Publications

2024

Journal Article

Gehl, M.; Demmer, U.; Ermler, U.; Shima, S.: Mutational and structural studies of (βα)8-barrel fold methylene-tetrahydropterin reductases utilizing a common catalytic mechanism. Protein Science 33 (6), e5018 (2024)

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Journal Article

Aziz, I.; Kayastha, K.; Kaltwasser, S.; Vonck, J.; Welsch, S.; Murphy, B. J.; Kahnt, J.; Wu, D.; Wagner, T.; Shima, S. et al.; Ermler, U.: Structural and mechanistic basis of the central energy-converting methyltransferase complex of methanogenesis. Proceedings of the National Academy of Sciences of the United States of America 121 (14), e2315568121 (2024)

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Journal Article

Nomura, S.; Paczia, N.; Kahnt, J.; Shima, S.: Isolation of an H₂-dependent electron-bifurcating CO₂-reducing megacomplex with MvhB polyferredoxin from Methanothermobacter marburgensis. The FEBS Journal 291 (11), pp. 2449 - 2460 (2024)

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Journal Article

Schaupp, S.; Arriaza-Gallardo, F. J.; Paczia, N.; Ataka, K.; Shima, S.: Acyl and CO ligands in the [Fe]-hydrogenase cofactor scramble upon photolysis. Angewandte Chemie International Edition 63 (6), e202316478 (2024)

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DOI

2023

Review Article

Arriaza-Gallardo, F. J.; Zheng, Y.-C.; Gehl, M.; Nomura, S.; Queiroz, F.; Pedro, J.; Shima, S.: [Fe]-hydrogenase, cofactor biosynthesis and engineering. Chembiochem 24 (20), e202300330 (2023)

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Preprint

Kaltschnee, L.; Pravdivtsev, A. N.; Gehl, M.; Huang, G.; Stoychev, G. L.; Riplinger, C.; Keitel, M.; Neese, F.; Hövener, J.-B.; Auer, A. A. et al.; Griesinger, C.; Shima, S.; Glöggler, S.: Sensitivity-enhanced magnetic resonance reveals hydrogen intermediates during active [Fe]-hydrogenase catalysis. bioRxiv: the preprint server for biology, 2023.05.10.540199 (2023)

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Journal Article

Gehl, M.; Demmer, U.; Ermler, U.; Shima, S.: Crystal structure of FAD-independent methylene-tetrahydrofolate reductase from Mycobacterium hassiacum. Proteins: Structure, Function, and Bioinformatics 91, pp. 1329 - 1340 (2023)

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DOI

Journal Article

Sakai, Y.; Yurimoto, H.; Shima, S.: Methane monooxygenases; physiology, biochemistry and structure. Catalysis Science & Technology 13 (22), pp. 6342 - 6354 (2023)

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DOI

2022

Journal Article

Arriaza-Gallardo, F. J.; Schaupp, S.; Zheng, Y.-C.; Abdul-Halim, M. F.; Hui-Jie, P.; Kahnt, J.; Angelidou, G.; Paczia, N.; Hu, X.; Costa, K. et al.; Shima, S.: The function of two radical-SAM enzymes, HcgA and HcgG, in the biosynthesis of the [Fe]-hydrogenase cofactor. Angewandte Chemie, International Edition in English 61 (50), e202213239 (2022)

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Journal Article

Schaupp, S.; Arriaza Gallardo, F. J.; Pan, H. J.; Kahnt, J.; Angelidou, G.; Paczia, N.; Costa, K.; Hu, X.; Shima, S.: In vitro biosynthesis of the [Fe]-hydrogenase cofactor verifies the proposed biosynthetic precursors. Angewandte Chemie, International Edition in English 61 (22), e202200994 (2022)

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Journal Article

Watanabe, T.; Shima, S.: A enzyme complex of methanogenic electron-bifurcating and CO₂-fixing enzymes. Bioscience & Industry 80 (2), pp. 122 - 123 (2022)

MPG.PuRe

2021

Journal Article

Roux, A.; Talon, R.; Alsalman, Z.; Engilberge, S.; D’Aléo, A.; Di Pietro, S.; Robin, A.; Bartocci, A.; Pilet, G.; Dumont, E. et al.; Wagner, T.; Shima, S.; Riobé, F.; Girard, E.; Maury, O.: Influence of divalent cations in the protein crystallization process assisted by lanthanide-based additives. Inorganic Chemistry 60 (20), pp. 15208 - 15214 (2021)

