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. 2006 Jun 27;361(2):243–256. doi: 10.1016/j.jmb.2006.06.021

Figure 5.

Figure 5

Examinations of Nsp15 interaction with RNA analogs. (a) A real time endoribonuclease assay for Nsp15. The sequence of the quenched fluorescent substrate named rU (IDT, Coralville, IA) is shown, with fluorophores FAM and tetramethylrhodamine. The only ribonucleotide in this construct, uridylate, is in a larger font and underlined. A second version in which the uridylate was replaced with ribocytidine (rC) is used as a control. The fluorescent outputs from the two substrates were determined in the presence and in the absence of Mn2+, as indicated to the right of the graph. (b) A graph demonstrating inhibition of fluorogenic rU substrate turnover in the presence of increasing concentration of unlabeled rU (no inhibitor), a 16 nt DNA(D16.4), or R16.4 analogs (PT16 and N3meU). The equation used for the curve fit is in the box where the effects of various treatments are summarized: m2 denotes the apparent Km. (c) Image of an SDS/polyacrylamide gel where kinased RNAs (the identities of which are indicated above each lane) were crosslinked at 1200 μJ for 3 min to 1 μg of Nsp15. BSA was present at the same concentration. The letter ϕ is used to indicate that no protein was added in that reaction.