Max Planck Institute of Biophysics

Publications of the Max Planck Institute of Biophysics 1947 – present

Journal Article (3131)

2024

Journal Article

Prieto-Garcia, C.; Matkovic, V.; Mosler, T.; Li, C.; Liang, J.; Oo, J. A.; Haidle, F.; Mačinković, I.; Cabrera-Orefice, A.; Berkane, R. et al.; Giuliani, G.; Xu, F.; Jacomin, A.-C.; Tomaskovic, I.; Basoglu, M.; Hoffmann, M. E.; Rathore, R.; Cetin, R.; Boutguetait, D.; Bozkurt, S.; Hernández Cañás, M. C.; Keller, M.; Busam, J.; Shah, V. J.; Wittig, I.; Kaulich, M.; Beli, P.; Galej, W. P.; Ebersberger, I.; Wang, L.; Münch, C.; Stolz, A.; Brandes, R. P.; Tse, W. K. F.; Eimer, S.; Stainier, D. Y. R.; Legewie, S.; Zarnack, K.; Müller-McNicoll, M.; Dikic, I.: Pathogenic proteotoxicity of cryptic splicing is alleviated by ubiquitination and ER-phagy. Science 386 (6723), pp. 768 - 776 (2024)

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Heidari, M.; Sikora, M.; Hummer, G.: Refined Protein-Sugar Interactions in the Martini Force Field. Journal of Chemical Theory and Computation (2024)

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Lotfipour Nasudivar, S.; Pedrera, L.; García-Sáez, A. J.: Iron-Induced Lipid Oxidation Alters Membrane Mechanics Favoring Permeabilization. Langmuir (2024)

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Herhaus, L.; Gestal-Mato, U.; Eapen, V. V.; Mačinković, I.; Bailey, H. J.; Prieto-Garcia, C.; Misra, M.; Jacomin, A.-C.; Ammanath, A. V.; Bagarić, I. et al.; Michaelis, J.; Vollrath, J.; Bhaskara, R. M.; Bündgen, G.; Covarrubias-Pinto, A.; Husnjak, K.; Zöller, J.; Gikandi, A.; Ribičić, S.; Bopp, T.; van der Heden van Noort, G. J.; Langer, J. D.; Weigert, A.; Harper, J. W.; Mancias, J. D.; Đikić, I.: IRGQ-mediated autophagy in MHC class I quality control promotes tumor immune evasion. Cell 187 (2024)

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Poveda-Cuevas, S. A.; Lohachova, K.; Markusic, B.; Dikic, I.; Hummer, G.; Bhaskara, R. M.: Intrinsically disordered region amplifies membrane remodeling to augment selective ER-phagy. Proceedings of the National Academy of Sciences of the United States of America 121 (44), e2408071121 (2024)

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Pfeil-Gardiner, O.; Rosa, H. V. D.; Riedel, D.; Chen, Y. S.; Lörks, D.; Kükelhan, P.; Linck, M.; Müller, H.; Van Petegem, F.; Murphy, B. J.: Elemental mapping in single-particle reconstructions by reconstructed electron energy-loss analysis. Nature Methods (2024)

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Wilm, M.: Nanoelectrospray based synthesis of large, transportable membranes with integrated membrane proteins. Scientific Reports 14, 25192 (2024)

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Mandal, T.; Brandt, N.; Tempra, C.; Javanainen, M.; Fábián, B.; Chiantia, S.: A comparison of lipid diffusive dynamics in monolayers and bilayers in the context of interleaflet coupling. Biochimica et Biophysica Acta: BBA 186 (1), 184388 (2024)

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Laub, V.; Nan, E.; Elias, L.; Donaldson, I. J.; Bentsen, M.; Rusling, L. A.; Schupp, J.; Lun, J. H.; Plate, K. H.; Looso, M. et al.; Langer, J. D.; Günther, S.; Bobola, N.; Schulte, D.: Integrated multi-omics analysis of PBX1 in mouse adult neural stem- and progenitor cells identifies a transcriptional module that functionally links PBX1 to TCF3/4. Nucleic Acids Research, gkae864 (2024)

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Grizel, A. V.; Gorsheneva, N. A.; Stevenson, J. B.; Pflaum, J.; Wilfling, F.; Rubel, A. A.; Chernoff, Y. O.: Osmotic stress induces formation of both liquid condensates and amyloids by a yeast prion domain. Journal of Biological Chemistry 300 (10), 107766 (2024)

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Lasham, J.; Djurabekova, A.; Kolypetris, G.; Zickermann, V.; Vonck, J.; Sharma, V.: Assessment of amino acid charge states based on cryo-electron microscopy and molecular dynamics simulations of respiratory complex I. Biochimica et Biophysica Acta (BBA) - Bioenergetics 1866 (1), 149512 (2024)

