The binding of Class II sRNA MgrR to two different sites on matchmaker protein Hfq enables efficient competition for Hfq and annealing to regulated mRNAs

Global modeling of MgrR annealing to ygdQ145 with mutations in uridine-rich sequences. The native gel analysis of the kinetics of ³²P-labeled MgrR annealing to (i) ygdQ145_AU1 in the absence of Hfq (A) or in the presence of Hfq (B), (ii) ygdQ145_AU2 in the absence of Hfq (C) or in the presence of Hfq (D), and (iii) ygdQ145_AU3 in the absence of Hfq (E) or in the presence of Hfq (F). The data for the annealing of MgrR to each of the mRNA mutants in the absence and presence of wt Hfq were analyzed globally, and the lines in the plots are the results of global fitting. The RNAs and their complexes are marked in the same way as in Figure 6.