1.300 Å
X-ray
2013-05-10
| 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 | 98 % |
| B | 2 % |
| B-Factor: | 14.007 |
|---|---|
| Number of residues: | 49 |
| Including | |
| Standard Amino Acids: | 41 |
| Non Standard Amino Acids: | 1 |
| Water Molecules: | 7 |
| Cofactors: | |
| Metals: | NA |
| Ligandability | Volume (Å3) |
|---|---|
| 0.996 | 914.625 |
| % Hydrophobic | % Polar |
|---|---|
| 39.85 | 60.15 |
| According to VolSite | |

| HET Code: | CB3 |
|---|---|
| Formula: | C24H21N5O6 |
| Molecular weight: | 475.453 g/mol |
| DrugBank ID: | DB03541 |
| Buried Surface Area: | 64.03 % |
| Polar Surface area: | 180.08 Å2 |
| Number of | |
|---|---|
| H-Bond Acceptors: | 10 |
| H-Bond Donors: | 3 |
| Rings: | 3 |
| Aromatic rings: | 2 |
| Anionic atoms: | 2 |
| Cationic atoms: | 0 |
| Rule of Five Violation: | 1 |
| Rotatable Bonds: | 10 |
| X | Y | Z |
|---|---|---|
| 111.245 | 14.2137 | 23.3091 |
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 |
| C9 | CD1 | ILE- 79 | 4.47 | 0 | Hydrophobic |
| CP1 | CD1 | ILE- 79 | 3.8 | 0 | Hydrophobic |
| C12 | CG2 | ILE- 79 | 4.01 | 0 | Hydrophobic |
| C15 | CB | ILE- 79 | 3.72 | 0 | Hydrophobic |
| C9 | CZ2 | TRP- 80 | 3.48 | 0 | Hydrophobic |
| C8 | CD2 | LEU- 143 | 3.62 | 0 | Hydrophobic |
| N3 | OD2 | ASP- 169 | 2.75 | 162.26 | H-Bond (Ligand Donor) |
| C13 | CB | PHE- 176 | 4.37 | 0 | Hydrophobic |
| CG | CZ | PHE- 176 | 4.34 | 0 | Hydrophobic |
| CP1 | CD2 | PHE- 176 | 4.03 | 0 | Hydrophobic |
| CP3 | CB | PHE- 176 | 3.55 | 0 | Hydrophobic |
| C4A | CG2 | VAL- 262 | 4.29 | 0 | Hydrophobic |
| C16 | CG2 | VAL- 262 | 4.42 | 0 | Hydrophobic |
| NA2 | O | ALA- 263 | 2.98 | 138.18 | H-Bond (Ligand Donor) |
| O1 | O | HOH- 1014 | 2.85 | 179.96 | H-Bond (Protein Donor) |
| NA2 | O | HOH- 1023 | 3.29 | 122.19 | H-Bond (Ligand Donor) |
| O2 | O | HOH- 1031 | 2.68 | 179.97 | H-Bond (Protein Donor) |
| O2 | O | HOH- 1077 | 2.93 | 179.96 | H-Bond (Protein Donor) |