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Literature DB >> 19897660

Identification and characterization of a novel member of the radical AdoMet enzyme superfamily and implications for the biosynthesis of the Hmd hydrogenase active site cofactor.

Shawn E McGlynn¹, Eric S Boyd, Eric M Shepard, Rachel K Lange, Robin Gerlach, Joan B Broderick, John W Peters.

Abstract

The genetic context, phylogeny, and biochemistry of a gene flanking the H(2)-forming methylene-H(4)-methanopterin dehydrogenase gene (hmdA), here designated hmdB, indicate that it is a new member of the radical S-adenosylmethionine enzyme superfamily. In contrast to the characteristic CX(3)CX(2)C or CX(2)CX(4)C motif defining this family, HmdB contains a unique CX(5)CX(2)C motif.

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Year: 2009 PMID： 19897660 PMCID： PMC2805320 DOI： 10.1128/JB.01125-09

Source DB: PubMed Journal: J Bacteriol ISSN： 0021-9193 Impact factor: 3.490

35 in total

Review 1. The Radical SAM Superfamily.

Authors: Perry A Frey; Adrian D Hegeman; Frank J Ruzicka
Journal: Crit Rev Biochem Mol Biol Date: 2008 Jan-Feb Impact factor: 8.250

2. [FeFe] hydrogenase genetic diversity provides insight into molecular adaptation in a saline microbial mat community.

Authors: Eric S Boyd; John R Spear; John W Peters
Journal: Appl Environ Microbiol Date: 2009-05-08 Impact factor: 4.792

3. HydF as a scaffold protein in [FeFe] hydrogenase H-cluster biosynthesis.

Authors: Shawn E McGlynn; Eric M Shepard; Mark A Winslow; Anatoli V Naumov; Kaitlin S Duschene; Matthew C Posewitz; William E Broderick; Joan B Broderick; John W Peters
Journal: FEBS Lett Date: 2008-05-22 Impact factor: 4.124

4. Hydrogenase cluster biosynthesis: organometallic chemistry nature's way.

Authors: Shawn E McGlynn; David W Mulder; Eric M Shepard; Joan B Broderick; John W Peters
Journal: Dalton Trans Date: 2009-03-30 Impact factor: 4.390

Review 5. Occurrence, classification, and biological function of hydrogenases: an overview.

Authors: Paulette M Vignais; Bernard Billoud
Journal: Chem Rev Date: 2007-10 Impact factor: 60.622

6. Reconstitution of ThiC in thiamine pyrimidine biosynthesis expands the radical SAM superfamily.

Authors: Abhishek Chatterjee; Yue Li; Yang Zhang; Tyler L Grove; Michael Lee; Carsten Krebs; Squire J Booker; Tadhg P Begley; Steven E Ealick
Journal: Nat Chem Biol Date: 2008-10-26 Impact factor: 15.040

7. ThiC is an [Fe-S] cluster protein that requires AdoMet to generate the 4-amino-5-hydroxymethyl-2-methylpyrimidine moiety in thiamin synthesis.

Authors: N Cecilia Martinez-Gomez; Diana M Downs
Journal: Biochemistry Date: 2008-08-08 Impact factor: 3.162

8. The crystal structure of [Fe]-hydrogenase reveals the geometry of the active site.

Authors: Seigo Shima; Oliver Pilak; Sonja Vogt; Michael Schick; Marco S Stagni; Wolfram Meyer-Klaucke; Eberhard Warkentin; Rudolf K Thauer; Ulrich Ermler
Journal: Science Date: 2008-07-25 Impact factor: 47.728

9. The crystal structure of C176A mutated [Fe]-hydrogenase suggests an acyl-iron ligation in the active site iron complex.

