1.750 Å
X-ray
2002-02-06
| Name: | Thymidylate synthase |
|---|---|
| ID: | TYSY_ECOLI |
| AC: | P0A884 |
| Organism: | Escherichia coli |
| Reign: | Bacteria |
| TaxID: | 83333 |
| EC Number: | / |
| Chain Name: | Percentage of Residues within binding site |
|---|---|
| A | 3 % |
| B | 97 % |
| B-Factor: | 36.180 |
|---|---|
| Number of residues: | 39 |
| Including | |
| Standard Amino Acids: | 35 |
| Non Standard Amino Acids: | 1 |
| Water Molecules: | 3 |
| Cofactors: | UMP |
| Metals: | |
| Ligandability | Volume (Å3) |
|---|---|
| 1.007 | 529.875 |
| % Hydrophobic | % Polar |
|---|---|
| 47.77 | 52.23 |
| According to VolSite | |

| HET Code: | THG |
|---|---|
| Formula: | C19H21N7O6 |
| Molecular weight: | 443.413 g/mol |
| DrugBank ID: | DB02031 |
| Buried Surface Area: | 50.51 % |
| Polar Surface area: | 212.92 Å2 |
| Number of | |
|---|---|
| H-Bond Acceptors: | 11 |
| H-Bond Donors: | 6 |
| Rings: | 3 |
| Aromatic rings: | 1 |
| Anionic atoms: | 2 |
| Cationic atoms: | 0 |
| Rule of Five Violation: | 2 |
| Rotatable Bonds: | 9 |
| X | Y | Z |
|---|---|---|
| 67.2695 | 20.2045 | -6.66731 |
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 |
| C4' | CB | ILE- 79 | 4.09 | 0 | Hydrophobic |
| C2' | CG2 | ILE- 79 | 4.18 | 0 | Hydrophobic |
| C7 | CH2 | TRP- 80 | 3.77 | 0 | Hydrophobic |
| C6 | CZ2 | TRP- 80 | 4.04 | 0 | Hydrophobic |
| C9 | CE2 | TRP- 80 | 4.33 | 0 | Hydrophobic |
| C9 | CZ3 | TRP- 83 | 3.85 | 0 | Hydrophobic |
| C7 | CD1 | LEU- 143 | 3.53 | 0 | Hydrophobic |
| C6' | CG2 | VAL- 262 | 4.04 | 0 | Hydrophobic |
| N2 | O | ALA- 263 | 2.94 | 154.17 | H-Bond (Ligand Donor) |
| C6 | C5 | UMP- 304 | 3.36 | 0 | Hydrophobic |
| OX2 | O | HOH- 461 | 3.37 | 135.14 | H-Bond (Protein Donor) |
| OX2 | O | HOH- 480 | 2.81 | 179.93 | H-Bond (Protein Donor) |