1.490 Å
X-ray
2016-01-27
| Name: | Putative xylulose kinase |
|---|---|
| ID: | Q8L794_ARATH |
| AC: | Q8L794 |
| Organism: | Arabidopsis thaliana |
| Reign: | Eukaryota |
| TaxID: | 3702 |
| EC Number: | / |
| Chain Name: | Percentage of Residues within binding site |
|---|---|
| A | 100 % |
| B-Factor: | 19.329 |
|---|---|
| Number of residues: | 29 |
| Including | |
| Standard Amino Acids: | 28 |
| Non Standard Amino Acids: | 0 |
| Water Molecules: | 1 |
| Cofactors: | |
| Metals: | |
| Ligandability | Volume (Å3) |
|---|---|
| 0.686 | 394.875 |
| % Hydrophobic | % Polar |
|---|---|
| 54.70 | 45.30 |
| According to VolSite | |

| HET Code: | ADP |
|---|---|
| Formula: | C10H12N5O10P2 |
| Molecular weight: | 424.177 g/mol |
| DrugBank ID: | - |
| Buried Surface Area: | 49.97 % |
| 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 |
|---|---|---|
| -6.912 | -8.54304 | 168.881 |
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 | N | SER- 258 | 2.96 | 177.46 | H-Bond (Protein Donor) |
| O1B | OG | SER- 258 | 3.37 | 120.19 | H-Bond (Protein Donor) |
| O2B | OG | SER- 258 | 3.1 | 149.3 | H-Bond (Protein Donor) |
| C2' | CD1 | LEU- 308 | 4.25 | 0 | Hydrophobic |
| O1A | N | GLY- 391 | 2.99 | 145.49 | H-Bond (Protein Donor) |
| O5' | N | GLY- 391 | 3.39 | 132.63 | H-Bond (Protein Donor) |
| N1 | ND2 | ASN- 395 | 3.03 | 162.32 | H-Bond (Protein Donor) |
| O2' | O | HOH- 668 | 2.87 | 172.11 | H-Bond (Ligand Donor) |