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Fig. 4 | BMC Evolutionary Biology

Fig. 4

From: Resurrecting ancestral structural dynamics of an antiviral immune receptor: adaptive binding pocket reorganization repeatedly shifts RNA preference

Fig. 4

The RNA-binding loop of ancRLR and the RIG-I lineage fluctuates less over the course of molecular dynamics simulations, compared to the RNA-binding loop of other ancestral and human RLRs. We plot the root mean square fluctuation (RMSF) of each residue on the molecular surface of ancestral (white boxes) and human (gray boxes) RLR RNA-recognition domains (RD), averaged over replicate molecular dynamics simulations (see Methods). Higher values of RMSF indicate that the residue moved more over the course of the dynamics simulations. Dotted oval indicates location of the RNA-binding loop on each structure. See Figs. 1 and 2 for locations of each ancestral RLR on the phylogeny and ancestral RD sequences, respectively

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