2.050 Å
X-ray
2003-11-22
Name: | cGMP-specific 3',5'-cyclic phosphodiesterase |
---|---|
ID: | PDE5A_HUMAN |
AC: | O76074 |
Organism: | Homo sapiens |
Reign: | Eukaryota |
TaxID: | 9606 |
EC Number: | / |
Chain Name: | Percentage of Residues within binding site |
---|---|
A | 100 % |
B-Factor: | 27.686 |
---|---|
Number of residues: | 20 |
Including | |
Standard Amino Acids: | 20 |
Non Standard Amino Acids: | 0 |
Water Molecules: | 0 |
Cofactors: | |
Metals: |
Ligandability | Volume (Å3) |
---|---|
0.762 | 641.250 |
% Hydrophobic | % Polar |
---|---|
51.05 | 48.95 |
According to VolSite |
HET Code: | IBM |
---|---|
Formula: | C10H14N4O2 |
Molecular weight: | 222.244 g/mol |
DrugBank ID: | DB07954 |
Buried Surface Area: | 62.37 % |
Polar Surface area: | 69.3 Å2 |
Number of | |
---|---|
H-Bond Acceptors: | 3 |
H-Bond Donors: | 1 |
Rings: | 2 |
Aromatic rings: | 1 |
Anionic atoms: | 0 |
Cationic atoms: | 0 |
Rule of Five Violation: | 0 |
Rotatable Bonds: | 2 |
X | Y | Z |
---|---|---|
43.7659 | 15.5538 | 48.4273 |
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 |
C13 | CD2 | TYR- 612 | 3.92 | 0 | Hydrophobic |
C11 | CD1 | LEU- 725 | 4.49 | 0 | Hydrophobic |
C10 | CB | ALA- 767 | 3.88 | 0 | Hydrophobic |
C10 | CB | ILE- 768 | 4.45 | 0 | Hydrophobic |
C13 | CG1 | VAL- 782 | 4.43 | 0 | Hydrophobic |
C12 | CZ | PHE- 786 | 3.61 | 0 | Hydrophobic |
N7 | OE1 | GLN- 817 | 2.68 | 174.78 | H-Bond (Ligand Donor) |
O6 | NE2 | GLN- 817 | 2.89 | 165.36 | H-Bond (Protein Donor) |
C10 | CE2 | PHE- 820 | 3.98 | 0 | Hydrophobic |
C11 | CE1 | PHE- 820 | 3.96 | 0 | Hydrophobic |
DuAr | DuAr | PHE- 820 | 3.76 | 0 | Aromatic Face/Face |