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 |
Image generated by PoseView
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) |