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 |
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 |