Download MendeleyStructure of human DNA polymerase eta complexed with 8OA in the template base paired with incoming non-hydrolyzable TTP
Koag, M.C., Lee, S.To be published.
6PL8
Structure of human DNA polymerase eta complexed with 8OA in the template base paired with incoming non-hydrolyzable TTP
- PDB DOI: https://doi.org/10.2210/pdb6PL8/pdb
- NAKB: 6PL8
- Classification: DNA BINDING PROTEIN/DNA
- Organism(s): Homo sapiens
- Expression System: Escherichia coli
- Mutation(s): No
- Deposited: 2019-06-30 Released: 2020-07-01
Experimental Data Snapshot
- Method: X-RAY DIFFRACTION
- Resolution: 2.17 Å
- R-Value Free: 0.244
- R-Value Work: 0.182
- R-Value Observed: 0.185
Starting Model: experimental
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This is version 1.1 of the entry. See complete history.
Literature
To be published.
Macromolecules
Find similar proteins by:
(by identity cutoff) | 3D Structure
Entity ID: 1 | |||||
|---|---|---|---|---|---|
| Molecule | Chains | Sequence Length | Organism | Details | Image |
| DNA polymerase eta | 435 | Homo sapiens | Mutation(s): 0 Gene Names: POLH, RAD30, RAD30A, XPV EC: 2.7.7.7 |  | |
UniProt & NIH Common Fund Data Resources | |||||
Find proteins for Q9Y253 (Homo sapiens) Explore Q9Y253 Go to UniProtKB: Q9Y253 | |||||
PHAROS: Q9Y253 GTEx: ENSG00000170734 | |||||
Entity Groups | |||||
| Sequence Clusters | 30% Identity50% Identity70% Identity90% Identity95% Identity100% Identity | ||||
| UniProt Group | Q9Y253 | ||||
Sequence AnnotationsExpand | |||||
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Find similar nucleic acids by: Sequence | 3D Structure
Entity ID: 2 | |||||
|---|---|---|---|---|---|
| Molecule | Chains | Length | Organism | Image | |
| DNA (5'-D(*CP*AP*TP*(A38)P*AP*TP*GP*AP*CP*GP*CP*T)-3') | B [auth T] | 12 | Homo sapiens |  | |
Sequence AnnotationsExpand | |||||
| |||||
Find similar nucleic acids by: Sequence | 3D Structure
Entity ID: 3 | |||||
|---|---|---|---|---|---|
| Molecule | Chains | Length | Organism | Image | |
| DNA (5'-D(*AP*GP*CP*GP*TP*CP*AP*T)-3') | C [auth P] | 8 | Homo sapiens |  | |
Sequence AnnotationsExpand | |||||
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Small Molecules
| Ligands 3 Unique | |||||
|---|---|---|---|---|---|
| ID | Chains | Name / Formula / InChI Key | 2D Diagram | 3D Interactions | |
| 1FZ (Subject of Investigation/LOI) Query on 1FZ | D [auth A] | 5'-O-[(R)-hydroxy{[(R)-hydroxy(phosphonooxy)phosphoryl]amino}phosphoryl]thymidine C10 H18 N3 O13 P3 YRKUYVYMPXAOAT-XLPZGREQSA-N |  | ||
| GOL Query on GOL | G [auth A] | GLYCEROL C3 H8 O3 PEDCQBHIVMGVHV-UHFFFAOYSA-N |  | ||
| MG Query on MG | E [auth A], F [auth A] | MAGNESIUM ION Mg JLVVSXFLKOJNIY-UHFFFAOYSA-N |  | ||
Experimental Data & Validation
Experimental Data
- Method: X-RAY DIFFRACTION
- Resolution: 2.17 Å
- R-Value Free: 0.244
- R-Value Work: 0.182
- R-Value Observed: 0.185
- Space Group: P 61
Unit Cell:
| Length ( Å ) | Angle ( ˚ ) |
|---|---|
| a = 98.705 | α = 90 |
| b = 98.705 | β = 90 |
| c = 81.719 | γ = 120 |
| Software Name | Purpose |
|---|---|
| PHENIX | refinement |
| DENZO | data reduction |
| HKL-2000 | data scaling |
| REFMAC | phasing |
Entry History
Deposition Data
- Released Date: 2020-07-01 Deposition Author(s): Koag, M.C., Lee, S.
Revision History (Full details and data files)
- Version 1.0: 2020-07-01
Type: Initial release - Version 1.1: 2023-10-11
Changes: Advisory, Data collection, Database references, Derived calculations, Refinement description
