sc-PDB
An Annotated Database of Druggable Binding Sites from the Protein DataBank
An Annotated Database of Druggable Binding Sites from the Protein DataBank
2.700 Å
X-ray
1998-01-16
| Name: | Estradiol 17-beta-dehydrogenase 1 |
|---|---|
| ID: | DHB1_HUMAN |
| AC: | P14061 |
| Organism: | Homo sapiens |
| Reign: | Eukaryota |
| TaxID: | 9606 |
| EC Number: | 1.1.1.62 |
| Chain Name: | Percentage of Residues within binding site |
|---|---|
| A | 100 % |
| B-Factor: | 17.224 |
|---|---|
| Number of residues: | 21 |
| Including | |
| Standard Amino Acids: | 21 |
| Non Standard Amino Acids: | 0 |
| Water Molecules: | 0 |
| Cofactors: | |
| Metals: | |
| Ligandability | Volume (Å3) |
|---|---|
| 1.261 | 691.875 |
| % Hydrophobic | % Polar |
|---|---|
| 59.02 | 40.98 |
| According to VolSite | |
| HET Code: | EST |
|---|---|
| Formula: | C18H24O2 |
| Molecular weight: | 272.382 g/mol |
| DrugBank ID: | DB00783 |
| Buried Surface Area: | 49.98 % |
| Polar Surface area: | 40.46 Å2 |
| Number of | |
|---|---|
| H-Bond Acceptors: | 2 |
| H-Bond Donors: | 2 |
| Rings: | 4 |
| Aromatic rings: | 1 |
| Anionic atoms: | 0 |
| Cationic atoms: | 0 |
| Rule of Five Violation: | 0 |
| Rotatable Bonds: | 0 |
| X | Y | Z |
|---|---|---|
| 46.8466 | 7.04495 | 42.8966 |
Image generated by PoseView
Represent the protein/ligand binding mode, centered on the ligand
Dashed lines represents hydrogen bonds and metal interactions
Green residue labels for amino acids with hydrophobic contacts (green lines) to the ligand
| Ligand | Protein | Interaction | |||
|---|---|---|---|---|---|
| Atom | Atom | Residue | Distance (Å) | Angle (°) | Type |
| C18 | CG1 | VAL- 143 | 3.39 | 0 | Hydrophobic |
| C13 | CD1 | LEU- 149 | 4.08 | 0 | Hydrophobic |
| C6 | CE1 | TYR- 218 | 3.94 | 0 | Hydrophobic |
| C7 | CZ | TYR- 218 | 4.47 | 0 | Hydrophobic |
| O3 | NE2 | GLN- 221 | 2.92 | 142.21 | H-Bond (Protein Donor) |
| C7 | CB | SER- 222 | 3.53 | 0 | Hydrophobic |
| C9 | CG1 | VAL- 225 | 3.94 | 0 | Hydrophobic |
| C3 | CG2 | VAL- 225 | 4.31 | 0 | Hydrophobic |
| C10 | CG1 | VAL- 225 | 3.87 | 0 | Hydrophobic |
| C5 | CG1 | VAL- 225 | 4.11 | 0 | Hydrophobic |
| C1 | CE1 | PHE- 259 | 3.45 | 0 | Hydrophobic |
| C11 | CZ | PHE- 259 | 3.82 | 0 | Hydrophobic |
| C3 | CE | MET- 279 | 3.97 | 0 | Hydrophobic |