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Xavier, A.; Đikić, I.: Feeding cancer to death - a triad of aromatic acids reduces tumor growth. Cell Death & Differentiation (2024)

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Kew, C.; Prieto-Garcia, C.; Bhattacharya, A.; Tietgen, M.; MacNair, C. R.; Carfrae, L. A.; Mello-Vieira, J.; Klatt, S.; Cheng, Y.-L.; Rathore, R. et al.; Gradhand, E.; Fleming, I.; Tan, M.-W.; Göttig, S.; Kempf, V. A. J.; Đikić, I.: The aryl hydrocarbon receptor and FOS mediate cytotoxicity induced by Acinetobacter baumannii. Nature Communications 15, 7939 (2024)

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Dietrich, L.; Agip, A.-N. A.; Kunz, C.; Schwarz, A.; Kühlbrandt, W.: In situ structure and rotary states of mitochondrial ATP synthase in whole Polytomella cells. Science 385 (6713), pp. 1086 - 1090 (2024)

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Introini, B.; Cui, W.; Chu, X.; Zhang, Y.; Alves, A. C.; Eckhardt-Strelau, L.; Golusik, S.; Tol, M.; Vogel, H.; Yuan, S. et al.; Kudryashev, M.: Structure of tetrameric forms of the serotonin-gated 5-HT3A receptor ion channel. The EMBO Journal (2024)

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Mukherjee, R.; Bhattacharya, A.; Mello-Vieira, J.; Kuncha, S. K.; Hoffmann, M.; Gonzalez, A.; Rathore, R.; Chadha, A.; Shin, D.; Colby, T. et al.; Matic, I.; Mukherjee, S.; Misra, M.; Dikic, I.: Serine ubiquitination of SQSTM1 regulates NFE2L2-dependent redox homeostasis. Autophagy (2024)

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Kuhn, B. T.; Zöller, J.; Zimmermann, I.; Gemeinhardt, T.; Özkul, D. H.; Langer, J. D.; Seeger, M. A.; Geertsma, E. R.: Interdomain-linkers control conformational transitions in the SLC23 elevator transporter UraA. Nature Communications 15, 7518 (2024)

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Rosenkranz, R. R. E.; Vraggalas, S.; Keller, M.; Sankaranarayanan, S.; McNicoll, F.; Löchli, K.; Bublak, D.; Benhamed, M.; Crespi, M.; Berberich, T. et al.; Bazakos, C.; Feldbrügge, M.; Schleiff, E.; Müller-McNicoll, M.; Zarnack, K.; Fragkostefanakis, S.: A plant-specific clade of serine/arginine-rich proteins regulates RNA splicing homeostasis and thermotolerance in tomato. Nucleic Acids Research, gkae730 (2024)

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Joshi, T.; Demmer, U.; Schneider, C.; Glaser, T.; Warkentin, E.; Ermler, U.; Mack, M.: The phosphatase RosC from Streptomyces davaonensis is used for roseoflavin biosynthesis and has evolved to largely prevent dephosphorylation of the important cofactor riboflavin-5'-phosphate. Journal of Molecular Biology 436 (20), 168734 (2024)

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Lizarrondo, J.; Wilfling, F.: Selective autophagy of macromolecular complexes: what does it take to be taken? Journal of Molecular Biology 436, 168574 (2024)

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Wilfling, F.; Graef, M.: Molecular Mechanisms and Physiological Functions of Autophagy. Journal of Molecular Biology 436, 168692 (2024)

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Dubach, V. R. A.; San Segundo-Acosta, P.; Murphy, B. J.: Structural and mechanistic insights into Streptococcus pneumoniae NADPH oxidase. Nature Structural & Molecular Biology (2024)

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Nüesch, M. F.; Pietrek, L.; Holmstrom, E. D.; Nettels, D.; von Roten, V.; Kronenberg-Tenga, R.; Medalia, O.; Hummer, G.; Schuler, B.: Nanosecond chain dynamics of single-stranded nucleic acids. Nature Communications 15 (1), 6010 (2024)

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Schneider, S.; Kühlbrandt, W.; Yildiz, Ö.: Complementary structures of the yeast phosphate transporter Pho90 provide insights into its transport mechanism. Structure 32 (7), pp. 979 - 988.e4 (2024)

