1.700 Å
X-ray
2012-01-12
Name: | Purine nucleoside phosphorylase DeoD-type |
---|---|
ID: | DEOD_BACSU |
AC: | O34925 |
Organism: | Bacillus subtilis |
Reign: | Bacteria |
TaxID: | 224308 |
EC Number: | 2.4.2.1 |
Chain Name: | Percentage of Residues within binding site |
---|---|
A | 100 % |
B-Factor: | 24.096 |
---|---|
Number of residues: | 29 |
Including | |
Standard Amino Acids: | 25 |
Non Standard Amino Acids: | 2 |
Water Molecules: | 2 |
Cofactors: | |
Metals: | CL CL |
Ligandability | Volume (Å3) |
---|---|
0.887 | 641.250 |
% Hydrophobic | % Polar |
---|---|
52.63 | 47.37 |
According to VolSite |
HET Code: | GA2 |
---|---|
Formula: | C9H13N5O4 |
Molecular weight: | 255.231 g/mol |
DrugBank ID: | DB01004 |
Buried Surface Area: | 61.78 % |
Polar Surface area: | 134.99 Å2 |
Number of | |
---|---|
H-Bond Acceptors: | 7 |
H-Bond Donors: | 4 |
Rings: | 2 |
Aromatic rings: | 1 |
Anionic atoms: | 0 |
Cationic atoms: | 0 |
Rule of Five Violation: | 0 |
Rotatable Bonds: | 5 |
X | Y | Z |
---|---|---|
-50.6531 | 21.0346 | 23.9543 |
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 |
C4' | CG | MET- 64 | 4.43 | 0 | Hydrophobic |
C3' | SD | MET- 64 | 3.54 | 0 | Hydrophobic |
C3' | CD1 | PHE- 159 | 4.48 | 0 | Hydrophobic |
C1' | CB | GLU- 178 | 4.08 | 0 | Hydrophobic |
C4' | CG | MET- 179 | 3.51 | 0 | Hydrophobic |
C2' | SD | MET- 179 | 3.86 | 0 | Hydrophobic |
O4' | OE1 | GLU- 180 | 3.37 | 125.04 | H-Bond (Ligand Donor) |
O4' | OE2 | GLU- 180 | 2.71 | 163.61 | H-Bond (Ligand Donor) |
N7 | OG | SER- 202 | 2.75 | 168.45 | H-Bond (Protein Donor) |