2.380 Å
X-ray
2008-02-06
| Name: | Uridine phosphorylase |
|---|---|
| ID: | UDP_SALTY |
| AC: | P0A1F6 |
| Organism: | Salmonella typhimurium |
| Reign: | Bacteria |
| TaxID: | 99287 |
| EC Number: | 2.4.2.3 |
| Chain Name: | Percentage of Residues within binding site |
|---|---|
| B | 16 % |
| D | 84 % |
| B-Factor: | 32.293 |
|---|---|
| Number of residues: | 28 |
| Including | |
| Standard Amino Acids: | 25 |
| Non Standard Amino Acids: | 0 |
| Water Molecules: | 3 |
| Cofactors: | |
| Metals: | |
| Ligandability | Volume (Å3) |
|---|---|
| 0.324 | 938.250 |
| % Hydrophobic | % Polar |
|---|---|
| 40.65 | 59.35 |
| According to VolSite | |

| HET Code: | ANU |
|---|---|
| Formula: | C9H10N2O5 |
| Molecular weight: | 226.186 g/mol |
| DrugBank ID: | DB04627 |
| Buried Surface Area: | 69.33 % |
| Polar Surface area: | 91.59 Å2 |
| Number of | |
|---|---|
| H-Bond Acceptors: | 7 |
| H-Bond Donors: | 2 |
| Rings: | 3 |
| Aromatic rings: | 0 |
| Anionic atoms: | 0 |
| Cationic atoms: | 0 |
| Rule of Five Violation: | 0 |
| Rotatable Bonds: | 1 |
| X | Y | Z |
|---|---|---|
| -7.014 | 26.2443 | 11.7929 |
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 |
| O4 | O | HOH- 208 | 3.22 | 137.61 | H-Bond (Protein Donor) |
| O5' | NE2 | HIS- 2008 | 3.11 | 154.14 | H-Bond (Protein Donor) |
| C3' | CG2 | ILE- 4069 | 4.31 | 0 | Hydrophobic |
| C4' | CG1 | ILE- 4069 | 4.4 | 0 | Hydrophobic |
| C5' | CD1 | ILE- 4069 | 4.41 | 0 | Hydrophobic |
| C5' | CD2 | PHE- 4162 | 4.06 | 0 | Hydrophobic |
| C2' | CB | GLU- 4196 | 4.35 | 0 | Hydrophobic |
| C3' | SD | MET- 4197 | 4 | 0 | Hydrophobic |
| C2' | CB | MET- 4197 | 4.12 | 0 | Hydrophobic |
| O3' | OE1 | GLU- 4198 | 3.36 | 120.45 | H-Bond (Ligand Donor) |
| O3' | OE2 | GLU- 4198 | 2.71 | 171.42 | H-Bond (Ligand Donor) |