UniProt P54098
DNA polymerase subunit gamma-1 (P54098)
DNA polymerase subunit gamma-1 (UniProt P54098), EC 2.7.7.7, 3.1.11.-: 26 experimental structures and 1 predicted model on GenesisL1, 5 ligands bound, 211 pockets. Binding sites, druggability and experiment against prediction…
- UniProt
- P54098
- Protein
- DNA polymerase subunit gamma-1
- EC
- 2.7.7.7, 3.1.11.-, 4.2.99.-
- Experimental structures
- 26
- Predicted models
- 1
- Ligands
- 5
- Pockets
- 211 · 15 records with a druggable one
Structures
27 records of P54098 in the MolNFT archive: 26 experimental, 1 predicted.
| Entry | Title | Method | Chains | Ligands | Pockets |
|---|---|---|---|---|---|
| 3IKM | Crystal structure of human mitochondrial DNA polymerase holoenzyme | x-ray diffraction | A, D | — | — |
| 3IKM | Crystal structure of human mitochondrial DNA polymerase holoenzyme | x-ray diffraction | A, D | — | — |
| 4ZTU | Structural basis for processivity and antiviral drug toxicity in human mitochondrial DNA replicase | x-ray diffraction | A | — | — |
| 4ZTU | Structural basis for processivity and antiviral drug toxicity in human mitochondrial DNA replicase | x-ray diffraction | A | — | — |
| 4ZTZ | Structural basis for processivity and antiviral drug toxicity in human mitochondrial DNA replicase | x-ray diffraction | A | — | — |
| 4ZTZ | Structural basis for processivity and antiviral drug toxicity in human mitochondrial DNA replicase | x-ray diffraction | A | — | — |
| 5C51 | Probing the Structural and Molecular Basis of Nucleotide Selectivity by Human Mitochondrial DNA… | x-ray diffraction | A | MG, 1RY | 16 (best 0.84) |
| 5C51 | Probing the structural and molecular basis of nucleotide selectivity by human mitochondrial DNA… | x-ray diffraction | A | — | — |
| 5C52 | Probing the Structural and Molecular Basis of Nucleotide Selectivity by Human Mitochondrial DNA… | x-ray diffraction | A | — | — |
| 5C52 | Probing the structural and molecular basis of nucleotide selectivity by human mitochondrial DNA… | x-ray diffraction | A | — | — |
| 5C53 | Probing the Structural and Molecular Basis of Nucleotide Selectivity by Human Mitochondrial DNA… | x-ray diffraction | A | — | — |
| 5C53 | Probing the structural and molecular basis of nucleotide selectivity by human mitochondrial DNA… | x-ray diffraction | A | — | — |
| 8D37 | Human mitochondrial DNA polymerase gamma ternary complex with GT basepair in replication conformer | electron microscopy | A | CA, DCP | 14 (best 0.83) |
| 8D3R | Human mitochondrial DNA polymerase gamma ternary complex with GT basepair in intermediate conformer | electron microscopy | A | DCP, CA | 14 (best 0.85) |
| 8D42 | Human mitochondrial DNA polymerase gamma ternary complex with GT basepair in editing conformer… | electron microscopy | A | CA, DCP | 14 (best 0.84) |
| 8G5I | Cryo-EM structure of the Mismatch Sensing Complex (I) of Human Mitochondrial DNA Polymerase Gamma | electron microscopy | A | — | 18 (best 0.84) |
| 8G5J | Cryo-EM structure of the Mismatch Uncoupling Complex (II) of Human Mitochondrial DNA Polymerase… | electron microscopy | A | — | 15 (best 0.76) |
| 8G5K | Cryo-EM structure of the Wedge Alignment Complex (VIII) of Human Mitochondrial DNA Polymerase Gamma | electron microscopy | A | — | 14 (best 0.80) |
| 8G5L | Cryo-EM structure of the Primer Separation Complex (IX) of Human Mitochondrial DNA Polymerase Gamma | electron microscopy | A | — | 13 (best 0.81) |
| 8G5M | Cryo-EM structure of the Mismatch Locking Complex (III) of Human Mitochondrial DNA Polymerase Gamma | electron microscopy | A | — | 13 (best 0.82) |
| 8G5O | Cryo-EM structure of the Guide loop Engagement Complex (IV) of Human Mitochondrial DNA Polymerase… | electron microscopy | A | — | 11 (best 0.83) |
| 8T7E | Cryo-EM structure of the Backtracking Initiation Complex (VII) of Human Mitochondrial DNA… | electron microscopy | A | — | 15 (best 0.80) |
| 8UDK | Human Mitochondrial DNA Polymerase gamma R853A Ternary Complex | x-ray diffraction | A | DCP | 15 (best 0.81) |
| 8UDL | Human Mitochondrial DNA Polymerase Gamma Binary Complex | electron microscopy | A | — | 13 (best 0.85) |
| 8V55 | Human mitochondrial DNA polymerase gamma bound to a replication fork in an open conformation | electron microscopy | A | — | 13 (best 0.79) |
| 8V5R | Active conformation of DNA polymerase gamma bound to DNA | electron microscopy | A | MG, D3T | 13 (best 0.83) |
| P54098 | AlphaFold monomer V2.0 prediction for DNA polymerase subunit gamma-1 (P54098) | predicted | A | — | — |
Ligands
- DCP · 2'-deoxycytidine-5'-triphosphate · in 4 records
- CA · Calcium ion · in 3 records
- MG · Magnesium ion · in 2 records
- 1RY · [[(2R,5S)-5-(4-azanyl-5-fluoranyl-2-oxidanylidene-pyrimidin-1-yl)-1,3-oxathiolan-2-yl]methoxy-oxidanyl-phosphoryl] phosphono hydrogen phosphate · in 1 record
- D3T · 2',3'-dideoxy-thymidine-5'-triphosphate · in 1 record
Experiment against prediction
- 8V55 chain A against the predicted model P54098: TM-score 0.97, RMSD 1.99 Å
- 8D42 chain A against the predicted model P54098: TM-score 0.96, RMSD 2.23 Å
- 8G5K chain A against the predicted model P54098: TM-score 0.94, RMSD 2.74 Å
- 8G5L chain A against the predicted model P54098: TM-score 0.94, RMSD 2.77 Å
- 8T7E chain A against the predicted model P54098: TM-score 0.94, RMSD 2.85 Å
- 8G5O chain A against the predicted model P54098: TM-score 0.93, RMSD 2.79 Å
- 8D3R chain A against the predicted model P54098: TM-score 0.89, RMSD 3.32 Å
- 8UDK chain A against the predicted model P54098: TM-score 0.89, RMSD 3.51 Å
- 8G5J chain A against the predicted model P54098: TM-score 0.89, RMSD 3.41 Å
- 8V5R chain A against the predicted model P54098: TM-score 0.89, RMSD 3.64 Å
Elsewhere
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