1.900 Å
X-ray
2001-05-25
| Name: | Glucose-1-phosphate thymidylyltransferase 1 |
|---|---|
| ID: | RMLA1_ECOLI |
| AC: | P37744 |
| Organism: | Escherichia coli |
| Reign: | Bacteria |
| TaxID: | 83333 |
| EC Number: | / |
| Chain Name: | Percentage of Residues within binding site |
|---|---|
| A | 79 % |
| D | 21 % |
| B-Factor: | 24.175 |
|---|---|
| Number of residues: | 26 |
| Including | |
| Standard Amino Acids: | 24 |
| Non Standard Amino Acids: | 0 |
| Water Molecules: | 2 |
| Cofactors: | |
| Metals: | |
| Ligandability | Volume (Å3) |
|---|---|
| 0.426 | 421.875 |
| % Hydrophobic | % Polar |
|---|---|
| 56.00 | 44.00 |
| According to VolSite | |

| HET Code: | TYD |
|---|---|
| Formula: | C10H13N2O11P2 |
| Molecular weight: | 399.165 g/mol |
| DrugBank ID: | DB03103 |
| Buried Surface Area: | 61.78 % |
| Polar Surface area: | 220.27 Å2 |
| Number of | |
|---|---|
| H-Bond Acceptors: | 11 |
| H-Bond Donors: | 2 |
| Rings: | 2 |
| Aromatic rings: | 0 |
| Anionic atoms: | 3 |
| Cationic atoms: | 0 |
| Rule of Five Violation: | 1 |
| Rotatable Bonds: | 6 |
| X | Y | Z |
|---|---|---|
| 37.2814 | 2.90452 | 37.9274 |
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 |
| C2' | CD1 | LEU- 46 | 3.67 | 0 | Hydrophobic |
| C4' | CD1 | TYR- 115 | 4.25 | 0 | Hydrophobic |
| O3' | N | GLY- 116 | 2.76 | 162.04 | H-Bond (Protein Donor) |
| C3' | CB | LEU- 119 | 3.87 | 0 | Hydrophobic |
| C2' | CD2 | LEU- 119 | 4.46 | 0 | Hydrophobic |
| C2' | CG | PRO- 120 | 4.43 | 0 | Hydrophobic |
| O1B | N | ARG- 220 | 2.93 | 168.02 | H-Bond (Protein Donor) |
| C5M | CD | ARG- 220 | 4.22 | 0 | Hydrophobic |
| O2 | N | SER- 252 | 2.72 | 177.44 | H-Bond (Protein Donor) |
| N3 | O | HOH- 2125 | 2.89 | 146.28 | H-Bond (Ligand Donor) |