Max Planck Institute for Terrestrial Microbiology

Publications

2025

Journal Article

Ramírez-Amador, F.; Paul, S.; Kumar, A.; Lorent, C.; Keller, S.; Bohn, S.; Nguyen, T.; Lometto, S.; Vlegels, D.; Kahnt, J. et al.; Deobald, D.; Abendroth, F.; Vázquez, O.; Hochberg, G. K. A.; Scheller, S.; Stripp, S. T.; Schuller, J. M.: Structure of the ATP-driven methyl-coenzyme M reductase activation complex. Nature (2025)

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Journal Article

Zheng, L.; Du, Y.; Steinchen, W.; Girbig, M.; Abendroth, F.; Jalomo-Khayrova, E.; Bedrunka, P.; Bekeredjian-Ding, I.; Mais, C.-N.; Hochberg, G. K. A. et al.; Freitag, J.; Bange, G.: Regulation of acetyl-CoA biosynthesis via an intertwined acetyl-CoA synthetase/acetyltransferase complex. Nature Communications 16 (1), 2557 (2025)

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Journal Article

Ries, F.; Gorlt, J.; Kaiser, S.; Scherer, V.; Seydel, C.; Nguyen, S.; Klingl, A.; Legen, J.; Schmitz-Linneweber, C.; Plaggenborg, H. et al.; Ng, J. Z. Y.; Wiens, D.; Hochberg, G. K. A.; Räschle, M.; Möhlmann, T.; Scheuring, D.; Willmund, F.: A truncated variant of the ribosome-associated trigger factor specifically contributes to plant chloroplast ribosome biogenesis. Nature Communications 16 (1), 629 (2025)

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Journal Article

Schulz, L.; Zarzycki, J.; Steinchen, W.; Hochberg, G. K. A.; Erb, T. J.: Layered entrenchment maintains essentiality in the evolution of Form I Rubisco complexes. The EMBO Journal 44, pp. 269 - 280 (2025)

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2024

Journal Article

Sendker, F. L.; Schlotthauer, T. J.; Mais, C.-N.; Lo, Y. K.; Girbig, M.; Bohn, S.; Heimerl, T.; Schindler, D.; Weinstein, A.; Metzger, B. P. H. et al.; Thornton, J. W.; Pillai, A.; Bange, G.; Schuller, J. M.; Hochberg, G. K. A.: Frequent transitions in self-assembly across the evolution of a central metabolic enzyme. Nature Communications 15 (1), 10515 (2024)

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Journal Article

Gao, Y.; Tan, D. S.; Girbig, M.; Hu, H.; Zhou, X.; Xie, Q.; Yeung, S. W.; Lee, K. S.; Ho, S. Y.; Cojocaru, V. et al.; Yan, J.; Hochberg, G. K. A.; de Mendoza, A.; Jauch, R.: The emergence of Sox and POU transcription factors predates the origins of animal stem cells. Nature Communications 15 (1), 9868 (2024)

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Journal Article

Bozhüyük, K. A. J.; Präve, L.; Kegler, C.; Schenk, L.; Kaiser, S.; Schelhas, C. S.; Shi, Y.-N.; Kuttenlochner, W.; Schreiber, M.; Kandler, J. et al.; Alanjary, M.; Mohiuddin, T. M.; Groll, M.; Hochberg, G. K. A.; Bode, H. B.: Evolution-inspired engineering of nonribosomal peptide synthetases. Science 383 (6689), eadg4320 (2024)

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Journal Article

Čepaitė, R.; Klein, N.; Mikšys, A.; Camara-Wilpert, S.; Ragožius, V.; Benz, F.; Skorupskaitė, A.; Becker, H.; Žvejytė, G.; Steube, N. B. et al.; Hochberg, G. K. A.; Randau, L.; Pinilla-Redondo, R.; Malinauskaitė, L.; Pausch, P.: Structural variation of types IV-A1- and IV-A3-mediated CRISPR interference. Nature Communications 15 (1), 9306 (2024)

