2.800 Å
X-ray
1999-09-28
| Name: | Penicillin-binding protein 2x |
|---|---|
| ID: | PBPX_STRPN |
| AC: | P14677 |
| Organism: | Streptococcus pneumoniae serotype 4 |
| Reign: | Bacteria |
| TaxID: | 170187 |
| EC Number: | / |
| Chain Name: | Percentage of Residues within binding site |
|---|---|
| A | 100 % |
| B-Factor: | 48.298 |
|---|---|
| Number of residues: | 28 |
| Including | |
| Standard Amino Acids: | 27 |
| Non Standard Amino Acids: | 0 |
| Water Molecules: | 1 |
| Cofactors: | |
| Metals: | |
| Ligandability | Volume (Å3) |
|---|---|
| 1.183 | 1063.125 |
| % Hydrophobic | % Polar |
|---|---|
| 44.13 | 55.87 |
| According to VolSite | |

| HET Code: | KEF |
|---|---|
| Formula: | C16H15N4O8S |
| Molecular weight: | 423.377 g/mol |
| DrugBank ID: | - |
| Buried Surface Area: | 40.91 % |
| Polar Surface area: | 201.89 Å2 |
| Number of | |
|---|---|
| H-Bond Acceptors: | 9 |
| H-Bond Donors: | 2 |
| Rings: | 3 |
| Aromatic rings: | 1 |
| Anionic atoms: | 1 |
| Cationic atoms: | 0 |
| Rule of Five Violation: | 1 |
| Rotatable Bonds: | 8 |
| X | Y | Z |
|---|---|---|
| 103.81 | 61.8887 | 49.4971 |
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 |
| C2 | CG1 | VAL- 423 | 3.76 | 0 | Hydrophobic |
| N31 | O | PRO- 424 | 3.13 | 126.43 | H-Bond (Ligand Donor) |
| O4A | NH2 | ARG- 426 | 3.07 | 150.86 | H-Bond (Protein Donor) |
| O4B | NE | ARG- 426 | 2.74 | 160.05 | H-Bond (Protein Donor) |
| O4A | CZ | ARG- 426 | 3.81 | 0 | Ionic (Protein Cationic) |
| O4B | CZ | ARG- 426 | 3.58 | 0 | Ionic (Protein Cationic) |
| C3' | CG1 | VAL- 662 | 3.95 | 0 | Hydrophobic |
| S1 | CG2 | THR- 665 | 4.24 | 0 | Hydrophobic |
| N31 | O | HOH- 2057 | 2.88 | 121.86 | H-Bond (Ligand Donor) |