Literature DB >> 24486374

Glycyl radical activating enzymes: structure, mechanism, and substrate interactions.

Krista A Shisler1, Joan B Broderick2.   

Abstract

The glycyl radical enzyme activating enzymes (GRE-AEs) are a group of enzymes that belong to the radical S-adenosylmethionine (SAM) superfamily and utilize a [4Fe-4S] cluster and SAM to catalyze H-atom abstraction from their substrate proteins. GRE-AEs activate homodimeric proteins known as glycyl radical enzymes (GREs) through the production of a glycyl radical. After activation, these GREs catalyze diverse reactions through the production of their own substrate radicals. The GRE-AE pyruvate formate lyase activating enzyme (PFL-AE) is extensively characterized and has provided insights into the active site structure of radical SAM enzymes including GRE-AEs, illustrating the nature of the interactions with their corresponding substrate GREs and external electron donors. This review will highlight research on PFL-AE and will also discuss a few GREs and their respective activating enzymes.
Copyright © 2014. Published by Elsevier Inc.

Entities:  

Keywords:  Glycyl radical enzyme (GRE); Glycyl radical enzyme activating enzyme (GRE–AE); Pyruvate formate lyase activating enzyme (PFL-AE); Radical S-adenosylmethionine (SAM) enzyme

Mesh:

Substances:

Year:  2014        PMID: 24486374      PMCID: PMC4083501          DOI: 10.1016/j.abb.2014.01.020

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


  83 in total

1.  Crystal structure of biotin synthase, an S-adenosylmethionine-dependent radical enzyme.

Authors:  Frederick Berkovitch; Yvain Nicolet; Jason T Wan; Joseph T Jarrett; Catherine L Drennan
Journal:  Science       Date:  2004-01-02       Impact factor: 47.728

2.  Insight into the mechanism of the B12-independent glycerol dehydratase from Clostridium butyricum: preliminary biochemical and structural characterization.

Authors:  Jessica Rae O'Brien; Celine Raynaud; Christian Croux; Laurence Girbal; Philippe Soucaille; William N Lanzilotta
Journal:  Biochemistry       Date:  2004-04-27       Impact factor: 3.162

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Journal:  Biochem Biophys Res Commun       Date:  1976-08-23       Impact factor: 3.575

4.  Catalytic-site mapping of pyruvate formate lyase. Hypophosphite reaction on the acetyl-enzyme intermediate affords carbon-phosphorus bond synthesis (1-hydroxyethylphosphonate).

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Journal:  Eur J Biochem       Date:  1988-12-15

Review 5.  Pyruvate formate-lyase mechanism involving the protein-based glycyl radical.

Authors:  J Knappe; S Elbert; M Frey; A F Wagner
Journal:  Biochem Soc Trans       Date:  1993-08       Impact factor: 5.407

6.  Post-translational activation introduces a free radical into pyruvate formate-lyase.

Authors:  J Knappe; F A Neugebauer; H P Blaschkowski; M Gänzler
Journal:  Proc Natl Acad Sci U S A       Date:  1984-03       Impact factor: 11.205

7.  Routes of flavodoxin and ferredoxin reduction in Escherichia coli. CoA-acylating pyruvate: flavodoxin and NADPH: flavodoxin oxidoreductases participating in the activation of pyruvate formate-lyase.

Authors:  H P Blaschkowski; G Neuer; M Ludwig-Festl; J Knappe
Journal:  Eur J Biochem       Date:  1982-04

8.  Subunit composition of the glycyl radical enzyme p-hydroxyphenylacetate decarboxylase. A small subunit, HpdC, is essential for catalytic activity.

Authors:  Paula I Andrei; Antonio J Pierik; Stefan Zauner; Luminita C Andrei-Selmer; Thorsten Selmer
Journal:  Eur J Biochem       Date:  2004-06

Review 9.  Structure, function, and mechanism of ribonucleotide reductases.