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Journal Article

Lago-Maciel, A.; Soares, J. C.; Zarzycki, J.; Buchanan, C. J.; Reif-Trauttmansdorff, T.; Schmidt, F. V.; Lometto, S.; Paczia, N.; Schuller, J. M.; Hansen, D. F. et al.; Heller, G. T.; Prinz, S.; Hochberg, G. K. A.; Pierik, A. J.; Rebelein, J. G.: Methylthio-alkane reductases use nitrogenase metalloclusters for carbon-sulfur bond cleavage. bioRxiv: the preprint server for biology, 2024.10.19.619033 (2024)

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Journal Article

Lometto, S.; Sparvoli, D.; Malengo, G.; Heimerl, T.; Hochberg, G. K. A.: The mitochondrial citrate synthase from Tetrahymena thermophila does not form an intermediate filament. European Journal of Protistology 96, 126121 (2024)

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Journal Article

Garg, S.; Hochberg, G. K. A.: A general substitution matrix for structural phylogenetics. bioRxiv: the preprint server for biology, 2024.09.19.613819 (2024)

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Conference Paper

Hochberg, G.: The evolution of assembly complexity of earth’s most important CO2 fixing enzyme. Biochimica et Biophysica Acta: BBA 1865, 149196, (2024)

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Journal Article

Peña-Diaz, P.; Braymer, J. J.; Vacek, V.; Zelená, M.; Lometto, S.; Mais, C.-N.; Hrdý, I.; Treitli, S. C.; Hochberg, G. K. A.; Py, B. et al.; Lill, R.; Hampl, V.: Characterization of the SUF FeS cluster synthesis machinery in the amitochondriate eukaryote Monocercomonoides exilis. Current Biology 34 (17), S0960-9822(24)00921-7, pp. 3855 - 3865.e7 (2024)

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Preprint

Küffner, A. M.; Pommerenke, B.; Kley, L.; Ng, J. Z. Y.; Prinz, S.; Tinzl-Zechner, M.; Claus, P.; Paczia, N.; Zarzycki, J.; Hochberg, G. K. A. et al.; Erb, T. J.: Bottom-up reconstruction of minimal pyrenoids provides insights into the evolution and mechanisms of carbon concentration by EPYC1 proteins. bioRxiv: the preprint server for biology, 2024.06.28.601168 (2024)

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Journal Article

Sendker, F. L.; Lo, Y. K.; Heimerl, T.; Bohn, S.; Persson, L. J.; Mais, C.-N.; Sadowska, W.; Paczia, N.; Nußbaum, E.; del Carmen Sánchez Olmos, M. et al.; Forchhammer, K.; Schindler, D.; Erb, T. J.; Benesch, J. L. P.; Marklund, E. G.; Bange, G.; Schuller, J. M.; Hochberg, G. K. A.: Emergence of fractal geometries in the evolution of a metabolic enzyme. Nature 628 (8009), pp. 894 - 900 (2024)

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Preprint

Herdering, E.; Reif-Trauttmansdorff, T.; Kumar, A.; Habenicht, T.; Hochberg, G. K. A.; Bohn, S.; Schuller, J.; Schmitz, R. A.: 2-oxoglutarate triggers assembly of active dodecameric Methanosarcina mazei glutamine synthetase. bioRxiv: the preprint server for biology (2024)

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Journal Article

Addison, H. G.; Glatter, T.; Hochberg, G. K. A.; Rebelein, J. G.: Two distinct ferredoxins are essential for nitrogen fixation by the iron nitrogenase in Rhodobacter capsulatus. mBio 15 (3), e0331423 (2024)

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Preprint

Schulz, L.; Zarzycki, J.; Steinchen, W.; Hochberg, G. K. A.; Erb, T. J.: Layered entrenchment maintains essentiality in protein-protein interactions. bioRxiv: the preprint server for biology, 2024.01.18.576253 (2024)

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Preprint

Wang, Z.; Cao, G.; Collier, M. P.; Qiu, X.; Broadway-Stringer, S.; Šaman, D.; Ng, J. Z. Y.; Sen, N.; Azad, A. J.; Hooper, C. et al.; Zimmermann, J.; McDonough, M.; Brem, J.; Rabe, P.; Song, H.; Alderson, T. R.; Schofield, C. J.; Bolla, J. R.; Djinovic-Carugo, K.; Fürst, D. O.; Warscheid, B.; Degiacomi, M. T.; Allison, T. M.; Hochberg, G. K. A.; Robinson, C. V.; Gehmlich, K.; Benesch, J. L.P.: Cardiac stress leads to regulation of Filamin C dimerisation via an ancient phosphorylation-modulated interaction with HSPB7. bioRxiv: the preprint server for biology, 2024.01.05.574393 (2024)

