2.100 Å
X-ray
2008-12-17
| Name: | NtrC-like two-domain protein |
|---|---|
| ID: | D0VX10_9FIRM |
| AC: | D0VX10 |
| Organism: | [Eubacterium] rectale |
| Reign: | Bacteria |
| TaxID: | 39491 |
| EC Number: | / |
| Chain Name: | Percentage of Residues within binding site |
|---|---|
| A | 100 % |
| B-Factor: | 31.481 |
|---|---|
| Number of residues: | 31 |
| Including | |
| Standard Amino Acids: | 28 |
| Non Standard Amino Acids: | 1 |
| Water Molecules: | 2 |
| Cofactors: | |
| Metals: | MG |
| Ligandability | Volume (Å3) |
|---|---|
| 0.026 | 253.125 |
| % Hydrophobic | % Polar |
|---|---|
| 46.67 | 53.33 |
| According to VolSite | |

| HET Code: | ATP |
|---|---|
| Formula: | C10H12N5O13P3 |
| Molecular weight: | 503.149 g/mol |
| DrugBank ID: | DB00171 |
| Buried Surface Area: | 52.66 % |
| Polar Surface area: | 319.88 Å2 |
| Number of | |
|---|---|
| H-Bond Acceptors: | 17 |
| 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 |
|---|---|---|
| 2.54316 | 49.8649 | 24.8261 |
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 |
| O1G | N | GLY- 135 | 2.87 | 163.75 | H-Bond (Protein Donor) |
| O2B | N | GLY- 137 | 2.99 | 150.29 | H-Bond (Protein Donor) |
| O3A | N | GLY- 137 | 3.23 | 121.59 | H-Bond (Protein Donor) |
| O2B | N | THR- 138 | 3.11 | 140.19 | H-Bond (Protein Donor) |
| O1B | N | SER- 139 | 2.89 | 163.82 | H-Bond (Protein Donor) |
| O2A | OG1 | THR- 140 | 2.71 | 160.76 | H-Bond (Protein Donor) |
| O2A | N | THR- 140 | 2.86 | 144.14 | H-Bond (Protein Donor) |
| N7 | ND2 | ASN- 307 | 3 | 168.19 | H-Bond (Protein Donor) |
| N6 | OD1 | ASN- 307 | 2.89 | 136.15 | H-Bond (Ligand Donor) |
| N6 | O | PRO- 329 | 2.93 | 137.17 | H-Bond (Ligand Donor) |
| N1 | N | TYR- 331 | 2.94 | 148.69 | H-Bond (Protein Donor) |
| C1' | CD1 | ILE- 339 | 4.41 | 0 | Hydrophobic |
| O2G | MG | MG- 501 | 1.99 | 0 | Metal Acceptor |
| O1B | MG | MG- 501 | 2.21 | 0 | Metal Acceptor |