Fig. 2: Structure of flavivirus stem-loop A (SLA).
From: Structures of flavivirus RNA promoters suggest two binding modes with NS5 polymerase
a Structure of DENV SLA. The structure of tRNA-SLADENV is shown in cartoon models with top stem-loop (red), side loop (green), and bottom stem (blue). The tRNA scaffold is shown in purple. b Comparison of the predicted and determined secondary structures of DENV SLA. The predicted secondary structures of DENV and ZIKV SLA were generated with the RNAfold program53. The secondary structure based on the crystal structure is colored as in (a). The shaded areas in the prediction form base pairs in the crystal structure, and thus the predicted side stem-loop does not form. Instead, the side loop becomes single stranded (see main text). c Structure of ZIKV SLA. The structure of tRNA-SLAZIKV is shown in cartoon models with top stem-loop (red), side loop (green), bottom stem (blue), and tRNA scaffold (purple). d Comparison of the predicted and determined secondary structures of ZIKV SLA. The shaded areas in the prediction form base pairs in the crystal structure, and the predicted side stem-loop becomes single-stranded side loop.