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Journal Article

Pan, H.-J.; Huang, G.; Wodrich, M. D.; Tirani, F. F.; Ataka, K.; Shima, S.; Hu, X.: Diversifying metal-ligand cooperative catalysis in semi-synthetic [Mn]-hydrogenases. Angewandte Chemie International Edition 60 (24), pp. 13350 - 13357 (2021)

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Other

Shima, S.; Thauer, R. K.: Methanothermobacter — Biokatalysator für die Energiewende, Biospektrum 27, pp. 14 - 17 (2021)

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Journal Article

Watanabe, T.; Pfeil-Gardiner, O.; Kahnt, J.; Koch, J.; Shima, S.; Murphy, B. J.: Three-megadalton complex of methanogenic electron-bifurcating and CO₂-fixing enzymes. Science 373 (6559), pp. 1151 - 1155 (2021)

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Journal Article

Watanabe, T.; Shima, S.: MvhB-type polyferredoxin as an electron-transfer chain in putative redox-enzyme complexes. Chemistry Letters 50 (2), pp. 353 - 360 (2021)

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2020

Journal Article

Shima, S.; Huang, G.; Wagner, T.; Ermler, U.: Structural Basis of Hydrogenotrophic Methanogenesis. Annual Review of Microbiology 74, pp. 713 - 733 (2020)

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Journal Article

Engilberge, S.; Wagner, T.; Carpentier, P.; Girard, E.; Shima, S.: Krypton-derivatization highlights O₂-channeling in a four-electron reducing oxidase. Chemical Communications 56, pp. 10863 - 10866 (2020)

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DOI

publisher-version

Journal Article

Huang, G.; Wagner, T.; Demmer, U.; Warkentin, E.; Ermler, U.; Shima, S.: The Hydride Transfer Process in NADP-dependent Methylene-tetrahydromethanopterin Dehydrogenase. Journal of Molecular Biology (London) 432 (7), pp. 2042 - 2054 (2020)

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Journal Article

Huang, G.; Wagner, T.; Ermler, U.; Shima, S.: Methanogenesis involves direct hydride transfer from H₂ to an organic substrate. Nature Reviews Chemistry 4 (2), pp. 213 - 221 (2020)

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Journal Article

Engilberge, S.; Wagner, T.; Carpentier, P.; Girard, E.; Shima, S.: Krypton-derivatization highlights O-2-channeling in a four-electron reducing oxidase. CHEMICAL COMMUNICATIONS 56 (74), pp. 10863 - 10866 (2020)

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Journal Article

Huang, G.; Arriaza Gallardo, F. J.; Wagner, T.; Shima, S.: Crystal structures of [Fe]-hydrogenase from Methanolacinia paynteri suggest a path of the FeGP-cofactor incorporation process. Inorganics 8 (9), 50 (2020)

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publisher-version

2019

Journal Article

Hemmann, J. L.; Wagner, T.; Shima, S.; Vorholt, J. A.: Methylofuran is a prosthetic group of the formyltransferase/hydrolase complex and shuttles one-carbon units between two active sites. Proceedings of the National Academy of Sciences of the United States of America 116 (51), pp. 25583 - 25590 (2019)

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Journal Article

Watanabe, T.; Wagner, T.; Huang, G.; Kahnt, J.; Ataka, K.; Ermler, U.; Shima, S.: The Bacterial [Fe]‐Hydrogenase Paralog HmdII Uses Tetrahydrofolate Derivatives as Substrates. Angewandte Chemie International Edition in English 58 (11), pp. 3506 - 3510 (2019)

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DOI

Journal Article

Engilberge, S.; Wagner, T.; Santoni, G.; Breyton, C.; Shima, S.; Franzetti, B.; Riobe, F.; Maury, O.; Girard, E.: Protein crystal structure determination with the crystallophore, a nucleating and phasing agent. JOURNAL OF APPLIED CRYSTALLOGRAPHY 52, pp. 722 - 731 (2019)

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DOI

Journal Article

Huang, G.; Wagner, T.; Wodrich, M. D.; Ataka, K.; Bill, E.; Ermler, U.; Hu, X.; Shima, S.: The atomic-resolution crystal structure of activated [Fe]-hydrogenase. Nature Catalysis 2 (6), pp. 537 - 543 (2019)

