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HomeNatureArchitecture of the 8 MDa Hdr–Vhu–Fwd super-assembly in class I methanogens

Architecture of the 8 MDa Hdr–Vhu–Fwd super-assembly in class I methanogens

  • Ding, Y. et al. The impact of elevated CO2 on methanogen abundance and methane emissions in terrestrial ecosystems: a meta-analysis. iScience 27, 111504 (2024).

    Article 
    ADS 
    CAS 
    PubMed 
    PubMed Central 

    Google Scholar
     

  • Costa, K. C. et al. Protein complexing in a methanogen suggests electron bifurcation and electron delivery from formate to heterodisulfide reductase. Proc. Natl Acad. Sci USA 107, 11050–11055 (2010).

    Article 
    ADS 
    CAS 
    PubMed 
    PubMed Central 

    Google Scholar
     

  • Watanabe, T. et al. Three-megadalton complex of methanogenic electron-bifurcating and CO2-fixing enzymes. Science 373, 1151–1156 (2021).

    Article 
    ADS 
    CAS 
    PubMed 

    Google Scholar
     

  • Buan, N. R. Methanogens: pushing the boundaries of biology. Emerg. Top. Life Sci. 2, 629–646 (2018).

    Article 
    CAS 
    PubMed 
    PubMed Central 

    Google Scholar
     

  • Borrel, G., Adam, P. S. & Gribaldo, S. Methanogenesis and the Wood–Ljungdahl pathway: an ancient, versatile, and fragile association. Genome Biol. Evol. 8, 1706–1711 (2016).

    Article 
    CAS 
    PubMed 
    PubMed Central 

    Google Scholar
     

  • Kurth, J. M., Op den Camp, H. J. M. & Welte, C. U. Several ways one goal—methanogenesis from unconventional substrates. Appl. Microbiol. Biotechnol. 104, 6839–6854 (2020).

    Article 
    CAS 
    PubMed 
    PubMed Central 

    Google Scholar
     

  • Thauer, R. K. The Wolfe cycle comes full circle. Proc. Natl Acad. Sci. USA 109, 15084–15085 (2012).

    Article 
    ADS 
    CAS 
    PubMed 
    PubMed Central 

    Google Scholar
     

  • Laird, M. G., Adlung, N., Koivisto, J. J. & Scheller, S. Thiol-disulfide exchange kinetics and redox potential of the coenzyme M and coenzyme B heterodisulfide, an electron acceptor coupled to energy conservation in methanogenic archaea. ChemBioChem 25, e202300595 (2024).

    Article 
    CAS 
    PubMed 

    Google Scholar
     

  • Kaster, A.-K., Moll, J., Parey, K. & Thauer, R. K. Coupling of ferredoxin and heterodisulfide reduction via electron bifurcation in hydrogenotrophic methanogenic archaea. Proc. Natl Acad. Sci. USA 108, 2981–2986 (2011).

    Article 
    ADS 
    CAS 
    PubMed 
    PubMed Central 

    Google Scholar
     

  • Buckel, W. & Thauer, R. K. Flavin-based electron bifurcation, ferredoxin, flavodoxin, and anaerobic respiration with protons (Ech) or NAD+ (Rnf) as electron acceptors: a historical review. Front. Microbiol. 9, 401 (2018).

    Article 
    PubMed 
    PubMed Central 

    Google Scholar
     

  • Karrasch, M., Börner, G., Enßle, M. & Thauer, R. K. Formylmethanofuran dehydrogenase from methanogenic bacteria, a molybdoenzyme. FEBS Lett. 253, 226–230 (1989).

    Article 
    CAS 
    PubMed 

    Google Scholar
     

  • Wagner, T., Ermler, U. & Shima, S. Formyl-methanofuran dehydrogenase. Encycl. Inorg. Bioinorg. Chem. https://doi.org/10.1002/9781119951438.eibc2621 (2018).

  • Gunsalus, R. P. et al. Complete genome sequence of Methanospirillum hungatei type strain JF1. Stand. Genom. Sci. 11, 2 (2016).