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Ehr, J. v.; Oberstrass, L.; Yazgan, E.; Schnaubelt, L. I.; Blümel, N.; McNicoll, F.; Weigand, J. E.; Zarnack, K.; Müller-McNicoll, M.; Korn, S. M. et al.; Schlundt, A.: Arid5a uses disordered extensions of its core ARID domain for distinct DNA- and RNA-recognition and gene regulation. Journal of Biological Chemistry 300 (7), 107457 (2024)

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Eerlapally, R.; Vechalapu, S. K.; Duraisamy, S.; Hareendran, D. L.; Debnath, J.; Allimuthu, D.; Draksharapu, A.: A Cu(ii) pseudopeptide complex: a surrogate to a formal Cu(iii) species in water and an inhibitor of cancer cell proliferation. Inorganic Chemistry Frontiers (2024)

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Ri, K.; Weng, T.-H.; Claveras Cabezudo, A.; Jösting, W.; Zhang, Y.; Bazzone, A.; Leong, N. C. P.; Welsch, S.; Doty, R. T.; Gursu, G. et al.; Lim, T. J. Y.; Schmidt, S. L.; Abkowitz, J. L.; Hummer, G.; Wu, D.; Nguyen, L. N.; Safarian, S.: Molecular mechanism of choline and ethanolamine transport in humans. Nature 630, pp. 501 - 508 (2024)

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Khusainov, I.; Romanov, N.; Goemans, C.; Turoňová, B.; Zimmerli, C. E.; Welsch, S.; Langer, J. D.; Typas, A.; Beck, M.: Bactericidal effect of tetracycline in E. coli strain ED1a may be associated with ribosome dysfunction. Nature Communications 15, 4783 (2024)

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Dadsena, S.; Cuevas Arenas, R.; Vieira, G.; Brodesser, S.; Melo, M. N.; García-Sáez, A. J.: Lipid unsaturation promotes BAX and BAK pore activity during apoptosis. Nature Communications 15, 4700 (2024)

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Gauger, M.; Heinz, M.; Halbritter, A.-L. J.; Stelzl, L. S.; Erlenbach, N.; Hummer, G.; Sigurdsson, S. T.; Prisner, T.: Structure and internal dynamics of short RNA duplexes determined by a combination of pulsed EPR methods and MD simulations. Angewandte Chemie, International Edition in English 63, e202402498 (2024)

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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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Froehlich, T.; Jenner, A.; Cavarischia-Rega, C.; Fagbadebo, F. O.; Lurz, Y.; Frecot, D. I.; Kaiser, P. D.; Nueske, S.; Scholz, A. M.; Schäffer, E. et al.; Garcia Saez, A. J.; Macek, B.; Rothbauer, U.: Nanobodies as novel tools to monitor the mitochondrial fission factor Drp1. Life science alliance 7 (8), e202402608 (2024)

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Fábián, B.; Javanainen, M.: Energetics of the Transmembrane Peptide Sorting by Hydrophobic Mismatch. The Journal of Physical Chemistry Letters 15 (20), pp. 5344 - 5349 (2024)

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Zhao, D. Y.; Bäuerlein, F. J. B.; Saha, I.; Hartl, F. U.; Baumeister, W.; Wilfling, F.: Autophagy preferentially degrades non-fibrillar polyQ aggregates. Molecular Cell 84 (10), pp. 1980 - 1994.e8 (2024)

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Wang, J.; Heinz, M.; Han, K.; Shah, V. J.; Hasselbeck, S.; Schwalm, M. P.; Rathore, R.; Hummer, G.; Zhou, J.; Dikic, I. et al.; Cheng, X.: Thalidomide derivatives degrade BCL-2 by reprogramming the binding surface of CRBN. Cell Reports Physical Science 5 (5) (2024)

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Cruz-León, S.; Majtner, T.; Hoffmann, P. C.; Kreysing, J. P.; Kehl, S.; Tuijtel, M.; Schaefer, S. L.; Geißler, K.; Beck, M.; Turoňová, B. et al.; Hummer, G.: High-confidence 3D template matching for cryo-electron tomography. Nature Communications 15, 3992 (2024)

