Max Planck Institute of Biophysics

Publications of the Max Planck Institute of Biophysics 1947 – present

Journal Article (54)

2018

Journal Article

Schöneberg, J.; Pavlin, M. R.; Yan, S.; Righini, M.; Lee, I.-H.; Carlson, L.-A.; Bahrami, A. H.; Goldman, D. H.; Ren, X.; Hummer, G. et al.; Bustamante, C.; Hurley, J. H.: ATP-dependent force generation and membrane scission by ESCRT-III and Vps4. Science 362 (6421), pp. 1423 - 1428 (2018)

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Journal Article

Poppe, J.; Brünle, S.; Hail, R.; Wiesemann, K.; Schneider, K.; Ermler, U.: The Molybdenum Storage Protein: A soluble ATP hydrolysis‐dependent molybdate pump. The FEBS Journal 285 (24), pp. 4602 - 4616 (2018)

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Journal Article

Grotz, K. K.; Nueesch, M. F.; Holmstrom, E. D.; Heinz, M.; Stelzl, L. S.; Schuler, B.; Hummer, G.: Dispersion Correction Alleviates Dye Stacking of Single-Stranded DNA and RNA in Simulations of Single-Molecule Fluorescence Experiments. The Journal of Physical Chemistry B 122 (49), pp. 11626 - 11639 (2018)

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Journal Article

Brünle, S.; Poppe, J.; Hail, R.; Demmer, U.; Ermler, U.: The molybdenum storage protein - A bionanolab for creating experimentally alterable polyoxomolybdate clusters. Journal of Inorganic Biochemistry 189 (12), pp. 172 - 179 (2018)

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Journal Article

Liu, W.; Liu, A.; Gao, H.; Wang, Q.; Wang, L.; Warkentin, E.; Rao, Z.; Michel, H.; Peng, G.: Structural properties of the peroxiredoxin AhpC2 from the hyperthermophilic eubacterium Aquifex aeolicus. Biochimica et Biophysica Acta (BBA) - General Subjects 1862 (12), pp. 2797 - 2805 (2018)

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Journal Article

Seyfried, P.; Heinz, M.; Pintér, G.; Klötzner, D.-P.; Becker, Y.; Bolte, M.; Jonker, H. R. A.; Stelzl, L. S.; Hummer, G.; Schwalbe, H. et al.; Heckel, A.: Optimal Destabilization of DNA Double Strands by Single-Nucleobase Caging. Chemistry – A European Journal 24 (66), pp. 17568 - 17576 (2018)

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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 in English 57 (46), pp. 15056 - 15059 (2018)

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Journal Article

Bock, C.; Löhr, F.; Tumulka, F.; Reichel, K.; Würz, J.; Hummer, G.; Schäfer, L.; Tampé, R.; Joseph, B.; Bernhard, F. et al.; Dötsch, V.; Abele, R.: Structural and functional insights into the interaction and targeting hub TMD0 of the polypeptide transporter TAPL. Scientific Reports 8, 15662 (2018)

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Journal Article

Rossini, E.; Gajewski, J.; Klaus, M.; Hummer, G.; Grininger, M.: Analysis and engineering of substrate shuttling by the acyl carrier protein (ACP) in fatty acid synthases (FASs). Chemical Communications 54 (82), pp. 11606 - 11609 (2018)

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Journal Article

Reiter, S.; Hülsdunk, P.; Woo, T.; Eberle, J. S.; Akay, L. A.; Longo, A.; Meier-Credo, J.; Kretschmer, F.; Langer, J. D.; Kaschube, M. et al.; Laurent, G.: Elucidating the control and development of skin patterning in cuttlefish. Nature 562 (7727), pp. 361 - 366 (2018)

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Journal Article

Reichel, K.; Stelzl, L. S.; Köfinger, J.; Hummer, G.: Precision DEER Distances from Spin-Label Ensemble Refinement. The Journal of Physical Chemistry Letters 9 (18), pp. 5748 - 5752 (2018)

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Journal Article

Parey, K.; Brandt, U.; Xie, H.; Mills, D. J.; Siegmund, K.; Vonck, J.; Kühlbrandt, W.; Zickermann, V.: Cryo-EM structure of respiratory complex I at work. eLife 7, e39213 (2018)

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Journal Article

Cossio, P.; Allegretti, M.; Mayer, F.; Müller, V.; Vonck, J.; Hummer, G.: Bayesian inference of rotor ring stoichiometry from electron microscopy images of archaeal ATP synthase. Microscopy 67 (5), pp. 266 - 273 (2018)