    Article 

    Google Scholar
     

  • Wagner, T., Koch, J., Ermler, U. & Shima, S. Methanogenic heterodisulfide reductase (HdrABC-MvhAGD) uses two noncubane [4Fe-4S] clusters for reduction. Science 357, 699–703 (2017).

    Article 
    ADS 
    CAS 
    PubMed 

    Google Scholar
     

  • Bapteste, E., Brochier, C. & Boucher, Y. Higher-level classification of the Archaea: evolution of methanogenesis and methanogens. Archaea 1, 353–363 (2005).

    Article 
    CAS 
    PubMed 
    PubMed Central 

    Google Scholar
     

  • Lyu, Z. & Lu, Y. Metabolic shift at the class level sheds light on adaptation of methanogens to oxidative environments. ISME J. 12, 411–423 (2018).

    Article 
    PubMed 

    Google Scholar
     

  • Petitjean, C., Deschamps, P., López-García, P., Moreira, D. & Brochier-Armanet, C. Extending the conserved phylogenetic core of archaea disentangles the evolution of the third domain of life. Mol. Biol. Evol. 32, 1242–1254 (2015).

    Article 
    CAS 
    PubMed 

    Google Scholar
     

  • Prondzinsky, P., Toyoda, S. & McGlynn, S. E. The methanogen core and pangenome: conservation and variability across biology’s growth temperature extremes. DNA Res. 30, dsac048 (2023).

    Article 
    PubMed 
    PubMed Central 

    Google Scholar
     

  • Galagan, J. E. et al. The genome of M. acetivorans reveals extensive metabolic and physiological diversity. Genome Res. 12, 532–542 (2002).

    Article 
    CAS 
    PubMed 
    PubMed Central 

    Google Scholar
     

  • Li, J. et al. Genetic and metabolic engineering of Methanococcus spp. Curr. Res. Biotechnol. 5, 100115 (2023).

    Article 
    CAS 

    Google Scholar
     

  • Costa, K. C., Lie, T. J., Xia, Q. & Leigh, J. A. VhuD facilitates electron flow from H2 or formate to heterodisulfide reductase in Methanococcus maripaludis. J. Bacteriol. 195, 5160–5165 (2013).

    Article 
    CAS 
    PubMed 
    PubMed Central 

    Google Scholar
     

  • Hendrickson, E. L. et al. Complete genome sequence of the genetically tractable hydrogenotrophic methanogen Methanococcus maripaludis. J. Bacteriol. 186, 6956–6969 (2004).

    Article 
    CAS 
    PubMed 
    PubMed Central 

    Google Scholar
     

  • Dodsworth, J. A. & Leigh, J. A. Regulation of nitrogenase by 2-oxoglutarate-reversible, direct binding of a PII-like nitrogen sensor protein to dinitrogenase. Proc. Natl Acad. Sci. USA 103, 9779–9784 (2006).

    Article 
    ADS 
    CAS 
    PubMed 
    PubMed Central 

    Google Scholar
     

  • Fonseca D. R., Halim M. F. A., Holten M. P., & Costa K. C. Type IV-like pili facilitate transformation in naturally competent archaea. J. Bacteriol. https://doi.org/10.1128/jb.00355-20 (2020).

  • Costa, K. C. et al. Effects of H2 and formate on growth yield and regulation of methanogenesis in Methanococcus maripaludis. J. Bacteriol. 195, 1456–1462 (2013).

    Article 
    CAS 
    PubMed 
    PubMed Central 

    Google Scholar
     

  • Braks, I. J., Hoppert, M., Roge, S. & Mayer, F. Structural aspects and immunolocalization of the F420-reducing and non-F420-reducing hydrogenases from Methanobacterium thermoautotrophicum Marburg. J. Bacteriol. 176, 7677–7687 (1994).