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Journal Article

Ilina, Y.; Lorent, C.; Katz, S.; Jeoung, J.-H.; Shima, S.; Horch, M.; Zebger, I.; Dobbek, H.: X-ray Crystallography and Vibrational Spectroscopy Reveal the Key Determinants of Biocatalytic Dihydrogen Cycling by [NiFe] Hydrogenases. ANGEWANDTE CHEMIE-INTERNATIONAL EDITION 58 (51), pp. 18710 - 18714 (2019)

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Journal Article

Pan, H.-J.; Huang, G.; Wodrich, M. D.; Tirani, F. F.; Ataka, K.; Shima, S.; Hu, X.: A catalytically active [Mn]-hydrogenase incorporating a non-native metal cofactor. NATURE CHEMISTRY 11 (7), pp. 669 - 675 (2019)

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DOI

Journal Article

Voegeli, B.; Shima, S.; Erb, T. J.; Wagner, T.: Crystal structure of archaeal HMG-CoA reductase: insights into structural changes of the C-terminal helix of the class-I enzyme. FEBS LETTERS 593 (5), pp. 543 - 553 (2019)

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DOI

2018

Journal Article

Berhardsgrütter, I.; Vögeli, B.; Wagner, T.; Peter, D.; Cortina, N. S.; Kahnt, J.; Bange, G.; Engilberge, S.; Girard, E.; Riobe, F. et al.; Maury, O.; Shima, S.; Zarzycki, J.; Erb, T. J.: The multicatalytic compartment of propionyl-CoA synthase sequesters a toxic metabolite. NATURE CHEMICAL BIOLOGY 14 (12), p. 1127 (2018)

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DOI

Journal Article

Wagner, T.; Huang, G.; Ermler, U.; Shima, S.: How [Fe]-Hydrogenase from Methanothermobacter is Protected Against Light and Oxidative Stress. ANGEWANDTE CHEMIE-INTERNATIONAL EDITION 57 (46), pp. 15056 - 15059 (2018)

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DOI

Journal Article

Vögeli, B.; Rosenthal, R.; Stoffel, G.; Wagner, T.; Kiefer, P.; Cortina, N. S.; Shima, S.; Erb, T. J.: InhA, the enoyl-thioester reductase from Mycobacterium tuberculosis forms a covalent adduct during catalysis. JOURNAL OF BIOLOGICAL CHEMISTRY 293 (44), pp. 17200 - 17207 (2018)

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DOI

Journal Article

Engilberge, S.; Riobe, F.; Wagner, T.; Di Pietro, S.; Breyton, C.; Franzetti, B.; Shima, S.; Girard, E.; Dumont, E.; Maury, O.: Unveiling the Binding Modes of the Crystallophore, a Terbium-based Nucleating and Phasing Molecular Agent for Protein Crystallography. CHEMISTRY-A EUROPEAN JOURNAL 24 (39), pp. 9739 - 9746 (2018)

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DOI

Journal Article

Huang, G.; Wagner, T.; Ermler, U.; Bill, E.; Ataka, K.; Shima, S.: Dioxygen Sensitivity of [Fe]-Hydrogenase in the Presence of Reducing Substrates. ANGEWANDTE CHEMIE-INTERNATIONAL EDITION 57 (18), pp. 4917 - 4920 (2018)

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DOI

Journal Article

Vögeli, B.; Engilberge, S.; Girard, E.; Riobe, F.; Maury, O.; Erb, T. J.; Shima, S.; Wagner, T.: Archaeal acetoacetyl-CoA thiolase/HMG-CoA synthase complex channels the intermediate via a fused CoA-binding site. PROCEEDINGS OF THE NATIONAL ACADEMY OF SCIENCES OF THE UNITED STATES OF AMERICA 115 (13), pp. 3380 - 3385 (2018)

MPG.PuRe

DOI

Book Chapter

Wagner, T.; Ermler, U.; Shima, S.: Tungsten-containing formylmethanofuran dehydrogenas. In: Encyclopedia of Inorganic and Bioinorganic Chemistry (online) (Ed. Messerschmidt, A.). John Wiley and Sons, Inc. (2018)

