Literature DB >> 25778630

Substrate, product, and cofactor: The extraordinarily flexible relationship between the CDE superfamily and heme.

Arianna I Celis1, Jennifer L DuBois2.   

Abstract

PFam Clan 0032, also known as the CDE superfamily, is a diverse group of at least 20 protein families sharing a common α,β-barrel domain. Of these, six different groups bind heme inside the barrel's interior, using it alternately as a cofactor, substrate, or product. Focusing on these six, an integrated picture of structure, sequence, taxonomy, and mechanism is presented here, detailing how a single structural motif might be able to mediate such an array of functions with one of nature's most important small molecules.
Copyright © 2015 Elsevier Inc. All rights reserved.

Entities:  

Keywords:  Aldoxime dehydratase; Chlorite dismutase; EfeB; Heme; Heme biosynthesis; Heme oxygenase; IsdG

Mesh:

Substances:

Year:  2015        PMID: 25778630      PMCID: PMC4414885          DOI: 10.1016/j.abb.2015.03.004

Source DB:  PubMed          Journal:  Arch Biochem Biophys        ISSN: 0003-9861            Impact factor:   4.013


  91 in total

1.  Complete decolorization of the anthraquinone dye Reactive blue 5 by the concerted action of two peroxidases from Thanatephorus cucumeris Dec 1.

Authors:  Yasushi Sugano; Yuko Matsushima; Makoto Shoda
Journal:  Appl Microbiol Biotechnol       Date:  2006-08-30       Impact factor: 4.813

Review 2.  Dioxygen activation for the self-degradation of heme: reaction mechanism and regulation of heme oxygenase.

Authors:  Toshitaka Matsui; Mari Iwasaki; Ryota Sugiyama; Masaki Unno; Masao Ikeda-Saito
Journal:  Inorg Chem       Date:  2010-04-19       Impact factor: 5.165

3.  Discovery and Characterization of HemQ: an essential heme biosynthetic pathway component.

Authors:  Tamara A Dailey; Tye O Boynton; Angela-Nadia Albetel; Svetlana Gerdes; Michael K Johnson; Harry A Dailey
Journal:  J Biol Chem       Date:  2010-06-11       Impact factor: 5.157

4.  Peroxidase-type reactions suggest a heterolytic/nucleophilic O-O joining mechanism in the heme-dependent chlorite dismutase.

Authors:  Jeffrey A Mayfield; Béatrice Blanc; Kenton R Rodgers; Gudrun S Lukat-Rodgers; Jennifer L DuBois
Journal:  Biochemistry       Date:  2013-09-23       Impact factor: 3.162

5.  Crystal structures of dye-decolorizing peroxidase with ascorbic acid and 2,6-dimethoxyphenol.

Authors:  Toru Yoshida; Hideaki Tsuge; Toru Hisabori; Yasushi Sugano
Journal:  FEBS Lett       Date:  2012-11-15       Impact factor: 4.124

6.  Lignin-degrading peroxidases in Polyporales: an evolutionary survey based on 10 sequenced genomes.

Authors:  Francisco J Ruiz-Dueñas; Taina Lundell; Dimitrios Floudas; Laszlo G Nagy; José M Barrasa; David S Hibbett; Angel T Martínez
Journal:  Mycologia       Date:  2013-08-06       Impact factor: 2.696

7.  X-ray crystal structure of michaelis complex of aldoxime dehydratase.

Authors:  Hitomi Sawai; Hiroshi Sugimoto; Yasuo Kato; Yasuhisa Asano; Yoshitsugu Shiro; Shigetoshi Aono
Journal:  J Biol Chem       Date:  2009-09-08       Impact factor: 5.157

8.  A gene cluster for chlorate metabolism in Ideonella dechloratans.

Authors:  Helena Danielsson Thorell; Katarina Stenklo; Jan Karlsson; Thomas Nilsson
Journal:  Appl Environ Microbiol       Date:  2003-09       Impact factor: 4.792

9.  Inactivation of the heme degrading enzyme IsdI by an active site substitution that diminishes heme ruffling.

Authors:  Georgia Ukpabi; Shin-ichi J Takayama; A Grant Mauk; Michael E P Murphy
Journal:  J Biol Chem       Date:  2012-08-13       Impact factor: 5.157

10.  A dimeric chlorite dismutase exhibits O2-generating activity and acts as a chlorite antioxidant in Klebsiella pneumoniae MGH 78578.

