3.000 Å
X-ray
2009-02-24
| Name: | Serine endoprotease DegS |
|---|---|
| ID: | DEGS_ECOLI |
| AC: | P0AEE3 |
| Organism: | Escherichia coli |
| Reign: | Bacteria |
| TaxID: | 83333 |
| EC Number: | 3.4.21.107 |
| Chain Name: | Percentage of Residues within binding site |
|---|---|
| C | 100 % |
| B-Factor: | 99.999 |
|---|---|
| Number of residues: | 29 |
| Including | |
| Standard Amino Acids: | 29 |
| Non Standard Amino Acids: | 0 |
| Water Molecules: | 0 |
| Cofactors: | |
| Metals: | |
| Ligandability | Volume (Å3) |
|---|---|
| 0.953 | 604.125 |
| % Hydrophobic | % Polar |
|---|---|
| 44.13 | 55.87 |
| According to VolSite | |

| HET Code: | TYR_ARG_PHE |
|---|---|
| Formula: | C24H33N6O5 |
| Molecular weight: | 485.556 g/mol |
| DrugBank ID: | - |
| Buried Surface Area: | 44.25 % |
| Polar Surface area: | 212.2 Å2 |
| Number of | |
|---|---|
| H-Bond Acceptors: | 5 |
| H-Bond Donors: | 7 |
| Rings: | 2 |
| Aromatic rings: | 2 |
| Anionic atoms: | 1 |
| Cationic atoms: | 2 |
| Rule of Five Violation: | 2 |
| Rotatable Bonds: | 13 |
| X | Y | Z |
|---|---|---|
| -15.4177 | 74.1897 | 5.95189 |
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 |
| O | NH1 | ARG- 186 | 3.48 | 143.9 | H-Bond (Protein Donor) |
| CZ | CD1 | ILE- 259 | 3.98 | 0 | Hydrophobic |
| CD2 | CD1 | ILE- 259 | 3.43 | 0 | Hydrophobic |
| OXT | N | ILE- 259 | 2.99 | 162.5 | H-Bond (Protein Donor) |
| N | O | ILE- 261 | 3.02 | 166.88 | H-Bond (Ligand Donor) |
| O | N | ILE- 261 | 2.87 | 170.54 | H-Bond (Protein Donor) |
| N | O | GLY- 263 | 3.48 | 139.25 | H-Bond (Ligand Donor) |
| O | N | GLY- 263 | 3.2 | 148.11 | H-Bond (Protein Donor) |
| CE1 | CD1 | LEU- 316 | 4.32 | 0 | Hydrophobic |
| CE2 | CG2 | THR- 318 | 4.09 | 0 | Hydrophobic |
| CD1 | SD | MET- 319 | 3.86 | 0 | Hydrophobic |
| CE1 | CE | MET- 319 | 4.2 | 0 | Hydrophobic |
| CB | CB | MET- 319 | 3.49 | 0 | Hydrophobic |
| CD2 | CG2 | VAL- 322 | 3.95 | 0 | Hydrophobic |