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  Displacement of protein-bound aptamers with small molecules screened by fluorescence polarization

Hafner, M., Vianini, E., Albertoni, B., Marchetti, L., Grüne, I., Gloeckner, C., et al. (2008). Displacement of protein-bound aptamers with small molecules screened by fluorescence polarization. Nature protocols, 3(4), 579-87. doi:10.1038/nprot.2008.15.

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Item Permalink: http://hdl.handle.net/11858/00-001M-0000-0028-6467-8 Version Permalink: http://hdl.handle.net/11858/00-001M-0000-0028-6468-6
Genre: Journal Article

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Hafner-2008-Displacement of prot.pdf (Any fulltext), 423KB
 
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 Creators:
Hafner, M., Author
Vianini, E., Author
Albertoni, B., Author
Marchetti, L., Author
Grüne, I., Author
Gloeckner, C., Author
Famulok, M.1, Author
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1External Organizations, ou_persistent22              

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Free keywords: Aptamers, Nucleotide/*isolation & purification/metabolism/pharmacology Drug Evaluation, Preclinical/methods Fluorescence Polarization/*methods Guanine Nucleotide Exchange Factors/antagonists & inhibitors/chemistry/*metabolism Protein Binding
 Abstract: Small molecule inhibitors of proteins are invaluable tools in research and as starting points for drug development. However, their screening can be tedious, as most screening methods have to be tailored to the corresponding drug target. Here, we describe a detailed protocol for a modular and generally applicable assay for the identification of small organic compounds that displace an aptamer complexed to its target protein. The method relies on fluorescence-labeled aptamers and the increase of fluorescence polarization upon their binding to the target protein. The assay has high Z'-factors, making it compatible with high-throughput screening. It allows easy automation, making fluorescence readout the time-limiting step. As aptamers can be generated for virtually any protein target, the assay allows identification of small molecule inhibitors for targets or individual protein domains for which no functional screen is available. We provide the step-by-step protocol to screen for antagonists of the cytohesin class of small guanosine exchange factors.

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 Dates: 2008
 Publication Status: Published in print
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 Identifiers: Other: 18388939
DOI: 10.1038/nprot.2008.15
ISSN: 1750-2799 (Electronic)
ISSN: 1750-2799 (Linking)
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Title: Nature protocols
  Alternative Title : Nat. Protoc.
Source Genre: Journal
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Pages: - Volume / Issue: 3 (4) Sequence Number: - Start / End Page: 579 - 87 Identifier: -