3.000 Å
X-ray
2001-01-04
Name: | Activator of (R)-2-hydroxyglutaryl-CoA dehydratase |
---|---|
ID: | HGDC_ACIFV |
AC: | P11568 |
Organism: | Acidaminococcus fermentans |
Reign: | Bacteria |
TaxID: | 591001 |
EC Number: | / |
Chain Name: | Percentage of Residues within binding site |
---|---|
A | 100 % |
B-Factor: | 25.184 |
---|---|
Number of residues: | 36 |
Including | |
Standard Amino Acids: | 36 |
Non Standard Amino Acids: | 0 |
Water Molecules: | 0 |
Cofactors: | |
Metals: |
Ligandability | Volume (Å3) |
---|---|
0.820 | 945.000 |
% Hydrophobic | % Polar |
---|---|
39.64 | 60.36 |
According to VolSite |
HET Code: | ADP |
---|---|
Formula: | C10H12N5O10P2 |
Molecular weight: | 424.177 g/mol |
DrugBank ID: | - |
Buried Surface Area: | 58.37 % |
Polar Surface area: | 260.7 Å2 |
Number of | |
---|---|
H-Bond Acceptors: | 14 |
H-Bond Donors: | 3 |
Rings: | 3 |
Aromatic rings: | 2 |
Anionic atoms: | 3 |
Cationic atoms: | 0 |
Rule of Five Violation: | 1 |
Rotatable Bonds: | 6 |
X | Y | Z |
---|---|---|
32.8984 | 46.6511 | 46.7089 |
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 |
O3B | N | SER- 12 | 2.64 | 121.02 | H-Bond (Protein Donor) |
O3B | OG | SER- 12 | 2.72 | 147.12 | H-Bond (Protein Donor) |
O3B | N | THR- 13 | 2.73 | 149.15 | H-Bond (Protein Donor) |
C3' | CG2 | THR- 13 | 4.24 | 0 | Hydrophobic |
O2B | NZ | LYS- 16 | 2.59 | 0 | Ionic (Protein Cationic) |
O1A | NZ | LYS- 16 | 3.16 | 0 | Ionic (Protein Cationic) |
O1A | NZ | LYS- 16 | 3.16 | 163.72 | H-Bond (Protein Donor) |
C4' | CG2 | VAL- 218 | 3.84 | 0 | Hydrophobic |
C1' | CG2 | VAL- 218 | 4.43 | 0 | Hydrophobic |
O1A | NE2 | GLN- 243 | 2.74 | 164.82 | H-Bond (Protein Donor) |