1.770 Å
X-ray
2009-10-27
| Name: | Gag-Pol polyprotein |
|---|---|
| ID: | POL_HV1Z2 |
| AC: | P12499 |
| Organism: | Human immunodeficiency virus type 1 group M subtype D |
| Reign: | Viruses |
| TaxID: | 11683 |
| EC Number: | / |
| Chain Name: | Percentage of Residues within binding site |
|---|---|
| A | 100 % |
| B-Factor: | 32.698 |
|---|---|
| Number of residues: | 20 |
| Including | |
| Standard Amino Acids: | 20 |
| Non Standard Amino Acids: | 0 |
| Water Molecules: | 0 |
| Cofactors: | |
| Metals: | |
| Ligandability | Volume (Å3) |
|---|---|
| 0.261 | 310.500 |
| % Hydrophobic | % Polar |
|---|---|
| 41.30 | 58.70 |
| According to VolSite | |

| HET Code: | 3TL |
|---|---|
| Formula: | C50H64N6O10 |
| Molecular weight: | 909.077 g/mol |
| DrugBank ID: | - |
| Buried Surface Area: | 40.1 % |
| Polar Surface area: | 233.51 Å2 |
| Number of | |
|---|---|
| H-Bond Acceptors: | 10 |
| H-Bond Donors: | 8 |
| Rings: | 4 |
| Aromatic rings: | 4 |
| Anionic atoms: | 0 |
| Cationic atoms: | 0 |
| Rule of Five Violation: | 4 |
| Rotatable Bonds: | 25 |
| X | Y | Z |
|---|---|---|
| -11.3568 | -12.2825 | 8.89558 |
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 | O | GLY- 27 | 3 | 145.66 | H-Bond (Ligand Donor) |
| CG2 | CB | ALA- 28 | 4.4 | 0 | Hydrophobic |
| CG1 | CB | ALA- 28 | 3.85 | 0 | Hydrophobic |
| N4 | OD2 | ASP- 29 | 2.87 | 162.86 | H-Bond (Ligand Donor) |
| O4 | N | ASP- 29 | 3.01 | 166.64 | H-Bond (Protein Donor) |
| CG2 | CG1 | VAL- 32 | 4.3 | 0 | Hydrophobic |
| CG1 | CG1 | VAL- 32 | 4.36 | 0 | Hydrophobic |
| CA | CG2 | ILE- 47 | 4.4 | 0 | Hydrophobic |
| CG2 | CD1 | ILE- 47 | 3.9 | 0 | Hydrophobic |
| O8 | N | GLY- 48 | 2.71 | 156.26 | H-Bond (Protein Donor) |
| N2 | O | GLY- 48 | 2.88 | 167.19 | H-Bond (Ligand Donor) |
| C9 | CG1 | ILE- 50 | 3.58 | 0 | Hydrophobic |
| CG1 | CD1 | ILE- 84 | 3.56 | 0 | Hydrophobic |