In vivo detection of RNA-binding protein interactions with cognate RNA sequences by fluorescence resonance energy transfer

The fusion proteins specifically bind their target RNA in vitro. (A) Schematic representation of the RNA substrates utilized in the RNA affinity chromatography (RAC) assay. (B) Analysis of the fusion proteins bound to the substrate RNAs by RAC. (Top) The substrates schematically represented in A were covalently linked to agarose beads and incubated in extracts derived from HeLa cells transfected with the indicated plasmids. Proteins bound to the substrates were eluted and immunoblotted with the indicated antibodies. Identity of the various fusion proteins is indicated on the right.