MPG.PuRe

Book Chapter

Wagner, T.; Watanabe, T.; Shima, S.: Hydrogenotrophic methanogenesis. In: Handbook of Hydrocarbon and Lipid Microbiology Series. Biogenesis of Hydrocarbons (Eds. Stams, A. J. M.; Sousa, D. Z.). Springer, Germany (2018)

MPG.PuRe

2017

Journal Article

Bai, L.; Wagner, T.; Xu, T.; Hu, X.; Ermler, U.; Shima, S.: A Water-Bridged H-Bonding Network Contributes to the Catalysis of the SAM-Dependent C-Methyltransferase HcgC. Angewandte Chemie International Edition 56 (36), pp. 10806 - 10809 (2017)

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DOI

Journal Article

Wagner, T.; Koch, J.; Ermler, U.; Shima, S.: Methanogenic heterodisulfide reductase (HdrABC-MvhAGD) uses two noncubane [4Fe-4S] clusters for reduction. Science 357 (6352), pp. 699 - 702 (2017)

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DOI

Journal Article

Wagner, T.; Wegner, C.; Kahnt, J.; Ermler, U.; Shima, S.: Phylogenetic and Structural Comparisons of the Three Types of Methyl Coenzyme M Reductase from Methanococcales and Methanobacteriales. Journal of Bacteriology 199 (16), UNSP e00197-17 (2017)

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DOI

Journal Article

Rosenthal, R.; Vogeli, B.; Wagner, T.; Shima, S.; Erb, T.: A conserved threonine prevents self-intoxication of enoyl-thioester reductases. Nature Chemical Biology 13 (7), pp. 745 - 749 (2017)

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DOI

Journal Article

Bai, L.; Fujishiro, T.; Huang, G.; Koch, J.; Takabayashi, A.; Yokono, M.; Tanaka, A.; Xu, T.; Hu, X.; Ermler, U. et al.; Shima, S.: Towards artificial methanogenesis: biosynthesis of the [Fe]-hydrogenase cofactor and characterization of the semisynthetic hydrogenase. Faraday Discussions 198, pp. 37 - 58 (2017)

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DOI

Journal Article

Wang, M.; Artero, V.; Hammarstrom, L.; Martinez, J.; Karlsson, J.; Gust, D.; Summers, P.; Machan, C.; Brueggeller, P.; Windle, C. et al.; Kageshima, Y.; Cogdell, R.; Tolod, K.; Kibler, A.; Apaydin, D.; Fujita, E.; Ehrmaier, J.; Shima, S.; Gibson, E.; Karadas, F.; Harriman, A.; Inoue, H.; Kudo, A.; Takayama, T.; Wasielewski, M.; Cassiola, F.; Yagi, M.; Ishida, H.; Franco, F.; Kang, S.; Nocera, D.; Li, C.; Di Fonzo, F.; Park, H.; Sun, L.; Setoyama, T.; Kang, Y.; Ishitani, O.; Shen, J.; Son, H.; Masaoka, S.: Molecular catalysts for artificial photosynthesis: general discussion. Faraday Discussions 198, pp. 353 - 395 (2017)

MPG.PuRe

Book Chapter

Scheller, S.; Ermler, U.; Shima, S.: Catabolic Pathways and Enzymes Involved in Anaerobic Methane Oxidation. In: Anaerobic Utilization of Hydrocarbons, Oils, and Lipids, in: Handbook of Hydrocarbon and Lipid Microbiology (Ed. Boll, M.). Springer (2017)

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DOI

Book Chapter

Shima, S.: Methanogenic metabolisms. In: Archaea Biology (Eds. Ishino, Y.; Atomi, H.). Kyoritsu-Shuppan (2017)

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Book Chapter

Shima, S.: Catabolic pathways & enzymes involved in the anaerobic oxidation of methane. In: 6-volume Handbook of Hydrocarbon and Lipid Microbiology (Ed. Boll, M.). Springer (2017)

MPG.PuRe

2016

Journal Article

Wagner, T.; Ermler, U.; Shima, S.: The methanogenic CO₂ reducing-and-fixing enzyme is bifunctional and contains 46 [4Fe-4S] clusters. Science 354 (6308 Sp. Iss. SI), pp. 114 - 117 (2016)

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DOI

Journal Article

Shima, S.: The Biological Methane-Forming Reaction: Mechanism Confirmed Through Spectroscopic Characterization of a Key Intermediate. Angewandte Chemie, International Edition in English 55 (44), pp. 13648 - 13649 (2016)

