Fig. 3: The effect of the secondary structure prediction accuracy.

Modeling results (RMSD) of testing targets are shown relative to the F1 score of the predicted secondary structures. The baseline NuFold (Table 1) was used with secondary structure prediction using a IPknot; b MXfold2; c SPOT-RNA. Modeling accuracy of NuFold without MSA input was reported with secondary structure prediction using d IPknot; e MXfold2; f SPOT-RNA. g Comparison between the baseline NuFold with prediction using IPknot and with the correct secondary structure information computed from the PDB files. h Comparison between the baseline NuFold with prediction without secondary structure prediction.