65 Composite domain of metallo-dependent hydrolases
Ligands and drugs
Aggregated over all current member domains of this group. Drug annotations come from DrugDomain; buffers and crystallization additives are excluded from the tables below.
Chemical profile
ClassyFire chemical superclasses of the ligands bound by this X-group's proteins, from DrugDomain annotations.
The raw number of superclasses rises with the number of proteins sampled; the per-20 value compares X-groups at equal depth.
| Superclass | Proteins | Expected | 0.25×observed / expected4× | Ratio | Significance |
|---|---|---|---|---|---|
| Homogeneous metal compounds | 11 | 9.7 | 1.14× | q = 0.73 | |
| Nucleosides, nucleotides, and analogues | 0 | 5.5 | 0 | q = 8.0e-3 | |
| Phenylpropanoids and polyketides | 1 | 0.4 | 2.44× | not tested | |
| Homogeneous non-metal compounds | 6 | 4.2 | 1.41× | not tested | |
| Benzenoids | 1 | 1.4 | 0.69× | not tested | |
| Organic oxygen compounds | 2 | 3.9 | 0.51× | not tested | |
| Lipids and lipid-like molecules | 1 | 2.2 | 0.46× | not tested | |
| Organoheterocyclic compounds | 1 | 3.0 | 0.33× | not tested | |
| Organic acids and derivatives | 1 | 3.1 | 0.33× | not tested |
Unit: a protein (UniProt accession) with a ligand-binding domain in this X-group, counted once per superclass. Expected counts use each superclass's frequency across all ligand-binding X-groups; significance is Fisher's exact test with Benjamini–Hochberg correction. Buffers and crystallization additives are excluded. ECOD v295.2; the method follows the ECOD 2027 update, whose published figures used a slightly different artifact filter.
DrugBank compounds
| DrugBank | PDB ligand | Name | Domains |
|---|---|---|---|
| DB02042 | 1PG | 2-(2-{2-[2-(2-Methoxy-Ethoxy)-Ethoxy]-Ethoxy}-Ethoxy)-Ethanol | 2 |
| DB00142 | GLU | Glutamic acid | 1 |
| DB03644 | 3HA | 3-hydroxyanthranilic acid | 1 |
| DB04447 | DTT | 1,4-Dithiothreitol | 1 |
| DB11638 | — | — | 1 |
Most frequently bound compounds
| PDB ligand | Name | Domains in contact |
|---|---|---|
| ZNmetal | ZINC ION | 49 |
| DJM | 2-{[1-(3,5-dimethylphenyl)-1H-imidazol-2-yl]sulfanyl}-N-hydroxyacetamide | 12 |
| CL | CHLORIDE ION | 11 |
| MGmetal | MAGNESIUM ION | 8 |
| 1PG | 2-(2-{2-[2-(2-METHOXY-ETHOXY)-ETHOXY]-ETHOXY}-ETHOXY)-ETHANOL | 2 |
| CAmetal | CALCIUM ION | 2 |
| FEmetal | FE (III) ION | 2 |
| NAmetal | SODIUM ION | 2 |
| NCD | N-CARBAMOYL-L-ASPARTATE | 2 |
| 3HA | 3-HYDROXYANTHRANILIC ACID | 1 |
| 3HB | 3-HYDROXYBENZOIC ACID | 1 |
| A1EEZ | (2~{R},3~{R},4~{S},5~{R})-2-acetamido-3,4,5,6-tetrakis(oxidanyl)hexanoic acid | 1 |
| BME | BETA-MERCAPTOETHANOL | 1 |
| BX0 | (3aR,5S,8R,8aR,9aR)-5,8a-dimethyl-3-methylidene-8-oxidanyl-5,6,7,8,9,9a-hexahydro-3aH-benzo[f][1]benzofuran-2-one | 1 |
| CDmetal | CADMIUM ION | 1 |
| COmetal | COBALT (II) ION | 1 |
| DOR | (4S)-2,6-DIOXOHEXAHYDROPYRIMIDINE-4-CARBOXYLIC ACID | 1 |
| DTT | 2,3-DIHYDROXY-1,4-DITHIOBUTANE | 1 |
| GLY | GLYCINE | 1 |
| Kmetal | POTASSIUM ION | 1 |