1.750 Å
X-ray
2010-03-17
| 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: | 19.513 |
|---|---|
| Number of residues: | 29 |
| Including | |
| Standard Amino Acids: | 29 |
| Non Standard Amino Acids: | 0 |
| Water Molecules: | 0 |
| Cofactors: | |
| Metals: | |
| Ligandability | Volume (Å3) |
|---|---|
| 1.045 | 786.375 |
| % Hydrophobic | % Polar |
|---|---|
| 45.06 | 54.94 |
| According to VolSite | |

| HET Code: | X9F |
|---|---|
| Formula: | C18H16N6O2S |
| Molecular weight: | 380.424 g/mol |
| DrugBank ID: | - |
| Buried Surface Area: | 60.79 % |
| Polar Surface area: | 121.04 Å2 |
| Number of | |
|---|---|
| H-Bond Acceptors: | 7 |
| H-Bond Donors: | 3 |
| Rings: | 4 |
| Aromatic rings: | 4 |
| Anionic atoms: | 0 |
| Cationic atoms: | 0 |
| Rule of Five Violation: | 0 |
| Rotatable Bonds: | 5 |
| X | Y | Z |
|---|---|---|
| 11.9405 | 6.40993 | 11.7861 |
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 | CB | ILE- 621 | 3.85 | 0 | Hydrophobic |
| C6 | CD1 | ILE- 621 | 3.71 | 0 | Hydrophobic |
| C11 | CG1 | VAL- 629 | 4.42 | 0 | Hydrophobic |
| C9 | CB | ALA- 645 | 3.2 | 0 | Hydrophobic |
| C12 | CB | ALA- 645 | 3.95 | 0 | Hydrophobic |
| C13 | CG | LYS- 647 | 3.61 | 0 | Hydrophobic |
| C14 | CD | LYS- 647 | 3.63 | 0 | Hydrophobic |
| N4 | OE2 | GLU- 664 | 2.67 | 162.48 | H-Bond (Ligand Donor) |
| N4 | OE1 | GLU- 664 | 3.44 | 130.93 | H-Bond (Ligand Donor) |
| C14 | CE | MET- 668 | 4.28 | 0 | Hydrophobic |
| C9 | CD1 | ILE- 677 | 4.33 | 0 | Hydrophobic |
| C15 | CD1 | ILE- 677 | 3.9 | 0 | Hydrophobic |
| C14 | CG2 | ILE- 691 | 4.14 | 0 | Hydrophobic |
| C14 | CG2 | THR- 693 | 3.58 | 0 | Hydrophobic |
| C1 | CZ | PHE- 695 | 3.41 | 0 | Hydrophobic |
| N2 | N | MET- 696 | 2.97 | 161.47 | H-Bond (Protein Donor) |
| N1 | O | MET- 696 | 2.83 | 165.1 | H-Bond (Ligand Donor) |
| C9 | CD1 | LEU- 747 | 3.49 | 0 | Hydrophobic |
| N5 | N | ASP- 758 | 3.05 | 148.77 | H-Bond (Protein Donor) |