High-throughput quantitation of protein–RNA UV-crosslinking efficiencies as a predictive tool for high-confidence identification of RNA-binding proteins

Protein-specific UV-crosslinking efficiencies reveal RNA-binding potential. (A) Violin plots (equal area) with box plot and 95% confidence diamond overlays showing estimated UV-crosslinking efficiencies (purple) of proteins containing the indicated classifications (Panther, see Source Data) and their observed abundances (log₁₀[%TP]) in input (blue) and clRNP (red) fractions. Corresponding pie charts show the proportion of proteins within each %CL bin. (B) Comparison (A) of proteins containing GO-annotated nucleotide-binding (GO:0000166) but lacking GO-annotated RNA-binding (GO:0003723), endoplasmic reticulum (ER) membrane proteins (GO:0005789) and integral component of membrane (GO:0005677) GO-annotation, and proteins containing ER lumen (GO:0005788) but which lack ER membrane (GO:0005789) GO-annotation. The resulting protein lists were curated to correct for missing or false GO-annotations based on annotated (UniProt) protein features.