sc-PDB
An Annotated Database of Druggable Binding Sites from the Protein DataBank
An Annotated Database of Druggable Binding Sites from the Protein DataBank
2.650 Å
X-ray
2014-08-05
| Min | Mean | Median | Standard Deviation | Max | Count | |
|---|---|---|---|---|---|---|
| pChEMBL: | 8.770 | 8.770 | 8.770 | 0.000 | 8.770 | 1 |
| Name: | Interleukin-1 receptor-associated kinase 4 |
|---|---|
| ID: | IRAK4_HUMAN |
| AC: | Q9NWZ3 |
| Organism: | Homo sapiens |
| Reign: | Eukaryota |
| TaxID: | 9606 |
| EC Number: | 2.7.11.1 |
| Chain Name: | Percentage of Residues within binding site |
|---|---|
| B | 100 % |
| B-Factor: | 52.407 |
|---|---|
| Number of residues: | 31 |
| Including | |
| Standard Amino Acids: | 31 |
| Non Standard Amino Acids: | 0 |
| Water Molecules: | 0 |
| Cofactors: | |
| Metals: | |
| Ligandability | Volume (Å3) |
|---|---|
| 1.077 | 648.000 |
| % Hydrophobic | % Polar |
|---|---|
| 50.52 | 49.48 |
| According to VolSite | |
| HET Code: | STU |
|---|---|
| Formula: | C28H27N4O3 |
| Molecular weight: | 467.539 g/mol |
| DrugBank ID: | DB02010 |
| Buried Surface Area: | 67.94 % |
| Polar Surface area: | 74.03 Å2 |
| Number of | |
|---|---|
| H-Bond Acceptors: | 3 |
| H-Bond Donors: | 2 |
| Rings: | 8 |
| Aromatic rings: | 5 |
| Anionic atoms: | 0 |
| Cationic atoms: | 1 |
| Rule of Five Violation: | 0 |
| Rotatable Bonds: | 2 |
| X | Y | Z |
|---|---|---|
| 95.4994 | 28.8847 | -24.7543 |
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 |
| C3 | CE | MET- 192 | 3.34 | 0 | Hydrophobic |
| C26 | CG2 | VAL- 200 | 4.01 | 0 | Hydrophobic |
| C18 | CG1 | VAL- 200 | 4.12 | 0 | Hydrophobic |
| C17 | CG2 | VAL- 200 | 3.59 | 0 | Hydrophobic |
| C10 | CB | ALA- 211 | 4 | 0 | Hydrophobic |
| C15 | CD | LYS- 213 | 4.18 | 0 | Hydrophobic |
| N1 | O | VAL- 263 | 2.8 | 162.81 | H-Bond (Ligand Donor) |
| O5 | N | MET- 265 | 2.61 | 160.43 | H-Bond (Protein Donor) |
| N4 | O | ALA- 315 | 2.79 | 152.61 | H-Bond (Ligand Donor) |
| C27 | CB | ASN- 316 | 4.45 | 0 | Hydrophobic |
| C27 | CD2 | LEU- 318 | 4.09 | 0 | Hydrophobic |
| C5 | CD2 | LEU- 318 | 4.2 | 0 | Hydrophobic |
| C7 | CD1 | LEU- 318 | 3.25 | 0 | Hydrophobic |
| C27 | CB | SER- 328 | 4.38 | 0 | Hydrophobic |
| C15 | CB | ASP- 329 | 3.98 | 0 | Hydrophobic |
