2.900 Å
X-ray
2008-03-18
| Name: | Deoxynucleoside kinase |
|---|---|
| ID: | DNK_DROME |
| AC: | Q9XZT6 |
| Organism: | Drosophila melanogaster |
| Reign: | Eukaryota |
| TaxID: | 7227 |
| EC Number: | / |
| Chain Name: | Percentage of Residues within binding site |
|---|---|
| B | 100 % |
| B-Factor: | 47.888 |
|---|---|
| Number of residues: | 28 |
| Including | |
| Standard Amino Acids: | 28 |
| Non Standard Amino Acids: | 0 |
| Water Molecules: | 0 |
| Cofactors: | |
| Metals: | |
| Ligandability | Volume (Å3) |
|---|---|
| 0.189 | 563.625 |
| % Hydrophobic | % Polar |
|---|---|
| 55.69 | 44.31 |
| According to VolSite | |

| HET Code: | BVD |
|---|---|
| Formula: | C11H13BrN2O5 |
| Molecular weight: | 333.135 g/mol |
| DrugBank ID: | DB03312 |
| Buried Surface Area: | 74.53 % |
| Polar Surface area: | 99.1 Å2 |
| Number of | |
|---|---|
| H-Bond Acceptors: | 5 |
| H-Bond Donors: | 3 |
| Rings: | 2 |
| Aromatic rings: | 0 |
| Anionic atoms: | 0 |
| Cationic atoms: | 0 |
| Rule of Five Violation: | 0 |
| Rotatable Bonds: | 3 |
| X | Y | Z |
|---|---|---|
| 11.3519 | -17.6629 | -6.50058 |
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 |
| C2' | CD1 | ILE- 29 | 4.21 | 0 | Hydrophobic |
| O5' | OE1 | GLU- 52 | 2.62 | 150.46 | H-Bond (Ligand Donor) |
| O5' | OE2 | GLU- 52 | 2.83 | 135.43 | H-Bond (Ligand Donor) |
| C5' | CG2 | VAL- 54 | 4.11 | 0 | Hydrophobic |
| C5' | CZ3 | TRP- 57 | 4.16 | 0 | Hydrophobic |
| C1' | CD1 | LEU- 66 | 4.37 | 0 | Hydrophobic |
| O3' | OH | TYR- 70 | 2.94 | 177.76 | H-Bond (Protein Donor) |
| N3 | OE1 | GLN- 81 | 3.01 | 137.53 | H-Bond (Ligand Donor) |
| O4 | NE2 | GLN- 81 | 2.84 | 157.34 | H-Bond (Protein Donor) |
| BR | CG1 | VAL- 84 | 3.91 | 0 | Hydrophobic |
| BR | SD | MET- 88 | 3.78 | 0 | Hydrophobic |
| BR | CB | ARG- 105 | 3.99 | 0 | Hydrophobic |
| BR | CB | ALA- 110 | 3.72 | 0 | Hydrophobic |
| C2' | CE2 | PHE- 114 | 3.93 | 0 | Hydrophobic |