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Multi-protein interaction kinetics by single molecule methods

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Publications

Allosteric action of nucleotides on Hsp90 across several time- and length scales

Author(s): Steffen Wolf; Benedikt Sohmen; Björn Hellenkamp; Johann Thurn; Gerhard Stock; Thorsten Hugel
Published in: bioRxiv, 1, 2020
Publisher: Cold Spring Harbor Laboratory
DOI: 10.1101/2020.02.15.950725

Nanosecond structural dynamics of the chaperone Hsp90

Author(s): Benedikt Sohmen, Christian Beck, Tilo Seydel, Ingo Hoffmann, Bianca Hermann, Mark Nüesch, Marco Grimaldo, Frank Schreiber, Steffen Wolf, Felix Roosen-Runge, Thorsten Hugel
Published in: arXiv, 2021
Publisher: Cormell University

Inferring kinetic rate constants from single-molecule FRET trajectories – a blind benchmark of kinetic analysis tools

Author(s): Markus Götz, Anders Barth, Søren S.-R. Bohr, Richard Börner, Jixin Chen, Thorben Cordes, Dorothy A. Erie, Christian Gebhardt, Mélodie C.A.S. Hadzic, George L. Hamilton, Nikos S. Hatzakis, Thorsten Hugel, Lydia Kisley, Don C. Lamb, Carlos de Lannoy, Chelsea Mahn, Dushani Dunukara, Dick de Ridder, Hugo Sanabria, Julia Schimpf, Claus A.M. Seidel, Roland K.O. Sigel, Magnus Berg Sletfjerding, Johan
Published in: bioRxiv, 2021
Publisher: Cold Spring Harbor Laboratory
DOI: 10.1101/2021.11.23.469671

The dynamics of the Hsp90 machine studied by single molecule FRET

Author(s): Philipp Wortmann
Published in: 2017
Publisher: TUM

Dissociation kinetics of protein complexes measured with a microfluidic fast dilution mixer on a confocal microscope using pulsed interleaved excitation

Author(s): Johann Thurn
Published in: 2020
Publisher: University of Freiburg

Single Protein Dynamics at Steady State Quantified from FRET Time Traces

Author(s): Sonja Schmid
Published in: 2017
Publisher: TUM

Multi-Color Single-Molecule FRET Experiments and Analysis

Author(s): Markus Götz
Published in: 2017
Publisher: TUM

Hierarchical dynamics in allostery following ATP hydrolysis monitored by single molecule FRET measurements and MD simulations

Author(s): Steffen Wolf, Benedikt Sohmen, Björn Hellenkamp, Johann Thurn, Gerhard Stock, Thorsten Hugel
Published in: Chemical Science, 12/9, 2021, Page(s) 3350-3359, ISSN 2041-6520
Publisher: Royal Society of Chemistry
DOI: 10.1039/d0sc06134d

Autophosphorylation of the KaiC-like protein ArlH inhibits oligomerization and interaction with ArlI, the motor ATPase of the archaellum

Author(s): J. Nuno de Sousa Machado, Leonie Vollmar, Julia Schimpf, Paushali Chaudhury, Rashmi Kumariya, Chris van der Does, Thorsten Hugel, Sonja-Verena Albers
Published in: Molecular Microbiology, Volume116, Issue3, 2021, Page(s) 943, ISSN 1365-2958
Publisher: Wiley-Blackwell Publishing Ltd
DOI: 10.1111/mmi.14781

Controlling protein function by fine-tuning conformational flexibility

Author(s): Sonja Schmid, Thorsten Hugel
Published in: eLife, 9, 2020, ISSN 2050-084X
Publisher: eLife Sciences Publications
DOI: 10.7554/elife.57180

Nucleotide-Dependent Dimer Association and Dissociation of the Chaperone Hsp90

Author(s): Katarzyna M. Tych, Markus Jahn, Florian Gegenfurtner, Vera K. Hechtl, Johannes Buchner, Thorsten Hugel, and Matthias Rief
Published in: J. Phys. Chem. B, 122, 2018, Page(s) 11373, ISSN 1520-5207
Publisher: American Chemical Society
DOI: 10.1021/acs.jpcb.8b07301

FRET-based dynamic structural biology: Challenges, perspectives and an appeal for open-science practices

Author(s): Eitan Lerner , Anders Barth, Jelle Hendrix , Benjamin Ambrose, Victoria Birkedal, Scott C Blanchard, Richard Börner, Hoi Sung Chung, Thorben Cordes, Timothy D Craggs, Ashok A Deniz, Jiajie Diao, Jingyi Fei, Ruben L Gonzalez, Irina V Gopich, Taekjip Ha, Christian A Hanke, Gilad Haran, Nikos S Hatzakis, Sungchul Hohng, Seok-Cheol Hong, Thorsten Hugel, Antonino Ingargiola, Chirlmin Joo, Achillefs N
Published in: eLife, 2021, Page(s) 10:e60416, ISSN 2050-084X
Publisher: eLife Sciences Publications
DOI: 10.7554/elife.60416

