DNA origami-based single-molecule force spectroscopy elucidates RNA Polymerase III pre-initiation complex stability

Autor: Kevin Kramm, Tim Schröder, Jerome Gouge, Andrés Manuel Vera, Kapil Gupta, Florian B. Heiss, Tim Liedl, Christoph Engel, Imre Berger, Alessandro Vannini, Philip Tinnefeld, Dina Grohmann

Publikováno v: Nature Communications, Vol 11, Iss 1, Pp 1-12 (2020)

TATA-binding protein (TBP) and a transcription factor (TF) IIB-like factor are important constituents of all eukaryotic initiation complexes. Here, the authors use a DNA origami-based force clamp to investigate the assembly dynamics of human initiati

Externí odkaz: https://doaj.org/article/6c52a4bb73744eafa2b7a2b2daca7321

High force catch bond mechanism of bacterial adhesion in the human gut

Autor: Andrés Manuel Vera, Zhaowei Liu, Haipei Liu, Rafael C. Bernardi, Michael A. Nash, Philip Tinnefeld

Publikováno v: Nature Communications
Nature Communications, Vol 11, Iss 1, Pp 1-12 (2020)
Nature Communications, 11 (1)

Bacterial colonization of the human intestine requires firm adhesion of bacteria to insoluble substrates under hydrodynamic flow. Here we report the molecular mechanism behind an ultrastable protein complex responsible for resisting shear forces and

Externí odkaz: https://explore.openaire.eu/search/publication?articleId=doi_dedup___::765ef40fde97599191fe10e94d15c186

Single-Molecule Approved Surface Passivation

Autor: Andrés Manuel Vera, Philip Tinnefeld

Publikováno v: Structure

Single-molecule detection and manipulation is a powerful tool for unraveling dynamic biological processes. Unfortunately, success in such experiments is often challenged by tethering the bio-molecule(s) of interest to a biocompatible surface. Here we

Externí odkaz: https://explore.openaire.eu/search/publication?articleId=doi_dedup___::ea37902f22940d6865ff5d164e9d6bdc
https://doi.org/10.1016/j.str.2020.11.009

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

Autor: Taekjip Ha, Tim Schröder, Philip Tinnefeld, Marcia Levitus, Benjamin Schuler, Christian G. Hübner, Björn Hellenkamp, Christian A. Hanke, Markus Götz, Enrico Gratton, Johannes Hohlbein, Benjamin Ambrose, Sonja Schmid, Jens Michaelis, Anders Barth, Soheila Rezaei Adariani, Mark E. Bowen, Carel Fijen, Eleni Kallis, Edward A. Lemke, Jelle Hendrix, Victoria Birkedal, Thuy T.M. Ngo, Ralf Kühnemuth, Bettina Wünsch, Lasse L. Hildebrandt, Claus A. M. Seidel, Timothy D. Craggs, Henning Seidel, Georg Krainer, Michael Schlierf, Swati Tyagi, Hugo Sanabria, Mikayel Aznauryan, Niels Vandenberk, Giorgos Gouridis, Verena Hirschfeld, Daniel Nettels, Jae-Yeol Kim, Inna S. Yanez-Orozco, Pengyu Hao, Achillefs N. Kapanidis, Brié Levesque, Thorsten Hugel, James J. McCann, Nam Ki Lee, Oleg Opanasyuk, Andreas Hartmann, Johann Thurn, Hongtao Chen, Tobias Eilert, Lisa Streit, Don C. Lamb, Carlheinz Röcker, Ruoyi Qiu, Keith Weninger, Christian Gebhardt, Thorben Cordes, Nicole C. Robb, Nikolaus Naredi-Rainer, Andrés Manuel Vera, Boyang Hua, Olga Doroshenko

Publikováno v: Nature Methods, 15(9), 669-676. Nature Publishing Group
Nature methods
Nature Methods 15 (2018) 9
Hellenkamp, Björn; Schmid, Sonja; Doroshenko, Olga; Opanasyuk, Oleg; Kühnemuth, Ralf; Rezaei Adariani, Soheila; et al.(2018). Precision and accuracy of single-molecule FRET measurements-a multi-laboratory benchmark study.. Nature methods, 15(9), 669-676. doi: 10.1038/s41592-018-0085-0. UC Irvine: Retrieved from: http://www.escholarship.org/uc/item/82n6186z
Nature Methods
Hellenkamp, B, Schmid, S, Doroshenko, O, Opanasyuk, O, Kuehnemuth, R, Adariani, S R, Ambrose, B, Aznauryan, M, Barth, A, Birkedal, V, Bowen, M E, Chen, H, Cordes, T, Eilert, T, Fijen, C, Gebhardt, C, Goetz, M, Gouridis, G, Gratton, E, Ha, T, Hao, P, Hanke, C A, Hartmann, A, Hendrix, J, Hildebrandt, L L, Hirschfeld, V, Hohlbein, J, Hua, B, Huebner, C G, Kallis, E, Kapanidis, A N, Kim, J-Y, Krainer, G, Lamb, D C, Lee, N K, Lemke, E A, Levesque, B, Levitus, M, McCann, J J, Naredi-Rainer, N, Nettels, D, Thuy Ngo, T, Qiu, R, Robb, N C, Roecker, C, Sanabria, H, Schlierf, M, Schroeder, T, Schuler, B, Seidel, H, Streit, L, Thurn, J, Tinnefeld, P, Tyagi, S, Vandenberk, N, Vera, A M, Weninger, K R, Wunsch, B, Yanez-Orozco, I S, Michaelis, J, Seidel, C A M, Craggs, T D & Hugel, T 2018, ' Precision and accuracy of single-molecule FRET measurements-a multi-laboratory benchmark study ', Nature Methods, vol. 15, no. 9, pp. 669-676 . https://doi.org/10.1038/s41592-018-0085-0
Nature Methods, 15(9), 669-676
Nature Methods (online), 15(9)

Single-molecule Forster resonance energy transfer (smFRET) is increasingly being used to determine distances, structures, and dynamics of biomolecules in vitro and in vivo. However, generalized protocols and FRET standards to ensure the reproducibili

Externí odkaz: https://explore.openaire.eu/search/publication?articleId=doi_dedup___::72edbb856467f1a0f8cea053565b29e1
https://research.rug.nl/en/publications/6b30271d-1e88-40c6-a10a-544c2685cb93

Mechanical Properties of β-Catenin Revealed by Single-Molecule Experiments

Autor: Mariano Carrión-Vázquez, Andrés Manuel Vera, Alejandro Valbuena, Margarita Menéndez, Javier Oroz

Publikováno v: Digital.CSIC. Repositorio Institucional del CSIC
instname
Repositorio Institucional del Instituto Madrileño de Estudios Avanzados en Nanociencia

β-catenin is a central component of the adaptor complex that links cadherins to the actin cytoskeleton in adherens junctions and thus, it is a good candidate to sense and transmit mechanical forces to trigger specific changes inside the cell. To ful

Externí odkaz: https://explore.openaire.eu/search/publication?articleId=doi_dedup___::548a70107bd85b99f72aec0b85b97756
https://doi.org/10.1016/j.bpj.2012.07.051