Journal: The Journal of Biological Chemistry
Article Title: Transcription factor Sp2 potentiates binding of the TALE homeoproteins Pbx1:Prep1 and the histone-fold domain protein Nf-y to composite genomic sites
Figure Lengend Snippet: Sp2 localizes to composite TALE factor–Nf-y recognition motifs. Genomic binding sites of Sp2 in MEFs were determined by ChIP-exo sequencing. A , schematic representation of Sp2. The Sp-box ( yellow ), the glutamine-rich domains ( Q-rich , red ), the nuclear localization signal ( NLS , green ), the Btd-box ( blue ), and the zinc fingers ( ZF , black bars ) are indicated. B ). C , representative genome browser screenshots showing Sp2 ChIP-exo peaks and corresponding Sp2 ChIP-seq peaks at the Amd1 and Rplp0 promoters. D , sequence motifs enriched in Sp2-binding regions. Logos were obtained by running MEME-ChIP with 100-bp sequences of the top 600 Sp2 ChIP-exo peaks using default parameters. The numbers next to the logos indicate the occurrence of the motifs and the statistical significance ( E -value). E , local motif enrichment analysis (using CentriMo 4.12.0) of the M1 and M2 motifs shown in D . Of note, the GC box motif ( M3 ) was not locally enriched. F , sequence motifs obtained by adjusting the MEME search to long motifs (20 to 30 bp widths). G , local motif enrichment analysis (using CentriMo 4.12.0) of the M1 and M2 motifs shown in F . Of note, the GC box motif ( M3 ) was not locally enriched.
Article Snippet: For Sp2 ChIP-exo analysis we used the ChIP-exo kit from Active Motif in accordance with the manufacturer's instructions.
Techniques: Binding Assay, Chromatin Immunoprecipitation, Sequencing, Zinc-Fingers