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 |
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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 |
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 |