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DOI

Journal Article

Upadhyay, V.; Ceh, K.; Tumulka, F.; Abele, R.; Hoffmann, J.; Langer, J.; Shima, S.; Ermler, U.: Molecular characterization of methanogenic N-5-methyl-tetrahydromethanopterin: Coenzyme M methyltransferase. Biochimica et Biophysica Acta-Biomembranes 1858 (9), pp. 2140 - 2144 (2016)

MPG.PuRe

Journal Article

Wagner, T.; Kahnt, J.; Ermler, U.; Shima, S.: Didehydroaspartate Modification in Methyl-CoenzymeM Reductase Catalyzing Methane Formation. Angewandte Chemie-International Edition 55 (36), pp. 10630 - 10633 (2016)

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DOI

Journal Article

Fujishiro, T.; Bai, L.; Xu, T.; Xie, X.; Schick, M.; Kahnt, J.; Rother, M.; Hu, X.; Ermler, U.; Shima, S.: Identification of HcgC as a SAM-Dependent Pyridinol Methyltransferase in [Fe]-Hydrogenase Cofactor Biosynthesis. Angewandte Chemie International Edition 55 (33), pp. 9648 - 9651 (2016)

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DOI

Journal Article

Wagner, T.; Ermler, U.; Shima, S.: MtrA of the sodium ion pumping methyltransferase binds cobalamin in a unique mode. Scientific Reports 6, 28226 (2016)

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DOI

Journal Article

Duin, E.C.; Wagner, T.; Shima, S.; Prakash, D.; Cronin, B.; Yanez-Ruiz, D.R.; Duval, S.; Rümbeli, R.; Stemmler, R.T.; Thauer, R.K. et al.; Kindermann, M.: Mode of action uncovered for the specific reduction of methane emissions from ruminants by the small molecule 3-nitrooxypropanol. Proceedings of the National Academy of Sciences of the United States of America 113 (22), pp. 6172 - 6177 (2016)

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DOI

Journal Article

Shima, S.; Fujishiro, T.: Identification of the biosynthetic enzymes of the [Fe]-hydrogenase cofactor based on the crystal structure of the proteins. Kouso-Kogaku News 76, pp. 26 - 30 (2016)

MPG.PuRe

2015

Journal Article

Shima, S.; Chen, D.; Xu, T.; Wodrich, M. D.; Fujishiro, T.; Schultz, K. M.; Kahnt, J.; Ataka, K.; Hu, X.: Reconstitution of [Fe]-hydrogenase using model complexes. Nature Chemistry 7 (12), pp. 995 - 1002 (2015)

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DOI

Journal Article

Hidese, R.; Ataka, K.; Bill, E.; Shima, S.: Cu^I and H₂O₂ inactivate and Fe^II inhibits [Fe]-hydrogenase at very low concentrations. ChemBioChem: A European Journal of Chemical Biology 16 (13), pp. 1861 - 1865 (2015)

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DOI

Journal Article

Fujishiro, T.; Ataka, K.; Ermler, U.; Shima, S.: Towards a functional identification of catalytically inactive [Fe]-hydrogenase paralogs. The FEBS Journal 282 (17), pp. 3412 - 3423 (2015)

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DOI

Journal Article

Fujishiro, T.; Kahnt, J.; Ermler, U.; Shima, S.: Protein-pyridinol thioester precursor for biosynthesis of the organometallic acyl-iron ligand in [Fe]-hydrogenase cofactor. Nature Communications 6, 6895 (2015)

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DOI

Journal Article

Shima, S.: An energy metabolism under anoxic conditions: Enzyme chemistry of methanogenesis. Kagakutokogyo (68), pp. 706 - 708 (2015)

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Book Chapter

Shima, S.; Fujishiro, T.; Ermler, U.: Structure and function of [Fe]-hydrogenase and biosynthesis of the FeGP cofactor. In: Biohydrogen, pp. 127 - 144. De Gruyter, Berlin / Munich /Boston (2015)

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DOI

2014

Journal Article

Kojima, H.; Moll, J.; Kahnt, J.; Fukui, M.; Shima, S.: A reversed genetic approach reveals the coenzyme specificity and other catalytic properties of three enzymes putatively involved in anaerobic oxidation of methane with sulfate. Environmental Microbiology 16 (11 Sp. Iss. SI), pp. 3431 - 3442 (2014)