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Journal Article

Jakob, S.; Steinchen, W.; Hanßmann, J.; Rosum, J.; Langenfeld, K.; Osorio-Valeriano, M.; Steube, N.; Giammarinaro, P. I.; Hochberg, G. K. A.; Glatter, T. et al.; Bange, G.; Diepold, A.; Thanbichler, M.: The virulence regulator VirB from Shigella flexneri uses a CTP-dependent switch mechanism to activate gene expression. Nature Communications 15 (1), 318 (2024)

MPG.PuRe

2023

Preprint

Drobnič, T.; Cohen, E. J.; Alzheimer, M.; Froschauer, K.; Svensson, S.; Singh, N.; Garg, S.; Henderson, L.; Umrekar, T.; Nans, A. et al.; Ribardo, D.; Hochberg, G. K. A.; Hendrixson, D. R.; Sharma, C. M.; Rosenthal, P.; Beeby, M.: Molecular model of a bacterial flagellar motor in situ reveals a “parts-list” of protein adaptations to increase torque. bioRxiv: the preprint server for biology, 2023.09.08.556779 (2023)

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Journal Article

Carreira, L. A. M.; Szadkowski, D.; Lometto, S.; Hochberg, G. K. A.; Søgaard-Andersen, L.: Molecular basis and design principles of switchable front-rear polarity and directional migration in Myxococcus xanthus. Nature Communications 14 (1), 4056 (2023)

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Journal Article

Kremer, K.; Meier, D.; Theis, L.; Miller, S.; Rost-Nasshan, A.; Naing, Y. T.; Zarzycki, J.; Paczia, N.; Serrania, J.; Blumenkamp, P. et al.; Goesmann, A.; Becker, A.; Thanbichler, M.; Hochberg, G. K. A.; Carter, M. S.; Erb, T. J.: Functional degeneracy in Paracoccus denitrificans Pd1222 is coordinated via RamB, which links expression of the Glyoxylate cycle to activity of the Ethylmalonyl-CoA pathway. Applied and Environmental Microbiology 89 (7), e0023823 (2023)

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Journal Article

Winiarska, A.; Ramírez-Amador, F.; Hege, D.; Gemmecker, Y.; Prinz, S.; Hochberg, G. K. A.; Heider, J.; Szaleniec, M.; Schuller, J. M.: A bacterial tungsten-containing aldehyde oxidoreductase forms an enzymatic decorated protein nanowire. Science Advances 9 (22), eadg6689 (2023)

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Preprint

Peña-Diaz, P.; Braymer, J. J.; Vacek, V.; Zelená, M.; Lometto, S.; Hrdý, I.; Treitli, S. C.; Hochberg, G. K. A.; Py, B.; Lill, R. et al.; Hampl, V.: Characterisation of the SUF FeS cluster machinery in the amitochondriate eukaryote Monocercomonoides exilis. bioRxiv: the preprint server for biology, 2023.03.30.534840 (2023)

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Journal Article

Islam, M. I.; Ridone, P.; Lin, A.; Michie, K. A.; Matzke, N. J.; Hochberg, G. K. A.; Baker, M. A. B.: Ancestral reconstruction of the MotA stator subunit reveals that conserved residues far from the pore are required to drive flagellar motility. microLife 4, uqad011 (2023)

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Journal Article

Moldenhauer, M.; Tseng, H.-W.; Kraskov, A.; Tavraz, N. N.; Yaroshevich, I. A.; Hildebrandt, P.; Sluchanko, N. N.; Hochberg, G. A.; Essen, L.-O.; Budisa, N. et al.; Korf, L.; Maksimov, E. G.; Friedrich, T.: Parameterization of a single H-bond in orange carotenoid protein by atomic mutation reveals principles of evolutionary design of complex chemical photosystems. Frontiers in Molecular Biosciences 10, 1072606 (2023)

