2.700 Å
X-ray
2001-08-03
| Name: | [3-methyl-2-oxobutanoate dehydrogenase [lipoamide]] kinase, mitochondrial |
|---|---|
| ID: | BCKD_RAT |
| AC: | Q00972 |
| Organism: | Rattus norvegicus |
| Reign: | Eukaryota |
| TaxID: | 10116 |
| EC Number: | 2.7.11.4 |
| Chain Name: | Percentage of Residues within binding site |
|---|---|
| A | 100 % |
| B-Factor: | 49.405 |
|---|---|
| Number of residues: | 40 |
| Including | |
| Standard Amino Acids: | 38 |
| Non Standard Amino Acids: | 2 |
| Water Molecules: | 0 |
| Cofactors: | |
| Metals: | MG K |
| Ligandability | Volume (Å3) |
|---|---|
| 0.902 | 904.500 |
| % Hydrophobic | % Polar |
|---|---|
| 45.15 | 54.85 |
| According to VolSite | |

| HET Code: | AGS |
|---|---|
| Formula: | C10H14N5O12P3S |
| Molecular weight: | 521.231 g/mol |
| DrugBank ID: | DB02930 |
| Buried Surface Area: | 67.8 % |
| Polar Surface area: | 329.24 Å2 |
| Number of | |
|---|---|
| H-Bond Acceptors: | 17 |
| H-Bond Donors: | 5 |
| Rings: | 3 |
| Aromatic rings: | 2 |
| Anionic atoms: | 2 |
| Cationic atoms: | 0 |
| Rule of Five Violation: | 2 |
| Rotatable Bonds: | 8 |
| X | Y | Z |
|---|---|---|
| 96.6819 | 119.817 | 32.104 |
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 |
| O1A | ND2 | ASN- 249 | 3.1 | 127.64 | H-Bond (Protein Donor) |
| N6 | OD1 | ASP- 285 | 2.91 | 158.21 | H-Bond (Ligand Donor) |
| C5' | CB | VAL- 298 | 4.28 | 0 | Hydrophobic |
| C4' | CG1 | VAL- 298 | 3.85 | 0 | Hydrophobic |
| C1' | CG1 | VAL- 298 | 3.78 | 0 | Hydrophobic |
| C4' | CD2 | PHE- 303 | 4.25 | 0 | Hydrophobic |
| O1B | OG1 | THR- 304 | 2.63 | 169.87 | H-Bond (Protein Donor) |
| O3' | N | THR- 305 | 2.95 | 167.03 | H-Bond (Protein Donor) |
| O2' | OG1 | THR- 305 | 2.53 | 159.28 | H-Bond (Protein Donor) |
| C2' | CG2 | THR- 305 | 4.39 | 0 | Hydrophobic |
| O3B | N | GLY- 337 | 3.13 | 145.64 | H-Bond (Protein Donor) |
| O2G | N | GLY- 339 | 3.13 | 139.95 | H-Bond (Protein Donor) |
| O1A | N | LEU- 340 | 3.4 | 126.74 | H-Bond (Protein Donor) |
| O2A | N | LEU- 340 | 3.01 | 167.71 | H-Bond (Protein Donor) |
| C5' | CD1 | LEU- 340 | 4.04 | 0 | Hydrophobic |
| O2G | MG | MG- 1379 | 2.37 | 0 | Metal Acceptor |
| O2B | MG | MG- 1379 | 2.38 | 0 | Metal Acceptor |
| O1A | MG | MG- 1379 | 2.34 | 0 | Metal Acceptor |