Ilgu, Muslum; Yan, Shuting; Khounlo, Ryan M.; Lamm, Monica H.; Nilsen-Hamilton, Marit published the artcile< Common secondary and tertiary structural features of aptamer-ligand interaction shared by RNA aptamers with different primary sequences>, COA of Formula: C5H5N5, the main research area is secondary tertiary structural feature RNA aptamer ligand interaction; 2-aminopurine (2AP), molecular dynamics; aminoglycoside; isothermal titration calorimetry; neomycin-B RNA aptamer.
Aptamer selection can yield many oligonucleotides with different sequences and affinities for the target mol. Here, we have combined computational and exptl. approaches to understand if aptamers with different sequences but the same mol. target share structural and dynamical features. NEO1A, with a known NMR-solved structure, displays a flexible loop that interacts differently with individual aminoglycosides, its ligand affinities and specificities are responsive to ionic strength, and it possesses an adenosine in the loop that is critical for high-affinity ligand binding. NEO2A was obtained from the same selection and, although they are only 43% identical in overall sequence, NEO1A and NEO2A share similar loop sequences. Exptl. anal. by 1D NMR and 2-aminopurine reporters combined with mol. dynamics modeling revealed similar structural and dynamical characteristics in both aptamers. These results are consistent with the hypothesis that the target ligand drives aptamer structure and also selects relevant dynamical characteristics for high-affinity aptamer-ligand interaction. Furthermore, they suggest that it might be possible to “”migrate”” structural and dynamical features between aptamer group members with different primary sequences but with the same target ligand.
Molecules published new progress about Affinity. 452-06-2 belongs to class imidazoles-derivatives, and the molecular formula is C5H5N5, COA of Formula: C5H5N5.
Referemce:
Imidazole – Wikipedia,
Imidazole | C3H4N2 – PubChem