Figure 4

Gene 32 translational repression site. In Panel A the leader mRNA for autogenous gp32 binding is shown for RB69, T4 and T2. The important TIR nucleotides are underscored with asterisks, the base-paired regions of the 5' pseudoknot are marked with arrows, and the T4 and RB69 regions bound by gp32 in protection assays are overlined [78]. Short nucleotide insertions in RB69 or T2 relative to T4 are in blue. Dashes (gaps) are inserted for alignment. Panel B is a cartoon-ribbon diagram of the T2 gene 32 pseudoknot diagramed in panel A that was obtained by multidimensional NMR methods [77]. Two A-form coaxially stacked stems are apparent. 5' and 3' terminal nucleotides are labeled. Jmol rendering used database entry 2 tpk. Figure was derived and adapted primarily from data in [77, 78].