Ligand Display
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This section is about the Ligand Display in the 3D viewer.
There are several functions for handling your molecules.
These functions will help provide insight.
Ligand Display displays up to 7 entries. If the protein Type is 3D Structure, the same protein structure is shown for all molecules. If the Type is Sequence, each row may display a slightly different structure. Therefore, an additional Protein color customization feature is provided for sequence-based proteins.
Mol ID: Molecule Name
Conf. ID: Conformer ID generated by Hyper Binding
BS (kcal/mol): Binding Score
Magnifying Glass: Zoom
Eye Mark: Activate/deactivate your molecule. You can also pin the molecule.
Ligand: Set the color of the molecule. Applied to carbon atoms.
Protein: Set the color of the protein.
The arrow right next to Mol ID means to hide conformers (9 out of 10).
When you click it, you can see the whole conformers with their binding score.
To see each conformer, click the eye mark.
To see the details of the residue-ligand interaction (3D), click the magnifying glass on the left.
To pin a specific conformer/molecule, click the eye mark until the lock icon appears.
While the lock icon is displayed, you can click another conformer’s eye mark to see the difference.
If you want to view all conformers, click the eye mark at the top of the column.
If you want to change to a black background, you can use dark mode.
To set dark mode, click the slider in the top-right corner.
