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The prediction of transcription factor binding sites is difficult for many reasons.
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Drug discovery for difficult targets that have large and flat binding sites is often better suited to compounds beyond the "rule of 5" (bRo5).
Very degenerate binding sites are particularly difficult to detect as enriched: comparison between our observations for O/E and TATA boxes demonstrates this issue clearly.
The '-35 box' of sigma 70 binding sites was often significantly degenerate, and therefore difficult to detect [ 14].
In contrast, compatible binding sites are more likely to lead to a difficult discrimination task.
Twelve binding sites are present within the dodecameric channel.
[3H]nicotine binding sites are associated with mammalian optic nerve terminals.
Residues defining the binding sites were selected for site-directed mutagenesis.
Potential binding sites were elucidated by docking.
These binding sites are highly charged.
Noteworthy, these binding sites are juxtaposed to GATA3-binding sites.
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