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DOI

Journal Article

Fujishiro, T.; Ermler, U.; Shima, S.: A possible iron delivery function of the dinuclear iron center of HcgD in [Fe]-hydrogenase cofactor biosynthesis. FEBS Letters 588 (17), pp. 2789 - 2793 (2014)

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DOI

Journal Article

Fujishiro, T.; Tamura, H.; Schick, M.; Kahnt, J.; Xie, X.; Ermler, U.; Shima, S.: Identification of the Hcg enzymes in biosynthesis of [Fe]-hydrogenase cofactor by a structural genomics-based approach. Journal of Biological Inorganic Chemistry 19 (Suppl. 2), p. S767 - S767 (2014)

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Journal Article

Vitt, S.; Ma, K.; Warkentin, E.; Moll, J.; Pierik, A. J.; Shima, S.; Ermler, U.: The F₄₂₀-Reducing [NiFe]-Hydrogenase Complex from Methanothermobacter marburgensis, the First X-ray Structure of a Group 3 Family Member. Journal of Molecular Biology (London) 426 (15), pp. 2813 - 2826 (2014)

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DOI

Journal Article

Kaneko, M.; Takano, Y.; Chikaraishi, Y.; Ogawa, N.; Asakawa, S.; Watanabe, T.; Shima, S.; Kruger, M.; Matsushita, M.; Kimura, H. et al.; Ohkouchi, N.: Quantitative Analysis of Coenzyme F430 in Environmental Samples: A New Diagnostic Tool for Methanogenesis and Anaerobic Methane Oxidation. Analytical Chemistry 86 (7), pp. 3633 - 3638 (2014)

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DOI

Journal Article

Fujishiro, T.; Tamura, H.; Schick, M.; Kahnt, J.; Shima, S.; Xie, X.; Ermler, U.; Shima, S.: Biochemical and X-ray crystal structure analyses of Hcg proteins involved in biosynthesis of the FeGP cofactor of [Fe]-hydrogenase. Journal of Biological Inorganic Chemistry 19 (Suppl. 1), p. S223 - S223 (2014)

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Journal Article

Fujishiro, T.; Shima, S.: Functional analysis based on tertiary structure of proteins. Seibutsukougakukaishi (92), 676 (2014)

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Journal Article

Shima, S.: Enzyme chemistry of methanogenesis and anaerobic oxidation of methane. Kagakutoseibutsu 52, pp. 307 - 312 (2014)

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Book Chapter

Shima, S.: Life under anaerobic conditions: Enzymes involved in hydrogenotrophic methanogenesis. In: Biomolecules under Extreme Environments, pp. 83 - 88 (Ed. The Chemical Society of Japan). Kagakudojin, Kyoto, Japan. (2014)

MPG.PuRe

2013

Journal Article

Fujishiro, T.; Tamura, H.; Schick, M.; Kahnt, J.; Xie, X. L.; Ermler, U.; Shima, S.: Identification of the HcgB Enzyme in [Fe]-Hydrogenase-Cofactor Biosynthesis. Angewandte Chemie, International Edition in English 52 (48), pp. 12555 - 12558 (2013)

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DOI

Journal Article

Tamura, H.; Salomone-Stagni, M.; Fujishiro, T.; Warkentin, E.; Meyer-Klaucke, W.; Ermler, U.; Shima, S.: Crystal Structures of [Fe]-Hydrogenase in Complex with Inhibitory Isocyanides: Implications for the H₂-Activation Site. Angewandte Chemie-International Edition 52 (37), pp. 9656 - 9659 (2013)

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Journal Article

Takano, Y.; Kaneko, M.; Kahnt, J.; Imachi, H.; Shima, S.; Ohkouchi, N.: Detection of coenzyme F430 in deep sea sediments: A key molecule for biological methanogenesis. Organic Geochemistry 58, pp. 137 - 140 (2013)

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Journal Article

Mills, D. J.; Vitt, S.; Strauss, M.; Shima, S.; Vonck, J.: De novo modeling of the F₄₂₀-reducing [NiFe]-hydrogenase from a methanogenic archaeon by cryo-electron microscopy. eLife 2, e00218 (2013)

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DOI

Journal Article

Milucka, J.; Widdel, F.; Shima, S.: Immunological detection of enzymes for sulfate reduction in anaerobic methane-oxidizing consortia. Environmental Microbiology (15), pp. 1561 - 1571 (2013)