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Berndt, C.; Alborzinia, H.; Amen, V. S.; Ayton, S.; Barayeu, U.; Bartelt, A.; Bayir, H.; Bebber, C. M.; Birsoy, K.; Böttcher, J. P. et al.; Brabletz, S.; Brabletz, T.; Brown, A. R.; Brüne, B.; Bulli, G.; Bruneau, A.; Chen, Q.; DeNicola, G. M.; Dick, T. P.; Distéfano, A.; Dixon, S. J.; Engler, J. B.; Esser-von Bieren, J.; Fedorova, M.; Friedmann Angeli, J. P.; Friese, M. A.; Fuhrmann, D. C.; García-Sáez, A. J.; Garbowicz, K.; Götz, M.; Gu, W.; Hammerich, L.; Hassannia, B.; Jiang, X.; Jeridi, A.; Kang, Y. P.; Kagan, V. E.; Konrad, D. B.; Kotschi, S.; Lei, P.; Le Tertre, M.; Lev, S.; Liang, D.; Linkermann, A.; Lohr, C.; Lorenz, S.; Luedde, T.; Methner, A.; Michalke, B.; Milton, A. V.; Min, J.; Mishima, E.; Müller, S.; Motohashi, H.; Muckenthaler, M. U.; Murakami, S.; Olzmann, J. A.; Pagnussat, G.; Pan, Z.; Papagiannakopoulos, T.; Pedrera Puentes, L.; Pratt, D. A.; Proneth, B.; Ramsauer, L.; Rodriguez, R.; Saito, Y.; Schmidt, F.; Schmitt, C.; Schulze, A.; Schwab, A.; Schwantes, A.; Soula, M.; Spitzlberger, B.; Stockwell, B. R.; Thewes, L.; Thorn-Seshold, O.; Toyokuni, S.; Tonnus, W.; Trumpp, A.; Vandenabeele, P.; Vanden Berghe, T.; Venkataramani, V.; Vogel, F. C. E.; von Karstedt, S.; Wang, F.; Westermann, F.; Wientjens, C.; Wilhelm, C.; Wölk, M.; Wu, K.; Yang, X.; Yu, F.; Zou, Y.; Conrad, M.: Ferroptosis in health and disease. Redox Biology: an official journal of the Society for Free Radical Biology and Medicine 75, 103211 (2024)

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Tuijtel, M.; Cruz-León, S.; Kreysing, J. P.; Welsch, S.; Hummer, G.; Beck, M.; Turoňová, B.: Thinner is not always better: Optimizing cryo-lamellae for subtomogram averaging. Science Advances 10 (17), eadk6285 (2024)

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Adolph, C.; Cheung, C.-Y.; McNeil, M. B.; Jowsey, W. J.; Williams, Z. C.; Hards, K.; Harold, L. K.; Aboelela, A.; Bujaroski, R. S.; Buckley, B. J. et al.; Tyndall, J. D. A.; Li, Z.; Langer, J. D.; Preiss, L.; Meier, T.; Steyn, A. J. C.; Rhee, K. Y.; Berney, M.; Kelso, M. J.; Cook, G. M.: A dual-targeting succinate dehydrogenase and F₁F_o-ATP synthase inhibitor rapidly sterilizes replicating and non-replicating Mycobacterium tuberculosis. Cell Chemical Biology 31, pp. 683 - 698.e7 (2024)

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Lyratzakis, A.; Daskalakis, V.; Xie, H.; Tsiotis, G.: The synergy between the PscC subunits for electron transfer to the P₈₄₀ special pair in Chlorobaculum tepidum. Photosynthesis Research 160 (2-3), pp. 87 - 96 (2024)

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Schulz, V.; Steinhilper, R.; Oltmanns, J.; Freibert, S.-A.; Krapoth, N.; Linne, U.; Welsch, S.; Hoock, M. H.; Schünemann, V.; Murphy, B. J. et al.; Lill, R.: Mechanism and structural dynamics of sulfur transfer during de novo [2Fe-2S] cluster assembly on ISCU2. Nature Communications 15, 3269 (2024)

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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. PNAS 121 (14), e2315568121 (2024)

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Bullerjahn, J. T.; Hanson, S. M.: Extracting thermodynamic properties from van ’t Hoff plots with emphasis on temperature-sensing ion channels. Temperature 11 (1), pp. 60 - 71 (2024)

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Johnson, A. G.; Mayer, M. L.; Schaefer, S. L.; McNamara-Bordewick, N. K.; Hummer, G.; Kranzusch, P. J.: Structure and assembly of a bacterial gasdermin pore. Nature 628 (8008), pp. 657 - 663 (2024)

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Köfinger, J.; Hummer, G.: Encoding prior knowledge in ensemble refinement. The Journal of Chemical Physics 160, 114111 (2024)

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Vallat, B.; Webb, B. M.; Westbrook, J. D.; Goddard, T. D.; Hanke, C. A.; Graziadei, A.; Peisach, E.; Zalevsky, A.; Sagendorf, J.; Tangmunarunkit, H. et al.; Voinea, S.; Sekharan, M.; Yu, J.; A M J J Bonvin, A.; DiMaio, F.; Hummer, G.; Meiler, J.; Tajkhorshid, E.; Ferrin, T. E.; Lawson, C. L.; Leitner, A.; Rappsilber, J.; Seidel, C. A. M.; Jeffries, C. M.; Burley, S. K.; Hoch, J. C.; Kurisu, G.; Morris, K.; Patwardhan, A.; Velankar, S.; Schwede, T.; Trewhella, J.; Kesselman, C.; Berman, H. M.; Sali, A.: IHMCIF: An Extension of the PDBx/mmCIF Data Standard for Integrative Structure Determination Methods. Journal of Molecular Biology, 168546 (2024)

