| Index | Ligand Name | Structure | PDB code | ligand desolvation |
| 1 | j7b | Complement factor D in complex with the inhibitor 2-(2-(3'-(aminomethyl)-[1,1'-biphenyl]-3-carboxamido)phenyl)acetic acid | 6qmt | 89.81 |
| 2 | j6t | Complement factor D in complex with the inhibitor (S)-2-(2-((3'-(1-amino-2-hydroxyethyl)-[1,1'-biphenyl]-3-yl)methoxy)phenyl)acetic acid | 6qmr | 87.62 |
| 3 | 8rz | Complement factor D in complex with the inhibitor (1R,3S,5R)-2-Aza-bicyclo[3.1.0]hexane-2,3-dicarboxylic acid 2-[(1-carbamoyl-1H-indol-3-yl)-amide] 3-[(3-trifluoromethoxy-phenyl)-amide] | 5naw | 85.72 |
| 4 | m7o | COMPLEMENT FACTOR D IN COMPLEX WITH A REVERSIBLE BENZOIC ACID BASED INHIBITOR | 5mt4 | 85.36 |
| 5 | e82 | Complement factor D in complex with the inhibitor (S)-3'-(aminomethyl)-N-(1,2,3,4-tetrahydronaphthalen-1-yl)-[1,1'-biphenyl]-3-carboxamide | 6fut | 83.72 |
| 6 | 8nq | Complement factor D | 5nb7 | 83.63 |
| 7 | 5wc | COMPLEMENT FACTOR D IN COMPLEX WITH COMPOUND 5 | 5fck | 82.11 |
| 8 | e88 | Complement factor D in complex with the inhibitor (4-((3-(aminomethyl)phenyl)amino)quinazolin-2-yl)-L-valine | 6fuh | 80.78 |
| 9 | 8s5 | Complement factor D in complex with the inhibitor (2S,4R)-4-Fluoro-pyrrolidine-1,2-dicarboxylic acid 1-[(1-carbamoyl-1H-indol-3-yl)-amide] 2-[(3-trifluoromethoxy-phenyl)-amide] | 5nba | 80.52 |
| 10 | 5w5 | COMPLEMENT FACTOR D IN COMPLEX WITH COMPOUND2 | 5fbe | 80.47 |
| 11 | e7w | Complement factor D in complex with the inhibitor 3-((3-((3-(aminomethyl)phenyl)amino)-1H-pyrazolo[3,4-d]pyrimidin-4-yl)amino)phenol | 6fui | 80.26 |
| 12 | 8rw | Complement factor D in complex with the inhibitor (S)-pyrrolidine-1,2-dicarboxylic acid 1-[(1-carbamoyl-1H-indol-3-yl)-amide] 2-[(3-trifluoromethoxy-phenyl)-amide] | 5nar | 79.75 |
| 13 | 8rt | Complement factor D in complex with the inhibitor (S)-Pyrrolidine-1,2-dicarboxylic acid 1-[(1-methyl-1H-indol-3-yl)-amide] 2-[(3-trifluoromethoxy-phenyl)-amide] | 5nat | 79.44 |
| 14 | qjs | COMPLEMENT FACTOR D IN COMPLEX WITH A REVERSIBLE INDOLE CARBOXYLIC ACID BASED INHIBITOR | 5mt0 | 79.4 |
| 15 | e7h | COMPLEMENT FACTOR D COMPLEXED WITH COMPOUND 5 | 6fty | 78.68 |
| 16 | 8s2 | Complement factor D in complex with the inhibitor (2S,4S)-4-Amino-pyrrolidine-1,2-dicarboxylic acid 1-[(1-carbamoyl-1H-indol-3-yl)-amide] 2-[(3-trifluoromethoxy-phenyl)-amide] | 5nb6 | 78.61 |
| 17 | e85 | Complement factor D in complex with the inhibitor 3-((3-((3-(aminomethyl)phenyl)amino)-1H-pyrazolo[3,4-d]pyrimidin-4-yl)amino)phenol | 6fug | 70.01 |
| 18 | e7e | COMPLEMENT FACTOR D COMPLEXED WITH COMPOUND 6 | 6ftz | 69.52 |