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License: Elsevier Non-Commercial
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Methods
Article . 2017 . Peer-reviewed
License: Elsevier TDM
Data sources: Crossref
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Article . 2018
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switchSENSE: A new technology to study protein-RNA interactions

Authors: Cléry A; Sohier TJM; Welte T; Langer A; Allain FHT;

switchSENSE: A new technology to study protein-RNA interactions

Abstract

Characterization of RNA-binding protein interactions with RNA became inevitable to properly understand the cellular mechanisms involved in gene expression regulation. Structural investigations bring information at the atomic level on these interactions and complementary methods such as Isothermal Titration Calorimetry (ITC) and Surface Plasmon Resonance (SPR) are commonly used to quantify the affinity of these RNA-protein complexes and evaluate the effect of mutations affecting these interactions. The switchSENSE technology has recently been developed and already successfully used to investigate protein interactions with different types of binding partners (DNA, protein/peptide or even small molecules). In this study, we show that this method is also well suited to study RNA binding proteins (RBPs). We could successfully investigate the binding to RNA of three different RBPs (Fox-1, SRSF1 and Tra2-β1) and obtained KD values very close to the ones determined previously by SPR or ITC for these complexes. These results show that the switchSENSE technology can be used as an alternative method to study protein-RNA interactions with KD values in the low micromolar (10-6) to nanomolar (10-7-10-9) and probably picomolar (10-10-10-12) range. The absence of labelling requirement for the analyte molecules and the use of very low amounts of protein and RNA molecules make the switchSENSE approach very attractive compared to other methods. Finally, we discuss about the potential of this approach in obtaining more sophisticated information such as structural conformational changes upon RBP binding to RNA.

Related Organizations
Keywords

Binding Sites, Interaction, Base Sequence, Serine-Arginine Splicing Factors, Transcription, Genetic, Protein, Protein Array Analysis, DNA, Single-Stranded, Nucleic Acid Hybridization, RNA-Binding Proteins, Nerve Tissue Proteins, Calorimetry, Surface Plasmon Resonance, Kinetics, switchSENSE, Humans, RNA, Thermodynamics, RNA Splicing Factors, K(D), Protein Binding

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    popularity
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    influence
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selected citations
These citations are derived from selected sources.
This is an alternative to the "Influence" indicator, which also reflects the overall/total impact of an article in the research community at large, based on the underlying citation network (diachronically).
BIP!Citations provided by BIP!
popularity
This indicator reflects the "current" impact/attention (the "hype") of an article in the research community at large, based on the underlying citation network.
BIP!Popularity provided by BIP!
influence
This indicator reflects the overall/total impact of an article in the research community at large, based on the underlying citation network (diachronically).
BIP!Influence provided by BIP!
impulse
This indicator reflects the initial momentum of an article directly after its publication, based on the underlying citation network.
BIP!Impulse provided by BIP!
32
Top 10%
Top 10%
Top 10%
hybrid