2.500 Å
X-ray
2003-06-19
Name: | Purine nucleoside phosphorylase DeoD-type |
---|---|
ID: | DEOD_ECO57 |
AC: | P0ABP9 |
Organism: | Escherichia coli O157:H7 |
Reign: | Bacteria |
TaxID: | 83334 |
EC Number: | / |
Chain Name: | Percentage of Residues within binding site |
---|---|
C | 100 % |
B-Factor: | 27.074 |
---|---|
Number of residues: | 27 |
Including | |
Standard Amino Acids: | 27 |
Non Standard Amino Acids: | 0 |
Water Molecules: | 0 |
Cofactors: | |
Metals: |
Ligandability | Volume (Å3) |
---|---|
0.303 | 587.250 |
% Hydrophobic | % Polar |
---|---|
48.28 | 51.72 |
According to VolSite |
HET Code: | TBN |
---|---|
Formula: | C11H14N4O4 |
Molecular weight: | 266.253 g/mol |
DrugBank ID: | DB03172 |
Buried Surface Area: | 65.32 % |
Polar Surface area: | 126.65 Å2 |
Number of | |
---|---|
H-Bond Acceptors: | 7 |
H-Bond Donors: | 4 |
Rings: | 3 |
Aromatic rings: | 2 |
Anionic atoms: | 0 |
Cationic atoms: | 0 |
Rule of Five Violation: | 0 |
Rotatable Bonds: | 2 |
X | Y | Z |
---|---|---|
51.1862 | 50.6814 | 27.8914 |
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 |
C3' | CG | MET- 64 | 4.26 | 0 | Hydrophobic |
C5' | SD | MET- 64 | 3.59 | 0 | Hydrophobic |
C5' | CD2 | PHE- 159 | 3.76 | 0 | Hydrophobic |
C2' | CB | GLU- 179 | 4.28 | 0 | Hydrophobic |
C5' | SD | MET- 180 | 4.24 | 0 | Hydrophobic |
C2' | CB | MET- 180 | 3.76 | 0 | Hydrophobic |
C3' | SD | MET- 180 | 3.9 | 0 | Hydrophobic |
O2' | N | MET- 180 | 2.84 | 136.78 | H-Bond (Protein Donor) |
O3' | OE2 | GLU- 181 | 2.9 | 155.42 | H-Bond (Ligand Donor) |
O3' | OE1 | GLU- 181 | 2.92 | 128.22 | H-Bond (Ligand Donor) |
N6 | OD2 | ASP- 204 | 2.98 | 142.04 | H-Bond (Ligand Donor) |