    Article 
    CAS 
    PubMed 
    PubMed Central 

    Google Scholar
     

  • Hanukoglu, I. Proteopedia: Rossmann fold: a beta-alpha-beta fold at dinucleotide binding sites. Biochem. Mol. Biol. Educ. 43, 206–209 (2015).

    Article 
    CAS 
    PubMed 

    Google Scholar
     

  • Rossmann, M. G., Moras, D. & Olsen, K. W. Chemical and biological evolution of a nucleotide-binding protein. Nature 250, 194–199 (1974).

    Article 
    ADS 
    CAS 
    PubMed 

    Google Scholar
     

  • Pieulle, L., Magro, V. & Hatchikian, E. C. Isolation and analysis of the gene encoding the pyruvate-ferredoxin oxidoreductase of Desulfovibrio africanus, production of the recombinant enzyme in Escherichia coli, and effect of carboxy-terminal deletions on its stability. J. Bacteriol. 179, 5684–5692 (1997).

    Article 
    CAS 
    PubMed 
    PubMed Central 

    Google Scholar
     

  • DuPai, C. D., Davies, B. W. & Wilke, C. O. A systematic analysis of the beta hairpin motif in the Protein Data Bank. Protein Sci. 30, 613–623 (2021).

    Article 
    CAS 
    PubMed 
    PubMed Central 

    Google Scholar
     

  • Baymann, F. et al. On the natural history of flavin-based electron bifurcation. Front. Microbiol. 9, 1357 (2018).

    Article 
    PubMed 
    PubMed Central 

    Google Scholar
     

  • Stripp, S. T. In situ infrared spectroscopy for the analysis of gas-processing metalloenzymes. ACS Catal. 11, 7845–7862 (2021).

    Article 
    CAS 

    Google Scholar
     

  • Ash, P. A., Hidalgo, R. & Vincent, K. A. Proton transfer in the catalytic cycle of [NiFe] hydrogenases: insight from vibrational spectroscopy. ACS Catal. 7, 2471–2485 (2017).

    Article 
    CAS 
    PubMed 
    PubMed Central 

    Google Scholar
     

  • Ogata, H., Nishikawa, K. & Lubitz, W. Hydrogens detected by subatomic resolution protein crystallography in a [NiFe] hydrogenase. Nature 520, 571–574 (2015).

    Article 
    ADS 
    CAS 
    PubMed 

    Google Scholar
     

  • Page, C. C., Moser, C. C., Chen, X. & Dutton, P. L. Natural engineering principles of electron tunnelling in biological oxidation–reduction. Nature 402, 47–52 (1999).

    Article 
    ADS 
    CAS 
    PubMed 

    Google Scholar
     

  • Hedderich, R., Koch, J., Linder, D. & Thauer, R. K. The heterodisulfide reductase from Methanobacterium thermoautotrophicum contains sequence motifs characteristic of pyridine-nucleotide-dependent thioredoxin reductases. Eur. J. Biochem. 225, 253–261 (1994).

    Article 
    CAS 
    PubMed 

    Google Scholar
     

  • Künkel, A., Vaupel, M., Heim, S., Thauer, R. K. & Hedderich, R. Heterodisulfide reductase from methanol-grown cells of Methanosarcina barkeri is not a flavoenzyme. Eur. J. Biochem. 244, 226–234 (1997).

    Article 
    PubMed 

    Google Scholar
     

  • Jacob, C., Giles, G. I., Giles, N. M. & Sies, H. Sulfur and selenium: the role of oxidation state in protein structure and function. Angew. Chem. Int. Ed. Engl. 42, 4742–4758 (2003).

    Article 
    CAS 
    PubMed 

    Google Scholar
     

  • Lothrop, A. P. et al. Selenium as an electron acceptor during the catalytic mechanism of thioredoxin reductase. Biochemistry 53, 654–663 (2014).

    Article 
    CAS 
    PubMed 
    PubMed Central 

    Google Scholar
     

  • Krupp, R., Chan, C. & Missiakas, D. DsbD-catalyzed transport of electrons across the membrane of Escherichia coli. J. Biol. Chem. 276, 3696–3701 (2001).

