Recently, SNPs were shown to cause abnormal gene expression by disrupting the interactions between miRNAs and their CDS-located binding sites, which reveal that the regulatory effects of CDS-located miRNA target sites are significantly affected by SNPs (23).
This non-hydrolysable substrate analogue might further reveal insight into the binding mode of UDP GlcNAc, since the previously reported XcOGT UDP- C-GlcNAc complex (Clarke et al. 2008) revealed a substrate binding site which is not fully compatible with catalysis of larger nucleotide sugar analogues that were reported previously (Gross et al. 2005; Laughlin and Bertozzi 2009).
Using the alignment we reveal a conserved HexR binding site, which is perfectly matched to the Pseudomonas aeruginosa binding site (59), and, in addition, the consensus binding site for ArcA, which likely activates the ED operon in aerobic conditions (45).
Any binding site which had a p < 0.01 was annotated as a potential miRNA binding site.
Analysis of the ChIP assay on human chromosomes 21 and 22 (~3% of genome) revealed 48 binding sites, which can be extrapolated to ~1,500 sites in the whole genome [ 49].
To determine whether STAT1 could be involved in TNF-α-induced Cyp7b activity, we analyzed the proximal region of the Cyp7b promoter for putative binding sites of STAT1, which revealed such sites in this region.
In addition, the structure reveals a small surface pocket adjacent to the ligand-binding site, which may have therapeutic implications.
Furthermore, we have explored in greater detail the role of the metal-binding sites in TmCorA, which reveals different roles for each metal-binding site.
Inspection of the 2-kb mouse Cby promoter region revealed 6 putative Foxj1-binding sites, which closely match the proposed consensus sequence (Figure 8B) [35].
To get insight into regulation of RASSF1A expression, we first analyzed its promoter characteristic, which revealed a p53 binding site and a GC-rich region.
