Substrate import at work: single-molecule studies of ABC transporters

Project Information

SM-IMPORT

Grant agreement ID: 638536

DOI 10.3030/638536

Project closed

EC signature date 6 March 2015

Start date 1 September 2015

End date 30 June 2021

Funded under

• EXCELLENT SCIENCE - European Research Council (ERC)

Total cost € 1 500 000,00

EU contribution € 1 500 000,00

Coordinated by

LUDWIG-MAXIMILIANS-UNIVERSITAET MUENCHEN
Germany

Publications

Peer reviewed articles (21)

Single-Molecule Observation of Ligand Binding and Conformational Changes in FeuA

Author(s): Marijn de Boer, Giorgos Gouridis, Yusran Abdillah Muthahari, Thorben Cordes
Published in: Biophysical Journal, Issue 117/9, 2019, Page(s) 1642-1654, ISSN 0006-3495
Publisher: Biophysical Society
DOI: 10.1016/j.bpj.2019.08.005

Conformational and dynamic plasticity in substrate-binding proteins underlies selective transport in ABC importers

Author(s): Marijn de Boer, Giorgos Gouridis, Ruslan Vietrov, Stephanie L Begg, Gea K Schuurman-Wolters, Florence Husada, Nikolaos Eleftheriadis, Bert Poolman, Christopher A McDevitt, Thorben Cordes
Published in: eLife, Issue 8, 2019, ISSN 2050-084X
Publisher: eLife Sciences Publications
DOI: 10.7554/elife.44652

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 Ka
Published in: eLife, Issue 10, 2021, ISSN 2050-084X
Publisher: eLife Sciences Publications
DOI: 10.7554/elife.60416

ColiCoords: A Python package for the analysis of bacterial fluorescence microscopy data

Author(s): Jochem H. Smit, Yichen Li, Eliza M. Warszawik, Andreas Herrmann, Thorben Cordes
Published in: PLOS ONE, Issue 14/6, 2019, Page(s) e0217524, ISSN 1932-6203
Publisher: Public Library of Science
DOI: 10.1371/journal.pone.0217524

Characterization of fluorescent proteins with intramolecular photostabilization

Author(s): Sarah S. Henrikus; Konstantinos Tassis; Lei Zhang; Jasper H. M. van der Velde; Christian Gebhardt; Andreas Herrmann; Gregor Jung; Thorben Cordes
Published in: ChemBioChem, Issue 1, 2021, Page(s) 1-2, ISSN 1439-7633
Publisher: Wiley-VCH
DOI: 10.1101/2020.03.07.980722

Self-Healing Dyes—Keeping the Promise?

Author(s): Michael Isselstein, Lei Zhang, Viktorija Glembockyte, Oliver Brix, Gonzalo Cosa, Philip Tinnefeld, Thorben Cordes
Published in: The Journal of Physical Chemistry Letters, Issue 11/11, 2020, Page(s) 4462-4480, ISSN 1948-7185
Publisher: American Chemical Society
DOI: 10.1021/acs.jpclett.9b03833

ABCE1 Controls Ribosome Recycling by an Asymmetric Dynamic Conformational Equilibrium

Author(s): Giorgos Gouridis, Bianca Hetzert, Kristin Kiosze-Becker, Marijn de Boer, Holger Heinemann, Elina Nürenberg-Goloub, Thorben Cordes, Robert Tampé
Published in: Cell Reports, Issue 28/3, 2019, Page(s) 723-734.e6, ISSN 2211-1247
Publisher: Cell Press
DOI: 10.1016/j.celrep.2019.06.052

Toward dynamic structural biology: Two decades of single-molecule Förster resonance energy transfer

Author(s): Eitan Lerner, Thorben Cordes, Antonino Ingargiola, Yazan Alhadid, SangYoon Chung, Xavier Michalet, Shimon Weiss
Published in: Science, Issue 359/6373, 2018, Page(s) eaan1133, ISSN 0036-8075
Publisher: American Association for the Advancement of Science
DOI: 10.1126/science.aan1133

Konformationsbewegungen von aktiven Membrantransportern

Author(s): Rebecca Mächtel, Christian Gebhardt, Thorben Cordes
Published in: BIOspektrum, Issue 24/5, 2018, Page(s) 495-497, ISSN 0947-0867
Publisher: Spektrum Akademischer Verlag GmbH
DOI: 10.1007/s12268-018-0945-2

Self-healing dyes for super-resolution fluorescence microscopy

Author(s): Jasper H M van der Velde, Jochem H Smit, Elke Hebisch, Michiel Punter, Thorben Cordes
Published in: Journal of Physics D: Applied Physics, Issue 52/3, 2019, Page(s) 034001, ISSN 0022-3727
Publisher: Institute of Physics Publishing
DOI: 10.1088/1361-6463/aae752

On the impact of competing intra- and intermolecular triplet-state quenching on photobleaching and photoswitching kinetics of organic fluorophores

