UniProt Q56366
DNA polymerase (Q56366)
DNA polymerase (UniProt Q56366), EC 2.7.7.7: 14 experimental structures and 1 predicted model on GenesisL1, 7 ligands bound, 21 pockets. Binding sites, druggability and experiment against prediction (TM-score) in GL1X.
- UniProt
- Q56366
- Protein
- DNA polymerase
- EC
- 2.7.7.7
- Experimental structures
- 14
- Predicted models
- 1
- Ligands
- 7
- Pockets
- 21 · 2 records with a druggable one
Structures
15 records of Q56366 in the MolNFT archive: 14 experimental, 1 predicted.
| Entry | Title | Method | Chains | Ligands | Pockets |
|---|---|---|---|---|---|
| 1QHT | DNA polymerase from thermococcus sp. 9ON-7 archaeon | x-ray diffraction | A | — | — |
| 1QHT | DNA polymerase from thermococcus sp. 9ON-7 archaeon | x-ray diffraction | A | — | — |
| 4K8X | Binary complex of 9N DNA polymerase in the replicative state | x-ray diffraction | A | — | — |
| 4K8X | Binary complex of 9N DNA polymerase in the replicative state | x-ray diffraction | A | — | — |
| 5OMQ | Ternary complex of 9N DNA polymerase in the replicative state with three metal ions in the active… | x-ray diffraction | A | MG, MN, DTP | — |
| 5OMV | Ternary complex of 9N DNA polymerase in the replicative state with two metal ions in the active site | x-ray diffraction | A | MN, MG, DTP | — |
| 6IS7 | Structure of 9N-I DNA polymerase incorporation with dA in the active site | x-ray diffraction | A, B | CA | — |
| 6IS7 | Structure of 9N-I DNA polymerase incorporation with da in the active site | x-ray diffraction | A, B | CA | — |
| 6ISF | Structure of 9N-I DNA polymerase incorporation with dt in the active site | x-ray diffraction | A, B | CA | — |
| 6ISG | Structure of 9N-I DNA polymerase incorporation with dG in the active site | x-ray diffraction | A | PPV, CA | 10 (best 0.77) |
| 6ISG | Structure of 9N-I DNA polymerase incorporation with dg in the active site | x-ray diffraction | A | PPV, CA | — |
| 6ISH | Structure of 9N-I DNA polymerase incorporation with 3'-AL in the active site | x-ray diffraction | A | PPV, CA, B9X | 11 (best 0.73) |
| 6ISH | Structure of 9N-I DNA polymerase incorporation with 3'-al in the active site | x-ray diffraction | A | PPV, CA, B9X | — |
| 6ISI | Structure of 9N-I DNA polymerase incorporation with 3'-cl in the active site | x-ray diffraction | A | PPV, CA, B0U | — |
| Q56366 | AlphaFold monomer V2.0 prediction for DNA polymerase (Q56366) | predicted | A | — | — |
Ligands
- CA · Calcium ion · in 8 records
- PPV · Pyrophosphate · in 5 records
- B9X · [(2R,3S,5R)-5-(6-aminopurin-9-yl)-2-(phosphonooxymethyl)oxolan-3-yl] 3-(2-ethoxyethoxy) propanoate · in 2 records
- DTP · 2'-deoxyadenosine 5'-triphosphate · in 2 records
- MG · Magnesium ion · in 2 records
- MN · Manganese (II) ion · in 2 records
- B0U · 3-[2-[2-(2-azanylethoxy)ethoxy]ethoxy]propanoic acid · in 1 record
Experiment against prediction
- 4K8X chain A against the predicted model Q56366: TM-score 0.98, RMSD 1.30 Å
- 4K8X chain A against the predicted model Q56366: TM-score 0.98, RMSD 1.30 Å
- 6ISI chain A against the predicted model Q56366: TM-score 0.98, RMSD 1.43 Å
- 6ISH chain A against the predicted model Q56366: TM-score 0.98, RMSD 1.52 Å
- 6ISH chain A against the predicted model Q56366: TM-score 0.98, RMSD 1.52 Å
- 6IS7 chain B against the predicted model Q56366: TM-score 0.97, RMSD 1.56 Å
- 6IS7 chain B against the predicted model Q56366: TM-score 0.97, RMSD 1.56 Å
- 6ISF chain B against the predicted model Q56366: TM-score 0.97, RMSD 1.58 Å
- 6ISF chain A against the predicted model Q56366: TM-score 0.97, RMSD 1.60 Å
- 6ISG chain A against the predicted model Q56366: TM-score 0.97, RMSD 1.59 Å
Elsewhere
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