| Index | Ligand Name | Structure | PDB code | ligand desolvation |
| 1 | h8d | Structural Determinants of Activation and Biased Agonism at the 5-HT2B Receptor | 6dry | 94.2 |
| 2 | erm | Structural Insights into the Extracellular Recognition of the Human Serotonin 2B Receptor by an Antibody | 5tud | 92.97 |
| 3 | erm | Crystal structure of the chimeric protein of 5-HT2B-BRIL in complex with ergotamine | 4ib4 | 92.68 |
| 4 | 7ld | Crystal structure of the LSD-bound 5-HT2B receptor | 5tvn | 92.59 |
| 5 | erm | Crystal structure of the 5-HT2B receptor solved using serial femtosecond crystallography in lipidic cubic phase. | 4nc3 | 91.63 |