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Journal Article

Lans, I.; Seco, J.; Serrano, A.; Burbano, R.; Cossio, P.; Daza, M. C.; Medina, M.: The Dimer-of-Trimers Assembly Prevents Catalysis at the Transferase Site of Prokaryotic FAD Synthase. Biophysical Journal 115 (6), pp. 988 - 995 (2018)

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Journal Article

Warnau, J.; Sharma, V.; Gamiz-Hernandez, A. P.; Di Luca, A.; Haapanen, O.; Vattulainen, I.; Wilkström, M.; Hummer, G.; Kaila, V. R. I.: Redox-coupled quinone dynamics in the respiratory complex I. Proceedings of the National Academy of Sciences of the United States of America 115 (36), pp. E8413 - E8420 (2018)

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Journal Article

Hofbauer, H. F.; Gecht, M.; Fischer, S. C.; Seybert, A.; Frangakis, A. S.; Stelzer, E. H. K.; Covino, R.; Hummer, G.; Ernst, R.: The molecular recognition of phosphatidic acid by an amphipathic helix in Opi1. The Journal of Cell Biology: JCB 217 (9), pp. 3109 - 3126 (2018)

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Journal Article

Birch, J.; Axford, D.; Foadi, J.; Meyer, A.; Eckhardt, A.; Thielmann, Y.; Moraes, I.: The fine art of integral membrane protein crystallization. Methods 147, pp. 150 - 162 (2018)

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Journal Article

Vögele, M.; Köfinger, J.; Hummer, G.: Molecular dynamics simulations of carbon nanotube porins in lipid bilayers. Faraday Discussions 209, pp. 341 - 358 (2018)

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Journal Article

Cruz-León, S.; Vázquez-Mayagoitia, A.; Melchionna, S.; Schwierz, N.; Fyta, M.: Coarse-Grained Double-Stranded RNA Model from Quantum-Mechanical Calculations. The Journal of Physical Chemistry B 122 (32), pp. 7915 - 7928 (2018)

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Journal Article

Gränz, M.; Erlenbach, N.; Spindler, P.; Gophane, D. B.; Stelzl, L. S.; Sigurdsson, S. T.; Prisner, T. F.: Dynamics of Nucleic Acids at Room Temperature Revealed by Pulsed EPR Spectroscopy. Angewandte Chemie International Edition 57 (33), pp. 10540 - 10543 (2018)

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Journal Article

Covino, R.; Hummer, G.; Ernst, R.: Integrated Functions of Membrane Property Sensors and a Hidden Side of the Unfolded Protein Response. Molecular Cell 71 (3), pp. 458 - 467 (2018)

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Journal Article

Kehrer, J.; Kuss, C.; Andres-Pons, A.; Reustle, A.; Dahan, N.; Devos, D.; Kudryashev, M.; Beck, M.; Mair, G. R.; Frischknecht, F.: Nuclear Pore Complex Components in the Malaria Parasite Plasmodium Berghei. Scientific Reports 8, 11249 (2018)

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Journal Article

Vögele, M.; Köfinger, J.; Hummer, G.: Hydrodynamics of Diffusion in Lipid Membrane Simulations. Physical Review Letters 120 (26), 268104 (2018)

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Journal Article

Dörrbaum, A. R.; Kochen, L.; Langer, J. D.; Schuman, E. M.: Local and global influences on protein turnover in neurons and glia. eLife 7, e34202 (2018)

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Journal Article

De Vos, O.; Venable, R. M.; Van Hecke, T.; Hummer, G.; Pastor, R. W.; Ghysels, A.: Membrane Permeability: Characteristic Times and Lengths for Oxygen and a Simulation-Based Test of the Inhomogeneous Solubility-Diffusion Model. Journal of Chemical Theory and Computation 14 (7), pp. 3811 - 3824 (2018)

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Journal Article

Linke, M.; Köfinger, J.; Hummer, G.: Rotational Diffusion Depends on Box Size in Molecular Dynamics Simulations. The Journal of Physical Chemistry Letters 9 (11), pp. 2874 - 2878 (2018)

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Journal Article

Linke, M.; Köfinger, J.; Hummer, G.: Fully Anisotropic Rotational Diffusion Tensor from Molecular Dynamics Simulations. The Journal of Physical Chemistry B 122 (21), pp. 5630 - 5639 (2018)

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Journal Article

Vinayagam, D.; Mager, T.; Apelbaum, A.; Bothe, A.; Merino, F.; Hofnagel, O.; Gatsogiannis, C.; Raunser, S.: Electron cryo-microscopy structure of the canonical TRPC4 ion channel. eLife 7, e36615 (2018)