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DOI

2012

Journal Article

Upadhyay, V.; Demmer, U.; Warkentin, E.; Moll, J.; Shima, S.; Ermler, U.: Structure and Catalytic Mechanism of N-5,N-10-Methenyltetrahydromethanopterin Cyclohydrolase. Biochemistry 51 (42), pp. 8435 - 8443 (2012)

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Journal Article

Shima, S.; Ermler, U.: Crystal structure and biochemistry of methyl-coenzyme M reductase from Black Sea mats mediating anaerobic oxidation of methane. Biseibutsu Seitai 27, pp. 55 - 62 (2012)

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Journal Article

Schick, M.; Xie, X. L.; Ataka, K.; Kahnt, J.; Linne, U.; Shima, S.: Biosynthesis of the Iron-Guanylylpyridinol Cofactor of [Fe]-Hydrogenase in Methanogenic Archaea as Elucidated by Stable-Isotope Labeling. Journal of the American Chemical Society 134 (6), pp. 3271 - 3280 (2012)

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DOI

Journal Article

Shima, S.; Krueger, M.; Weinert, T.; Demmer, U.; Kahnt, J.; Thauer, R. K.; Ermler, U.: Structure of a methyl-coenzyme M reductase from Black Sea mats that oxidize methane anaerobically. Nature 481 (7379), pp. 98 - 101 (2012)

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DOI

Journal Article

Shima, S.; Schick, M.; Kahnt, J.; Ataka, K.; Steinbach, K.; Linne, U.: Evidence for acyl-iron ligation in the active site of [Fe]-hydrogenase provided by mass spectrometry and infrared spectroscopy. Dalton Transactions 41 (3), pp. 767 - 771 (2012)

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DOI

2011

Journal Article

Basen, M.; Kruger, M.; Milucka, J.; Kuever, J.; Kahnt, J.; Grundmann, O.; Meyerdierks, A.; Widdel, F.; Shima, S.: Bacterial enzymes for dissimilatory sulfate reduction in a marine microbial mat (Black Sea) mediating anaerobic oxidation of methane. Environmental Microbiology 13 (5), pp. 1370 - 1379 (2011)

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DOI

Journal Article

Shima, S.; Ermler, U.: Structure and Function of [Fe]-Hydrogenase and its Iron-Guanylylpyridinol (FeGP) Cofactor. European Journal of Inorganic Chemistry (7 Sp. Iss. SI), pp. 963 - 972 (2011)

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DOI

Journal Article

Shima, S.; Ataka, K.: Isocyanides inhibit [Fe]-hydrogenase with very high affinity. FEBS Letters 585 (2), pp. 353 - 356 (2011)

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DOI

Journal Article

Shima, S.; Schick, M.; Tamura, H.: PREPARATION OF [FE]-HYDROGENASE FROM METHANOGENIC ARCHAEA. Methods in Enzymology (494), pp. 119 - 137 (2011)

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DOI

2010

Journal Article

Salomone-Stagni, M.; Stellato, F.; Whaley, C. M.; Vogt, S.; Morante, S.; Shima, S.; Rauchfuss, T. B.; Meyer-Klaucke, W.: The iron-site structure of [Fe]-hydrogenase and model systems: an X-ray absorption near edge spectroscopy study. Dalton Transactions 39 (12), pp. 3057 - 3064 (2010)

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DOI

Journal Article

Shima, S.; Vogt, S.; Gobels, A.; Bill, E.: Iron-chromophore circular dichroism of [Fe]-hydrogenase: the conformational change required for H2 activation. Angewandte Chemie, International Edition in English 49 (51), pp. 9917 - 9921 (2010)

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DOI

Review Article

Thauer, R. K.; Kaster, A. K.; Goenrich, M.; Schick, M.; Hiromoto, T.; Shima, S.: Hydrogenases from methanogenic archaea, nickel, a novel cofactor, and H₂ storage. Annual Review of Biochemistry 79, 79, pp. 507 - 536 (2010)

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DOI

2009

Journal Article

Ceh, K.; Demmer, U.; Warkentin, E.; Moll, J.; Thauer, R. K.; Shima, S.; Ermler, U.: Structural basis of the Hhydride transfer mechanism in F₄₂₀ -dependent methylenetetrahydromethanopterin dehydrogenase. Biochemistry 48, pp. 10098 - 10105 (2009)

