2.200 Å
X-ray
2003-11-21
| Name: | Dihydrolipoyl dehydrogenase, mitochondrial |
|---|---|
| ID: | DLDH_YEAST |
| AC: | P09624 |
| Organism: | Saccharomyces cerevisiae |
| Reign: | Eukaryota |
| TaxID: | 559292 |
| EC Number: | 1.8.1.4 |
| Chain Name: | Percentage of Residues within binding site |
|---|---|
| A | 100 % |
| B-Factor: | 29.963 |
|---|---|
| Number of residues: | 26 |
| Including | |
| Standard Amino Acids: | 25 |
| Non Standard Amino Acids: | 0 |
| Water Molecules: | 1 |
| Cofactors: | |
| Metals: | |
| Ligandability | Volume (Å3) |
|---|---|
| 1.352 | 506.250 |
| % Hydrophobic | % Polar |
|---|---|
| 52.00 | 48.00 |
| According to VolSite | |

| HET Code: | NAD |
|---|---|
| Formula: | C21H26N7O14P2 |
| Molecular weight: | 662.417 g/mol |
| DrugBank ID: | - |
| Buried Surface Area: | 44.69 % |
| Polar Surface area: | 343.54 Å2 |
| Number of | |
|---|---|
| H-Bond Acceptors: | 18 |
| H-Bond Donors: | 6 |
| Rings: | 5 |
| Aromatic rings: | 3 |
| Anionic atoms: | 2 |
| Cationic atoms: | 1 |
| Rule of Five Violation: | 3 |
| Rotatable Bonds: | 11 |
| X | Y | Z |
|---|---|---|
| 10.5343 | 58.3159 | 3.24259 |
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 | OE2 | GLU- 213 | 2.91 | 156.61 | H-Bond (Ligand Donor) |
| O3B | OE1 | GLU- 213 | 2.69 | 133.61 | H-Bond (Ligand Donor) |
| O2B | OE2 | GLU- 213 | 2.53 | 171.72 | H-Bond (Ligand Donor) |
| N3A | N | PHE- 214 | 3.22 | 138.48 | H-Bond (Protein Donor) |
| N1A | N | VAL- 247 | 3.44 | 158.58 | H-Bond (Protein Donor) |
| O3B | O | HOH- 753 | 3.5 | 179.97 | H-Bond (Protein Donor) |