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Journal Article

Mager, T. M.-H.; Lopez de la Morena, D.; Senn, V.; Schlotte, J.; D´Errico, A.; Feldbauer, K.; Wrobel, C.; Jung, S.; Bodensiek, K.; Rankovic, V. et al.; Browne, L.; Huet, A.; Jüttner, J.; Wood, P. G.; Letzkus, J.; Moser, T.; Bamberg, E.: High frequency neural spiking and auditory signaling by ultrafast red-shifted optogenetics. Nature Communications 9, 1750 (2018)

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Journal Article

Peng, G.; Meyer, B.; Sokolova, L.; Liu, W.; Bornemann, S.; Juli, J.; Zwicker, K.; Karas, M.; Brutschy, B.; Michel, H.: Identification and characterization two isoforms of NADH:ubiquinone oxidoreductase from the hyperthermophilic eubacterium Aquifex aeolicus. Biochimica et Biophysica Acta, Bioenergetics 1859 (5), pp. 366 - 373 (2018)

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Journal Article

Sousa, J. S.; Calisto, F.; Langer, J. D.; Mills, D. J.; Refojo, P. N.; Teixeira, M.; Kühlbrandt, W.; Vonck, J.; Pereira, M. M.: Structural basis for energy transduction by respiratory alternative complex III. Nature Communications 9, 1728 (2018)

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Journal Article

Eisinger, M. L.; Nie, L.; Dörrbaum, A. R.; Langer, J. D.; Michel, H.: The Xenobiotic Extrusion Mechanism of the MATE Transporter NorM_PS from Pseudomonas stutzeri. Journal of Molecular Biology (London) 430 (9), pp. 1311 - 1323 (2018)

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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 in English 57 (18), pp. 4917 - 4920 (2018)

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Journal Article

Groß, A. S.; Schulz, C.; Kolb, J.; Koster, J.; Wehner, S.; Czaplinski, S.; Khilan, A.; Rohrer, H.; Harter, P. N.; Klingebiel, T. et al.; Langer, J. D.; Geerts, D.: Tumorigenic and Antiproliferative Properties of the TALE-Transcription Factors MEIS2D and MEIS2A in Neuroblastoma. Cancer research: an official organ of the American Association for Cancer Research 78 (8), pp. 1935 - 1947 (2018)

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Journal Article

Ardevol, A.; Hummer, G.: Retinal isomerization and water-pore formation in channelrhodopsin-2. Proceedings of the National Academy of Sciences of the United States of America 115 (14), pp. 3557 - 3562 (2018)

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Journal Article

Cossio, P.; Hummer, G.: Likelihood-based structural analysis of electron microscopy images. Current Opinion in Structural Biology 49, pp. 162 - 168 (2018)

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Journal Article

Cossio, P.; Hummer, G.; Szabo, A.: Transition paths in single-molecule force spectroscopy. The Journal of Chemical Physics 148 (12), 123309 (2018)

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Journal Article

Joedicke, L.; Mao, J.; Kuenze, G.; Reinhart, C.; Kalavacherla, T.; Jonker, H. R.A.; Richter, C.; Schwalbe, H.; Meiler, J.; Preu, J. et al.; Michel, H.; Glaubitz, C.: The molecular basis of subtype selectivity of human kinin G-protein-coupled receptors. Nature Chemical Biology 13 (3), pp. 284 - 290 (2018)

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Journal Article

Rossini, E.; Bochevarov, A. D.; Knapp, E. W.: Empirical Conversion of pK_a Values between Different Solvents and Interpretation of the Parameters: Application to Water, Acetonitrile, Dimethyl Sulfoxide, and Methanol. ACS Omega 3 (2), pp. 1653 - 1662 (2018)

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Journal Article

Mamatkulov, S.; Schwierz, N.: Force fields for monovalent and divalent metal cations in TIP3P water based on thermodynamic and kinetic properties. The Journal of Chemical Physics 148 (7), 074504 (2018)

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Journal Article

Schanzenbächer, C. T.; Langer, J. D.; Schuman, E. M.: Time- and polarity-dependent proteomic changes associated with homeostatic scaling at central synapses. eLife 7, e33322 (2018)

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Journal Article

Bahrami, A. H.; Weikl, T. R.: Curvature-Mediated Assembly of Janus Nanoparticles on Membrane Vesicles. Nano Letters 18 (2), pp. 1259 - 1263 (2018)

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Journal Article

Demmer, J. K.; Bertsch, J.; Öppinger, C.; Wohlers, H.; Kayastha, K.; Demmer, U.; Ermler, U.; Müller, V.: Molecular basis of the flavin‐based electron‐bifurcating caffeyl‐CoA reductase reaction. FEBS Letters 592 (3), pp. 332 - 342 (2018)

