We applied the docking test on the transcription factor, and the results showed good affinity for phenolic compounds that form hydrogen bonds with some amino acids of this factor.
How can I tell if this affinity has activated/deactivated the nuclear factor?
Have a good time,
Based on the function of your protein, you can analyze your results. If you know about active site residues of your protein, you can expect your ligand may activate/suppress your target protein.
The active site data about your protein can be found in related article, or you can use PDBsum web server.
Best wishes,
It is very difficult to conclude the activation/inhibition from your docking score. You need to explore in depth in vitro or in vivo experimental validation to conclude your findings.
Best wishes,
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