%0 Journal Article
%T Structure guided fluorescence labeling reveals a two-step binding mechanism of neomycin to its RNA aptamer
%A Andreas J Reuss
%A Anna-Lena J Segler
%A Christian Gr¨¹newald
%A Dnyaneshwar B Gophane
%A Henrik Gustmann
%A Josef Wachtveitl
%A Julia E Weigand
%A Markus Braun
%A Snorri Th Sigurdsson
%J Archive of "Nucleic Acids Research".
%D 2019
%R 10.1093/nar/gky1110
%X The ability of the cytidine analog £¿mf to act as a position specific reporter of RNA-dynamics was spectroscopically evaluated. £¿mf-labeled single- and double-stranded RNAs differ in their fluorescence lifetimes, quantum yields and anisotropies. These observables were also influenced by the nucleobases flanking £¿mf. This conformation and position specificity allowed to investigate the binding dynamics and mechanism of neomycin to its aptamer N1 by independently incorporating £¿mf at four different positions within the aptamer. Remarkably fast binding kinetics of neomycin binding was observed with stopped-flow measurements, which could be satisfactorily explained with a two-step binding. Conformational selection was identified as the dominant mechanism
%U https://www.ncbi.nlm.nih.gov/pmc/articles/PMC6326822/