Abstract
Molecular manipulation by optical tweezers is a central technique to study the folded states of individual proteins and how they depend on interactions with molecules including DNA, ligands, and other proteins. One of the key challenges of this approach is to stably attach DNA handles in an efficient manner. Here, we provide detailed descriptions of a universal approach to covalently link long DNA tethers of up to 5000 base pairs to proteins with or without native cysteines.
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References
Killian JL, Ye F, Wang MD (2018) Optical tweezers: A force to be reckoned with. Cell 175(6):1445–1448. https://doi.org/10.1016/j.cell.2018.11.019
Neupane K, Foster DAN, Dee DR, Yu H, Wang F, Woodside MT (2016) Direct observation of transition paths during the folding of proteins and nucleic acids. Science 352(6282):239–242. https://doi.org/10.1126/science.aad0637
Mashaghi A, Bezrukavnikov S, Minde DP, Wentink AS, Kityk R, Zachmann-Brand B, Mayer MP, Kramer G, Bukau B, Tans SJ (2016) Alternative modes of client binding enable functional plasticity of Hsp70. Nature 539(7629):448–451. https://doi.org/10.1038/nature20137
Yu H, Gupta AN, Liu X, Neupane K, Brigley AM, Sosova I, Woodside MT (2012) Energy landscape analysis of native folding of the prion protein yields the diffusion constant, transition path time, and rates. Proc Natl Acad Sci 109(36):14452–14457. https://doi.org/10.1073/pnas.1206190109
Wang MD, Schnitzer MJ, Yin H, Landick R, Gelles J, Block SM (1998) Force and velocity measured for single molecules of RNA polymerase. Science 282(5390):902–907. https://doi.org/10.1126/science.282.5390.902
Bianco PR, Brewer LR, Corzett M, Balhorn R, Yeh Y, Kowalczykowski SC, Baskin RJ (2001) Processive translocation and DNA unwinding by individual RecBCD enzyme molecules. Nature 409(6818):374–378. https://doi.org/10.1038/35053131
Avellaneda MJ, Franke KB, Sunderlikova V, Bukau B, Mogk A, Tans SJ (2020) Processive extrusion of polypeptide loops by a Hsp100 disaggregase. Nature 74. https://doi.org/10.1038/s41586-020-2017-2
Gross P, Farge G, Peterman EJ, Wuite GJ (2010) Combining optical tweezers, single-molecule fluorescence microscopy, and microfluidics for studies of DNA-protein interactions. Methods Enzymol 475:427–453. https://doi.org/10.1016/S0076-6879(10)75017-5
Avellaneda MJ, Koers EJ, Minde DP, Sunderlikova V, Tans SJ (2020) Simultaneous sensing and imaging of individual biomolecular complexes enabled by modular DNA–protein coupling. Commun Chem 3(1). https://doi.org/10.1038/s42004-020-0267-4
Naqvi MM, Avellaneda MJ, Roth A, Koers EJ, Roland A, Sunderlikova V, Kramer G, Rye HS, Tans SJ (2022) Protein chain collapse modulation and folding stimulation by GroEL-ES. Sci Adv 8(9):eabl6293. https://doi.org/10.1126/sciadv.abl6293
Mashaghi A, Moayed F, Koers EJ, Kramer G, Mayer MP, Tans SJ (2021) https://doi.org/10.1101/2021.08.08.455546
Mulla Y, Avellaneda MJ, Roland A, Baldauf L, Jung W, Kim T, Tans SJ, Koenderink GH (2022) Weak catch bonds make strong networks. Nat Mater 21(9):1019–1023. https://doi.org/10.1038/s41563-022-01288-0
Odijk T (1995) Stiff chains and filaments under tension. Macromolecules 28(20):7016–7018
Avellaneda MJ, Koers EJ, Minde DP, Sunderlikova V, Tans SJ (2020) Simultaneous sensing and imaging of individual biomolecular complexes enabled by modular DNA-protein coupling. Commun Chem 3(1). https://doi.org/10.1038/s42004-020-0267-4
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Avellaneda, M.J., Koers, E.J., Sunderlikova, V., Tans, S.J. (2024). Protein Tethering for Single-Molecule Force Spectroscopy. In: Heller, I., Dulin, D., Peterman, E.J. (eds) Single Molecule Analysis . Methods in Molecular Biology, vol 2694. Humana, New York, NY. https://doi.org/10.1007/978-1-0716-3377-9_3
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DOI: https://doi.org/10.1007/978-1-0716-3377-9_3
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