Fig. 3: Interactions between rA3G and AA-DNA.
From: Molecular mechanism for regulating APOBEC3G DNA editing function by the non-catalytic domain
a Surface and ribbon representation of the CD1 (in light blue surface) and the CD2 (in gray ribbon) bound to AA-DNA 5′-C9A10A11T12C13 (in sticks). CCC-DNA (in gray sticks) bound to CD2 is modeled from PDB 6BUX44. Three surface patches surrounding the A10A11 binding pocket/groove are formed by residues (26ILS28, 124YY125, and 126FW127). An inactive mutation E259A (in pink surface) on CD2 is drawn. CD2 residues F268 and K270 are drawn in magenta sticks. Location of the zinc-catalytic residue E259 is marked by a pink star in the schematic diagram. b–e Detailed interactions between rA3G and DNA. The color scheme is the same as in (a). Hydrogen bonds are indicated by dashed lines. f Sequences of the L1 DNA substrates containing a single AA motif and a control DNA containing no AA motif. g Gel images and plot of product formation. The plot shows the mean values ± SD from three independent trials. h Two groups of L2 DNA substrates with 32-nt and 50-nt in length, respectively. Each group contains a control DNA substrate with no AA motifs and three DNA substrates containing individual A5A6, A15A16, or a combination of the two AA motifs (A5A6 and A15A16). i Gel images of product formation with 32-nt and 50-nt DNA. n = 3 independent trials. Source data are provided as a Source Data file.
