| Id | Element | Ion | Binding family | Amino acids or nucleotide residues names | All bound residues | Is homomer | Number of bound amino acids or nucleotide residues | Number of all bound residues | Number of coordinating chains | Representative |
|---|---|---|---|---|---|---|---|---|---|---|
| 3LDY-CA-1 | CA | Ca²⁺ | D1N1T2 | ASN.ASP.DT. | ASN.ASP.DT.HOH. | ✘ | 4 | 6 | 2 | ✔ |
| 3LJM-CA-1 | CA | Ca²⁺ | E2 | GLU. | GLU. | ✔ | 2 | 2 | 2 | ✔ |
| 3LKV-ZN-1 | ZN | Zn²⁺ | D2E2 | ASP.GLU. | ASP.GLU. | ✔ | 4 | 4 | 2 | ✔ |
| 3M15-ZN-1 | ZN | Zn²⁺ | H4 | HIS. | HIS. | ✔ | 4 | 4 | 3 | ✘ |
| 3M15-ZN-2 | ZN | Zn²⁺ | H4 | HIS. | HIS. | ✔ | 4 | 4 | 3 | ✘ |
| 3GDF-ZN-1 | ZN | Zn²⁺ | R2 | ARG. | ARG.HOH. | ✔ | 2 | 5 | 2 | ✘ |
| 3GDF-ZN-2 | ZN | Zn²⁺ | R2 | ARG. | ARG.HOH. | ✔ | 2 | 5 | 2 | ✘ |
| 3GOX-NA-1 | NA | Na⁺ | A1D1G1N1 | ASN.ASP.DA.DG. | ASN.ASP.DA.DG.HOH. | ✘ | 4 | 6 | 2 | ✔ |
| 3GOX-NA-2 | NA | Na⁺ | D1G1N1T1 | ASN.ASP.DG.DT. | ASN.ASP.DG.DT.HOH. | ✘ | 4 | 6 | 2 | ✔ |
| 3H1K-ZN-1 | ZN | Zn²⁺ | H2 | HIS. | HIS. | ✘ | 2 | 2 | 2 | ✔ |
| 3H1K-ZN-2 | ZN | Zn²⁺ | H2 | HIS. | HIS. | ✘ | 2 | 2 | 2 | ✔ |
| 3H44-ZN-1 | ZN | Zn²⁺ | E1R1 | ARG.GLU. | ARG.GLU. | ✘ | 2 | 2 | 2 | ✔ |
| 3H44-ZN-2 | ZN | Zn²⁺ | E1R1 | ARG.GLU. | ARG.GLU. | ✘ | 2 | 2 | 2 | ✔ |
| 3H50-ZN-1 | ZN | Zn²⁺ | H2 | HIS. | HIS. | ✔ | 2 | 2 | 2 | ✔ |
| 3H5G-ZN-1 | ZN | Zn²⁺ | E2 | GLU. | GLU.HOH. | ✔ | 2 | 3 | 2 | ✘ |
| 3H5G-ZN-2 | ZN | Zn²⁺ | E2 | GLU. | GLU.HOH. | ✔ | 2 | 4 | 2 | ✘ |
| 3OQ3-ZN-1 | ZN | Zn²⁺ | H2 | HIS. | HIS. | ✘ | 2 | 2 | 2 | ✔ |
| 3OTM-ZN-1 | ZN | Zn²⁺ | H3 | HIS. | HIS. | ✔ | 3 | 3 | 2 | ✔ |
| 3OTM-ZN-2 | ZN | Zn²⁺ | H3 | HIS. | HIS. | ✔ | 3 | 3 | 2 | ✔ |
| 3OUP-ZN-1 | ZN | Zn²⁺ | H3 | HIS. | HIS. | ✔ | 3 | 3 | 2 | ✘ |