1.950 Å
X-ray
2013-08-21
| Name: | tRNA (guanine-N(1)-)-methyltransferase |
|---|---|
| ID: | TRMD_HAEIN |
| AC: | P43912 |
| Organism: | Haemophilus influenzae |
| Reign: | Bacteria |
| TaxID: | 71421 |
| EC Number: | 2.1.1.228 |
| Chain Name: | Percentage of Residues within binding site |
|---|---|
| A | 89 % |
| B | 11 % |
| B-Factor: | 30.482 |
|---|---|
| Number of residues: | 29 |
| Including | |
| Standard Amino Acids: | 28 |
| Non Standard Amino Acids: | 0 |
| Water Molecules: | 1 |
| Cofactors: | |
| Metals: | |
| Ligandability | Volume (Å3) |
|---|---|
| 1.134 | 914.625 |
| % Hydrophobic | % Polar |
|---|---|
| 46.49 | 53.51 |
| According to VolSite | |

| HET Code: | 21X |
|---|---|
| Formula: | C15H15N4O2S |
| Molecular weight: | 315.370 g/mol |
| DrugBank ID: | - |
| Buried Surface Area: | 66.6 % |
| Polar Surface area: | 126.43 Å2 |
| Number of | |
|---|---|
| H-Bond Acceptors: | 3 |
| H-Bond Donors: | 3 |
| Rings: | 3 |
| Aromatic rings: | 2 |
| Anionic atoms: | 0 |
| Cationic atoms: | 1 |
| Rule of Five Violation: | 0 |
| Rotatable Bonds: | 4 |
| X | Y | Z |
|---|---|---|
| 22.2185 | 42.6479 | -1.556 |
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 |
| S15 | CB | LEU- 87 | 3.97 | 0 | Hydrophobic |
| C4 | CG | PRO- 89 | 3.9 | 0 | Hydrophobic |
| N8 | OE2 | GLU- 116 | 2.73 | 162.14 | H-Bond (Ligand Donor) |
| N8 | OE2 | GLU- 116 | 2.73 | 0 | Ionic (Ligand Cationic) |
| N22 | N | ILE- 133 | 3.2 | 172.6 | H-Bond (Protein Donor) |
| N20 | O | TYR- 136 | 2.71 | 163.62 | H-Bond (Ligand Donor) |
| C4 | CG1 | VAL- 137 | 4 | 0 | Hydrophobic |
| O19 | N | LEU- 138 | 2.85 | 154.19 | H-Bond (Protein Donor) |
| S15 | CG | PRO- 144 | 3.54 | 0 | Hydrophobic |
| N8 | OD2 | ASP- 177 | 3.84 | 0 | Ionic (Ligand Cationic) |