1.700 Å
X-ray
2012-11-21
| Name: | Adenosine monophosphate-protein transferase SoFic |
|---|---|
| ID: | SOFIC_SHEON |
| AC: | Q8E9K5 |
| Organism: | Shewanella oneidensis |
| Reign: | Bacteria |
| TaxID: | 211586 |
| EC Number: | 2.7.7.n1 |
| Chain Name: | Percentage of Residues within binding site |
|---|---|
| B | 100 % |
| B-Factor: | 15.729 |
|---|---|
| Number of residues: | 37 |
| Including | |
| Standard Amino Acids: | 35 |
| Non Standard Amino Acids: | 0 |
| Water Molecules: | 2 |
| Cofactors: | |
| Metals: | |
| Ligandability | Volume (Å3) |
|---|---|
| 1.222 | 904.500 |
| % Hydrophobic | % Polar |
|---|---|
| 45.52 | 54.48 |
| According to VolSite | |

| HET Code: | ATP |
|---|---|
| Formula: | C10H12N5O13P3 |
| Molecular weight: | 503.149 g/mol |
| DrugBank ID: | DB00171 |
| Buried Surface Area: | 65.73 % |
| 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 |
|---|---|---|
| -3.47406 | 9.77106 | -30.8395 |
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 |
| C5' | CG | GLU- 73 | 4.33 | 0 | Hydrophobic |
| O3' | OE2 | GLU- 73 | 2.67 | 157.13 | H-Bond (Ligand Donor) |
| C1' | CD2 | LEU- 145 | 4.49 | 0 | Hydrophobic |
| C1' | CG | GLU- 195 | 4.14 | 0 | Hydrophobic |
| O1A | NE2 | HIS- 198 | 2.87 | 166.89 | H-Bond (Protein Donor) |
| O5' | NE2 | HIS- 198 | 3.24 | 123.22 | H-Bond (Protein Donor) |
| O3G | N | GLY- 203 | 2.55 | 125.2 | H-Bond (Protein Donor) |
| O3B | N | GLY- 203 | 3.02 | 158.92 | H-Bond (Protein Donor) |
| O2B | ND2 | ASN- 204 | 2.84 | 165.99 | H-Bond (Protein Donor) |
| O2B | N | ASN- 204 | 3.16 | 151.39 | H-Bond (Protein Donor) |
| O1B | N | GLY- 205 | 2.95 | 170.15 | H-Bond (Protein Donor) |
| O3G | NH2 | ARG- 206 | 2.59 | 141.06 | H-Bond (Protein Donor) |
| O3G | CZ | ARG- 206 | 3.76 | 0 | Ionic (Protein Cationic) |
| O3' | NH1 | ARG- 209 | 2.94 | 163.67 | H-Bond (Protein Donor) |
| O2' | OH | TYR- 240 | 2.93 | 159.66 | H-Bond (Ligand Donor) |
| C2' | CE2 | TYR- 240 | 3.68 | 0 | Hydrophobic |
| C3' | CE1 | TYR- 241 | 4.05 | 0 | Hydrophobic |
| C2' | CD1 | LEU- 244 | 3.89 | 0 | Hydrophobic |
| O1B | O | HOH- 2150 | 2.58 | 154.93 | H-Bond (Protein Donor) |