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Lasham, J.; Djurabekova, A.; Zickermann, V.; Vonck, J.; Sharma, V.: Role of Protonation States in the Stability of Molecular Dynamics Simulations of High-Resolution Membrane Protein Structures. The Journal of Physical Chemistry B 128 (10), pp. 2304 - 2316 (2024)

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Pietrek, L. M.; Stelzl, L. S.; Hummer, G.: Hierarchical Assembly of Single-Stranded RNA. Journal of Chemical Theory and Computation 20 (5), pp. 2246 - 2260 (2024)

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Blanc, F. E. C.; Hummer, G.: Mechanism of proton-powered c-ring rotation in a mitochondrial ATP synthase. PNAS 121 (11), e2314199121 (2024)

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Jeppsson, K.; Pradhan, B.; Sutani, T.; Sakata, T.; Umeda Igarashi, M.; Berta, D. G.; Kanno, T.; Nakato, R.; Shirahige, K.; Kim, E. et al.; Björkegren, C.: Loop-extruding Smc5/6 organizes transcription-induced positive DNA supercoils. Molecular Cell 84 (5), pp. 867 - 882.e5 (2024)

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Asido, M.; Boumrifak, C.; Weissbecker, J.; Bamberg, E.; Wachtveitl, J.: Vibrational Study of the Inward Proton Pump Xenorhodopsin NsXeR: Switch Order Determines Vectoriality. Journal of Molecular Biology 436 (5), 168447 (2024)

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Hoyer, M. J.; Capitanio, C.; Smith, I. R.; Paoli, J. C.; Bieber, A.; Jiang, Y.; Paulo, J. A.; Gonzalez-Lozano, M. A.; Baumeister, W.; Wilfling, F. et al.; Schulman, B. A.; Harper, J. W.: Combinatorial selective ER-phagy remodels the ER during neurogenesis. Nature Cell Biology 26 (3), pp. 378 - 392 (2024)

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Laube, E.; Schiller, J.; Zickermann, V.; Vonck, J.: Using cryo-EM to understand the assembly pathway of respiratory complex I. Acta Crystallographica Section D: Structural Biology 80, pp. 159 - 173 (2024)

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Schumacher, M.; Bamann, C.; Steinhoff, H.-J.: Time-Resolved EPR Spectroscopy of Channelrhodopsin-2 Helix B Movements. Applied Magnetic Resonance 55, pp. 207 - 218 (2024)

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Tsai, Y.-X.; Chang, N.-E.; Reuter, K.; Chang, H.-T.; Yang, T.-J.; von Bülow, S.; Sehrawat, V.; Zerrouki, N.; Tuffery, M.; Gecht, M. et al.; Grothaus, I. L.; Colombi Ciacchi, L.; Wang, Y.-S.; Hsu, M.-F.; Khoo, K.-H.; Hummer, G.; Hsu, S.-T. D.; Hanus, C.; Sikora, M.: Rapid simulation of glycoprotein structures by grafting and steric exclusion of glycan conformer libraries. Cell 187 (5), pp. 1296 - 1311.e26 (2024)

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Vlasova, A. D.; Bukhalovich, S. M.; Bagaeva, D. F.; Polyakova, A. P.; Ilyinsky, N. S.; Nesterov, S. V.; Tsybrov, F. M.; Bogorodskiy, A. O.; Zinovev, E. V.; Mikhailov, A. E. et al.; Vlasov, A. V.; Kuklin, A. I.; Borshchevskiy, V. I.; Bamberg, E.; Uversky, V. N.; Gordeliy, V. I.: Intracellular microbial rhodopsin-based optogenetics to control metabolism and cell signaling. Chemical Society Reviews 53 (7), pp. 3327 - 3349 (2024)

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Shukla, S.; Chen, W.; Rao, S.; Yang, S.; Ou, C.; Larsen, K. P.; Hummer, G.; Hanson, P. I.; Hurley, J. H.: Mechanism and cellular function of direct membrane binding by the ESCRT and ERES-associated Ca²⁺-sensor ALG-2. Proceedings of the National Academy of Sciences of the United States of America 121 (9), e2318046121 (2024)

