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MS-based protection assay to determine the binding sites of aminoglycosides for RNAs. (A) Relative fragment ion abundances for 16S complexes with paromomycin (blue) and ribostamycin (red) vs. free 16S as a function of nucleotide position. (B) Relative fragment ion abundances for C1409A 16S complexes with paromomycin (yellow) and tobramycin (blue) vs. free C1409A 16S as a function of nucleotide position.
