Literature DB >> 21438550

Structural analysis of a Ni-methyl species in methyl-coenzyme M reductase from Methanothermobacter marburgensis.

Peder E Cedervall1, Mishtu Dey, Xianghui Li, Ritimukta Sarangi, Britt Hedman, Stephen W Ragsdale, Carrie M Wilmot.   

Abstract

We present the 1.2 Å resolution X-ray crystal structure of a Ni-methyl species that is a proposed catalytic intermediate in methyl-coenzyme M reductase (MCR), the enzyme that catalyzes the biological formation of methane. The methyl group is situated 2.1 Å proximal of the Ni atom of the MCR coenzyme F(430). A rearrangement of the substrate channel has been posited to bring together substrate species, but Ni(III)-methyl formation alone does not lead to any observable structural changes in the channel.

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Year:  2011        PMID： 21438550      PMCID： PMC3086036          DOI： 10.1021/ja110492p

Source DB:  PubMed          Journal:  J Am Chem Soc        ISSN： 0002-7863            Impact factor:   15.419


  20 in total

1.  Comparison of three methyl-coenzyme M reductases from phylogenetically distant organisms: unusual amino acid modification, conservation and adaptation.

Authors:  W Grabarse; F Mahlert; S Shima; R K Thauer; U Ermler
Journal:  J Mol Biol       Date:  2000-10-20       Impact factor: 5.469

2.  Intermediates in the catalytic cycle of methyl coenzyme M reductase: isotope exchange is consistent with formation of a σ-alkane-nickel complex.

Authors:  Silvan Scheller; Meike Goenrich; Stefan Mayr; Rudolf K Thauer; Bernhard Jaun
Journal:  Angew Chem Int Ed Engl       Date:  2010-10-25       Impact factor: 15.336

3.  Mechanistic studies of methane biogenesis by methyl-coenzyme M reductase: evidence that coenzyme B participates in cleaving the C-S bond of methyl-coenzyme M.

Authors:  Y C Horng; D F Becker; S W Ragsdale
Journal:  Biochemistry       Date:  2001-10-30       Impact factor: 3.162

Review 4.  Biochemistry of methanogenesis: a tribute to Marjory Stephenson. 1998 Marjory Stephenson Prize Lecture.

Authors:  Rudolf K Thauer
Journal:  Microbiology (Reading)       Date:  1998-09       Impact factor: 2.777

5.  Crystal structure of methyl-coenzyme M reductase: the key enzyme of biological methane formation.

Authors:  U Ermler; W Grabarse; S Shima; M Goubeaud; R K Thauer
Journal:  Science       Date:  1997-11-21       Impact factor: 47.728

6.  On the mechanism of biological methane formation: structural evidence for conformational changes in methyl-coenzyme M reductase upon substrate binding.

Authors:  W Grabarse; F Mahlert; E C Duin; M Goubeaud; S Shima; R K Thauer; V Lamzin; U Ermler
Journal:  J Mol Biol       Date:  2001-05-25       Impact factor: 5.469

7.  Structural insight into methyl-coenzyme M reductase chemistry using coenzyme B analogues .

Authors:  Peder E Cedervall; Mishtu Dey; Arwen R Pearson; Stephen W Ragsdale; Carrie M Wilmot
Journal:  Biochemistry       Date:  2010-09-07       Impact factor: 3.162

8.  A mechanism from quantum chemical studies for methane formation in methanogenesis.

Authors:  Vladimir Pelmenschikov; Margareta R A Blomberg; Per E M Siegbahn; Robert H Crabtree
Journal:  J Am Chem Soc       Date:  2002-04-17       Impact factor: 15.419

9.  Catalysis by methyl-coenzyme M reductase: a theoretical study for heterodisulfide product formation.

Authors:  Vladimir Pelmenschikov; Per E M Siegbahn
Journal:  J Biol Inorg Chem       Date:  2003-05-01       Impact factor: 3.358

10.  Identification of methyl coenzyme M reductase A (mcrA) genes associated with methane-oxidizing archaea.

Authors:  Steven J Hallam; Peter R Girguis; Christina M Preston; Paul M Richardson; Edward F DeLong
Journal:  Appl Environ Microbiol       Date:  2003-09       Impact factor: 4.792
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  12 in total

1.  Elucidating the process of activation of methyl-coenzyme M reductase.

Authors:  Divya Prakash; Yonnie Wu; Sang-Jin Suh; Evert C Duin
Journal:  J Bacteriol       Date:  2014-04-25       Impact factor: 3.490

Review 2.  Structure, function, and biosynthesis of nickel-dependent enzymes.

