2.070 Å
X-ray
2010-12-02
| Name: | Gag-Pol polyprotein |
|---|---|
| ID: | POL_HV1B1 |
| AC: | P03366 |
| Organism: | Human immunodeficiency virus type 1 group M subtype B |
| Reign: | Viruses |
| TaxID: | 11678 |
| EC Number: | 3.4.23.16 |
| Chain Name: | Percentage of Residues within binding site |
|---|---|
| A | 100 % |
| B-Factor: | 24.871 |
|---|---|
| Number of residues: | 18 |
| Including | |
| Standard Amino Acids: | 17 |
| Non Standard Amino Acids: | 0 |
| Water Molecules: | 1 |
| Cofactors: | |
| Metals: | |
| Ligandability | Volume (Å3) |
|---|---|
| 0.676 | 344.250 |
| % Hydrophobic | % Polar |
|---|---|
| 57.84 | 42.16 |
| According to VolSite | |

| HET Code: | LJG |
|---|---|
| Formula: | C24H40N5O4S2 |
| Molecular weight: | 526.735 g/mol |
| DrugBank ID: | - |
| Buried Surface Area: | 42.54 % |
| Polar Surface area: | 160.16 Å2 |
| Number of | |
|---|---|
| H-Bond Acceptors: | 6 |
| H-Bond Donors: | 3 |
| Rings: | 2 |
| Aromatic rings: | 2 |
| Anionic atoms: | 0 |
| Cationic atoms: | 1 |
| Rule of Five Violation: | 1 |
| Rotatable Bonds: | 14 |
| X | Y | Z |
|---|---|---|
| -9.80106 | 15.1273 | -10.5713 |
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 |
| N1 | OD2 | ASP- 25 | 2.77 | 159.22 | H-Bond (Ligand Donor) |
| N1 | OD2 | ASP- 25 | 2.77 | 0 | Ionic (Ligand Cationic) |
| N1 | OD1 | ASP- 25 | 3.5 | 0 | Ionic (Ligand Cationic) |
| C3 | CB | ALA- 28 | 4 | 0 | Hydrophobic |
| C31 | CB | ALA- 28 | 3.73 | 0 | Hydrophobic |
| C31 | CG1 | VAL- 32 | 3.64 | 0 | Hydrophobic |
| C29 | CD1 | ILE- 47 | 3.85 | 0 | Hydrophobic |
| C25 | CB | ILE- 50 | 4.18 | 0 | Hydrophobic |
| C32 | CD1 | ILE- 84 | 4.02 | 0 | Hydrophobic |
| C31 | CG2 | ILE- 84 | 4.43 | 0 | Hydrophobic |