sc-PDB
An Annotated Database of Druggable Binding Sites from the Protein DataBank
An Annotated Database of Druggable Binding Sites from the Protein DataBank
1.930 Å
X-ray
2013-01-22
| Min | Mean | Median | Standard Deviation | Max | Count | |
|---|---|---|---|---|---|---|
| pChEMBL: | 9.520 | 9.520 | 9.520 | 0.000 | 9.520 | 1 |
| Name: | Tyrosine-protein kinase JAK1 |
|---|---|
| ID: | JAK1_HUMAN |
| AC: | P23458 |
| Organism: | Homo sapiens |
| Reign: | Eukaryota |
| TaxID: | 9606 |
| EC Number: | / |
| Chain Name: | Percentage of Residues within binding site |
|---|---|
| A | 100 % |
| B-Factor: | 24.167 |
|---|---|
| Number of residues: | 37 |
| Including | |
| Standard Amino Acids: | 37 |
| Non Standard Amino Acids: | 0 |
| Water Molecules: | 0 |
| Cofactors: | |
| Metals: | |
| Ligandability | Volume (Å3) |
|---|---|
| 1.033 | 394.875 |
| % Hydrophobic | % Polar |
|---|---|
| 53.85 | 46.15 |
| According to VolSite | |
| HET Code: | 15T |
|---|---|
| Formula: | C19H23N5O |
| Molecular weight: | 337.419 g/mol |
| DrugBank ID: | - |
| Buried Surface Area: | 70.61 % |
| Polar Surface area: | 90.52 Å2 |
| Number of | |
|---|---|
| H-Bond Acceptors: | 4 |
| H-Bond Donors: | 2 |
| Rings: | 4 |
| Aromatic rings: | 3 |
| Anionic atoms: | 0 |
| Cationic atoms: | 0 |
| Rule of Five Violation: | 0 |
| Rotatable Bonds: | 4 |
| X | Y | Z |
|---|---|---|
| 6.56332 | 56.6317 | 0.5374 |
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 |
| C1 | CD2 | LEU- 881 | 4.44 | 0 | Hydrophobic |
| C2 | CB | LEU- 881 | 4.38 | 0 | Hydrophobic |
| C7 | CD1 | LEU- 881 | 4.24 | 0 | Hydrophobic |
| C25 | CB | LEU- 881 | 4.02 | 0 | Hydrophobic |
| C25 | CB | VAL- 889 | 3.61 | 0 | Hydrophobic |
| C27 | CG2 | VAL- 889 | 4.35 | 0 | Hydrophobic |
| C24 | CG2 | VAL- 889 | 3.68 | 0 | Hydrophobic |
| C13 | CB | ALA- 906 | 4.3 | 0 | Hydrophobic |
| N16 | O | GLU- 957 | 2.98 | 164.91 | H-Bond (Ligand Donor) |
| N11 | N | LEU- 959 | 3 | 176.41 | H-Bond (Protein Donor) |
| O4 | N | SER- 963 | 3.47 | 135.72 | H-Bond (Protein Donor) |
| C1 | CG | GLU- 966 | 4.1 | 0 | Hydrophobic |
| O4 | OE1 | GLU- 966 | 2.69 | 161.84 | H-Bond (Ligand Donor) |
| C7 | CD2 | LEU- 1010 | 3.46 | 0 | Hydrophobic |
| C13 | CD1 | LEU- 1010 | 3.67 | 0 | Hydrophobic |
| C20 | CD2 | LEU- 1010 | 3.8 | 0 | Hydrophobic |
| C26 | CB | ASP- 1021 | 4.09 | 0 | Hydrophobic |