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Journal Article

Hiromoto, T.; Ataka, K.; Pilak, O.; Vogt, S.; Stagni, M. S.; Meyer-Klaucke, W.; Warkentin, E.; Thauer, R. K.; Shima, S.; Ermler, U.: The crystal structure of C176A mutated [Fe]-hydrogenase suggests an acyl-iron ligation in the active site iron complex. FEBS Letters 583 (3), pp. 585 - 590 (2009)

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Journal Article

Hiromoto, T.; Warkentin, E.; Moll, J.; Ermler, U.; Shima, S.: The Crystal Structure of an [Fe]-Hydrogenase-Substrate Complex Reveals the Framework for H2 Activation. Angewandte Chemie Int. ed. 48, pp. 6457 - 6460 (2009)

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Book Chapter

Shima, S.; Thauer, R. K.; Ermler, U.: Carbon monoxide as intrinsic ligands to iron in the active site of [Fe]-hydrogenase. In: Metal-Carbon Bonds in Enzymes and Cofactors, Vol 6. of Metal Ions In Life Sciences, pp. 219 - 240 (Eds. Sigel, A.; Sigel, H.). John Wiley & Sons, Ltd., Cambridge, UK (2009)

MPG.PuRe

2008

Journal Article

Mayr, S.; Latkoczy, C.; Krüger, M.; Günther, D.; Shima, S.; Thauer, R. K.; Widdel, F.; Jaun, B.: Structure of an F430 variant from archaea associated with anaerobic oxidation of methane. Journal of the American Chemical Society 130 (32), pp. 10758 - 10767 (2008)

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Journal Article

Shima, S.; Pilak, O.; Vogt, S.; Schick, M.; Stagni, M. S.; Meyer-Klaucke, W.; Warkentin, E.; Thauer, R. K.; Ermler, U.: The crystal structure of [Fe]-hydrogenase reveals the geometry of the active site. Science 321 (5888), pp. 572 - 575 (2008)

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Journal Article

Guo, Y.; Wang, H.; Xiao, Y.; Vogt, S.; Thauer, R. K.; Shima, S.; Volkers, P. I.; Rauchfuss, T. B.; Pelmenschikov, V.; Case, D. A. et al.; Alp, E. E.; Sturhahn, W.; Yoda, Y.; Cramer, S. P.: Characterization of the Fe site in iron-sulfur cluster-free hydrogenase (Hmd) and of a model compound via nuclear resonance vibrational spectroscopy (NRVS). Inorganic Chemistry 47 (10), pp. 3969 - 3977 (2008)

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Journal Article

Ettwig, K. F.; Shima, S.; van de Pas-Schoonen, K. T.; Kahnt, J.; Medema, M. H.; op den Camp, H. J. M.; Jetten, M. S. M.; Strous, M.: Denitrifying bacteria anaerobically oxidize methane in the absence of Archaea. Environmental Microbiology 10 (11), pp. 3164 - 3173 (2008)

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Journal Article

Shima, S.: [Structure of [Fe]-hydrogenase and the convergent evolution of the active site of hydrogenases]. Seikagaku 80 (9), pp. 846 - 849 (2008)

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Book Chapter

Shima, S.: Functions of methyl-coenzyme M reductase in production and degradation of methane. In: Applied Microbiology, pp. 182 - 183. Asakura Shoten, Tokyo (2008)

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Review Article

Thauer, R. K.; Shima, S.: Methane as Fuel for Anaerobic Microorganisms. Annals of the New York Academy of Sciences 1125, pp. 158 - 170 (2008)

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Journal Article

Vogt, S.; Lyon, E.; Shima, S.; Thauer, R. K.: The exchange activities of [Fe] hydrogenase (iron-sulfur-cluster-free hydrogenase) from methanogenic archaea in comparison with the exchange activities of [FeFe] and [NiFe] hydrogenases. Journal of Biological Inorganic Chemistry 13 (1), pp. 97 - 106 (2008)

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2007

Journal Article

Kahnt, J.; Buchenau, B.; Mahlert, F.; Krueger, M.; Shima, S.; Thauer, R. K.: Post-translational modifications in the active site region of methyl-coenzyme M reductase from methanogenic and methanotrophic archaea. The FEBS Journal 274, pp. 4913 - 4921 (2007)

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