    Article 
    CAS 
    PubMed 

    Google Scholar
     

  • Lacey, B. M., Eckenroth, B. E., Flemer, S. & Hondal, R. J. Selenium in thioredoxin reductase: a mechanistic perspective. Biochemistry 47, 12810–12821 (2008).

    Article 
    CAS 
    PubMed 
    PubMed Central 

    Google Scholar
     

  • Murakami, E., Deppenmeier, U. & Ragsdale, S. W. Characterization of the intramolecular electron transfer pathway from 2-hydroxyphenazine to the heterodisulfide reductase from Methanosarcina thermophila. J. Biol. Chem. 276, 2432–2439 (2001).

    Article 
    CAS 
    PubMed 

    Google Scholar
     

  • Arnér, E. S. J. Selenoproteins—what unique properties can arise with selenocysteine in place of cysteine? Exp. Cell. Res. 316, 1296–1303 (2010).

    Article 
    ADS 
    PubMed 

    Google Scholar
     

  • Nauser, T., Dockheer, S., Kissner, R. & Koppenol, W. H. Catalysis of electron transfer by selenocysteine. Biochemistry 45, 6038–6043 (2006).

    Article 
    CAS 
    PubMed 

    Google Scholar
     

  • Barber, D. R. & Hondal, R. J. Gain of function conferred by selenocysteine: catalytic enhancement of one-electron transfer reactions by thioredoxin reductase. Protein Sci. 28, 79–89 (2019).

    Article 
    CAS 
    PubMed 

    Google Scholar
     

  • Evans, R. M. et al. Selective cysteine-to-selenocysteine changes in a [NiFe]-hydrogenase confirm a special position for catalysis and oxygen tolerance. Proc. Natl Acad. Sci. USA 118, e2100921118 (2021).

    Article 
    CAS 
    PubMed 
    PubMed Central 

    Google Scholar
     

  • Appel, L., Willistein, M., Dahl, C., Ermler, U. & Boll, M. Functional diversity of prokaryotic HdrA(BC) modules: role in flavin-based electron bifurcation processes and beyond. Biochim. Biophys. Acta 1862, 148379 (2021).

    Article 
    CAS 

    Google Scholar
     

  • Nomura, S. et al. Electron flow in hydrogenotrophic methanogens under nickel limitation. Nature 644, 490–496 (2025).

    Article 
    ADS 
    CAS 
    PubMed 
    PubMed Central 

    Google Scholar
     

  • Abdul Halim, M. F., Fonseca, D. R., Niehaus, T. D. & Costa, K. C. Functionally redundant formate dehydrogenases enable formate-dependent growth in Methanococcus maripaludis. J. Biol. Chem. 300, 105550 (2024).

    Article 
    CAS 
    PubMed 

    Google Scholar
     

  • Buan, N. R. & Metcalf, W. W. Transcriptional response of Methanosarcina acetivorans to repression of the energy-conserving methanophenazine: CoM-CoB heterodisulfide reductase enzyme HdrED. Microbiol. Spectr. 12, e0095724 (2024).

    Article 
    PubMed 
    PubMed Central 

    Google Scholar
     

  • Alleman, A. B., Garcia Costas, A., Mus, F. & Peters, J. W. Rnf and Fix have specific roles during aerobic nitrogen fixation in Azotobacter vinelandii. Appl. Environ. Microbiol. 88, e0104922 (2022).

    Article 
    PubMed 
    PubMed Central 

    Google Scholar
     

  • Oehlmann, N. N., Schmidt, F. V., Herzog, M., Goldman, A. L. & Rebelein, J. G. The iron nitrogenase reduces carbon dioxide to formate and methane under physiological conditions: a route to feedstock chemicals. Sci. Adv. 10, eado7729 (2024).

    Article 
    CAS 
    PubMed 
    PubMed Central 

    Google Scholar
     

  • Soboh, B. et al. [NiFe]-hydrogenase maturation in vitro: analysis of the roles of the HybG and HypD accessory proteins1. Biochem. J. 464, 169–177 (2014).

