sc-PDB
An Annotated Database of Druggable Binding Sites from the Protein DataBank
An Annotated Database of Druggable Binding Sites from the Protein DataBank
2.180 Å
X-ray
1994-05-17
| Min | Mean | Median | Standard Deviation | Max | Count | |
|---|---|---|---|---|---|---|
| pChEMBL: | 6.960 | 6.960 | 6.960 | 0.000 | 6.960 | 1 |
| Name: | Heat shock cognate 71 kDa protein |
|---|---|
| ID: | HSP7C_BOVIN |
| AC: | P19120 |
| Organism: | Bos taurus |
| Reign: | Eukaryota |
| TaxID: | 9913 |
| EC Number: | / |
| Chain Name: | Percentage of Residues within binding site |
|---|---|
| A | 100 % |
| B-Factor: | 10.130 |
|---|---|
| Number of residues: | 44 |
| Including | |
| Standard Amino Acids: | 40 |
| Non Standard Amino Acids: | 1 |
| Water Molecules: | 3 |
| Cofactors: | |
| Metals: | MG |
| Ligandability | Volume (Å3) |
|---|---|
| 0.617 | 1022.625 |
| % Hydrophobic | % Polar |
|---|---|
| 41.58 | 58.42 |
| According to VolSite | |
| HET Code: | ADP |
|---|---|
| Formula: | C10H12N5O10P2 |
| Molecular weight: | 424.177 g/mol |
| DrugBank ID: | - |
| Buried Surface Area: | 73 % |
| Polar Surface area: | 260.7 Å2 |
| Number of | |
|---|---|
| H-Bond Acceptors: | 14 |
| H-Bond Donors: | 3 |
| Rings: | 3 |
| Aromatic rings: | 2 |
| Anionic atoms: | 3 |
| Cationic atoms: | 0 |
| Rule of Five Violation: | 1 |
| Rotatable Bonds: | 6 |
| X | Y | Z |
|---|---|---|
| 20.6643 | 35.2644 | 16.395 |
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 |
| O3B | N | THR- 14 | 2.86 | 153.89 | H-Bond (Protein Donor) |
| O3B | OG1 | THR- 14 | 2.68 | 166.09 | H-Bond (Protein Donor) |
| O3B | N | TYR- 15 | 2.98 | 148.34 | H-Bond (Protein Donor) |
| C5' | CD1 | TYR- 15 | 3.53 | 0 | Hydrophobic |
| C3' | CE1 | TYR- 15 | 4.16 | 0 | Hydrophobic |
| O1B | N | GLY- 202 | 2.68 | 150.43 | H-Bond (Protein Donor) |
| O2' | OE2 | GLU- 268 | 2.57 | 150.16 | H-Bond (Ligand Donor) |
| O3' | NZ | LYS- 271 | 3.39 | 121.75 | H-Bond (Protein Donor) |
| O2' | NZ | LYS- 271 | 2.53 | 150.83 | H-Bond (Protein Donor) |
| N1 | OG | SER- 275 | 2.85 | 168.22 | H-Bond (Protein Donor) |
| O1A | N | GLY- 339 | 3.04 | 151.09 | H-Bond (Protein Donor) |
| O5' | N | GLY- 339 | 3.36 | 142.58 | H-Bond (Protein Donor) |
| N7 | NH1 | ARG- 342 | 3.32 | 122.82 | H-Bond (Protein Donor) |
| O2B | MG | MG- 487 | 1.94 | 0 | Metal Acceptor |
| N3 | O | HOH- 533 | 2.83 | 168.33 | H-Bond (Protein Donor) |
