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 |
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 |