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DOI: http://dx.doi.org/10.7554/eLife.00726.015 10.7554/eLiFigure2 figureigure 2—figure supplement 4. OIRD sensorgrams for three TFs and MBD2b binding to three methylated DNA motifs.
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Studies show that all three of Kaiso's C2H2 zinc finger domains are required for its binding to this methylated motif [ 8].
For each TF binding to multiple methylated motifs, we then hierarchically clustered all 6-mer binding sequences centered on mCpG.
This regulation may prevent HP1c from binding to methylated heterochromatin.
HP1 is a major component of chromatin and regulates gene expression through its binding to methylated histone H3.
Moreover, of the 1531 proteins, 47 (3%) showed binding to methylated cytosines within the promoters.
(G ) OIRD sensorgrams for ZMYM3 and KLF4 binding to methylated motifs M203 and M197, and their unmethylated counterparts, respectively.
Protein domains binding to methylated lysine residues (methyl lysine reader domains).
This implies that MeCP2, and possibly other methylated CpG binding proteins, are binding to the methylated promoter and preventing binding of the activators, resulting in a decrease in insulin gene expression.
Figure 5 presents an example of C/EBPβ binding to a methylated canonical C/EBP motif (TTGC|GCAA).
Mi-2/NuRD-mediated silencing of methylated genes was hypothesised as starting with MBD2 binding to methylated DNA followed by Mi-2/NuRD recruitment.
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