Multi-Site Conformational Exchange in the Synthetic Neomycin-Sensing Riboswitch Studied by ¹⁹ F NMR.

ABSTRACT: The synthetic neomycin-sensing riboswitch interacts with its cognate ligand neomycin as well as with the related antibiotics ribostamycin and paromomycin. Binding of these aminoglycosides induces a very similar ground state structure in the RNA, however, only neomycin can efficiently repress translation initiation. The molecular origin of these differences has been traced back to differences in the dynamics of the ligand:riboswitch complexes. Here, we combine five complementary fluorine based NMR methods to accurately quantify seconds to microseconds dynamics in the three riboswitch complexes. Our data reveal complex exchange processes with up to four structurally different states. We interpret our findings in a model that shows an interplay between different chemical groups in the antibio

SUBMITTER: Overbeck JH 

PROVIDER: S-EPMC10952710 | biostudies-literature | 2023 Jun

REPOSITORIES: biostudies-literature