Publications of the Max Planck Institute of Biophysics 1947 – present

Journal Article (48)

2013

Journal Article

Rekittke, I.; Olkhova, E.; Wiesner, J.; Demmer, U.; Warkentin, E.; Jomaa, H.; Ermler, U.: Structure of the (E)-4-hydroxy-3-methyl-but-2-enyl-diphosphate reductase from Plasmodium falciparum. FEBS Letters 587 (24), pp. 3968 - 3972 (2013)

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Cossio, P.; Hummer, G.: Bayesian analysis of individual electron microscopy images: towards structures of dynamic and heterogeneous biomolecular assemblies. Journal of Structural Biology 184 (3), pp. 427 - 437 (2013)

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Journal Article

Fielding, A. J.; Parey, K.; Ermler, U.; Scheller, S.; Jaun, B.; Bennati, M.: Advanced electron paramagnetic resonance on the catalytic iron–sulfur cluster bound to the CCG domain of heterodisulfide reductase and succinate: quinone reductase. Journal of Biological Inorganic Chemistry 18 (8), pp. 905 - 915 (2013)

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Journal Article

Quemin, E. R. J.; Lucas, S.; Daum, B.; Quax, T. E. F.; Kühlbrandt, W.; Forterre, P.; Albers, S.-V.; Prangishvili, D.; Krupovic, M.: First insights into the entry process of hyperthermophilic archaeal viruses. Journal of Virology 87 (24), pp. 13379 - 13385 (2013)

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Full

Journal Article

Koshy, C.; Schweikhard, E. S.; Gärtner, R. M.; Perez, C.; Yildiz, Ö.; Ziegler, C.: Structural evidence for functional lipid interactions in the betaine transporter BetP. The EMBO Journal 32 (23), pp. 3096 - 3105 (2013)

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Journal Article

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

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Journal Article

Gaiko, O.; Bazzone, A.; Fendler, K.; Kaback, H. R.: Electrophysiological Characterization of Uncoupled Mutants of LacY. Biochemistry 52 (46), pp. 8261 - 8266 (2013)

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Journal Article

Halang, P.; Leptihn, S.; Meier, T.; Vorburger, T.; Steuber, J.: The function of the Na⁺-driven flagellum of Vibrio cholerae is determined by osmolality and pH. Journal of Bacteriology 195 (21), pp. 4888 - 4899 (2013)

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Journal Article

Best, R. B.; Hummer, G.; Eaton, W. A.: Native contacts determine protein folding mechanisms in atomistic simulations. Proceedings of the National Academy of Sciences of the United States of America 110 (44), pp. 17874 - 17879 (2013)

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Journal Article

Kalayil, S.; Schulze, S.; Kühlbrandt, W.: Arginine oscillation explains Na⁺ independence in the substrate/product antiporter CaiT. Proceedings of the National Academy of Sciences of the United States of America 110 (43), pp. 17296 - 17301 (2013)

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Journal Article

Okazaki, K.-i.; Hummer, G.: Phosphate release coupled to rotary motion of F₁-ATPase. Proceedings of the National Academy of Sciences of the United States of America 110 (41), pp. 16468 - 16473 (2013)

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Davies, K. M.; Daum, B.: Role of cryo-ET in membrane bioenergetics research. Biochemical Society Transactions 41 (5), pp. 1227 - 1234 (2013)

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Parey, K.; Demmer, U.; Warkentin, E.; Wynen, A.; Ermler, U.; Dahl, C.: Structural, Biochemical and Genetic Characterization of Dissimilatory ATP Sulfurylase from Allochromatium vinosum. PLoS One 8 (9), p. e74707 - e74707 (2013)

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Daum, B.; Walter, A.; Horst, A.; Osiewacz, H. D.; Kühlbrandt, W.: Age-dependent dissociation of ATP synthase dimers and loss of inner-membrane cristae in mitochondria. Proceedings of the National Academy of Sciences of the United States of America 110 (38), pp. 15301 - 15306 (2013)

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Journal Article

Branduardi, D.; Faraldo-Gómez, J. D.: String Method for Calculation of Minimum Free-Energy Paths in Cartesian Space in Freely Tumbling Systems. Journal of Chemical Theory and Computation 9 (9), pp. 4140 - 4154 (2013)

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Kozuch, J.; von der Hocht, I.; Hilbers, F.; Michel, H.; Weidinger, I. M.: Resonance Raman Characterization of the Ammonia-Generated Oxo Intermediate of Cytochrome c Oxidase from Paracoccus denitrificans. Biochemistry 52 (36), pp. 6197 - 6202 (2013)

