Download MendeleyHuman DNA polymerase eta-DNA-araC-ended primer-dAMPNPP ternary complex with Mg2+
Chang, C., Gao, Y.To be published.
8V7E
Human DNA polymerase eta-DNA-araC-ended primer-dAMPNPP ternary complex with Mg2+
- PDB DOI: https://doi.org/10.2210/pdb8V7E/pdb
- NAKB: 8V7E
- Classification: Transferase/DNA
- Organism(s): Homo sapiens, synthetic construct
- Expression System: Escherichia coli BL21(DE3)
- Mutation(s): No
- Deposited: 2023-12-04 Released: 2024-05-15
- Funding Organization(s): Cancer Prevention and Research Institute of Texas (CPRIT), Welch Foundation, National Institutes of Health/National Institute of General Medical Sciences (NIH/NIGMS)
Experimental Data Snapshot
- Method: X-RAY DIFFRACTION
- Resolution: 1.82 Å
- R-Value Free: 0.204
- R-Value Work: 0.172
- R-Value Observed: 0.174
Starting Model: experimental
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This is version 1.0 of the entry. See complete history.
Literature
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*TP*GP*TP*GP*AP*CP*GP*CP*T)-3') | B [auth T] | 12 | synthetic construct |  | |
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*C)-3') | C [auth P] | 8 | synthetic construct |  | |
Sequence AnnotationsExpand | |||||
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Small Molecules
| Ligands 3 Unique | |||||
|---|---|---|---|---|---|
| ID | Chains | Name / Formula / InChI Key | 2D Diagram | 3D Interactions | |
| DZ4 Query on DZ4 | F [auth A] | 2'-deoxy-5'-O-[(R)-hydroxy{[(R)-hydroxy(phosphonooxy)phosphoryl]amino}phosphoryl]adenosine C10 H17 N6 O11 P3 WKIPJDSLGCBQCU-RRKCRQDMSA-N |  | ||
| GOL Query on GOL | G [auth A], H [auth A] | GLYCEROL C3 H8 O3 PEDCQBHIVMGVHV-UHFFFAOYSA-N |  | ||
| MG Query on MG | D [auth A], E [auth A] | MAGNESIUM ION Mg JLVVSXFLKOJNIY-UHFFFAOYSA-N |  | ||
Experimental Data & Validation
Experimental Data
- Method: X-RAY DIFFRACTION
- Resolution: 1.82 Å
- R-Value Free: 0.204
- R-Value Work: 0.172
- R-Value Observed: 0.174
- Space Group: P 61
Unit Cell:
| Length ( Å ) | Angle ( ˚ ) |
|---|---|
| a = 98.759 | α = 90 |
| b = 98.759 | β = 90 |
| c = 81.97 | γ = 120 |
| Software Name | Purpose |
|---|---|
| PHENIX | refinement |
| XSCALE | data scaling |
| PDB_EXTRACT | data extraction |
| XDS | data reduction |
| MOLREP | phasing |
Entry History & Funding Information
Deposition Data
| Funding Organization | Location | Grant Number |
|---|---|---|
| Cancer Prevention and Research Institute of Texas (CPRIT) | United States | RR190046 |
| Welch Foundation | United States | C-2033-20200401 |
| National Institutes of Health/National Institute of General Medical Sciences (NIH/NIGMS) | United States | T32 GM008280 |
Revision History (Full details and data files)
- Version 1.0: 2024-05-15
Type: Initial release