Authors:  Matthias Kolberg; Kari R Strand; Pål Graff; K Kristoffer Andersson
Journal:  Biochim Biophys Acta       Date:  2004-06-01

10.  Escherichia coli lipoyl synthase binds two distinct [4Fe-4S] clusters per polypeptide.

Authors:  Robert M Cicchillo; Kyung-Hoon Lee; Camelia Baleanu-Gogonea; Natasha M Nesbitt; Carsten Krebs; Squire J Booker
Journal:  Biochemistry       Date:  2004-09-21       Impact factor: 3.162

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  35 in total

1.  The ferredoxin-like domain of the activating enzyme is required for generating a lasting glycyl radical in 4-hydroxyphenylacetate decarboxylase.

Authors:  Brinda Selvaraj; Antonio J Pierik; Eckhard Bill; Berta M Martins
Journal:  J Biol Inorg Chem       Date:  2014-08-26       Impact factor: 3.358

2.  Structures of benzylsuccinate synthase elucidate roles of accessory subunits in glycyl radical enzyme activation and activity.

Authors:  Michael A Funk; Evan T Judd; E Neil G Marsh; Sean J Elliott; Catherine L Drennan
Journal:  Proc Natl Acad Sci U S A       Date:  2014-06-30       Impact factor: 11.205

3.  Structure and Function of CutC Choline Lyase from Human Microbiota Bacterium Klebsiella pneumoniae.

Authors:  Gints Kalnins; Janis Kuka; Solveiga Grinberga; Marina Makrecka-Kuka; Edgars Liepinsh; Maija Dambrova; Kaspars Tars
Journal:  J Biol Chem       Date:  2015-07-17       Impact factor: 5.157

4.  Crystallographic capture of a radical S-adenosylmethionine enzyme in the act of modifying tRNA.

Authors:  Erica L Schwalm; Tyler L Grove; Squire J Booker; Amie K Boal
Journal:  Science       Date:  2016-04-15       Impact factor: 47.728

5.  The Chemistry of Gut Microbial Metabolism of Polyphenols.

Authors:  Jan F Stevens; Claudia S Maier
Journal:  Phytochem Rev       Date:  2016-03-11       Impact factor: 5.374

Review 6.  Prokaryotic Organelles: Bacterial Microcompartments in E. coli and Salmonella.

Authors:  Katie L Stewart; Andrew M Stewart; Thomas A Bobik
Journal:  EcoSal Plus       Date:  2020-10

7.  Restriction of S-adenosylmethionine conformational freedom by knotted protein binding sites.

Authors:  Agata P Perlinska; Adam Stasiulewicz; Ewa K Nawrocka; Krzysztof Kazimierczuk; Piotr Setny; Joanna I Sulkowska
Journal:  PLoS Comput Biol       Date:  2020-05-26       Impact factor: 4.475

8.  Two radical-dependent mechanisms for anaerobic degradation of the globally abundant organosulfur compound dihydroxypropanesulfonate.

Authors:  Jiayi Liu; Yifeng Wei; Lianyun Lin; Lin Teng; Jinyu Yin; Qiang Lu; Jiawei Chen; Yuchun Zheng; Yaxin Li; Runyao Xu; Weixiang Zhai; Yangping Liu; Yanhong Liu; Peng Cao; Ee Lui Ang; Huimin Zhao; Zhiguang Yuchi; Yan Zhang
Journal:  Proc Natl Acad Sci U S A       Date:  2020-06-22       Impact factor: 11.205

9.  Radical SAM catalysis via an organometallic intermediate with an Fe-[5'-C]-deoxyadenosyl bond.

Authors:  Masaki Horitani; Krista Shisler; William E Broderick; Rachel U Hutcheson; Kaitlin S Duschene; Amy R Marts; Brian M Hoffman; Joan B Broderick
Journal:  Science       Date:  2016-05-12       Impact factor: 47.728

10.  Density functional theory calculations on the active site of biotin synthase: mechanism of S transfer from the Fe(2)S(2) cluster and the role of 1st and 2nd sphere residues.

Authors:  Atanu Rana; Subal Dey; Amita Agrawal; Abhishek Dey
Journal:  J Biol Inorg Chem       Date:  2015-09-14       Impact factor: 3.358

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