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Journal Article

Ramírez, A. S.; Boilevin, J.; Mehdipour, A. R.; Hummer, G.; Darbre, T.; Reymond, J.-L.; Locher, K. P.: Structural basis of the molecular ruler mechanism of a bacterial glycosyltransferase. Nature Communications 9, 445 (2018)

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Journal Article

Dautant, A.; Meier, T.; Hahn, A.; Tribouillard-Tanvier, D.; di Rago, J.-P.; Kucharczyk, R.: ATP Synthase Diseases of Mitochondrial Genetic Origin. Frontiers in Physiology 9, 329 (2018)

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Journal Article

Davies, K. M.; Blum, T. B.; Kühlbrandt, W.: Conserved in situ arrangement of complex I and III₂ in mitochondrial respiratory chain supercomplexes of mammals, yeast, and plants. Proceedings of the National Academy of Sciences of the United States of America 115 (12), pp. 3024 - 3029 (2018)

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Journal Article

Davies, K. M.; Kühlbrandt, W.: Structure of the catalytic F₁ head of the F₁-F_o ATP synthase from Trypanosoma brucei. Proceedings of the National Academy of Sciences of the United States of America 115 (13), pp. E2906 - E2907 (2018)

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Journal Article

Eisel, B.; Hartrampf, F. W. W.; Meier, T.; Trauner, D.: Reversible Optical Control of F₁F₀-ATP Synthase Using Photoswitchable Inhibitors. FEBS Letters 592 (3), pp. 343 - 355 (2018)

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Journal Article

Frese, N.; Scherr, J.; Beyer, A.; Terfort, A.; Gölzhäuser, A.; Hampp, N.; Rhinow, D.: Multicomponent patterned ultrathin carbon nanomembranes by laser ablation. Applied Surface Science 427 (A), pp. 126 - 130 (2018)

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Journal Article

Gewering, T.; Januliene, D.; Ries, A. B.; Moeller, A.: Know your detergents: A case study on detergent background in negative stain electron microscopy. Journal of Structural Biology 203 (3), pp. 242 - 246 (2018)

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Journal Article

Hahn, A.; Vonck, J.; Mills, D. J.; Meier, T.; Kühlbrandt, W.: Structure, mechanism, and regulation of the chloroplast ATP synthase. Science 360 (6389), pp. 1 - 10 (2018)

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Journal Article

Kruse, K.; Salzer, R.; Joos, F.; Averhoff, B.: Functional dissection of the three N-terminal general secretory pathway domains and the Walker motifs of the traffic ATPase PilF from Thermus thermophilus. Extremophiles 22 (3), pp. 461 - 471 (2018)

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Journal Article

Sebastián, M.; Anoz-Carbonell, E.; Gracia, B.; Cossio, P.; Aínsa, J. A.; Lans, I.; Medina, M.: Discovery of antimicrobial compounds targeting bacterial type FAD synthetases. Journal of Enzyme Inhibition and Medicinal Chemistry 33 (1), pp. 241 - 254 (2018)

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Journal Article

Wang, S.; Powers, R. E.; Gold, V. A. M.: The ER morphology-regulating lunapark protein induces the formation of stacked bilayer discs. Life Science Alliance 1 (1), e201700014 (2018)

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Book Chapter (3)

2018

Book Chapter

Kudryashev, M.: Resolution in Electron Tomography. In: Biological and Medical Physics, Biomedical Engineering (BIOMEDICAL), pp. 261 - 282 (Ed. Hanson, E.). Springer International Publishing AG 2018, 6330 Cham Switzerland (2018)

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Book Chapter

Krasnoselska, G. O.; Meier, T.: Purification and Reconstitution of Ilyobacter tartaricus ATP Synthase. In: Methods in Molecular Biology (MIMB), Vol. 1805, pp. 51 - 71 (Ed. Lavelle, C.). Humana Press, New York (2018)

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Book Chapter

Sousa, J. S.; D'Imprima, E.; Vonck, J.: Mitochondrial Respiratory Chain Complexes. In: Membrane Protein Complexes: Structure and Function, Vol. 87, pp. 167 - 227 (Ed. Harris, J.). Springer, Singapore (2018)

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Proceedings (4)

2018

Proceedings

CryoEM structures of ATP synthase (Biochim. Biophys. Acta (BBA) - Bioenergetics, 1859). Elsevier, Amsterdam (2018)

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Proceedings

Structural basis for energy transduction by respiratory alternative complex III (Biochim. Biophys. Acta (BBA) - Bioenergetics, 1859). 20th European Bioenergetics Conference, Budapest, August 25, 2018 - August 30, 2018. (2018)

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Proceedings

Cryo-EM structure of the alternative complex III from Rhodothermus marinus (Biochim. Biophys. Acta (BBA) - Bioenergetics, 1859). (2018), 1 p.