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Vögele, M.; Köfinger, J.; Hummer, G.: Nanoporous Membranes of Densely Packed Carbon Nanotubes Formed by Lipid-Mediated Self-Assembly. ACS applied bio materials 7 (2), pp. 528 - 534 (2024)

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Altincekic, N.; Jores, N.; Löhr, F.; Richter, C.; Ehrhardt, C.; Blommers, M. J. J.; Berg, H.; Öztürk, S.; Gande, S. L.; Linhard, V. et al.; Orts, J.; Abi Saad, M. J.; Bütikofer, M.; Kaderli, J.; Karlsson, B. G.; Brath, U.; Hedenström, M.; Gröbner, G.; Sauer, U. H.; Perrakis, A.; Langer, J. D.; Banci, L.; Cantini, F.; Fragai, M.; Grifagni, D.; Barthel, T.; Wollenhaupt, J.; Weiss, M. S.; Robertson, A.; Bax, A.; Sreeramulu, S.; Schwalbe, H.: Targeting the Main Protease (M^pro, nsp5) by Growth of Fragment Scaffolds Exploiting Structure-Based Methodologies. ACS Chemical Biology 19 (2), pp. 563 - 574 (2024)

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Bjarnason, S.; McIvor, J. A. P.; Prestel, A.; Demény, K. S.; Bullerjahn, J. T.; Kragelund, B. B.; Mercadante, D.; Heidarsson, P. O.: DNA binding redistributes activation domain ensemble and accessibility in pioneer factor Sox2. Nature Communications 15, 1445 (2024)

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Rao, S.; Skulsuppaisarn, M.; Strong, L. M.; Ren, X.; Lazarou, M.; Hurley, J. H.; Hummer, G.: Three-step docking by WIPI2, ATG16L1, and ATG3 delivers LC3 to the phagophore. Science Advances 10 (6), eadj8027 (2024)

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Arnold, B.; Riegger, R. J.; Okuda, E. K.; Slišković, I.; Keller, M.; Bakisoglu, C.; McNicoll, F.; Zarnack, K.; Müller-McNicoll, M.: hGRAD: A versatile "one-fits-all" system to acutely deplete RNA binding proteins from condensates. Journal of Cell Biology 223 (2), e202304030 (2024)

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Liu, J.; Corroyer-Dulmont, S.; Pražák, V.; Khusainov, I.; Bahrami, K.; Welsch, S.; Vasishtan, D.; Obarska-Kosińska, A.; Thorkelsson, S. R.; Grünewald, K. et al.; Quemin, E. R. J.; Turoňová, B.; Locker, J. K.: The palisade layer of the poxvirus core is composed of flexible A10 trimers. Nature Structural & Molecular Biology (2024)

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Asgari, N.; Baaske, M. D.; Ton, J.; Orrit, M.: Exploring Rotational Diffusion with Plasmonic Coupling. ACS Photonics 11, pp. 634 - 641 (2024)

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Beck, M.; Covino, R.; Hänelt, I.; Müller-McNicoll, M.: Understanding the cell: Future views of structural biology. Cell 187 (3), pp. 545 - 562 (2024)

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Campbell, E. A.; Walden, H.; Walter, J. C.; Shukla, A. K.; Beck, M.; Passmore, L. A.; Xu, H. E.: AlphaFold: Research accelerator and hypothesis generator. Molecular Cell 84 (3), pp. 404 - 408 (2024)

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Centola, M.; Poppleton, E.; Ray, S.; Centola, M.; Welty, R.; Valero, J.; Walter, N. G.; Šulc, P.; Famulok, M.: A rhythmically pulsing leaf-spring DNA-origami nanoengine that drives a passive follower. Nature Nanotechnology 19 (2), pp. 226 - 236 (2024)

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Gambelli, L.; McLaren, M.; Conners, R.; Sanders, K.; Gaines, M. C.; Clark, L.; Gold, V. A. M.; Kattnig, D.; Sikora, M.; Hanus, C. et al.; Isupov, M. N.; Daum, B.: Structure of the two-component S-layer of the archaeon Sulfolobus acidocaldarius. eLife 13, e84617 (2024)

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Gewering, T.; Waghray, D.; Parey, K.; Jung, H.; Tran, N. N. B.; Zapata, J.; Zhao, P.; Chen, H.; Januliene, D.; Hummer, G. et al.; Urbatsch, I.; Moeller, A.; Zhang, Q.: Tracing the substrate translocation mechanism in P-glycoprotein. eLife 12, RP90174 (2024)

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Bapat, O.; Purimetla, T.; Kruessel, S.; Shah, M.; Fan, R.; Thum, C.; Rupprecht, F. A.; Langer, J. D.; Rangaraju, V.: VAP spatially stabilizes dendritic mitochondria to locally support synaptic plasticity. Nature Communications 15 (1), 205 (2024)

