2.000 Å
X-ray
2009-03-27
| Name: | Dimethylglycine oxidase |
|---|---|
| ID: | DMGO_ARTGO |
| AC: | Q9AGP8 |
| Organism: | Arthrobacter globiformis |
| Reign: | Bacteria |
| TaxID: | 1665 |
| EC Number: | 1.5.3.10 |
| Chain Name: | Percentage of Residues within binding site |
|---|---|
| A | 100 % |
| B-Factor: | 18.649 |
|---|---|
| Number of residues: | 40 |
| Including | |
| Standard Amino Acids: | 37 |
| Non Standard Amino Acids: | 0 |
| Water Molecules: | 3 |
| Cofactors: | |
| Metals: | |
| Ligandability | Volume (Å3) |
|---|---|
| 0.720 | 1778.625 |
| % Hydrophobic | % Polar |
|---|---|
| 43.26 | 56.74 |
| According to VolSite | |

| HET Code: | THG |
|---|---|
| Formula: | C19H21N7O6 |
| Molecular weight: | 443.413 g/mol |
| DrugBank ID: | DB02031 |
| Buried Surface Area: | 57.27 % |
| Polar Surface area: | 212.92 Å2 |
| Number of | |
|---|---|
| H-Bond Acceptors: | 11 |
| H-Bond Donors: | 6 |
| Rings: | 3 |
| Aromatic rings: | 1 |
| Anionic atoms: | 2 |
| Cationic atoms: | 0 |
| Rule of Five Violation: | 2 |
| Rotatable Bonds: | 9 |
| X | Y | Z |
|---|---|---|
| 51.1583 | 85.5597 | 42.1084 |
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 |
| C7 | CD1 | LEU- 508 | 3.97 | 0 | Hydrophobic |
| C9 | CE1 | TYR- 539 | 4.07 | 0 | Hydrophobic |
| CG | CB | TYR- 539 | 4.41 | 0 | Hydrophobic |
| C3' | CE1 | TYR- 539 | 3.38 | 0 | Hydrophobic |
| N1 | OG1 | THR- 554 | 2.58 | 170.97 | H-Bond (Protein Donor) |
| N2 | OG1 | THR- 554 | 3.1 | 120.54 | H-Bond (Ligand Donor) |
| C5' | CG2 | THR- 554 | 4.06 | 0 | Hydrophobic |
| N8 | O | GLY- 566 | 2.88 | 124.8 | H-Bond (Ligand Donor) |
| CB | CE2 | TYR- 631 | 4.35 | 0 | Hydrophobic |
| CB | CZ | PHE- 632 | 3.84 | 0 | Hydrophobic |
| C6' | CD1 | LEU- 649 | 3.99 | 0 | Hydrophobic |
| N3 | OE1 | GLU- 658 | 3.48 | 121.6 | H-Bond (Ligand Donor) |
| N3 | OE2 | GLU- 658 | 2.54 | 170.87 | H-Bond (Ligand Donor) |
| N2 | OE1 | GLU- 658 | 2.64 | 157.45 | H-Bond (Ligand Donor) |
| C2' | CB | TYR- 699 | 3.97 | 0 | Hydrophobic |
| CG | CE1 | PHE- 719 | 4.06 | 0 | Hydrophobic |
| O11 | O | HOH- 1046 | 2.78 | 179.96 | H-Bond (Protein Donor) |
| O4 | O | HOH- 1219 | 2.75 | 179.97 | H-Bond (Protein Donor) |