Fig. 4: Structure of the Clivia aptamer binding with modified NBSI analogs.
From: Structural basis of a small monomeric Clivia fluorogenic RNA with a large Stokes shift
a, The chemical structure of NBSI analogs NBSI571, NBSI565 and NBSI618. b, The 3D fluorescence assay of free (green) and Clivia-bound (red) NBSI571. In the presence of buffer, free NBSI571 exhibits two excitation and emission wavelength peaks at (382 nm, 582 nm) and (554 nm, 594 nm), while Clivia-bound NBSI571 exhibits single excitation (497 nm) and emission (572 nm) wavelength peaks. c, Surface representation of the Clivia aptamer bound to NBSI571 shown in stick representation. d, Binding pocket composition of NBSI571. The binding pocket of NBSI571 in the Clivia aptamer suggests that there is room for additional modifications on the phenyl moiety of NBSI571 to enhance dye properties. e,f, Binding pocket composition of NBSI565 (e) and NBSI618 (f).