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Journal Article

Sattig, T.; Rickert, C.; Bamberg, E.; Steinhoff, H.-J.; Bamann, C.: Light-Induced Movement of the Transmembrane Helix B in Channelrhodopsin-2. Angewandte Chemie, International Edition in English 52 (37), pp. 9705 - 9708 (2013)

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Journal Article

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

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Corbi-Verge, C.; Marinelli, F.; Zafra-Ruano, A.; Ruiz-Sanz, J.; Luque, I.; Faraldo-Gómez, J. D.: Two-state dynamics of the SH3–SH2 tandem of AbI kinase and the allosteric role of the N-cap. Proceedings of the National Academy of Sciences of the United States of America 110 (36), pp. E3372 - E3380 (2013)

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Journal Article

Geibel, S.; Lörinczi, E.; Bamberg, E.; Friedrich, T.: Voltage Dependence of Proton Pumping by Bacteriorhodopsin Mutants with Altered Lifetime of the M Intermediate. PLoS One 8 (9), p. e73338 - e73338 (2013)

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Journal Article

Derrer, C.; Wittek, A.; Bamberg, E.; Carpaneto, A.; Dreyer, I.; Geiger, D.: Conformational Changes Represent the Rate-Limiting Step in the Transport Cycle of Maize SUCROSE TRANSPORTER1. The Plant Cell 25 (8), pp. 3010 - 3021 (2013)

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Journal Article

Mager, T.; Braner, M.; Kubsch, B.; Hatahet, L.; Alkoby, D.; Rimon, A.; Padan, E.; Fendler, K.: Differential Effects of Mutations on the Transport Properties of the Na⁺/H⁺ Antiporter NhaA from Escherichia coli. The Journal of Biological Chemistry 288 (34), pp. 24666 - 24675 (2013)

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Journal Article

Bevans, C. G.; Krettler, C.; Reinhart, C.; Tran, H.; Koßmann, K.; Watzka, M.; Oldenburg, J.: Determination of the warfarin inhibition constant K_i for vitamin K 2,3-epoxide reductase complex subunit-1 (VKORC1) using an in vitro DTT-driven assay. Biochimica et Biophysica Acta-General Subjects 1830 (8), pp. 4202 - 4210 (2013)

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Journal Article

Garzón, D.; Anselmi, C.; Bond, P. J.; Faraldo-Gómez, J. D.: Dynamics of the antigen-binding grooves in CD1 proteins: reversible hydrophobic collapse in the lipid-free state. The Journal of Biological Chemistry 288 (27), pp. 19528 - 19536 (2013)

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Journal Article

Ruehrer, S.; Michel, H.: Exploiting Leishmania tarentolae cell-free extracts for the synthesis of human solute carriers. Molecular Membrane Biology 30 (4), pp. 288 - 302 (2013)

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Journal Article

Zhang, C.; Marcia, M.; Langer, J. D.; Peng, G.; Michel, H.: Role of the N-terminal signal peptide in the membrane insertion of Aquifex aeolicus F₁F₀ ATP synthase c-subunit. The FEBS Journal 280 (14), pp. 3425 - 3435 (2013)

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Journal Article

Schulz, S.; Iglesias-Cans, M.; Krah, A.; Yildiz, Ö.; Leone, V.; Matthies, D.; Cook, G. M.; Faraldo-Gómez, J. D.; Meier, T.: A New Type of Na⁺-Driven ATP Synthase Membrane Rotor with a Two-Carboxylate Ion-Coupling Motif. PLoS Biology 11 (6), e1001596, pp. 1 - 12 (2013)

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Journal Article

Bazzone, A.; Costa, W. S.; Braner, M.; Călinescu, O.; Hatahet, L.; Fendler, K.: Introduction to Solid Supported Membrane Based Electrophysiology. Journal of Visualized Experiments 75, e50230 (2013)

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Journal Article

Neumann-Verhoefen, M.-K.; Neumann, K.; Bamann, C.; Radu, I.; Heberle, J.; Bamberg, E.; Wachtveitl, J.: Ultrafast Infrared Spectroscopy on Channelrhodopsin‑2 Reveals Efficient Energy Transfer from the Retinal Chromophore to the Protein. Journal of the American Chemical Society 135 (18), pp. 6968 - 6976 (2013)

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Journal Article

Grewer, C.; Gameiro, A.; Mager, T.; Fendler, K.: Electrophysiological Characterization of Membrane Transport Proteins. Annual Review of Biophysics 42, pp. 95 - 120 (2013)