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Journal Article

Priyadarshini, N.; Steube, N.; Wiens, D.; Narikawa, R.; Wilde, A.; Hochberg, G. K. A.; Enomoto, G.: Evidence for an early green/red photocycle that precedes the diversification of GAF domain photoreceptor cyanobacteriochromes. Photochemical & Photobiological Sciences 22, pp. 1415 - 1427 (2023)

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Journal Article

Steube, N.; Moldenhauer, M.; Weiland, P.; Saman, D.; Kilb, A.; Ramírez Rojas, A. A.; Garg, S.; Schindler, D.; Graumann, P. L.; Benesch, J. L. P. et al.; Bange, G.; Friedrich, T.; Hochberg, G. K. A.: Fortuitously compatible protein surfaces primed allosteric control in cyanobacterial photoprotection. Nature Ecology & Evolution 7, pp. 756 - 767 (2023)

MPG.PuRe

2022

Journal Article

Schulz, L.; Guo, Z.; Zarzycki, J.; Steinchen, W.; Schuller, J. M.; Heimerl, T.; Prinz, S.; Mueller-Cajar, O.; Erb, T. J.; Hochberg, G. K. A.: Evolution of increased complexity and specificity at the dawn of form I Rubiscos. Science 378 (6616), pp. 155 - 160 (2022)

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Journal Article

Giammarinaro, P. I.; Young, M. K. M.; Steinchen, W.; Mais, C. N.; Hochberg, G. K. A.; Yang, J.; Stevenson, D. M.; Amador-Noguez, D.; Paulus, A.; Wang, J. D. et al.; Bange, G.: Diadenosine tetraphosphate regulates biosynthesis of GTP in Bacillus subtilis. Nature Microbiology 7, 1442–1452 (2022)

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Journal Article

Rick, T.; Kreiling, V.; Hoing, A.; Fiedler, S.; Glatter, T.; Steinchen, W.; Hochberg, G. K. A.; Bahre, H.; Seifert, R.; Bange, G. et al.; Knauer, S. K.; Graumann, P. L.; Thormann, K. M.: GGDEF domain as spatial on-switch for a phosphodiesterase by interaction with landmark protein HubP. npj Biofilms and Microbiomes 8, 35 (2022)

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Journal Article

Schulz, L.; Sendker, F. L.; Hochberg, G. K. A.: Non-adaptive complexity and biochemical function. Current Opinion in Structural Biology 73, 102339 (2022)

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Journal Article

Hernandez-Tamayo, R.; Steube, N.; Heimerl, T.; Hochberg, G. K. A.; Graumann, P. L.: ATPase activity of Bacillus subtilis RecA affects the dynamic formation of RecA filaments at DNA double strand breaks. mSphere 7 (6), e00412-22 (2022)

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Journal Article

Lyu, J.; Liu, C.; Zhang, T.; Schrecke, S.; Elam, N. P.; Packianathan, C.; Hochberg, G. K. A.; Russell, D.; Zhao, M.; Laganowsky, A.: Structural basis for lipid and copper regulation of the ABC transporter MsbA. Nature Communications 13, 7291 (2022)

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Journal Article

Pillai, A. S.; Hochberg, G. K. A.; Thornton, J. W.: Simple mechanisms for the evolution of protein complexity. Protein Science 31 (11), e4449 (2022)

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2021

Preprint

Krink, N.; Löchner, A.; Anders, A.; Kahnt, J.; Rensing, S.; Hochberg, G. K. A.; Sourjik, V.: Construction of multicellular yeast networks using the communication toolkit with variable specificity and attenuation. bioRxiv: the preprint server for biology, 2021.09.27.462023 (2021)

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Journal Article

Feyh, R.; Waeber, N. B.; Prinz, S.; Giammarinaro, P. I.; Bange, G.; Hochberg, G. K. A.; Hartmann, R. K.; Altegoer, F.: Structure and mechanistic features of the prokaryotic minimal RNase P. eLife 10, e70160 (2021)

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2020

Journal Article

Hochberg, G. K. A.; Liu, Y.; Marklund, E. G.; Metzger, B. P. H.; Laganowsky, A.; Thornton, J. W.: A hydrophobic ratchet entrenches molecular complexes. Nature 588 (7838), pp. 503 - 508 (2020)

