Figure 3.

In vivo proximity labeling strategies for identifying protein partners of an RNA of interest. (a) The RNA of interest is tagged endogenously or exogenously with aptamers (e.g., BoxB aptamer or MS2 tags) to recruit an aptamer binding protein fused to a labeling enzyme which can biotinylate associated proteins. (b) A catalytically inactive dCas13 enzyme fused to a labeling enzyme is targeted to the RNA of interest using a gRNA to biotinylate associated proteins. In both methods biotinylated proteins are enriched by streptavidin pulldown and analyzed by mass spectrometry.