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Visualizing the Nonhomogeneous Structure of RAD51 Filaments Using Nanofluidic Channels
Chalmers, Dept Chem & Chem Engn, S-41296 Gothenburg, Sweden..
Chalmers, Dept Biol & Biol Engn, S-41296 Gothenburg, Sweden..
Chalmers, Dept Appl Phys, S-41296 Gothenburg, Sweden..
Northeastern Univ, Dept Chem & Chem Engn, Boston, MA 02115 USA..
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2016 (English)In: Langmuir, ISSN 0743-7463, E-ISSN 1520-5827, Vol. 32, no 33, 8403-8412 p.Article in journal (Refereed) Published
Abstract [en]

RAD51 is the key component of the homologous recombination pathway in eukaryotic cells and performs its task by forming filaments on DNA. In this study we investigate the physical properties of RAD51 filaments formed on DNA using nanofluidic channels and fluorescence microscopy. Contrary to the bacterial ortholog RecA, RAD51 forms inhomogeneous filaments on long DNA in vitro, consisting of several protein patches. We demonstrate that a permanent "kink" in the filament is formed where two patches meet if the stretch of naked DNA between the patches is short. The kinks are readily seen in the present microscopy approach but would be hard to identify using conventional single DNA molecule techniques where the DNA is more stretched. We also demonstrate that protein patches separated by longer stretches of bare DNA roll up on each other and this is visualized as transiently overlapping filaments. RAD51 filaments can be formed at several different conditions, varying the cation (Mg2+ or Ca2+), the DNA substrate (single-stranded or double-stranded), and the RAD51 concentration during filament nucleation, and we compare the properties of the different filaments formed. The results provide important information regarding the physical properties of RAD51 filaments but also demonstrate that nanofluidic channels are perfectly suited to study protein-DNA complexes.

Place, publisher, year, edition, pages
2016. Vol. 32, no 33, 8403-8412 p.
National Category
Chemical Sciences
Identifiers
URN: urn:nbn:se:uu:diva-303269DOI: 10.1021/acs.langmuir.6b01877ISI: 000381959200013PubMedID: 27479732OAI: oai:DiVA.org:uu-303269DiVA: diva2:971453
Funder
Swedish Research Council, 2011-4324 2013-3992
Available from: 2016-09-16 Created: 2016-09-15 Last updated: 2016-09-16Bibliographically approved

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