2.200 Å
X-ray
2007-01-04
| Name: | 1-deoxy-D-xylulose 5-phosphate reductoisomerase |
|---|---|
| ID: | DXR_MYCTU |
| AC: | P9WNS1 |
| Organism: | Mycobacterium tuberculosis |
| Reign: | Bacteria |
| TaxID: | 83332 |
| EC Number: | / |
| Chain Name: | Percentage of Residues within binding site |
|---|---|
| B | 100 % |
| B-Factor: | 14.494 |
|---|---|
| Number of residues: | 47 |
| Including | |
| Standard Amino Acids: | 45 |
| Non Standard Amino Acids: | 0 |
| Water Molecules: | 2 |
| Cofactors: | |
| Metals: | |
| Ligandability | Volume (Å3) |
|---|---|
| 1.230 | 1123.875 |
| % Hydrophobic | % Polar |
|---|---|
| 36.04 | 63.96 |
| According to VolSite | |

| HET Code: | NDP |
|---|---|
| Formula: | C21H26N7O17P3 |
| Molecular weight: | 741.389 g/mol |
| DrugBank ID: | DB02338 |
| Buried Surface Area: | 55.46 % |
| Polar Surface area: | 404.9 Å2 |
| Number of | |
|---|---|
| H-Bond Acceptors: | 22 |
| H-Bond Donors: | 5 |
| Rings: | 5 |
| Aromatic rings: | 2 |
| Anionic atoms: | 4 |
| Cationic atoms: | 0 |
| Rule of Five Violation: | 2 |
| Rotatable Bonds: | 13 |
| X | Y | Z |
|---|---|---|
| 11.1571 | -4.59502 | 90.7589 |
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 |
| O3B | N | THR- 21 | 3.22 | 129.02 | H-Bond (Protein Donor) |
| O1X | OG1 | THR- 21 | 2.91 | 137.47 | H-Bond (Protein Donor) |
| O3B | OG1 | THR- 21 | 2.7 | 163.66 | H-Bond (Ligand Donor) |
| O2A | N | SER- 23 | 3.02 | 164.47 | H-Bond (Protein Donor) |
| O2N | N | ILE- 24 | 3.01 | 154.03 | H-Bond (Protein Donor) |
| C5D | CG1 | ILE- 24 | 4.37 | 0 | Hydrophobic |
| C4N | CD1 | ILE- 24 | 4.4 | 0 | Hydrophobic |
| O2B | N | GLY- 47 | 2.81 | 160.76 | H-Bond (Protein Donor) |
| O2X | N | GLY- 48 | 3.04 | 149.23 | H-Bond (Protein Donor) |
| O2X | N | HIS- 50 | 2.8 | 164.5 | H-Bond (Protein Donor) |
| C1B | CD2 | LEU- 104 | 3.97 | 0 | Hydrophobic |
| C5B | CG1 | VAL- 105 | 3.84 | 0 | Hydrophobic |
| C4D | CB | ALA- 126 | 4.01 | 0 | Hydrophobic |
| C1D | CB | ALA- 126 | 4.31 | 0 | Hydrophobic |
| O3D | N | LYS- 128 | 3.05 | 160.93 | H-Bond (Protein Donor) |
| C1D | CG | LYS- 128 | 4.15 | 0 | Hydrophobic |
| C4N | CE | MET- 267 | 4.18 | 0 | Hydrophobic |
| O2N | O | HOH- 2263 | 2.54 | 155.3 | H-Bond (Protein Donor) |
| O7N | O | HOH- 2264 | 2.73 | 163.02 | H-Bond (Protein Donor) |