2.850 Å
X-ray
2013-01-24
| Name: | Ribosomal protein S6--L-glutamate ligase |
|---|---|
| ID: | RIMK_ECOLI |
| AC: | P0C0U4 |
| Organism: | Escherichia coli |
| Reign: | Bacteria |
| TaxID: | 83333 |
| EC Number: | / |
| Chain Name: | Percentage of Residues within binding site |
|---|---|
| A | 100 % |
| B-Factor: | 85.266 |
|---|---|
| Number of residues: | 26 |
| Including | |
| Standard Amino Acids: | 26 |
| Non Standard Amino Acids: | 0 |
| Water Molecules: | 0 |
| Cofactors: | |
| Metals: | |
| Ligandability | Volume (Å3) |
|---|---|
| 1.283 | 1454.625 |
| % Hydrophobic | % Polar |
|---|---|
| 47.80 | 52.20 |
| According to VolSite | |

| HET Code: | ADP |
|---|---|
| Formula: | C10H12N5O10P2 |
| Molecular weight: | 424.177 g/mol |
| DrugBank ID: | - |
| Buried Surface Area: | 67.36 % |
| Polar Surface area: | 260.7 Å2 |
| Number of | |
|---|---|
| H-Bond Acceptors: | 14 |
| H-Bond Donors: | 3 |
| Rings: | 3 |
| Aromatic rings: | 2 |
| Anionic atoms: | 3 |
| Cationic atoms: | 0 |
| Rule of Five Violation: | 1 |
| Rotatable Bonds: | 6 |
| X | Y | Z |
|---|---|---|
| -11.8958 | 45.6638 | 68.5489 |
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 |
| O2A | NZ | LYS- 141 | 3.37 | 143.27 | H-Bond (Protein Donor) |
| N7 | NZ | LYS- 141 | 3.34 | 137.3 | H-Bond (Protein Donor) |
| O2A | NZ | LYS- 141 | 3.37 | 0 | Ionic (Protein Cationic) |
| C5' | CG2 | VAL- 151 | 4.28 | 0 | Hydrophobic |
| N6 | OE1 | GLU- 178 | 3.03 | 158.46 | H-Bond (Ligand Donor) |
| N6 | O | TYR- 179 | 2.98 | 155.44 | H-Bond (Ligand Donor) |
| C1' | CE2 | PHE- 210 | 3.87 | 0 | Hydrophobic |
| C3' | CB | SER- 212 | 4 | 0 | Hydrophobic |
| O1A | ND2 | ASN- 213 | 3.33 | 163.8 | H-Bond (Protein Donor) |
| C3' | CE | MET- 259 | 3.8 | 0 | Hydrophobic |
| C2' | SD | MET- 259 | 3.8 | 0 | Hydrophobic |