    Article 
    CAS 
    PubMed 

    Google Scholar
     

  • Zheng, K., Ngo, P. D., Owens, V. L., Yang, X. & Mansoorabadi, S. O. The biosynthetic pathway of coenzyme F430 in methanogenic and methanotrophic archaea. Science 354, 339–342 (2016).

    Article 
    ADS 
    CAS 
    PubMed 

    Google Scholar
     

  • Waltz, F. et al. In-cell architecture of the mitochondrial respiratory chain. Science 387, 1296–1301 (2025).

    Article 
    ADS 
    CAS 
    PubMed 

    Google Scholar
     

  • Zhang, J. et al. Structure of phycobilisome from the red alga Griffithsia pacifica. Nature 551, 57–63 (2017).

    Article 
    ADS 
    PubMed 

    Google Scholar
     

  • Dietrich, H. M. et al. Membrane-anchored HDCR nanowires drive hydrogen-powered CO2 fixation. Nature 607, 823–830 (2022).

    Article 
    ADS 
    CAS 
    PubMed 

    Google Scholar
     

  • Mayer, F., Rohde, M., Salzmann, M., Jussofie, A. & Gottschalk, G. The methanoreductosome: a high-molecular-weight enzyme complex in the methanogenic bacterium strain Gö1 that contains components of the methylreductase system. J. Bacteriol. 170, 1438–1444 (1988).

    Article 
    CAS 
    PubMed 
    PubMed Central 

    Google Scholar
     

  • Hoppert, M. & Mayer, F. Electron microscopy of native and artificial methylreductase high-molecular-weight complexes in strain Gö 1 and Methanococcus voltae. FEBS Lett. 267, 33–37 (1990).

    Article 
    CAS 
    PubMed 

    Google Scholar
     

  • Goyal, N., Zhou, Z. & Karimi, I. A. Metabolic processes of Methanococcus maripaludis and potential applications. Microb. Cell Fact. 15, 107 (2016).

    Article 
    PubMed 
    PubMed Central 

    Google Scholar
     

  • Corder, R. E., Hook, L. A., Larkin, J. M. & Frea, J. I. Isolation and characterization of two new methane-producing cocci: Methanogenium olentangi, sp. nov., and Methanococcus deltae, sp. nov. Arch. Microbiol. 134, 28–32 (1983).

    Article 
    CAS 

    Google Scholar
     

  • Gibson, D. G. et al. Enzymatic assembly of DNA molecules up to several hundred kilobases. Nat. Methods 6, 343–345 (2009).

    Article 
    CAS 
    PubMed 

    Google Scholar
     

  • Long, F., Wang, L., Lupa, B. & Whitman, W. B. A flexible system for cultivation of Methanococcus and other formate-utilizing methanogens. Archaea 2017, 7046026 (2017).

    Article 
    PubMed 
    PubMed Central 

    Google Scholar
     

  • Bradford, M. M. A rapid and sensitive method for the quantitation of microgram quantities of protein utilizing the principle of protein-dye binding. Anal. Biochem. 72, 248–254 (1976).

    Article 
    ADS 
    CAS 
    PubMed 

    Google Scholar
     

  • Laemmli, U. K. Cleavage of structural proteins during the assembly of the head of bacteriophage T4. Nature 227, 680–685 (1970).

    Article 
    ADS 
    CAS 
    PubMed 

    Google Scholar
     

  • Schorb, M., Haberbosch, I., Hagen, W. J. H., Schwab, Y. & Mastronarde, D. N. Software tools for automated transmission electron microscopy. Nat. Methods 16, 471–477 (2019).

    Article 
    CAS 
    PubMed 
    PubMed Central 

    Google Scholar
     

  • Punjani, A., Rubinstein, J. L., Fleet, D. J. & Brubaker, M. A. cryoSPARC: algorithms for rapid unsupervised cryo-EM structure determination. Nat. Methods 14, 290–296 (2017).

