2.350 Å
X-ray
2012-01-12
| Name: | Purine nucleoside phosphorylase DeoD-type |
|---|---|
| ID: | DEOD_BACSU |
| AC: | O34925 |
| Organism: | Bacillus subtilis |
| Reign: | Bacteria |
| TaxID: | 224308 |
| EC Number: | 2.4.2.1 |
| Chain Name: | Percentage of Residues within binding site |
|---|---|
| A | 100 % |
| B-Factor: | 31.605 |
|---|---|
| Number of residues: | 30 |
| Including | |
| Standard Amino Acids: | 28 |
| Non Standard Amino Acids: | 1 |
| Water Molecules: | 1 |
| Cofactors: | |
| Metals: | CL |
| Ligandability | Volume (Å3) |
|---|---|
| 0.392 | 391.500 |
| % Hydrophobic | % Polar |
|---|---|
| 45.69 | 54.31 |
| According to VolSite | |

| HET Code: | 6CR |
|---|---|
| Formula: | C10H12ClN5O4 |
| Molecular weight: | 301.686 g/mol |
| DrugBank ID: | - |
| Buried Surface Area: | 64.17 % |
| Polar Surface area: | 139.54 Å2 |
| Number of | |
|---|---|
| H-Bond Acceptors: | 8 |
| H-Bond Donors: | 4 |
| Rings: | 3 |
| Aromatic rings: | 2 |
| Anionic atoms: | 0 |
| Cationic atoms: | 0 |
| Rule of Five Violation: | 0 |
| Rotatable Bonds: | 2 |
| X | Y | Z |
|---|---|---|
| -50.3336 | 20.7549 | 23.1669 |
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 |
| C3' | CG | MET- 64 | 4.36 | 0 | Hydrophobic |
| C5' | SD | MET- 64 | 3.82 | 0 | Hydrophobic |
| C5' | CD1 | PHE- 159 | 3.72 | 0 | Hydrophobic |
| C2' | CB | GLU- 178 | 4.12 | 0 | Hydrophobic |
| C2' | CG | MET- 179 | 3.87 | 0 | Hydrophobic |
| C5' | SD | MET- 179 | 3.74 | 0 | Hydrophobic |
| O2' | N | MET- 179 | 2.97 | 129.51 | H-Bond (Protein Donor) |
| O2' | OE2 | GLU- 180 | 3.44 | 129.5 | H-Bond (Ligand Donor) |
| O3' | OE2 | GLU- 180 | 2.51 | 169.59 | H-Bond (Ligand Donor) |
| N7 | OG | SER- 202 | 2.8 | 174.41 | H-Bond (Protein Donor) |
| CL1 | CG2 | VAL- 205 | 3.63 | 0 | Hydrophobic |