can we consider -5 kcal/mol binding energy is as good energy for small molecules like serotonin in molecular docking
Dock another molecule (as control) that does not bind to the protein and you will know if -5 kcal/ is good enough or not.
The term "good" is relative. Just like Dr. Rajesh Pal mentioned, one strategy is to dock another compound which is either a known binder (ligand) or a known non-binder. Then you can compare if -5 Kcal/mol is "good" binding energy or not.
As a general rule, ligands that binding successfully to deep binding pockets or cavities have large-negative binding energies. While ligands that bind successfully to shallow pockets (for example during protein-peptide interactions) tend to have small-negative binding energies.
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