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Journal Article

Perez, C.; Ziegler, C.: Mechanistic aspects of sodium-binding sites in LeuT-like fold symporters. Biological Chemistry 394 (5), pp. 641 - 648 (2013)

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Journal Article

Janke, C.; Scholz, F.; Becker-Baldus, J.; Glaubitz, C.; Wood, P. G.; Bamberg, E.; Wachtveitl, J.; Bamann, C.: Photocycle and Vectorial Proton Transfer in a Rhodopsin from the Eukaryote Oxyrrhis marina. Biochemistry 52 (16), pp. 2750 - 2763 (2013)

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Journal Article

Preiss, L.; Klyszejko, A. L.; Hicks, D. B.; Liu, J.; Fackelmayer, O. J.; Yildiz, Ö.; Krulwich, T. A.; Meier, T.: The c-ring stoichiometry of ATP synthase is adapted to cell physiological requirements of alkaliphilic Bacillus pseudofirmus OF4. Proceedings of the National Academy of Sciences of the United States of America 110 (19), pp. 7874 - 7879 (2013)

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Journal Article

Yaffe, D.; Radestock, S.; Shuster, Y.; Forrest, L. R.; Schuldiner, S.: Identification of molecular hinge points mediating alternating access in the vesicular monoamine transporter VMAT2. Proceedings of the National Academy of Sciences of the United States of America 110 (15), pp. E1332 - E1341 (2013)

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Journal Article

Lórenz-Fonfría, V. A.; Resler, T.; Krause, N.; Nack, M.; Gossing, M.; Fischer von Mollard, G.; Bamann, C.; Bamberg, E.; Schlesinger, R.; Heberle, J.: Transient protonation changes in channelrhodopsin-2 and their relevance to channel gating. Proceedings of the National Academy of Sciences of the United States of America 110 (14), pp. E1273 - E1281 (2013)

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Journal Article

Korkmaz, F.; Ressl, S.; Ziegler, C.; Mäntele, W.: K⁺-induced conformational changes in the trimeric betaine transporter BetP monitored by ATR-FTIR spectroscopy. Biochimica et Biophysica Acta-Biomembranes 1828 (4), pp. 1181 - 1191 (2013)

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Journal Article

Parey, K.; Fritz, G.; Ermler, U.; Kroneck, P. M. H.: Conserving energy with sulfate around 100 °C - structure and mechanism of key metal enzymes in hyperthermophilic Archaeoglobus fulgidus. Metallomics 5 (4), pp. 302 - 317 (2013)

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Journal Article

Wilk, L.; Grunwald, M.; Liao, P.-N.; Walla, P. J.; Kühlbrandt, W.: Direct interaction of the major light-harvesting complex II and PsbS in nonphotochemical quenching. Proceedings of the National Academy of Sciences of the United States of America 110 (14), pp. 5452 - 5456 (2013)

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Journal Article

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

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Journal Article

Stamm, M.; Staritzbichler, R.; Khafizov, K.; Forrest, L. R.: Alignment of Helical Membrane Protein Sequences Using AlignMe. PLoS One 8 (3), e57731 (2013)

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Journal Article

Demmer, U.; Warkentin, E.; Srivastava, A.; Kockelkorn, D.; Pötter, M.; Marx, A.; Fuchs, G.; Ermler, U.: Structural Basis for a Bispecific NADP⁺ and CoA Binding Site in an Archaeal Malonyl-Coenzyme A Reductase. The Journal of Biological Chemistry 288 (9), pp. 6363 - 6370 (2013)

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Journal Article

Hilbers, F.; von der Hocht, I.; Ludwig, B.; Michel, H.: True wild type and recombinant wild type cytochrome c oxidase from Paracoccus denitrificans show a 20-fold difference in their catalase activity. Biochimica et Biophysica Acta, Bioenergetics 1827 (3), pp. 319 - 327 (2013)

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Journal Article

Kirchberg, K.; Michel, H.; Alexiev, U.: Exploring the entrance of proton pathways in cytochrome c oxidase from Paracoccus denitrificans: Surface charge, buffer capacity and redox-dependent polarity changes at the internal surface. Biochimica et Biophysica Acta, Bioenergetics 1827 (3), pp. 276 - 284 (2013)

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Journal Article

Jaehme, M.; Michel, H.: Evaluation of cell-free protein synthesis for the crystallization of membrane proteins – a case study of the glutamate transporter family from Staphylothermus marinus. The FEBS Journal 280 (4), pp. 1112 - 1125 (2013)

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Journal Article

Mörs, K.; Hellmich, U. A.; Basting, D.; Marchand, P.; Wurm, J. P.; Haase, W.; Glaubitz, C.: A lipid-dependent link between activity and oligomerization state of the M. tuberculosis SMR protein TBsmr. Biochimica et Biophysica Acta-Biomembranes 1828 (2), pp. 561 - 567 (2013)

