2.350 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: | 31.605 |
---|---|
Number of residues: | 30 |
Including | |
Standard Amino Acids: | 28 |
Non Standard Amino Acids: | 1 |
Water Molecules: | 1 |
Cofactors: | |
Metals: | CL |
Ligandability | Volume (Å3) |
---|---|
0.392 | 391.500 |
% Hydrophobic | % Polar |
---|---|
45.69 | 54.31 |
According to VolSite |
HET Code: | 6CR |
---|---|
Formula: | C10H12ClN5O4 |
Molecular weight: | 301.686 g/mol |
DrugBank ID: | - |
Buried Surface Area: | 64.17 % |
Polar Surface area: | 139.54 Å2 |
Number of | |
---|---|
H-Bond Acceptors: | 8 |
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 |
---|---|---|
-50.3336 | 20.7549 | 23.1669 |
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 | 4.36 | 0 | Hydrophobic |
C5' | SD | MET- 64 | 3.82 | 0 | Hydrophobic |
C5' | CD1 | PHE- 159 | 3.72 | 0 | Hydrophobic |
C2' | CB | GLU- 178 | 4.12 | 0 | Hydrophobic |
C2' | CG | MET- 179 | 3.87 | 0 | Hydrophobic |
C5' | SD | MET- 179 | 3.74 | 0 | Hydrophobic |
O2' | N | MET- 179 | 2.97 | 129.51 | H-Bond (Protein Donor) |
O2' | OE2 | GLU- 180 | 3.44 | 129.5 | H-Bond (Ligand Donor) |
O3' | OE2 | GLU- 180 | 2.51 | 169.59 | H-Bond (Ligand Donor) |
N7 | OG | SER- 202 | 2.8 | 174.41 | H-Bond (Protein Donor) |
CL1 | CG2 | VAL- 205 | 3.63 | 0 | Hydrophobic |