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Proceedings

The cryo EM structure of respiratory complex I from Yarrowia lipolytica (Biochim. Biophys. Acta (BBA) - Bioenergetics, 1859). Budapest, Hungary (2018), 01 p.

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Conference Paper (2)

2018

Conference Paper

Heberle, J.; Lorenz-Fonfria, V.; Resler, T.; Schultz, B.; Schlesinger, R.; Bamann, C.; Bamberg, E.: Molecular mechanism of channelrhodopsin. 20th European Bioenergetics Conference , Budapest, Hungary, August 25, 2018 - August 30, 2018. Biochimica et Biophysica Acta, Bioenergetics 1859, e27, (2018)

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Conference Paper

Michel, H.: Terminal oxidases of the heme-copper and bd oxidase type, a structural and functional comparison. 20th European Bioenergetics Conference, Budapest, Hungary, August 25, 2018 - August 30, 2018. Biochimica et Biophysica Acta, Bioenergetics 1859, e3, (2018)

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Thesis - PhD (3)

2018

Thesis - PhD

Sommer, M.: Characterization of Secondary Active Transporters produced in Escherichia coli and the new Host Pseudomonas stutzeri. Dissertation, 209 pp., Fachbereich Biochemie, Chemie und Pharmazie, Goethe Universität Frankfurt, Frankfurt am Main (2018)

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Thesis - PhD

D'Imprima, E.: Advanced image processing for Single Particle cryo-EM. Dissertation, Goethe-Universität, Frankfurt am Main (2018)

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Thesis - PhD

van Pee, K.: Structural and functional characterization of pore-forming proteins. Dissertation, Goethe-Universität, Frankfurt am Main (2018)

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Thesis - Master (5)

2018

Thesis - Master

Quoika, P.: Thermodynamic and structural properties of dense protein solutions. Master, 145 pp., Fachbereich Physik, Goethe-Universität Frankfurt, Frankfurt am Main (2018)

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Thesis - Master

Sahebzade, A.: Expression, purifcation and structural characterization of the heterotetrameric NMDA receptor GluN1/GluN2D. Master, 101 pp., Institut für Biochemie, Goethe Universität Frankfurt, Frankfurt am Main (2018)

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Thesis - Master

Juli, J.: Solubilization experimental studies on the supercomplex formation of the respiratory complex Iin a hyperthermophilic bacterium Acquifex Aeolicus. Master, 83 pp., Fachbereich Biowissenschaften, Goethe-Universität Frankfurt, Frankfurt am Main (2018)

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Thesis - Master

Desch, K.: HDX-MS of Membrane Proteins: Structural Investigation of Respiratory Chain Complexes. Master, 66 pp., Fachbereich Biochemie, Chemie und Pharmazie, Goethe Universität Frankfurt, Frankfurt am Main (2018)

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Thesis - Master

Wieferig, J.-P.: Imaging Alcohol Oxidase in Cubic Ice. Master, 29 pp., Universität Lübeck (2018)

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Thesis - Bachelor (3)

2018

Thesis - Bachelor

Ibrahim, R.: Simplification for picking of protein crystals for high performance cooling and X-ray structure analysis. Bachelor, 56 pp., Frankfurt University of Applied Sciences, Frankfurt am Main (2018)

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Thesis - Bachelor

Hussein, T.: Untersuchung zu verschiedenen Offen- & Geschlossenzuständen in Channelrhodopsin-2. Bachelor, 56 pp., Goethe-Universität, Frankfurt am Main (2018)

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Thesis - Bachelor

Roy, S.: Integrating experimental data into replica simulations of biomolecules. Bachelor, 96 pp., Goethe-Universität, Frankfurt am Main (2018)

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Editorial (2)

2018

Editorial

Bamberg, E.; Gärtner, W.; Trauner, D.: Introduction: Optogenetics and Photopharmacology. Chemical Reviews 118 (21), pp. 10627 - 10628 (2018)

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Editorial

Kühlbrandt, W.; Briggs, J.: Editorial overview: Cryo electron microscopy: the impact of the cryo-EM revolution in biology. Current Opinion in Structural Biology 52, pp. iii - v (2018)

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Interview (1)

2018

Interview

Ausgezeichnet – Wie wird man Nobelpreisträger? (2018)

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