An in vitro selection was designed to identify RNA-cleaving
ribozymes predisposed for function as a drug. The selection
scheme required the catalyst to be trans-acting with
phosphodiesterase activity targeting a fragment of the Kras mRNA
under simulated physiological conditions. To increase stabilization
against nucleases and to offer the potential for improved
functionality, modified sequence space was sampled by transcribing
with the following NTPs: 2′-F-ATP, 2′-F-UTP, or
2′-F-5-[(N-imidazole-4-acetyl)
propylamine]-UTP, 2′-NH2-CTP, and GTP.
Active motifs were identified and assessed for their modified
NMP and divalent metal dependence. The minimization of the
ribozyme's size and the ability to substitute 2′-OMe
for 2′-F and 2′-NH2 moieties yielded
the motif from these selections most suited for both nuclease
stability and therapeutic development. This motif requires only
two 2′-NH2-Cs and functions as a 36-mer. Its
substrate sequence requirements were determined to be
5′–Y-G-H–3′. Its half-life in human serum
is >100 h. In physiologically relevant magnesium concentrations
[∼1 mM] its kcat = 0.07
min−1, Km = 70 nM.
This report presents a novel nuclease stable ribozyme, designated
ZinzymeTM, possessing optimal activity in simulated
physiological conditions and ready for testing in a therapeutic
setting.