2.300 Å
X-ray
2016-03-05
| Name: | Ribonucleoside-diphosphate reductase |
|---|---|
| ID: | Q9I4I1_PSEAE |
| AC: | Q9I4I1 |
| Organism: | Pseudomonas aeruginosa |
| Reign: | Bacteria |
| TaxID: | 208964 |
| EC Number: | / |
| Chain Name: | Percentage of Residues within binding site |
|---|---|
| A | 32 % |
| B | 68 % |
| B-Factor: | 58.741 |
|---|---|
| Number of residues: | 28 |
| Including | |
| Standard Amino Acids: | 28 |
| Non Standard Amino Acids: | 0 |
| Water Molecules: | 0 |
| Cofactors: | |
| Metals: | |
| Ligandability | Volume (Å3) |
|---|---|
| 0.715 | 394.875 |
| % Hydrophobic | % Polar |
|---|---|
| 51.28 | 48.72 |
| According to VolSite | |

| HET Code: | DTP |
|---|---|
| Formula: | C10H12N5O12P3 |
| Molecular weight: | 487.150 g/mol |
| DrugBank ID: | DB03222 |
| Buried Surface Area: | 55.63 % |
| Polar Surface area: | 299.64 Å2 |
| Number of | |
|---|---|
| H-Bond Acceptors: | 16 |
| H-Bond Donors: | 2 |
| Rings: | 3 |
| Aromatic rings: | 2 |
| Anionic atoms: | 4 |
| Cationic atoms: | 0 |
| Rule of Five Violation: | 1 |
| Rotatable Bonds: | 8 |
| X | Y | Z |
|---|---|---|
| -1.4293 | -5.5507 | 52.3371 |
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 |
| O3' | OD1 | ASP- 380 | 2.54 | 156.16 | H-Bond (Ligand Donor) |
| O1A | N | LEU- 382 | 3.13 | 170.13 | H-Bond (Protein Donor) |
| C2' | CD1 | LEU- 382 | 4.21 | 0 | Hydrophobic |
| C2' | CD1 | ILE- 385 | 3.69 | 0 | Hydrophobic |
| O1B | NZ | LYS- 397 | 3.7 | 0 | Ionic (Protein Cationic) |
| O2A | NZ | LYS- 397 | 2.96 | 0 | Ionic (Protein Cationic) |
| O2G | NH2 | ARG- 410 | 3.48 | 152.43 | H-Bond (Protein Donor) |
| C4' | CD | ARG- 410 | 3.68 | 0 | Hydrophobic |
| C1' | CD1 | ILE- 416 | 3.77 | 0 | Hydrophobic |
| O1G | N | LYS- 417 | 3.47 | 144.7 | H-Bond (Protein Donor) |
| C2' | CZ | PHE- 429 | 4.42 | 0 | Hydrophobic |
| N6 | O | VAL- 440 | 3.34 | 159.36 | H-Bond (Ligand Donor) |