Neomycin hammerhead ribozyme

Schiemann, O., Fritscher, J., Kisseleva, N., Sigurdsson, S. T., and Prisner, T. F. (2003). Structural investigation of a high-affinity Mnll binding site in the hammerhead ribozyme by EPR spectroscopy and DFT calculations. Effects of neomycin B on metal-ion binding. ChemBioChem 4, 1057—1065. 

The hammerhead ribozyme is a small RNA that catalyzes specific RNA cleavage in the sugar-phosphate backbone. The function of this RNA strongly relies on Mg placement to maintain structural integrity. Aminoglycoside action in inhibition of hammerhead ribozyme function has been shown to involve displacement of these necessary Mg ions. Structural studies of the hammerhead ribozyme bound by neomycin have indicated that the charged ammo-... 

Fig. 19. Neomycin binding to the hammerhead ribozyme. Protonated amino groups of neomycin (in blue) are shown as red spheres and are compared with the positions of ions (white spheres). The phosphate cleavage site is depicted in yellow. Reprinted with permission, Copyright 1998 Elsevier.

B. Clouet-d Orval, T. K. Stage, and O. C. Uhlenbeck, Neomycin inhibition of the hammerhead ribozyme involves ionic interactions, Biochemistry, 34 (1995) 11186-11190. 

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