    Article 
    CAS 
    PubMed 

    Google Scholar
     

  • Zheng, S. Q. et al. MotionCor2: anisotropic correction of beam-induced motion for improved cryo-electron microscopy. Nat. Methods 14, 331–332 (2017).

    Article 
    CAS 
    PubMed 
    PubMed Central 

    Google Scholar
     

  • Bepler, T., Kelley, K., Noble, A. J. & Berger, B. Topaz-Denoise: general deep denoising models for cryoEM and cryoET. Nat. Commun. 11, 5208 (2020).

    Article 
    ADS 
    CAS 
    PubMed 
    PubMed Central 

    Google Scholar
     

  • Goddard, T. D. et al. UCSF ChimeraX: meeting modern challenges in visualization and analysis. Protein Sci. 27, 14–25 (2018).

    Article 
    CAS 
    PubMed 

    Google Scholar
     

  • Jamali, K. et al. Automated model building and protein identification in cryo-EM maps. Nature 628, 450–457 (2024).

    Article 
    ADS 
    CAS 
    PubMed 
    PubMed Central 

    Google Scholar
     

  • Jumper, J. et al. Highly accurate protein structure prediction with AlphaFold. Nature 596, 583–589 (2021).

    Article 
    ADS 
    CAS 
    PubMed 
    PubMed Central 

    Google Scholar
     

  • Abramson, J. et al. Accurate structure prediction of biomolecular interactions with AlphaFold 3. Nature 630, 493–500 (2024).

    Article 
    ADS 
    CAS 
    PubMed 
    PubMed Central 

    Google Scholar
     

  • Emsley, P., Lohkamp, B., Scott, W. G. & Cowtan, K. Features and development of Coot. Acta Crystallogr. D 66, 486–501 (2010).

    Article 
    ADS 
    CAS 
    PubMed 
    PubMed Central 

    Google Scholar
     

  • Liebschner, D. et al. Macromolecular structure determination using X-rays, neutrons and electrons: recent developments in Phenix. Acta Crystallogr. D 75, 861–877 (2019).

    Article 
    ADS 
    CAS 

    Google Scholar
     

  • Mastronarde, D. N. Automated electron microscope tomography using robust prediction of specimen movements. J. Struct. Biol. 152, 36–51 (2005).

    Article 
    PubMed 

    Google Scholar
     

  • Eisenstein, F. et al. Parallel cryo electron tomography on in situ lamellae. Nat. Methods 20, 131–138 (2023).

    Article 
    CAS 
    PubMed 

    Google Scholar
     

  • Hagen, W. J. H., Wan, W. & Briggs, J. A. G. Implementation of a cryo-electron tomography tilt-scheme optimized for high resolution subtomogram averaging. J. Struct. Biol. 197, 191–198 (2017).

    Article 
    PubMed 

    Google Scholar
     

  • Tegunov, D. & Cramer, P. Real-time cryo-electron microscopy data preprocessing with Warp. Nat. Methods 16, 1146–1152 (2019).

    Article 
    CAS 
    PubMed 
    PubMed Central 

    Google Scholar
     

  • Tegunov, D., Xue, L., Dienemann, C., Cramer, P. & Mahamid, J. Multi-particle cryo-EM refinement with M visualizes ribosome-antibiotic complex at 3.5 Å in cells. Nat. Methods 18, 186–193 (2021).

    Article 
    CAS 
    PubMed 
    PubMed Central 

    Google Scholar
     

  • Zheng, S. et al. AreTomo: an integrated software package for automated marker-free, motion-corrected cryo-electron tomographic alignment and reconstruction. J. Struct. Biol. X 6, 100068 (2022).

    CAS 
    PubMed 
    PubMed Central 

    Google Scholar
     

  • Chaillet, M. L. et al. Extensive angular sampling enables the sensitive localization of macromolecules in electron tomograms. Int. J. Mol. Sci. 24, 13375 (2023).

