| Code | Name | Deposits | Targets | Ligand Type |
|---|---|---|---|---|
| IMD | 4 | 4 | other | |
| NI | 4 | 3 | other | |
| ACO | 4 | 2 | other | |
| GAL | beta-d-galactose | 4 | 3 | biological |
| NDP | Nicotinamide adenine dinucleotide phosphate | 4 | 4 | biological |
| UNX | UNKNOWN ATOM | 4 | 2 | other |
| 0V5 | 4 | 3 | biological | |
| POP | pyrophosphate 2- | 4 | 4 | biological |
| MLT | 4 | 4 | crystallization | |
| SIA | o-sialic acid | 4 | 3 | biological |
| PGO | 3 | 1 | crystallization | |
| KCX | 3 | 3 | modified residue | |
| ADP | 3 | 3 | other | |
| P33 | 3,6,9,12,15,18-hexaoxaicosane-1,20-diol | 3 | 3 | crystallization |
| FUC | alpha-l-fucose | 3 | 3 | biological |
| CD | 3 | 3 | crystallization | |
| CAC | cacodylate ion | 3 | 3 | other |
| C91 | unknown | 3 | 3 | biological |
| BU1 | 3 | 2 | crystallization | |
| DG | unknown | 3 | 2 | biological |