2.100 Å
X-ray
1993-11-19
| Name: | Mandelate racemase |
|---|---|
| ID: | MANR_PSEPU |
| AC: | P11444 |
| Organism: | Pseudomonas putida |
| Reign: | Bacteria |
| TaxID: | 303 |
| EC Number: | / |
| Chain Name: | Percentage of Residues within binding site |
|---|---|
| A | 100 % |
| B-Factor: | 14.037 |
|---|---|
| Number of residues: | 26 |
| Including | |
| Standard Amino Acids: | 23 |
| Non Standard Amino Acids: | 1 |
| Water Molecules: | 2 |
| Cofactors: | |
| Metals: | MG |
| Ligandability | Volume (Å3) |
|---|---|
| 0.599 | 334.125 |
| % Hydrophobic | % Polar |
|---|---|
| 54.55 | 45.45 |
| According to VolSite | |

| HET Code: | APG |
|---|---|
| Formula: | C9H9O3 |
| Molecular weight: | 165.166 g/mol |
| DrugBank ID: | DB07381 |
| Buried Surface Area: | 74.32 % |
| Polar Surface area: | 60.36 Å2 |
| Number of | |
|---|---|
| H-Bond Acceptors: | 3 |
| H-Bond Donors: | 1 |
| Rings: | 1 |
| Aromatic rings: | 1 |
| Anionic atoms: | 1 |
| Cationic atoms: | 0 |
| Rule of Five Violation: | 0 |
| Rotatable Bonds: | 2 |
| X | Y | Z |
|---|---|---|
| 30.8076 | 4.7475 | 17.5957 |
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 |
| C2 | CG1 | VAL- 22 | 4.41 | 0 | Hydrophobic |
| C14 | CG2 | THR- 24 | 4.42 | 0 | Hydrophobic |
| C6 | CG2 | VAL- 29 | 4.39 | 0 | Hydrophobic |
| O14 | NZ | LYS- 164 | 3.68 | 0 | Ionic (Protein Cationic) |
| O15 | NZ | LYS- 164 | 2.79 | 0 | Ionic (Protein Cationic) |
| O15 | NZ | LYS- 164 | 2.79 | 161.13 | H-Bond (Protein Donor) |
| C14 | CD | LYS- 166 | 3.53 | 0 | Hydrophobic |
| O17 | ND2 | ASN- 197 | 2.8 | 135.13 | H-Bond (Protein Donor) |
| O17 | OE2 | GLU- 247 | 2.75 | 149.44 | H-Bond (Ligand Donor) |
| C1 | CD2 | LEU- 298 | 4.05 | 0 | Hydrophobic |
| O14 | OE2 | GLU- 317 | 2.72 | 163.65 | H-Bond (Protein Donor) |
| C2 | CD1 | LEU- 319 | 3.78 | 0 | Hydrophobic |
| O17 | MG | MG- 360 | 2.27 | 0 | Metal Acceptor |
| O15 | MG | MG- 360 | 2.15 | 0 | Metal Acceptor |