2.340 Å
X-ray
2001-12-05
| Name: | Ribokinase |
|---|---|
| ID: | RBSK_ECOLI |
| AC: | P0A9J6 |
| Organism: | Escherichia coli |
| Reign: | Bacteria |
| TaxID: | 83333 |
| EC Number: | / |
| Chain Name: | Percentage of Residues within binding site |
|---|---|
| B | 100 % |
| B-Factor: | 31.893 |
|---|---|
| Number of residues: | 36 |
| Including | |
| Standard Amino Acids: | 36 |
| Non Standard Amino Acids: | 0 |
| Water Molecules: | 0 |
| Cofactors: | |
| Metals: | |
| Ligandability | Volume (Å3) |
|---|---|
| 1.299 | 1059.750 |
| % Hydrophobic | % Polar |
|---|---|
| 40.76 | 59.24 |
| According to VolSite | |

| HET Code: | ACP |
|---|---|
| Formula: | C11H14N5O12P3 |
| Molecular weight: | 501.176 g/mol |
| DrugBank ID: | DB03909 |
| Buried Surface Area: | 47.79 % |
| Polar Surface area: | 310.64 Å2 |
| Number of | |
|---|---|
| H-Bond Acceptors: | 16 |
| H-Bond Donors: | 3 |
| Rings: | 3 |
| Aromatic rings: | 2 |
| Anionic atoms: | 4 |
| Cationic atoms: | 0 |
| Rule of Five Violation: | 2 |
| Rotatable Bonds: | 8 |
| X | Y | Z |
|---|---|---|
| 4.78039 | -7.25616 | 113.295 |
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 |
| O1B | ND2 | ASN- 187 | 3.35 | 150.87 | H-Bond (Protein Donor) |
| O2B | ND2 | ASN- 187 | 2.96 | 137.3 | H-Bond (Protein Donor) |
| O2A | OG1 | THR- 223 | 2.9 | 158.65 | H-Bond (Protein Donor) |
| C5' | CB | THR- 223 | 4.02 | 0 | Hydrophobic |
| O2A | N | GLY- 225 | 3.13 | 139.44 | H-Bond (Protein Donor) |
| C1' | CB | ALA- 253 | 4.26 | 0 | Hydrophobic |
| O1G | N | GLY- 254 | 2.63 | 154.85 | H-Bond (Protein Donor) |
| C4' | CB | PHE- 257 | 4.37 | 0 | Hydrophobic |
| O2' | ND1 | HIS- 279 | 2.87 | 160.71 | H-Bond (Protein Donor) |
| C1' | CB | ALA- 282 | 3.66 | 0 | Hydrophobic |