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The interactions between thermorubin and the ribosome, as well as its adjacency to the observed binding sites of three other antibiotic classes, may enable the design of novel derivatives that share thermorubin's mode of action but possess improved pharmacodynamic properties.
In order to avoid this potential artifact, we focus our future analysis on binding sites of three transcription factors, STAT1, AP-1, and C/EBP (CCAAT-enhancer-binding proteins).
Ligand/protein flexible docking was performed to predict binding sites of three ligand (BPA-A, BPA-C, and BPA-D) model compounds.
Our screen of the ChIP-seq data sets generated by the ENCODE consortium revealed the binding sites of three TFs, of which only two were experimentally validated.
The COX-2 promoter region contains the binding sites of three major transcription factors: NFκB (Crofford et al. 1997), AP-1 (Subbaramaiah et al. 2002), and NFAT (Iniguez et al. 2000).
Here, by analyzing ENCODE chromatin immunoprecipitation sequencing (ChIP-seq) data, we identified strong binding sites of three bona fide nuclear TFs (c-Jun, Jun-D, and CEBPb) within human mtDNA protein-coding genes.
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One molecule of elaidoylamide is bound simultaneously to the substrate binding sites of two associated neurotoxic phospholipase A2 molecules.
A Renilla luciferase (Rnluc) transcript was engineered to carry independent binding sites of two abundant species, namely Tg-miR-60a and Tg-miR-4a, so that the expression of Rnluc was silenced in a sequence specific manner by Tg-miR-60a and Tg-miR-4a.
The binding sites of seven of 23 different monoclonal antibodies were localized by platinum shadowing of myosin monomer-antibody complexes.
The binding sites of eight of the 23 antibodies were also localized on myosin filaments by negative staining.
In addition, binding sites of five maize and one Arabidopsis WRKY transcription factor and one additional W-box motif were retrieved (Additional file 7: Table S4).
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