Figure 1.
CTCF binds to the Cen-CTCF motif. (A) Alignment of the oligo motif strand DNA sequences to the CTCF consensus sequence from motifbreakR and to CTCF zinc fingers (ZF) 3–7 as reported by Hashimoto et al. (10). Bold = consensus nucleotide, red= mismatch from the consensus sequence, underline = CpG. (B) Binding affinity curves and dissociation constants (KD) of CTCF ZF1–11 and CTCF FL proteins for the oligos defined in (A). Double-stranded oligo sequences are shown with the core motif colored orange for Telo-CTCF, blue for Cen-CTCF, and green for H19. Binding data are represented as mean ± SEM, n = 4. #: The calculated KD of Telo-CTCF is at or near the probe concentration of 5 nM, indicating very tight binding (KD ≤ 5–6 nM).