Extended Data Fig. 9: Sequence alignment and phylogenetic analysis of representative lentiviral CA proteins.
From: Nuclear pore passage of the HIV capsid is driven by its unusual surface amino acid composition
a, Representative lentiviruses and their hosts. b, Neighbor-joining phylogenetic tree of lentiviral CA proteins. c, A structural alignment of lentiviral CA sequences. HIV-1 isolate KC005 (M group, subtype B) is the CA species analyzed in this study, therefore serving as a reference. Residues of the N57 pocket that contact the FG motif are colored in cyan. Loop1-3 residues are colored according to the amino acid scale of Fig. 2a. Highly exposed residues on the outer loops are in bold. Residues that are not well exposed for FG interactions (either due to being engaged in H-bonds or salt bridges or due to orientation) are in italic. Secondary structures are indicated by light gray boxes. Sequence identifiers are listed in Supplementary Table S7. For sequence variations within the HIV-1: M group, see also refs. 117,118 and Table 1.