Single-Molecule Analysis beyond Dwell Times: Demonstration and Assessment in and out of Equilibrium

Author(s): Sonja Schmid, Markus Götz, Thorsten Hugel
Published in: Biophysical Journal, 111/7, 2016, Page(s) 1375-1384, ISSN 0006-3495
Publisher: Biophysical Society
DOI: 10.1016/j.bpj.2016.08.023

Multidomain structure and correlated dynamics determined by self-consistent FRET networks

Author(s): Björn Hellenkamp, Philipp Wortmann, Florian Kandzia, Martin Zacharias, Thorsten Hugel
Published in: Nature Methods, 14/2, 2016, Page(s) 174-180, ISSN 1548-7091
Publisher: Nature Publishing Group
DOI: 10.1038/nmeth.4081

Cooperative Nucleotide Binding in Hsp90 and Its Regulation by Aha1

Author(s): Philipp Wortmann, Markus Götz, Thorsten Hugel
Published in: Biophysical Journal, 113/8, 2017, Page(s) 1711-1718, ISSN 0006-3495
Publisher: Biophysical Society
DOI: 10.1016/j.bpj.2017.08.032

Precision and accuracy of single-molecule FRET measurements—a multi-laboratory benchmark study

Author(s): Björn Hellenkamp, Sonja Schmid, Olga Doroshenko, Oleg Opanasyuk, Ralf Kühnemuth, Soheila Rezaei Adariani, Benjamin Ambrose, Mikayel Aznauryan, Anders Barth, Victoria Birkedal, Mark E. Bowen, Hongtao Chen, Thorben Cordes, Tobias Eilert, Carel Fijen, Christian Gebhardt, Markus Götz, Giorgos Gouridis, Enrico Gratton, Taekjip Ha, Pengyu Hao, Christian A. Hanke, Andreas Hartmann, Jelle Hendrix, Lass
Published in: Nature Methods, 15/9, 2018, Page(s) 669-676, ISSN 1548-7091
Publisher: Nature Publishing Group
DOI: 10.1038/s41592-018-0085-0

Efficient use of single molecule time traces to resolve kinetic rates, models and uncertainties

Author(s): Sonja Schmid, Thorsten Hugel
Published in: The Journal of Chemical Physics, 148/12, 2018, Page(s) 123312, ISSN 0021-9606
Publisher: American Institute of Physics
DOI: 10.1063/1.5006604

Conformational Dynamics of a Single Protein Monitored for 24 h at Video Rate

Author(s): Weixiang Ye, Markus Götz, Sirin Celiksoy, Laura Tüting, Christoph Ratzke, Janak Prasad, Julia Ricken, Seraphine V. Wegner, Rubén Ahijado-Guzmán, Thorsten Hugel, Carsten Sönnichsen
Published in: Nano Letters, 18/10, 2018, Page(s) 6633-6637, ISSN 1530-6984
Publisher: American Chemical Society
DOI: 10.1021/acs.nanolett.8b03342

Kinetics of Transient Protein Complexes Determined via Diffusion-Independent Microfluidic Mixing and Fluorescence Stoichiometry

Author(s): Björn Hellenkamp, Johann Thurn, Martina Stadlmeier, Thorsten Hugel
Published in: The Journal of Physical Chemistry B, 2018, ISSN 1520-6106
Publisher: American Chemical Society
DOI: 10.1021/acs.jpcb.8b07437

Effects of Inhibitors on Hsp90′s Conformational Dynamics, Cochaperone and Client Interactions

Author(s): Sonja Schmid, Markus Götz, Thorsten Hugel
Published in: ChemPhysChem, 19/14, 2018, Page(s) 1716-1721, ISSN 1439-4235
Publisher: John Wiley & Sons Ltd.
DOI: 10.1002/cphc.201800342

Inside a Shell—Organometallic Catalysis Inside Encapsulin Nanoreactors

Author(s): Philipp Lohner, Mariia Zmyslia, Johann Thurn, Jasmin K. Pape, Rūta Gerasimaitė, Jan Keller‐Findeisen, Saskia Groeer, Benedikt Deuringer, Regine Süss, Andreas Walther, Stefan W. Hell, Gražvydas Lukinavičius, Thorsten Hugel, Claudia Jessen‐Trefzer
Published in: Angewandte Chemie International Edition, 60/44, 2021, Page(s) 23835-23841, ISSN 1433-7851
Publisher: John Wiley & Sons Ltd.
DOI: 10.1002/anie.202110327

A Multicolor Single-Molecule FRET Approach to Study Protein Dynamics and Interactions Simultaneously

Author(s): Markus Götz, Philipp Wortmann, Sonja Schmid, Thorsten Hugel
Published in: Methods in Enzymology, 581, 2016, Page(s) 487-516, ISSN 0076-6879
Publisher: Academic Press
DOI: 10.1016/bs.mie.2016.08.024