2.100 Å
X-ray
2008-06-30
| Name: | Ephrin type-B receptor 4 |
|---|---|
| ID: | EPHB4_HUMAN |
| AC: | P54760 |
| Organism: | Homo sapiens |
| Reign: | Eukaryota |
| TaxID: | 9606 |
| EC Number: | 2.7.10.1 |
| Chain Name: | Percentage of Residues within binding site |
|---|---|
| A | 100 % |
| B-Factor: | 21.204 |
|---|---|
| Number of residues: | 33 |
| Including | |
| Standard Amino Acids: | 32 |
| Non Standard Amino Acids: | 0 |
| Water Molecules: | 1 |
| Cofactors: | |
| Metals: | |
| Ligandability | Volume (Å3) |
|---|---|
| 1.532 | 489.375 |
| % Hydrophobic | % Polar |
|---|---|
| 55.86 | 44.14 |
| According to VolSite | |

| HET Code: | 7X7 |
|---|---|
| Formula: | C21H20ClN5O3 |
| Molecular weight: | 425.868 g/mol |
| DrugBank ID: | DB07255 |
| Buried Surface Area: | 57.2 % |
| Polar Surface area: | 80.77 Å2 |
| Number of | |
|---|---|
| H-Bond Acceptors: | 8 |
| H-Bond Donors: | 2 |
| Rings: | 5 |
| Aromatic rings: | 3 |
| Anionic atoms: | 0 |
| Cationic atoms: | 0 |
| Rule of Five Violation: | 0 |
| Rotatable Bonds: | 5 |
| X | Y | Z |
|---|---|---|
| 11.7644 | 6.92293 | 11.7344 |
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 | CD1 | ILE- 621 | 3.65 | 0 | Hydrophobic |
| C13 | CG1 | VAL- 629 | 4.3 | 0 | Hydrophobic |
| C5 | CB | ALA- 645 | 3.79 | 0 | Hydrophobic |
| C6 | CB | ALA- 645 | 4.4 | 0 | Hydrophobic |
| C9 | CB | ALA- 645 | 3.34 | 0 | Hydrophobic |
| C5 | CG | LYS- 647 | 3.99 | 0 | Hydrophobic |
| C6 | CG | LYS- 647 | 4.03 | 0 | Hydrophobic |
| C3 | CD | LYS- 647 | 3.71 | 0 | Hydrophobic |
| C3 | CE | MET- 668 | 4.13 | 0 | Hydrophobic |
| C9 | CD1 | ILE- 677 | 3.75 | 0 | Hydrophobic |
| C1 | CD1 | ILE- 677 | 4.22 | 0 | Hydrophobic |
| C5 | CG2 | THR- 693 | 3.76 | 0 | Hydrophobic |
| C4 | CG2 | THR- 693 | 3.69 | 0 | Hydrophobic |
| N2 | N | MET- 696 | 2.94 | 163.24 | H-Bond (Protein Donor) |
| N3 | O | MET- 696 | 2.87 | 159.78 | H-Bond (Ligand Donor) |
| C9 | CD1 | LEU- 747 | 3.63 | 0 | Hydrophobic |
| CL1 | CD1 | LEU- 747 | 3.79 | 0 | Hydrophobic |
| CL1 | CB | SER- 757 | 3.94 | 0 | Hydrophobic |