1.440 Å
X-ray
2010-06-05
| Name: | Nitrogen regulatory protein P-II (GlnB-2) |
|---|---|
| ID: | O28527_ARCFU |
| AC: | O28527 |
| Organism: | Archaeoglobus fulgidus |
| Reign: | Archaea |
| TaxID: | 224325 |
| EC Number: | / |
| Chain Name: | Percentage of Residues within binding site |
|---|---|
| A | 62 % |
| B | 38 % |
| B-Factor: | 24.150 |
|---|---|
| Number of residues: | 35 |
| Including | |
| Standard Amino Acids: | 33 |
| Non Standard Amino Acids: | 1 |
| Water Molecules: | 1 |
| Cofactors: | |
| Metals: | MG |
| Ligandability | Volume (Å3) |
|---|---|
| 1.001 | 772.875 |
| % Hydrophobic | % Polar |
|---|---|
| 53.28 | 46.72 |
| According to VolSite | |

| HET Code: | ADP |
|---|---|
| Formula: | C10H12N5O10P2 |
| Molecular weight: | 424.177 g/mol |
| DrugBank ID: | - |
| Buried Surface Area: | 71.1 % |
| 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 |
|---|---|---|
| 18.6786 | 15.3646 | 28.6041 |
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 |
| C4' | CG2 | ILE- 7 | 4.14 | 0 | Hydrophobic |
| C1' | CG2 | ILE- 7 | 4.2 | 0 | Hydrophobic |
| O2' | OG1 | THR- 29 | 2.82 | 161.39 | H-Bond (Ligand Donor) |
| N3 | OG1 | THR- 29 | 2.98 | 158.07 | H-Bond (Protein Donor) |
| O1B | N | GLN- 38 | 2.88 | 159.04 | H-Bond (Protein Donor) |
| O2B | N | GLN- 39 | 3.04 | 163.23 | H-Bond (Protein Donor) |
| N6 | O | VAL- 64 | 3.11 | 155 | H-Bond (Ligand Donor) |
| N1 | N | VAL- 64 | 3.12 | 169.38 | H-Bond (Protein Donor) |
| O3B | N | GLY- 87 | 3.46 | 130.38 | H-Bond (Protein Donor) |
| O2A | N | GLY- 87 | 3.35 | 122.14 | H-Bond (Protein Donor) |
| O2A | N | GLY- 89 | 2.95 | 145.36 | H-Bond (Protein Donor) |
| O1B | MG | MG- 124 | 1.93 | 0 | Metal Acceptor |
| O1A | MG | MG- 124 | 1.95 | 0 | Metal Acceptor |
| O2A | O | HOH- 269 | 2.84 | 179.98 | H-Bond (Protein Donor) |