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. 2016 Feb 1;30(3):257–265. doi: 10.1101/gad.274928.115

Figure 3.

Figure 3.

The C allele of hPRMD9. (A) hPRDM9 contains a C-terminal tandem ZnF DNA-binding array comprising 13 (alleles A and B) or 14 (allele C) fingers. A single amino acid substitution at ZnF6 resulted in allele B. (B) The allele A-specific sequence (THE1B) (Myers et al. 2008) and allele C-specific sequence (Motif-1) (Hinch et al. 2011) are aligned with each ZnF with amino acids at the −8, −7, −4, and −1 positions. (C,D) Comparison of DNA-binding affinities by PRDM9A (ZnF8–12) and PRDM9C (ZnF8–13) against allele A-specific and allele C-specific sequences. Because PRDM9C binds too tightly against Motif-1 (KD being lower than probe concentration of 5 nM), we increased NaCl concentration in the binding assays from 300 mM (C) to 350 mM (D).