A Fee; C David Stout
Journal:  Biochemistry       Date:  2008-04-01       Impact factor: 3.162

9.  The strict anaerobe Bacteroides fragilis grows in and benefits from nanomolar concentrations of oxygen.

Authors:  Anthony D Baughn; Michael H Malamy
Journal:  Nature       Date:  2004-01-29       Impact factor: 49.962

10.  Conservation analysis of the CydX protein yields insights into small protein identification and evolution.

Authors:  Rondine J Allen; Evan P Brenner; Caitlin E VanOrsdel; Jessica J Hobson; David J Hearn; Matthew R Hemm
Journal:  BMC Genomics       Date:  2014-12-05       Impact factor: 3.969

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  41 in total

Review 1.  Architecture of bacterial respiratory chains.

Authors:  Ville R I Kaila; Mårten Wikström
Journal:  Nat Rev Microbiol       Date:  2021-01-12       Impact factor: 60.633

Review 2.  Alternative ORFs and small ORFs: shedding light on the dark proteome.

Authors:  Mona Wu Orr; Yuanhui Mao; Gisela Storz; Shu-Bing Qian
Journal:  Nucleic Acids Res       Date:  2020-02-20       Impact factor: 16.971

Review 3.  Escherichia coli Small Proteome.

Authors:  Matthew R Hemm; Jeremy Weaver; Gisela Storz
Journal:  EcoSal Plus       Date:  2020-05

4.  Targeting the menaquinol binding loop of mycobacterial cytochrome bd oxidase.

Authors:  Amaravadhi Harikishore; Sherilyn Shi Min Chong; Priya Ragunathan; Roderick W Bates; Gerhard Grüber
Journal:  Mol Divers       Date:  2020-01-14       Impact factor: 2.943

5.  Cytochrome bd Oxidase Has an Important Role in Sustaining Growth and Development of Streptomyces coelicolor A3(2) under Oxygen-Limiting Conditions.

Authors:  Marco Fischer; Dörte Falke; Carolin Naujoks; R Gary Sawers
Journal:  J Bacteriol       Date:  2018-07-25       Impact factor: 3.490

6.  The Small Protein CydX Is Required for Cytochrome bd Quinol Oxidase Stability and Function in Salmonella enterica Serovar Typhimurium: a Phenotypic Study.

Authors:  Kieu Minh Duc; Bo Gyeong Kang; Choa Lee; Hee Jeong Park; Yoon Mee Park; Young Hee Joung; Iel Soo Bang
Journal:  J Bacteriol       Date:  2020-01-02       Impact factor: 3.490

7.  Functional importance of Glutamate-445 and Glutamate-99 in proton-coupled electron transfer during oxygen reduction by cytochrome bd from Escherichia coli.

Authors:  Ranjani Murali; Robert B Gennis
Journal:  Biochim Biophys Acta Bioenerg       Date:  2018-04-30       Impact factor: 3.991

8.  Two uptake hydrogenases differentially interact with the aerobic respiratory chain during mycobacterial growth and persistence.

Authors:  Paul R F Cordero; Rhys Grinter; Kiel Hards; Max J Cryle; Coral G Warr; Gregory M Cook; Chris Greening
Journal:  J Biol Chem       Date:  2019-10-17       Impact factor: 5.157

9.  Protein structure determination using metagenome sequence data.

Authors:  Sergey Ovchinnikov; Hahnbeom Park; Neha Varghese; Po-Ssu Huang; Georgios A Pavlopoulos; David E Kim; Hetunandan Kamisetty; Nikos C Kyrpides; David Baker
Journal:  Science       Date:  2017-01-20       Impact factor: 47.728

10.  Evolution of the cytochrome bd oxygen reductase superfamily and the function of CydAA' in Archaea.

Authors:  Ranjani Murali; Robert B Gennis; James Hemp
Journal:  ISME J       Date:  2021-06-18       Impact factor: 10.302

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