Authors:  Marila Alfano; Christine Cavazza
Journal:  Protein Sci       Date:  2020-02-18       Impact factor: 6.725

3.  Natural selection based on coordination chemistry: computational assessment of [4Fe-4S]-maquettes with non-coded amino acids.

Authors:  Robert K Szilagyi; Rebecca Hanscam; Eric M Shepard; Shawn E McGlynn
Journal:  Interface Focus       Date:  2019-10-18       Impact factor: 3.906

Review 4.  Methane oxidation by anaerobic archaea for conversion to liquid fuels.

Authors:  Thomas J Mueller; Matthew J Grisewood; Hadi Nazem-Bokaee; Saratram Gopalakrishnan; James G Ferry; Thomas K Wood; Costas D Maranas
Journal:  J Ind Microbiol Biotechnol       Date:  2014-11-27       Impact factor: 3.346

5.  The reaction mechanism of methyl-coenzyme M reductase: how an enzyme enforces strict binding order.

Authors:  Thanyaporn Wongnate; Stephen W Ragsdale
Journal:  J Biol Chem       Date:  2015-02-17       Impact factor: 5.157

6.  XFEL serial crystallography reveals the room temperature structure of methyl-coenzyme M reductase.

Authors:  Christopher J Ohmer; Medhanjali Dasgupta; Anjali Patwardhan; Isabel Bogacz; Corey Kaminsky; Margaret D Doyle; Percival Yang-Ting Chen; Stephen M Keable; Hiroki Makita; Philipp S Simon; Ramzi Massad; Thomas Fransson; Ruchira Chatterjee; Asmit Bhowmick; Daniel W Paley; Nigel W Moriarty; Aaron S Brewster; Leland B Gee; Roberto Alonso-Mori; Frank Moss; Franklin D Fuller; Alexander Batyuk; Nicholas K Sauter; Uwe Bergmann; Catherine L Drennan; Vittal K Yachandra; Junko Yano; Jan F Kern; Stephen W Ragsdale
Journal:  J Inorg Biochem       Date:  2022-02-17       Impact factor: 4.155

7.  Mode of action uncovered for the specific reduction of methane emissions from ruminants by the small molecule 3-nitrooxypropanol.

Authors:  Evert C Duin; Tristan Wagner; Seigo Shima; Divya Prakash; Bryan Cronin; David R Yáñez-Ruiz; Stephane Duval; Robert Rümbeli; René T Stemmler; Rudolf Kurt Thauer; Maik Kindermann
Journal:  Proc Natl Acad Sci U S A       Date:  2016-05-02       Impact factor: 11.205

8.  Methyl (Alkyl)-Coenzyme M Reductases: Nickel F-430-Containing Enzymes Involved in Anaerobic Methane Formation and in Anaerobic Oxidation of Methane or of Short Chain Alkanes.

Authors:  Rudolf K Thauer
Journal:  Biochemistry       Date:  2019-04-05       Impact factor: 3.162

9.  Structural Insights into the Methane-Generating Enzyme from a Methoxydotrophic Methanogen Reveal a Restrained Gallery of Post-Translational Modifications.

Authors:  Julia Maria Kurth; Marie-Caroline Müller; Cornelia Ulrike Welte; Tristan Wagner
Journal:  Microorganisms       Date:  2021-04-14

10.  In vivo activation of methyl-coenzyme M reductase by carbon monoxide.

Authors:  Yuzhen Zhou; Alexandria E Dorchak; Stephen W Ragsdale
Journal:  Front Microbiol       Date:  2013-04-01       Impact factor: 5.640
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