Author(s): Jochem H. Smit, Jasper H. M. van der Velde, Jingyi Huang, Vanessa Trauschke, Sarah S. Henrikus, Si Chen, Nikolaos Eleftheriadis, Eliza M. Warszawik, Andreas Herrmann, Thorben Cordes
Published in: Physical Chemistry Chemical Physics, Issue 21/7, 2019, Page(s) 3721-3733, ISSN 1463-9076
Publisher: Royal Society of Chemistry
DOI: 10.1039/c8cp05063e

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, Issue 15/9, 2018, Page(s) 669-676, ISSN 1548-7091
Publisher: Nature Publishing Group
DOI: 10.1038/s41592-018-0085-0

Conformational dynamics of the ABC transporter McjD seen by single‐molecule FRET

Author(s): Florence Husada, Kiran Bountra, Konstantinos Tassis, Marijn de Boer, Maria Romano, Sylvie Rebuffat, Konstantinos Beis, Thorben Cordes
Published in: The EMBO Journal, Issue 37/21, 2018, Page(s) e100056, ISSN 0261-4189
Publisher: Nature Publishing Group
DOI: 10.15252/embj.2018100056

Single-molecule FRET reveals the pre-initiation and initiation conformations of influenza virus promoter RNA

Author(s): Nicole C. Robb, Aartjan J. W. te Velthuis, Ralph Wieneke, Robert Tampé, Thorben Cordes, Ervin Fodor, Achillefs N. Kapanidis
Published in: Nucleic Acids Research, Issue (2016) 44 (21): 10304-10315, 2016, Page(s) gkw884, ISSN 0305-1048
Publisher: Oxford University Press
DOI: 10.1093/nar/gkw884

A Quantitative Theoretical Framework For Protein-Induced Fluorescence Enhancement–Förster-Type Resonance Energy Transfer (PIFE-FRET)

Author(s): Eitan Lerner, Evelyn Ploetz, Johannes Hohlbein, Thorben Cordes, Shimon Weiss
Published in: The Journal of Physical Chemistry B, Issue 120/26, 2016, Page(s) 6401-6410, ISSN 1520-6106
Publisher: American Chemical Society
DOI: 10.1021/acs.jpcb.6b03692

Förster resonance energy transfer and protein-induced fluorescence enhancement as synergetic multi-scale molecular rulers

Author(s): Evelyn Ploetz, Eitan Lerner, Florence Husada, Martin Roelfs, SangYoon Chung, Johannes Hohlbein, Shimon Weiss, Thorben Cordes
Published in: Scientific Reports, Issue 6/1, 2016, ISSN 2045-2322
Publisher: Nature Publishing Group
DOI: 10.1038/srep33257

A simple and versatile design concept for fluorophore derivatives with intramolecular photostabilization

Author(s): Jasper H. M. van der Velde, Jens Oelerich, Jingyi Huang, Jochem H. Smit, Atieh Aminian Jazi, Silvia Galiani, Kirill Kolmakov, Giorgos Guoridis, Christian Eggeling, Andreas Herrmann, Gerard Roelfes, Thorben Cordes
Published in: Nature Communications, Issue 7, 2016, Page(s) 10144, ISSN 2041-1723
Publisher: Nature Publishing Group
DOI: 10.1038/ncomms10144

Caging and Photoactivation in Single-Molecule Förster Resonance Energy Transfer Experiments

Author(s): Atieh Aminian Jazi, Evelyn Ploetz, Muhamad Arizki, Balasubramaniam Dhandayuthapani, Izabela Waclawska, Reinhard Krämer, Christine Ziegler, Thorben Cordes
Published in: Biochemistry, Issue 56/14, 2017, Page(s) 2031-2041, ISSN 0006-2960
Publisher: American Chemical Society
DOI: 10.1021/acs.biochem.6b00916

Molecular structure, DNA binding mode, photophysical properties and recommendations for use of SYBR Gold

Author(s): Pauline J Kolbeck, Willem Vanderlinden, Gerd Gemmecker, Christian Gebhardt, Martin Lehmann, Aidin Lak, Thomas Nicolaus, Thorben Cordes, Jan Lipfert
Published in: Nucleic Acids Research, Issue 49/9, 2021, Page(s) 5143-5158, ISSN 0305-1048
Publisher: Oxford University Press
DOI: 10.1093/nar/gkab265

Single‐molecule studies of conformational states and dynamics in the ABC importer OpuA

Author(s): Konstantinos Tassis, Ruslan Vietrov, Matthijs Koning, Marijn Boer, Giorgos Gouridis, Thorben Cordes
Published in: FEBS Letters, Issue 595/6, 2021, Page(s) 717-734, ISSN 0014-5793
Publisher: Elsevier BV
DOI: 10.1002/1873-3468.14026

An integrated transport mechanism of the maltose ABC importer

Author(s): Rebecca Mächtel, Alessandra Narducci, Douglas A. Griffith, Thorben Cordes, Cédric Orelle
Published in: Research in Microbiology, Issue 170/8, 2019, Page(s) 321-337, ISSN 0923-2508
Publisher: Elsevier BV
DOI: 10.1016/j.resmic.2019.09.004