2.850 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 |
|---|---|
| A | 100 % |
| B-Factor: | 99.999 |
|---|---|
| Number of residues: | 26 |
| Including | |
| Standard Amino Acids: | 26 |
| Non Standard Amino Acids: | 0 |
| Water Molecules: | 0 |
| Cofactors: | |
| Metals: | |
| Ligandability | Volume (Å3) |
|---|---|
| 1.817 | 634.500 |
| % Hydrophobic | % Polar |
|---|---|
| 69.15 | 30.85 |
| According to VolSite | |

| HET Code: | VAL_TYR_TYR_PHE |
|---|---|
| Formula: | C32H38N4O7 |
| Molecular weight: | 590.667 g/mol |
| DrugBank ID: | - |
| Buried Surface Area: | 37.3 % |
| Polar Surface area: | 195.52 Å2 |
| Number of | |
|---|---|
| H-Bond Acceptors: | 7 |
| H-Bond Donors: | 6 |
| Rings: | 3 |
| Aromatic rings: | 3 |
| Anionic atoms: | 1 |
| Cationic atoms: | 1 |
| Rule of Five Violation: | 3 |
| Rotatable Bonds: | 14 |
| X | Y | Z |
|---|---|---|
| 0.19593 | -34.2577 | 12.0623 |
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 | N | ILE- 259 | 2.61 | 134.83 | H-Bond (Protein Donor) |
| CE2 | CD1 | ILE- 259 | 4.06 | 0 | Hydrophobic |
| OXT | N | GLY- 260 | 3.21 | 137.78 | H-Bond (Protein Donor) |
| OXT | N | ILE- 261 | 3.16 | 131.41 | H-Bond (Protein Donor) |
| O | N | GLY- 263 | 2.98 | 122.18 | H-Bond (Protein Donor) |
| CD2 | CB | ALA- 315 | 4.14 | 0 | Hydrophobic |
| CD1 | CD2 | LEU- 316 | 3.35 | 0 | Hydrophobic |
| CE1 | CD2 | LEU- 316 | 3.81 | 0 | Hydrophobic |
| CE2 | CG2 | THR- 318 | 4.19 | 0 | Hydrophobic |
| CD1 | CE | MET- 319 | 3.52 | 0 | Hydrophobic |
| CG | CB | MET- 319 | 3.41 | 0 | Hydrophobic |
| CD2 | CG2 | VAL- 322 | 3.7 | 0 | Hydrophobic |