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Eria-Oliveira, A.-S.; Folacci, M.; Chassot, A. A.; Fedou, S.; Thézé, N.; Zabelskii, D.; Alekseev, A.; Bamberg, E.; Gordeliy, V.; Sandoz, G. et al.; Vivaudou, M.: Hijacking of internal calcium dynamics by intracellularly residing viral rhodopsins. Nature Communications 15 (1), 65 (2024)

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Braun, H.-P.; Klusch, N.: Promotion of oxidative phosphorylation by complex I-anchored carbonic anhydrases? Trends in Plant Science 29 (1), pp. 64 - 71 (2024)

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Schmidt, F. V.; Schulz, L.; Zarzycki, J.; Prinz, S.; Oehlmann, N. N.; Erb, T. J.; Rebelein, J. G.: Structural insights into the iron nitrogenase complex. Nature Structural & Molecular Biology 31 (1), pp. 150 - 158 (2024)

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Ugrina, M.; Burkhart, I.; Müller, D.; Schwalbe, H.; Schwierz, N.: RNA G-quadruplex folding is a multi-pathway process driven by conformational entropy. Nucleic Acids Research 52 (1), gkad1065, pp. 87 - 100 (2024)

MPG.PuRe

2023

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Trebino, T. E.; Markusic, B.; Nan, H.; Banerjee, S.; Wang, Z.: Unveiling the domain-specific and RAS isoform-specific details of BRAF kinase regulation. eLife 12, RP88836 (2023)

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Lazzeri, G.; Jung, H.; Bolhuis, P. G.; Covino, R.: Molecular Free Energies, Rates, and Mechanisms from Data-Efficient Path Sampling Simulations. Journal of Chemical Theory and Computation 19 (24), pp. 9060 - 9076 (2023)

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Marchal, D. G.; Schulz, L.; Schuster, I.; Ivanovska, J.; Paczia, N.; Prinz, S.; Zarzycki, J.; Erb, T. J.: Machine Learning-Supported Enzyme Engineering toward Improved CO₂-Fixation of Glycolyl-CoA Carboxylase. ACS Synthetic Biology 12 (12), pp. 3521 - 3530 (2023)

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Jagtap, P. K. A.; Müller, M.; Kiss, A. E.; Thomae, A. W.; Lapouge, K.; Beck, M.; Becker, P. B.; Hennig, J.: Structural basis of RNA-induced autoregulation of the DExH-type RNA helicase maleless. Molecular Cell 83, pp. 4318 - 4333 (2023)

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Kim, H.; Fábián, B.; Hummer, G.: Neighbor List Artifacts in Molecular Dynamics Simulations. Journal of Chemical Theory and Computation 19 (23), pp. 8919 - 8929 (2023)

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Wilfling, F.; Kaksonen, M.; Stachowiak, J.: Protein condensates as flexible platforms for membrane traffic. Current Opinion in Cell Biology 85, 102258 (2023)

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van Oostrum, M.; Blok, T. M.; Giandomenico, S. L.; tom Dieck, S.; Tushev, G.; Fürst, N.; Langer, J. D.; Schuman, E. M.: The proteomic landscape of synaptic diversity across brain regions and cell types. Cell 186 (24), pp. 5411 - 5427.e23 (2023)

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Pandi, A.; Adam, D.; Zare, A.; Trinh, V. T.; Schaefer, S. L.; Burt, M.; Klabunde, B.; Bobkova, E.; Kushwaha, M.; Foroughijabbari, Y. et al.; Braun, P.; Spahn, C.; Preußer, C.; Pogge von Strandmann, E.; Bode, H. B.; von Buttlar, H.; Bertrams, W.; Jung, A. L.; Abendroth, F.; Schmeck, B.; Hummer, G.; Vázquez, O.; Erb, T. J.: Cell-free biosynthesis combined with deep learning accelerates de novo-development of antimicrobial peptides. Nature Communications 14 (1), 7197 (2023)

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Ibrahim, M.; Wenzel, C.; Lallemang, M.; Balzer, B. N.; Schwierz, N.: Adsorbing DNA to Mica by Cations: Influence of Valency and Ion Type. Langmuir 39 (44), pp. 15553 - 15562 (2023)

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Boyle, E.; Wilfling, F.: Autophagy as a caretaker of nuclear integrity. FEBS Letters 597, pp. 2728 - 2738 (2023)

