2.500 Å
X-ray
2007-08-30
| 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: | 23 |
| Including | |
| Standard Amino Acids: | 23 |
| Non Standard Amino Acids: | 0 |
| Water Molecules: | 0 |
| Cofactors: | |
| Metals: | |
| Ligandability | Volume (Å3) |
|---|---|
| 1.607 | 1140.750 |
| % Hydrophobic | % Polar |
|---|---|
| 56.51 | 43.49 |
| According to VolSite | |

| HET Code: | VAL_TYR_TRP_PHE |
|---|---|
| Formula: | C34H39N5O6 |
| Molecular weight: | 613.703 g/mol |
| DrugBank ID: | - |
| Buried Surface Area: | 40.78 % |
| Polar Surface area: | 191.08 Å2 |
| Number of | |
|---|---|
| H-Bond Acceptors: | 6 |
| H-Bond Donors: | 6 |
| Rings: | 4 |
| Aromatic rings: | 4 |
| Anionic atoms: | 1 |
| Cationic atoms: | 1 |
| Rule of Five Violation: | 3 |
| Rotatable Bonds: | 14 |
| X | Y | Z |
|---|---|---|
| 84.785 | 23.1842 | 11.6301 |
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 |
| CH2 | CD2 | LEU- 124 | 3.68 | 0 | Hydrophobic |
| O | OG1 | THR- 184 | 3.19 | 150.95 | H-Bond (Protein Donor) |
| CZ3 | CB | THR- 184 | 4.41 | 0 | Hydrophobic |
| CZ2 | CG2 | THR- 184 | 3.91 | 0 | Hydrophobic |
| CZ2 | CB | ARG- 186 | 4 | 0 | Hydrophobic |
| O | N | ILE- 259 | 2.83 | 124.09 | H-Bond (Protein Donor) |
| OXT | N | ILE- 259 | 3.42 | 133.45 | H-Bond (Protein Donor) |
| O | N | GLY- 260 | 2.99 | 163.5 | H-Bond (Protein Donor) |
| CB | CD1 | ILE- 261 | 3.46 | 0 | Hydrophobic |
| N | O | GLY- 263 | 3.33 | 131.55 | H-Bond (Ligand Donor) |
| CE2 | CG2 | THR- 318 | 3.9 | 0 | Hydrophobic |
| CE1 | SD | MET- 319 | 3.51 | 0 | Hydrophobic |
| CZ | CB | MET- 319 | 3.65 | 0 | Hydrophobic |
| CD2 | CG2 | VAL- 322 | 3.25 | 0 | Hydrophobic |