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Theoretical model for the interaction between the 5BSL4 domain and the P7-49 RNA aptamer. CoFold and RNAup software were used to predict the nucleotides involved in the binding between the 5BSL4 stem-loop and the P7-49 aptamer. Residues proposed to initiate the kissing-loop interaction are boxed. Nucleotides belonging to groups 1 and 2 are colored as indicated in Figure 2. PBS, primer binding site.
