Extended Data Fig. 2: Effects of anti-sense oligo 2 on SMFS of Zika virus xrRNA.
From: Mechanical strength of RNA knot in Zika virus protects against cellular defenses
a, Under half of FECs (41 ± 5%) show unfolding from I5b, with the 5′ end threaded but PK prevented by oligo binding. Dashed lines show WLC fits to different states, inset and cartoon show structure before unfolding with oligo 2 bound. Contour length changes expected from unfolding each structure are listed in Supplementary Table 3. b, Over half of FECs (59 ± 5%) show unfolding from I1b. c, States I1b and I5b can be distinguished by both their lengths (Supplementary Table 3) and unfolding forces. d, Most refolding FECs show the formation of I1b; in some cases, transitions into I5b are seen directly (for example in Fig. 2b), in other cases, they occur at sufficiently low force to remain undetected. e, Unfolding (black) and refolding (red) pathways in the presence of oligo 2. Identification of I5b indirectly proves the existence of the putative intermediate I5 (Fig. 3 and Supplementary Fig. 2). Arrow thicknesses indicate pathway probabilities. For comparison, the states and transitions blocked by oligo 2 binding are shown in grey.