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Journal Article

Park, Y.; Patton, J. E. J.; Hochberg, G. K. A.; Thornton, J. W.: Comment on "Ancient origins of allosteric activation in a Ser-Thr kinase". Science 370 (6519) (2020)

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Journal Article

Pillai, A. S.; Chandler, S. A.; Liu, Y.; Signore, A. V.; Cortez-Romero, C. R.; Benesch, J. L. P.; Laganowsky, A.; Storz, J. F.; Hochberg, G. K. A.; Thornton, J. W.: Origin of complexity in haemoglobin evolution. Nature 581 (7809), pp. 480 - 485 (2020)

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2019

Journal Article

Malay, A. D.; Miyazaki, N.; Biela, A.; Chakraborti, S.; Majsterkiewicz, K.; Stupka, I.; Kaplan, C. S.; Kowalczyk, A.; Piette, B.; Hochberg, G. K. A. et al.; Wu, D.; Wrobel, T. P.; Fineberg, A.; Kushwah, M. S.; Kelemen, M.; Vavpetic, P.; Pelicon, P.; Kukura, P.; Benesch, J. L. P.; Iwasaki, K.; Heddle, J. G.: An ultra-stable gold-coordinated protein cage displaying reversible assembly. Nature 569 (7756), pp. 438 - 442 (2019)

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2018

Journal Article

Santhanagopalan, I.; Degiacomi, M. T.; Shepherd, D. A.; Hochberg, G. K. A.; Benesch, J. L. P.; Vierling, E.: It takes a dimer to tango: Oligomeric small heat shock proteins dissociate to capture substrate. J Biol Chem 293 (51), pp. 19511 - 19521 (2018)

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Journal Article

Hochberg, G. K. A.; Shepherd, D. A.; Marklund, E. G.; Santhanagoplan, I.; Degiacomi, M. T.; Laganowsky, A.; Allison, T. M.; Basha, E.; Marty, M. T.; Galpin, M. R. et al.; Struwe, W. B.; Baldwin, A. J.; Vierling, E.; Benesch, J. L. P.: Structural principles that enable oligomeric small heat-shock protein paralogs to evolve distinct functions. Science 359 (6378), pp. 930 - 935 (2018)

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2017

Journal Article

Siddiq, M. A.; Hochberg, G. K. A.; Thornton, J. W.: Evolution of protein specificity: insights from ancestral protein reconstruction. Curr Opin Struct Biol 47, pp. 113 - 122 (2017)

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Journal Article

Hochberg, G. K. A.; Thornton, J. W.: Reconstructing Ancient Proteins to Understand the Causes of Structure and Function. Annu Rev Biophys 46, pp. 247 - 269 (2017)

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2015

Journal Article

Marty, M. T.; Baldwin, A. J.; Marklund, E. G.; Hochberg, G. K. A.; Benesch, J. L.; Robinson, C. V.: Bayesian deconvolution of mass and ion mobility spectra: from binary interactions to polydisperse ensembles. Anal Chem 87 (8), pp. 4370 - 6 (2015)

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2014

Journal Article

Hochberg, G. K. A.; Ecroyd, H.; Liu, C.; Cox, D.; Cascio, D.; Sawaya, M. R.; Collier, M. P.; Stroud, J.; Carver, J. A.; Baldwin, A. J. et al.; Robinson, C. V.; Eisenberg, D. S.; Benesch, J. L.; Laganowsky, A.: The structured core domain of alphaB-crystallin can prevent amyloid fibrillation and associated toxicity. Proc Natl Acad Sci U S A 111 (16), pp. E1562 - 70 (2014)

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Journal Article

Hochberg, G. K. A.; Benesch, J. L.: Dynamical structure of alphaB-crystallin. Prog Biophys Mol Biol 115 (1), pp. 11 - 20 (2014)

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2013

Journal Article

Hilton, G. R.; Hochberg, G. K. A.; Laganowsky, A.; McGinnigle, S. I.; Baldwin, A. J.; Benesch, J. L.: C-terminal interactions mediate the quaternary dynamics of alphaB-crystallin. Philos Trans R Soc Lond B Biol Sci 368 (1617), p. 20110405 (2013)

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