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Journal Article

Forrest, L. R.: (Pseudo-)Symmetrical Transport. Science 339 (6118), pp. 339 - 401 (2013)

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Journal Article

Silverstein, N.; Crisman, T. J.; Forrest, L. R.; Kanner, B. I.: Cysteine Scanning Mutagenesis of Transmembrane Helix 3 of a Brain Glutamate Transporter Reveals Two Conformationally Sensitive Positions. The Journal of Biological Chemistry 288 (2), pp. 964 - 973 (2013)

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Journal Article

Ciccarelli, L.; Connell, S. R.; Enderle, M.; Mills, D. J.; Vonck, J.; Grininger, M.: Structure and Conformational Variability of the Mycobacterium tuberculosis Fatty Acid Synthase Multienzyme Complex. Structure 21 (7), pp. 1251 - 1257 (2013)

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Book Chapter (5)

2013

Book Chapter

Collinson, I.; Vonck, J.; Hizlan, D.: Using 2D Crystals to Analyze the Structure of Membrane Proteins. In: Methods in Molecular Biology, Vol. 1033, Chapter 4, pp. 47 - 65 (Eds. Rapaport, D.; Herrmann, J. M.). Springer Science+Business Media, New York (2013)

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Book Chapter

Krettler, C.; Reinhart, C.; Bevans, C. G.: Expression of GPCRs in Pichia pastoris for Structural Studies. In: Methods in Enzymology, Vol. 520, pp. 1 - 29 (Ed. Conn, P. M.). Academic Press, Elsevier, Burlington (2013)

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Book Chapter

Kühlbrandt, W.: Introduction to Electron Crystallography. In: Electron Crystallography of Soluble and Membrane Proteins: Methods and Protocols, Vol. 955, pp. 1 - 16 (Eds. Schmidt-Krey, I.; Cheng, Y.). Springer, Heidelberg (2013)

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Book Chapter

Meier, T.; Pogoryelov, D.: ATP Synthase Structure. In: Encyclopedia of Biophysics, pp. 129 - 134 (Ed. Roberts, G.). Springer, Berlin, Heidelberg/Germany [et al.] (2013)

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Book Chapter

Mills, D. J.; Vonck, J.: Choice and Maintenance of Equipment for Electron Crystallography. In: Electron Crystallography of Soluble and Membrane Proteins: Methods and Protocols, Vol. 995, pp. 331 - 351 (Eds. Schmidt-Krey, I.; Cheng, Y.). Springer Science+Business Media New York 2013, Humana Totowa, NJ (2013)

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Thesis - PhD (11)

2013

Thesis - PhD

Garzón Osorio, D. P.: Computational studies of lipid antigen recognition, exchange, and presentation by the CD1 protein family. Dissertation, Goethe-Universität, Fachbereich Biochemie, Chemie und Pharmazie, Frankfurt am Main, Germany (2013)

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Thesis - PhD

Jähme, M.: Evaluierung der zellfreien Produktion sekundär aktiver Transporter für die Proteinkristallisation. Dissertation, 156 pp., Goethe-Universität, Fachbereich Biochemie, Chemie und Pharmazie, Frankfurt am Main (2013)

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Thesis - PhD

Kaur, J.: Heterologous Production, Isolation and Characterisation of Selected Secondary Active Transporters from the APC, AEC, CaCA, CDF, DASS and ESS families. Dissertation, 209 pp., Goethe-Universität, Fachbereich Biochemie, Chemie und Pharmazie, Frankfurt am Main, Germany (2013)

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Thesis - PhD

Krah, A.: Computational studies of F-type ATP synthases. Dissertation, 107 pp., Goethe-Universität, Fachbereich Biochemie, Chemie und Pharmazie, Frankfurt am Main, Germany (2013)

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Thesis - PhD

Poppe, J.: Struktur und Funktionsweise des Molybdänspeicherproteins aus Azotobacter vinelandii. Dissertation, 176 pp., Goethe-Universität, Fachbereich Biochemie, Chemie und Pharmazie, Frankfurt am Main, Germany (2013)

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Thesis - PhD

Rührer, S.: Etablierung eukaryotischer zellfreier Expressionssysteme für die Synthase humaner Membranproteine. Dissertation, 264 pp., Goethe-Universität, Fachbereich Biochemie, Chemie und Pharmazie, Frankfurt am Main, Germany (2013)

