NOTE: The method by which hydrogen bonds are calculated is described here in the command line manual. The GRAPHICS.hbondMinStrength parameter determines the hbond strength threshold for hbond display. The strength value is between 0. and 2. By changing 1. to 0.2 you will see more weak hydrogen bonds.

In order to display potential hydrogen bonds in your structure:

• Convert to an ICM Object
• Make a selection - if you are trying to display the H-bonds between a ligand and the receptor make sure the ligand is part of the selection.
• Click the Display Tab.
• Click on the Toggle H-bonds icon in the display tab.

• Click the +/- on the right of the H-Bond button to change thickness of H-bond representation.
• Click and hold the button to change representation or use the hbondpairs option in the ICM Workspace.

What do the default coloring of the H-bond represent?

Longer and shorter H-X distances in the hydrogen bond are color-coded, from red to blue, respectively.

NOTE Dynamic hydrogen bonds can be set by clicking and holding on the H-bond toggle button in the Display tab. Hydrogen bonds will then respond to any changes made to the ligand.