Download MendeleyActivity and fidelity of human DNA polymerase alpha depend on primer structure
Baranovskiy, A.G., Duong, V., Babayeva, N.D., Zhang, Y., Pavlov, Y., Anderson, K., Tahirov, T.H.(2018) J Biol Chem
4QCL
Crystal structure of the catalytic core of human DNA polymerase alpha in ternary complex with an RNA-primed DNA template and dCTP
- PDB DOI: https://doi.org/10.2210/pdb4QCL/pdb
- NAKB: 4QCL
- Classification: TRANSFERASE/DNA/RNA
- Organism(s): Homo sapiens
- Expression System: Spodoptera frugiperda
- Mutation(s): Yes
- Deposited: 2014-05-12 Released: 2014-11-26
Experimental Data Snapshot
- Method: X-RAY DIFFRACTION
- Resolution: 2.20 Å
- R-Value Free: 0.239
- R-Value Work: 0.210
- R-Value Observed: 0.210
This is version 1.2 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 alpha catalytic subunit | 922 | Homo sapiens | Mutation(s): 1 Gene Names: POLA, POLA1 EC: 2.7.7.7 |  | |
UniProt & NIH Common Fund Data Resources | |||||
Find proteins for P09884 (Homo sapiens) Explore P09884 Go to UniProtKB: P09884 | |||||
PHAROS: P09884 GTEx: ENSG00000101868 | |||||
Entity Groups | |||||
| Sequence Clusters | 30% Identity50% Identity70% Identity90% Identity95% Identity100% Identity | ||||
| UniProt Group | P09884 | ||||
Sequence AnnotationsExpand | |||||
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Find similar nucleic acids by: Sequence | 3D Structure
Entity ID: 2 | |||||
|---|---|---|---|---|---|
| Molecule | Chains | Length | Organism | Image | |
| RNA PRIMER | 11 | N/A |  | ||
Sequence AnnotationsExpand | |||||
| |||||
Find similar nucleic acids by: Sequence | 3D Structure
Small Molecules
| Ligands 6 Unique | |||||
|---|---|---|---|---|---|
| ID | Chains | Name / Formula / InChI Key | 2D Diagram | 3D Interactions | |
| DCP Query on DCP | D [auth A] | 2'-DEOXYCYTIDINE-5'-TRIPHOSPHATE C9 H16 N3 O13 P3 RGWHQCVHVJXOKC-SHYZEUOFSA-N |  | ||
| 1PE Query on 1PE | I [auth A] | PENTAETHYLENE GLYCOL C10 H22 O6 JLFNLZLINWHATN-UHFFFAOYSA-N |  | ||
| ZN Query on ZN | F [auth A], G [auth A], K [auth B] | ZINC ION Zn PTFCDOFLOPIGGS-UHFFFAOYSA-N |  | ||
| EDO Query on EDO | J [auth A] | 1,2-ETHANEDIOL C2 H6 O2 LYCAIKOWRPUZTN-UHFFFAOYSA-N |  | ||
| K Query on K | H [auth A] | POTASSIUM ION K NPYPAHLBTDXSSS-UHFFFAOYSA-N |  | ||
| MG Query on MG | E [auth A] | MAGNESIUM ION Mg JLVVSXFLKOJNIY-UHFFFAOYSA-N |  | ||
Experimental Data & Validation
Experimental Data
- Method: X-RAY DIFFRACTION
- Resolution: 2.20 Å
- R-Value Free: 0.239
- R-Value Work: 0.210
- R-Value Observed: 0.210
- Space Group: P 32 2 1
Unit Cell:
| Length ( Å ) | Angle ( ˚ ) |
|---|---|
| a = 140.763 | α = 90 |
| b = 140.763 | β = 90 |
| c = 181.315 | γ = 120 |
| Software Name | Purpose |
|---|---|
| HKL-2000 | data collection |
| CNS | refinement |
| HKL-2000 | data reduction |
| HKL-2000 | data scaling |
| CNS | phasing |
Entry History
Deposition Data
- Released Date: 2014-11-26 Deposition Author(s): Baranovskiy, A.G., Suwa, Y., Babayeva, N.D., Gu, J., Tahirov, T.H.
Revision History (Full details and data files)
- Version 1.0: 2014-11-26
Type: Initial release - Version 1.1: 2018-03-14
Changes: Database references - Version 1.2: 2024-02-28
Changes: Data collection, Database references, Derived calculations