    Article 
    CAS 
    PubMed 
    PubMed Central 

    Google Scholar
     

  • Chaillet, M. L., Roet, S., Veltkamp, R. C. & Förster, F. pytom-match-pick: a tophat-transform constraint for automated classification in template matching. J Struct Biol X 11, 100125 (2025).

    CAS 
    PubMed 
    PubMed Central 

    Google Scholar
     

  • Liu, Y.-T. et al. IsoNet2 determines cellular structures at submolecular resolution without averaging. Preprint at bioRxiv https://doi.org/10.64898/2025.12.09.693325 (2025).

  • Lamm, L. et al. MemBrain v2: an end-to-end tool for the analysis of membranes in cryo-electron tomography. Preprint at bioRxiv https://doi.org/10.1101/2024.01.05.574336 (2025).

  • Ermel, U. H., Arghittu, S. M. & Frangakis, A. S. ArtiaX: an electron tomography toolbox for the interactive handling of sub-tomograms in UCSF ChimeraX. Protein Sci. 31, e4472 (2022).

    Article 
    PubMed 
    PubMed Central 

    Google Scholar
     

  • Edgar, R. C. MUSCLE: a multiple sequence alignment method with reduced time and space complexity. BMC Bioinform. 5, 113 (2004).

    Article 

    Google Scholar
     

  • Larsson, A. AliView: a fast and lightweight alignment viewer and editor for large datasets. Bioinformatics 30, 3276–3278 (2014).

    Article 
    CAS 
    PubMed 
    PubMed Central 

    Google Scholar
     

  • Parks, D. H. et al. GTDB: an ongoing census of bacterial and archaeal diversity through a phylogenetically consistent, rank normalized and complete genome-based taxonomy. Nucleic Acids Res. 50, D785–D794 (2022).

    Article 
    CAS 
    PubMed 
    PubMed Central 

    Google Scholar
     

  • Priyam, A. et al. Sequenceserver: a modern graphical user interface for custom BLAST databases. Mol. Biol. Evol. 36, 2922–2924 (2019).

    Article 
    CAS 
    PubMed 
    PubMed Central 

    Google Scholar
     

  • Seidel, K., Kühnert, J. & Adrian, L. The complexome of Dehalococcoides mccartyi reveals its organohalide respiration-complex is modular. Front. Microbiol. 9, 1130 (2018).

    Article 
    PubMed 
    PubMed Central 

    Google Scholar
     

  • Marco-Urrea Ernest et al. Identification and characterization of a re-citrate synthase in Dehalococcoides strain CBDB1. J. Bacteriol. 193, 5171–5178 (2011).

    Article 
    CAS 
    PubMed 
    PubMed Central 

    Google Scholar
     

  • Jurrus, E. et al. Improvements to the APBS biomolecular solvation software suite. Protein Sci. 27, 112–128 (2018).

    Article 
    CAS 
    PubMed 

    Google Scholar
     

  • Ishikita, H. & Saito, K. Proton transfer reactions and hydrogen-bond networks in protein environments. J. R. Soc. Interface 11, 20130518 (2014).

    Article 
    PubMed 

    Google Scholar
     

  • Hedderich, R., Albracht, S. P., Linder, D., Koch, J. & Thauer, R. K. Isolation and characterization of polyferredoxin from Methanobacterium thermoautotrophicum. The mvhB gene product of the methylviologen-reducing hydrogenase operon. FEBS Lett. 298, 65–68 (1992).

    Article 
    CAS 
    PubMed 

    Google Scholar
     

  • Wagner, T., Ermler, U. & Shima, S. The methanogenic CO2 reducing-and-fixing enzyme is bifunctional and contains 46 [4Fe-4S] clusters. Science 354, 114–117 (2016).

    Article 
    ADS 
    CAS 
    PubMed 

    Google Scholar
     

  • Ye, Y. & Godzik, A. FATCAT: a web server for flexible structure comparison and structure similarity searching. Nucleic Acids Res. 32, W582–W585 (2004).

    Article 
    CAS 
    PubMed 
    PubMed Central 

    Google Scholar
     

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