Authors:  Arianna I Celis; Zachary Geeraerts; David Ngmenterebo; Melodie M Machovina; Richard C Kurker; Kumar Rajakumar; Anabella Ivancich; Kenton R Rodgers; Gudrun S Lukat-Rodgers; Jennifer L DuBois
Journal:  Biochemistry       Date:  2014-12-19       Impact factor: 3.162

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  19 in total

Review 1.  Making and breaking heme.

Authors:  Arianna I Celis; Jennifer L DuBois
Journal:  Curr Opin Struct Biol       Date:  2019-02-22       Impact factor: 6.809

2.  Structure-Based Mechanism for Oxidative Decarboxylation Reactions Mediated by Amino Acids and Heme Propionates in Coproheme Decarboxylase (HemQ).

Authors:  Arianna I Celis; George H Gauss; Bennett R Streit; Krista Shisler; Garrett C Moraski; Kenton R Rodgers; Gudrun S Lukat-Rodgers; John W Peters; Jennifer L DuBois
Journal:  J Am Chem Soc       Date:  2017-01-27       Impact factor: 15.419

Review 3.  Prokaryotic Heme Biosynthesis: Multiple Pathways to a Common Essential Product.

Authors:  Harry A Dailey; Tamara A Dailey; Svetlana Gerdes; Dieter Jahn; Martina Jahn; Mark R O'Brian; Martin J Warren
Journal:  Microbiol Mol Biol Rev       Date:  2017-01-25       Impact factor: 11.056

4.  Unusual Peroxide-Dependent, Heme-Transforming Reaction Catalyzed by HemQ.

Authors:  Arianna I Celis; Bennett R Streit; Garrett C Moraski; Ravi Kant; Timothy D Lash; Gudrun S Lukat-Rodgers; Kenton R Rodgers; Jennifer L DuBois
Journal:  Biochemistry       Date:  2015-06-23       Impact factor: 3.162

5.  Control of Metabolite Flux during the Final Steps of Heme b Biosynthesis in Gram-Positive Bacteria.

Authors:  Arianna I Celis; Jacob E Choby; James Kentro; Eric P Skaar; Jennifer L DuBois
Journal:  Biochemistry       Date:  2019-06-26       Impact factor: 3.162

6.  Heme catabolism in the causative agent of anthrax.

Authors:  Justin Clark; Austen Terwilliger; Chinh Nguyen; Sabrina Green; Chris Nobles; Anthony Maresso
Journal:  Mol Microbiol       Date:  2019-05-27       Impact factor: 3.501

7.  Roles of High-valent Hemes and pH Dependence in Halite Decomposition Catalyzed by Chlorite Dismutase from Dechloromonas aromatica.

Authors:  Zachary Geeraerts; Olivia R Stiller; Gudrun S Lukat-Rodgers; Kenton R Rodgers
Journal:  ACS Catal       Date:  2022-07-06       Impact factor: 13.700

8.  Chlorine redox chemistry is widespread in microbiology.

Authors:  Tyler P Barnum; John D Coates
Journal:  ISME J       Date:  2022-10-06       Impact factor: 11.217

9.  Exploring the Diversity of Fungal DyPs in Mangrove Soils to Produce and Characterize Novel Biocatalysts.

Authors:  Amal Ben Ayed; Geoffroy Saint-Genis; Laurent Vallon; Dolores Linde; Annick Turbé-Doan; Mireille Haon; Marianne Daou; Emmanuel Bertrand; Craig B Faulds; Giuliano Sciara; Martino Adamo; Roland Marmeisse; Sophie Comtet-Marre; Pierre Peyret; Danis Abrouk; Francisco J Ruiz-Dueñas; Cyril Marchand; Mylène Hugoni; Patricia Luis; Tahar Mechichi; Eric Record
Journal:  J Fungi (Basel)       Date:  2021-04-21

10.  Structure and reactivity of chlorite dismutase nitrosyls.

Authors:  Zachary Geeraerts; Alisa K Heskin; Jennifer DuBois; Kenton R Rodgers; Gudrun S Lukat-Rodgers
Journal:  J Inorg Biochem       Date:  2020-07-26       Impact factor: 4.155

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