1.800 Å
X-ray
2014-05-22
| Name: | Phospholipase A2 VRV-PL-VIIIa |
|---|---|
| ID: | D0VX11_9SAUR |
| AC: | D0VX11 |
| Organism: | Daboia russellii pulchella |
| Reign: | Eukaryota |
| TaxID: | 97228 |
| EC Number: | / |
| Chain Name: | Percentage of Residues within binding site |
|---|---|
| A | 100 % |
| B-Factor: | 25.915 |
|---|---|
| Number of residues: | 20 |
| Including | |
| Standard Amino Acids: | 19 |
| Non Standard Amino Acids: | 0 |
| Water Molecules: | 1 |
| Cofactors: | |
| Metals: | |
| Ligandability | Volume (Å3) |
|---|---|
| 0.895 | 290.250 |
| % Hydrophobic | % Polar |
|---|---|
| 67.44 | 32.56 |
| According to VolSite | |

| HET Code: | PZZ |
|---|---|
| Formula: | C14H21N2O |
| Molecular weight: | 233.329 g/mol |
| DrugBank ID: | DB08447 |
| Buried Surface Area: | 52.16 % |
| Polar Surface area: | 40.46 Å2 |
| Number of | |
|---|---|
| H-Bond Acceptors: | 1 |
| H-Bond Donors: | 3 |
| Rings: | 2 |
| Aromatic rings: | 2 |
| Anionic atoms: | 0 |
| Cationic atoms: | 1 |
| Rule of Five Violation: | 0 |
| Rotatable Bonds: | 5 |
| X | Y | Z |
|---|---|---|
| -21.1877 | 6.22053 | 6.02035 |
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 |
| C8 | CD1 | LEU- 2 | 3.76 | 0 | Hydrophobic |
| C16 | CE2 | PHE- 5 | 3.53 | 0 | Hydrophobic |
| C6 | CD1 | ILE- 9 | 3.81 | 0 | Hydrophobic |
| C5 | CB | ALA- 18 | 3.23 | 0 | Hydrophobic |
| C8 | CG1 | ILE- 19 | 3.87 | 0 | Hydrophobic |
| C15 | CB | TYR- 22 | 4.11 | 0 | Hydrophobic |
| C9 | CB | SER- 23 | 4.09 | 0 | Hydrophobic |
| O17 | N | GLY- 30 | 2.67 | 157.36 | H-Bond (Protein Donor) |
| C16 | SG | CYS- 45 | 4.46 | 0 | Hydrophobic |
| O17 | O | HOH- 330 | 2.89 | 161.84 | H-Bond (Ligand Donor) |