Summary information and primary citation
- PDB-id
-
8hze;
DSSR-derived features in text and
JSON formats
- Class
- RNA
- Method
- X-ray (1.59 Å)
- Summary
- A new fluorescent RNA aptamer bound with n
- Reference
-
Huang K, Song Q, Fang M, Yao D, Shen X, Xu X, Chen X, Zhu
L, Yang Y, Ren A (2024): "Structural
basis of a small monomeric Clivia fluorogenic RNA with a
large Stokes shift." Nat.Chem.Biol.,
20, 1453-1460. doi: 10.1038/s41589-024-01633-1.
- Abstract
- RNA-based fluorogenic modules have revolutionized the
spatiotemporal localization of RNA molecules. Recently, a
fluorophore named
5-((Z)-4-((2-hydroxyethyl)(methyl)amino)benzylidene)-3-methyl-2-((E)-styryl)-3,5-dihydro-4H-imidazol-4-one
(NBSI), emitting in red spectrum, and its cognate aptamer
named Clivia were identified, exhibiting a large Stokes
shift. To explore the underlying molecular basis of this
unique RNA-fluorophore complex, we determined the tertiary
structure of Clivia-NBSI. The overall structure uses a
monomeric, non-G-quadruplex compact coaxial architecture,
with NBSI sandwiched at the core junction. Structure-based
fluorophore recognition pattern analysis, combined with
fluorescence assays, enables the orthogonal use of
Clivia-NBSI and other fluorogenic aptamers, paving the way
for both dual-emission fluorescence and bioluminescence
imaging of RNA molecules within living cells. Furthermore,
on the basis of the structure-based substitution assay, we
developed a multivalent Clivia fluorogenic aptamer
containing multiple minimal NBSI-binding modules. This
innovative design notably enhances the recognition
sensitivity of fluorophores both in vitro and in vivo,
shedding light on future efficient applications in various
biomedical and research contexts.