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Gul, M.; Yuksel, B.; Bulut, H.; DeMirci, H.: Structural analysis of wild-type and Val120Thr mutant Candida boidinii formate dehydrogenase by X-ray crystallography. Acta Crystallographica Section D: Structural Biology 79 (11), pp. 1010 - 1017 (2023)

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Hau, J.-L.; Kaltwasser, S.; Muras, V.; Casutt, M. S.; Vohl, G.; Claußen, B.; Steffen, W.; Leitner, A.; Bill, E.; Cutsail, G. E. et al.; DeBeer, S.; Vonck, J.; Steuber, J.; Fritz, G.: Conformational coupling of redox-driven Na⁺-translocation in Vibrio cholerae NADH:quinone oxidoreductase. Nature Structural & Molecular Biology 30 (11), pp. 1686 - 1694 (2023)

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Oosterheert, W.; Blanc, F. E. C.; Roy, A.; Belyy, A.; Sanders, M. B.; Hofnagel, O.; Hummer, G.; Bieling, P.; Raunser, S.: Molecular mechanisms of inorganic-phosphate release from the core and barbed end of actin filaments. Nature Structural & Molecular Biology 30 (11), pp. 1774 - 1785 (2023)

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Borges-Araújo, L.; Borges-Araújo, A. C.; Ozturk, T. N.; Ramirez-Echemendia, D. P.; Fábián, B.; Carpenter, T. S.; Thallmair, S.; Barnoud, J.; Ingólfsson, H. I.; Hummer, G. et al.; Tieleman, D. P.; Marrink, S. J.; Souza, P. C. T.; Melo, M. N.: Martini 3 Coarse-Grained Force Field for Cholesterol. Journal of Chemical Theory and Computation 19 (20), pp. 7387 - 7404 (2023)

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Demmer, U.; Lemaire, O.; Belhamri, M.; Ermler, U.: Ethoxylate Polymer-Based 96-Well Screen for Protein Crystallization. Crystals 13, 1519 (2023)

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Balyschew, N.; Yushkevich, A.; Mikirtumov, V.; Sanchez, R. M.; Sprink, T.; Kudryashev, M.: Streamlined structure determination by cryo-electron tomography and subtomogram averaging using TomoBEAR. Nature Communications 14, 6543 (2023)

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Bühl, E.; Resler, T.; Lam, R. S.; Asido, M.; Bamberg, E.; Schlesinger, R.; Bamann, C.; Heberle, J.; Wachtveitl, J.: Assessing the Role of R120 in the Gating of Cr ChR2 by Time-Resolved Spectroscopy from Femtoseconds to Seconds. Journal of the American Chemical Society 145 (40), pp. 21832 - 21840 (2023)

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Mello-Vieira, J.; Bopp, T.; Đikić, I.: Ubiquitination and cell-autonomous immunity. Current Opinion in Immunology 84, 102368 (2023)

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Flores-Solis, D.; Lushpinskaia, I. P.; Polyansky, A. A.; Changiarath, A.; Boehning, M.; Mirkovic, M.; Walshe, J.; Pietrek, L. M.; Cramer, P.; Stelzl, L. S. et al.; Zagrovic, B.; Zweckstetter, M.: Driving forces behind phase separation of the carboxy-terminal domain of RNA polymerase II. Nature Communications 14, 5979 (2023)

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Vaculík, O.; Chalupová, E.; Grešová, K.; Majtner, T.; Alexiou, P.: Transfer Learning Allows Accurate RBP Target Site Prediction with Limited Sample Sizes. Biology 12 (10), 1276 (2023)

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Sanchez Carrillo, I. B.; Hoffmann, P. C.; Barff, T.; Beck, M.; Germain, H.: Preparing Arabidopsis thaliana root protoplasts for cryo electron tomography. Frontiers in Plant Science 14, 1261180 (2023)

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Nguyen, H.; Nguyen, H. L.; Lan, P. D.; Thai, N. Q.; Sikora, M.; Li, M. S.: Interaction of SARS-CoV-2 with host cells and antibodies: experiment and simulation. Chemical Society Reviews 52 (18), pp. 6497 - 6553 (2023)

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Bullerjahn, J. T.; Fábián, B.; Hummer, G.: Efficient generation of random rotation matrices in four dimensions. Physical Review E 108 (3), 035307 (2023)

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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 (9), pp. 1329 - 1340 (2023)

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Deák, G.; Wapenaar, H.; Sandoval, G.; Chen, R.; Taylor, M. D.; Burdett, H.; Watson, J.; Tuijtel, M. W.; Webb, S.; Wilson, M.: Histone divergence in trypanosomes results in unique alterations to nucleosome structure. Nucleic Acids Research 51 (15), gkad577, pp. 7882 - 7899 (2023)

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