Fig. 1: Capture of dsRNA interacting proteins with K1 antibody.

a Schematics of the K1 IP followed by LC-MS/MS to identify proteins bound to cellular dsRNAs. b Enrichment levels of representative cellular dsRNA species in RNAs co-IPed with the K1 antibody. An average of three biological replicates is shown with error bars denoting s.e.m. Statistical significances were calculated using a one-sided Student’s t-test; *p < 0.05 and ***p < 0.001. c Western blotting analysis comparing K1 and control antibody captured protein samples. d Summary of the number of proteins identified in K1 or control antibody capture. e A volcano plot of proteins identified in all four K1 capture replicates. Significantly enriched proteins (log₂(fold change) ≥ 1 and p-value < 0.05) are marked in orange while significantly depleted proteins are marked in blue. The log₂(fold change) was calculated as the difference between the averaged log₂(LFQ intensity) of four replicates in each experimental group. Statistical significances were calculated using two-sided Student’s t-tests after false discovery rate (FDR) adjustments according to Benjamini-Hochberg at a 0.05 threshold. f Western blot validation for selected proteins identified through the K1 capture in three different cell lines. g J2 dot blot analysis of RNAs co-IPed with PKR and selected dsRBP candidates. h Western blotting analysis to check the IP efficiency of the antibodies used in g.