The Open-ComBind objective function is formulated to encourage all the ligands being docked to assume similar interactions with the receptor. However, when we compare the Open-ComBind objective function value of the best gnina poses for each ligand to the optimal value when selecting from all gnina poses, we find that they are never the same when the full objective is used. (Figure ). The value of the objective function when only using the lowest RMSD to the ground truth pose found by gnina for each of the ligands being docked is less than selecting from all gnina poses, except when only the MCSS featurization is used. This implies that the underlying hypothesis of Open-ComBind is not necessarily true for these protein-ligand complexes during crossdocking. When we remove the hydrogen-bond and salt bridge interactions from the Open-ComBind objective function, the values from the two sets of poses come closer together. This is exacerbated when all interaction fingerprint features are removed from the Open-ComBind objective function and only RMSD of the MCSS is used and some proteins even have equal values of the objective function for both sets. The collection of poses identified by Open-ComBind is more similar in their interactions according to the objective function than the ensemble of lowest RMSD to ground truth poses.