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 |
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) |