Authors: Takeshi Hiromoto; Kenichi Ataka; Oliver Pilak; Sonja Vogt; Marco Salomone Stagni; Wolfram Meyer-Klaucke; Eberhard Warkentin; Rudolf K Thauer; Seigo Shima; Ulrich Ermler
Journal: FEBS Lett Date: 2009-01-20 Impact factor: 4.124

10. Structural basis of tRNA modification with CO2 fixation and methylation by wybutosine synthesizing enzyme TYW4.

Authors: Yoko Suzuki; Akiko Noma; Tsutomu Suzuki; Ryuichiro Ishitani; Osamu Nureki
Journal: Nucleic Acids Res Date: 2009-03-14 Impact factor: 16.971

19 in total

1. C3'-Deoxygenation of Paromamine Catalyzed by a Radical S-Adenosylmethionine Enzyme: Characterization of the Enzyme AprD4 and Its Reductase Partner AprD3.

Authors: Hak Joong Kim; Jake LeVieux; Yu-Cheng Yeh; Hung-Wen Liu
Journal: Angew Chem Int Ed Engl Date: 2016-02-16 Impact factor: 15.336

2. Chemical and Biological Reduction of the Radical SAM Enzyme 7-Carboxy-7-deazaguanine [corrected] Synthase.

Authors: Nathan A Bruender; Anthony P Young; Vahe Bandarian
Journal: Biochemistry Date: 2015-05-01 Impact factor: 3.162

3. Cfr and RlmN contain a single [4Fe-4S] cluster, which directs two distinct reactivities for S-adenosylmethionine: methyl transfer by SN2 displacement and radical generation.

Authors: Tyler L Grove; Matthew I Radle; Carsten Krebs; Squire J Booker
Journal: J Am Chem Soc Date: 2011-11-18 Impact factor: 15.419

Identification and characterization of a novel member of the radical AdoMet enzyme superfamily and implications for the biosynthesis of the Hmd hydrogenase active site cofactor.

Review 1. The Radical SAM Superfamily.

2. [FeFe] hydrogenase genetic diversity provides insight into molecular adaptation in a saline microbial mat community.

3. HydF as a scaffold protein in [FeFe] hydrogenase H-cluster biosynthesis.

4. Hydrogenase cluster biosynthesis: organometallic chemistry nature's way.

Review 5. Occurrence, classification, and biological function of hydrogenases: an overview.

6. Reconstitution of ThiC in thiamine pyrimidine biosynthesis expands the radical SAM superfamily.

7. ThiC is an [Fe-S] cluster protein that requires AdoMet to generate the 4-amino-5-hydroxymethyl-2-methylpyrimidine moiety in thiamin synthesis.

8. The crystal structure of [Fe]-hydrogenase reveals the geometry of the active site.

9. The crystal structure of C176A mutated [Fe]-hydrogenase suggests an acyl-iron ligation in the active site iron complex.

10. Structural basis of tRNA modification with CO2 fixation and methylation by wybutosine synthesizing enzyme TYW4.

1. C3'-Deoxygenation of Paromamine Catalyzed by a Radical S-Adenosylmethionine Enzyme: Characterization of the Enzyme AprD4 and Its Reductase Partner AprD3.

2. Chemical and Biological Reduction of the Radical SAM Enzyme 7-Carboxy-7-deazaguanine [corrected] Synthase.

3. Cfr and RlmN contain a single [4Fe-4S] cluster, which directs two distinct reactivities for S-adenosylmethionine: methyl transfer by SN2 displacement and radical generation.

Review 4. Emerging themes in radical SAM chemistry.

Review 5. Radical S-adenosylmethionine enzymes.

6. Probing the origin of the metabolic precursor of the CO ligand in the catalytic center of [NiFe] hydrogenase.

Review 7. Glycyl radical activating enzymes: structure, mechanism, and substrate interactions.

Review 8. Radical S-adenosyl-L-methionine chemistry in the synthesis of hydrogenase and nitrogenase metal cofactors.

9. The catalytic mechanism for aerobic formation of methane by bacteria.

10. Mechanistic and functional versatility of radical SAM enzymes.