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Thesis - PhD

Upadhyay, V.: Structural Characterizations of Two Tetrahydromethanopterin Binding Enzymes from Methanogenic Archaea. Dissertation, 105 pp., Goethe-Universität, Fachbereich Biowissenschaften, Frankfurt am Main (2013)

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Thesis - PhD

Weinert, T.: Strukturelle Grundlagen des Coenzym A vermittelten Aromatenabbaus. Dissertation, 132 pp., Goethe-Universität, Fachbereich Biowissenschaften, Frankfurt am Main, Germany (2013)

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Thesis - PhD

Weiß, F.: Three-dimensional crystallization and biochemical characterization of a neurotransmitter sodium symporter homologue from Methanocaldococcus jannaschii. Dissertation, Goethe-Universität, Frankfurt am Main (2013)

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Thesis - PhD

Wilk, L.: Function of plant photosystem II subunits in photoprotection. Dissertation, Goethe-Universität, Frankfurt am Main (2013)

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Thesis - PhD

Zhang, C.: Characterization of Aquifex aeolicus F₁F₀ ATP synthase and its heterologous production in Escherichia coli. Dissertation, 170 pp., Goethe-Universität, Fachbereich Biochemie, Chemie und Pharmazie, Frankfurt am Main, Germany (2013)

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Thesis - Diploma (5)

2013

Thesis - Diploma

Eisel, B.: Characterization of novel inhibitors of ATP synthases against patho-genic bacteria. Diploma, Goethe-Universität, Frankfurt am Main (2013)

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Thesis - Diploma

Faust, B. R.: Structural and functional investigation of substrate and co-substrate binding to the Na⁺/betaine symporter BetP from Corynebacterium glutamicum. Diploma, Goethe-Universität, Frankfurt am Main (2013)

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Thesis - Diploma

Schanzenbächer, C.: A functional proteomics approach for the analysis of plasticity-induced proteins in the rodent hippocampus. Diploma, 105 pp., Goethe-Universität, Fachbereich Biochemie, Chemie und Pharmazie, Frankfurt am Main, Germany (2013)

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Thesis - Diploma

Trefz, M.: Die RP-HPLC-basierte Aktivitätsbestimmung der Phosphatidylcholin-Synthase pathogener Bakterien. Diploma, Technische Universität Darmstadt, Darmstadt (2013)

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Thesis - Diploma

Trenker, R.: Purification and characterization of chemoattractant receptors and ligands. Diploma, 121 pp., Goethe-Universität, Fachbereich Biochemie, Chemie und Pharmazie, Frankfurt am Main, Germany (2013)

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Thesis - Master (3)

2013

Thesis - Master

Jäger, K. J.: Structural and functional characterization of cholesterol-dependent cytolysins. Master, Technische Universität, Darmstadt (2013)

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Thesis - Master

Moldovan, R.: Mass spectrometric analysis of lipids from selected membrane proteins. Master, 60 pp., Goethe Universität, Fachbereich Biochemie, Chemie und Pharmazie, Frankfurt am Main (2013)

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Thesis - Master

Sangoju, D.: Computational Studies of Sodium-coupled Osmoregulated Betaine Transporter (BetP). Master, 77 pp., Bonn-Aachen International Center for Information Technology (B-IT), University of Bonn, Bonn, Germany (2013)

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Thesis - Bachelor (5)

2013

Thesis - Bachelor

Danner, E.: Characterization of the Na⁺/H⁺ Antiporter of Helicobacter pylori using Solid-Supported Membrane based electrophysiology. Bachelor, 57 pp., Goethe-Universität, Fachbereich Physik, Frankfurt am Main, Germany (2013)

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Thesis - Bachelor

Hering, J.: Production, purification and functional characterisation of the G protein-coupled receptor binding angiotensin II. Bachelor, 47 pp., Technische Universität Darmstadt, Darmstadt (2013)

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Thesis - Bachelor

Karimi, K.: Strukturuntersuchung von Listeriolysin O auf künstlichen Membranen mittels Elektronenmikroskopie. Bachelor, Goethe-Universität, Frankfurt am Main (2013)

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Thesis - Bachelor

Kokic, M. D.: A Solid Supported Membrane based Electrophysiological Study of the Escherichia coli NhaA variant E241C. Bachelor, 30 pp., Goethe-Universität, Fachbereich Physik, Institut für Biophysik, Frankfurt am Main, Germany (2013)

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Thesis - Bachelor

Wagle, B.: Functional analysis of calcium-dependent binding of tescalcin to the human Na⁺/H⁺ exchanger isoform 1 (NHE1). Bachelor, Goethe-Universität, Frankfurt am Main (2013)

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