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
2000-04-04
| Min | Mean | Median | Standard Deviation | Max | Count | |
|---|---|---|---|---|---|---|
| pChEMBL: | 6.000 | 6.000 | 6.000 | 0.000 | 6.000 | 1 |
| Name: | Prostaglandin G/H synthase 1 |
|---|---|
| ID: | PGH1_SHEEP |
| AC: | P05979 |
| Organism: | Ovis aries |
| Reign: | Eukaryota |
| TaxID: | 9940 |
| EC Number: | 1.14.99.1 |
| Chain Name: | Percentage of Residues within binding site |
|---|---|
| B | 100 % |
| B-Factor: | 15.306 |
|---|---|
| Number of residues: | 26 |
| Including | |
| Standard Amino Acids: | 25 |
| Non Standard Amino Acids: | 1 |
| Water Molecules: | 0 |
| Cofactors: | |
| Metals: | |
| Ligandability | Volume (Å3) |
|---|---|
| 0.775 | 1741.500 |
| % Hydrophobic | % Polar |
|---|---|
| 54.65 | 45.35 |
| According to VolSite | |
| HET Code: | FLP |
|---|---|
| Formula: | C15H12FO2 |
| Molecular weight: | 243.253 g/mol |
| DrugBank ID: | - |
| Buried Surface Area: | 73.21 % |
| Polar Surface area: | 40.12 Å2 |
| Number of | |
|---|---|
| H-Bond Acceptors: | 2 |
| H-Bond Donors: | 0 |
| Rings: | 2 |
| Aromatic rings: | 2 |
| Anionic atoms: | 1 |
| Cationic atoms: | 0 |
| Rule of Five Violation: | 0 |
| Rotatable Bonds: | 3 |
| X | Y | Z |
|---|---|---|
| 68.2328 | 22.4148 | 187.568 |
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 |
| C13 | CG1 | VAL- 116 | 3.87 | 0 | Hydrophobic |
| O | CZ | ARG- 120 | 3.64 | 0 | Ionic (Protein Cationic) |
| O1 | CZ | ARG- 120 | 3.76 | 0 | Ionic (Protein Cationic) |
| O | NH2 | ARG- 120 | 2.9 | 161.19 | H-Bond (Protein Donor) |
| O1 | NE | ARG- 120 | 2.88 | 155.98 | H-Bond (Protein Donor) |
| C3 | CG2 | VAL- 349 | 4.3 | 0 | Hydrophobic |
| C13 | CG1 | VAL- 349 | 4.11 | 0 | Hydrophobic |
| C8 | CG1 | VAL- 349 | 3.46 | 0 | Hydrophobic |
| F | CD1 | LEU- 352 | 3.39 | 0 | Hydrophobic |
| C3 | CD1 | LEU- 352 | 3.89 | 0 | Hydrophobic |
| C10 | CB | SER- 353 | 4.17 | 0 | Hydrophobic |
| O | OH | TYR- 355 | 2.68 | 145.39 | H-Bond (Protein Donor) |
| C12 | CE1 | TYR- 355 | 3.49 | 0 | Hydrophobic |
| C13 | CD2 | LEU- 359 | 3.61 | 0 | Hydrophobic |
| C | CD2 | LEU- 384 | 4.22 | 0 | Hydrophobic |
| C5 | CZ2 | TRP- 387 | 3.37 | 0 | Hydrophobic |
| F | CZ | PHE- 518 | 4.07 | 0 | Hydrophobic |
| F | CG1 | ILE- 523 | 3.66 | 0 | Hydrophobic |
| C10 | CG2 | ILE- 523 | 3.83 | 0 | Hydrophobic |
| C8 | CB | ALA- 527 | 3.59 | 0 | Hydrophobic |
| C7 | CB | SER- 530 | 4.15 | 0 | Hydrophobic |
| C3 | CB | SER- 530 | 3.77 | 0 | Hydrophobic |
| C7 | CG | LEU- 531 | 4.36 | 0 | Hydrophobic |
| C8 | CD1 | LEU- 531 | 3.95 | 0 | Hydrophobic |
