3.000 Å
X-ray
2009-09-24
| Name: | Circadian clock protein kinase KaiC |
|---|---|
| ID: | KAIC_SYNE7 |
| AC: | Q79PF4 |
| Organism: | Synechococcus elongatus |
| Reign: | Bacteria |
| TaxID: | 1140 |
| EC Number: | 2.7.11.1 |
| Chain Name: | Percentage of Residues within binding site |
|---|---|
| C | 64 % |
| D | 36 % |
| B-Factor: | 42.410 |
|---|---|
| Number of residues: | 42 |
| Including | |
| Standard Amino Acids: | 40 |
| Non Standard Amino Acids: | 2 |
| Water Molecules: | 0 |
| Cofactors: | |
| Metals: | MG MG |
| Ligandability | Volume (Å3) |
|---|---|
| 0.849 | 901.125 |
| % Hydrophobic | % Polar |
|---|---|
| 37.83 | 62.17 |
| According to VolSite | |

| HET Code: | ATP |
|---|---|
| Formula: | C10H12N5O13P3 |
| Molecular weight: | 503.149 g/mol |
| DrugBank ID: | DB00171 |
| Buried Surface Area: | 75.22 % |
| 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 |
|---|---|---|
| 99.8609 | 32.5622 | 31.7003 |
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 | GLY- 51 | 3.12 | 131.69 | H-Bond (Protein Donor) |
| O2B | N | GLY- 51 | 3.27 | 148.2 | H-Bond (Protein Donor) |
| O1B | N | THR- 53 | 3.09 | 139.12 | H-Bond (Protein Donor) |
| N6 | OG | SER- 89 | 2.79 | 167.09 | H-Bond (Ligand Donor) |
| O1G | NZ | LYS- 224 | 2.61 | 129.06 | H-Bond (Protein Donor) |
| O3G | NZ | LYS- 224 | 2.9 | 151.42 | H-Bond (Protein Donor) |
| O1G | NZ | LYS- 224 | 2.61 | 0 | Ionic (Protein Cationic) |
| O2G | NZ | LYS- 224 | 3.65 | 0 | Ionic (Protein Cationic) |
| O3G | NZ | LYS- 224 | 2.9 | 0 | Ionic (Protein Cationic) |
| C3' | CB | LYS- 224 | 3.91 | 0 | Hydrophobic |
| O2G | CZ | ARG- 226 | 3.77 | 0 | Ionic (Protein Cationic) |
| C1' | CG2 | ILE- 239 | 4.15 | 0 | Hydrophobic |
| N6 | OD1 | ASP- 241 | 3.49 | 168.45 | H-Bond (Ligand Donor) |
| O1G | MG | MG- 701 | 2.33 | 0 | Metal Acceptor |
| O2G | MG | MG- 701 | 2.13 | 0 | Metal Acceptor |
| O3B | MG | MG- 701 | 2.6 | 0 | Metal Acceptor |
| O2G | MG | MG- 702 | 2.25 | 0 | Metal Acceptor |
| O3B | MG | MG- 702 | 2.57 | 0 | Metal Acceptor |
| O2A | MG | MG- 702 | 2.65 | 0 | Metal Acceptor |
| O3A | MG | MG- 702 | 2.1 | 0 | Metal Acceptor |