Download MendeleyDynamics of the Herpes simplex virus DNA polymerase holoenzyme during DNA synthesis and proof-reading revealed by Cryo-EM
Gustavsson, E., Grunewald, K., Elias, P., Hallberg, B.M.To be published.
8OJA
HSV-1 DNA polymerase-processivity factor complex in exonuclease state
- PDB DOI: https://doi.org/10.2210/pdb8OJA/pdb
- EM Map EMD-16909: EMDB EMDataResource
- NAKB: 8OJA
- Classification: TRANSFERASE
- Organism(s): Human alphaherpesvirus 1 strain KOS, synthetic construct
- Expression System: Spodoptera frugiperda
- Mutation(s): Yes
- Deposited: 2023-03-24 Released: 2024-04-03
- Funding Organization(s): Swedish Research Council, German Research Foundation (DFG)
Experimental Data Snapshot
- Method: ELECTRON MICROSCOPY
- Resolution: 1.87 Å
- Aggregation State: PARTICLE
- Reconstruction Method: SINGLE PARTICLE
wwPDB Validation 3D Report Full Report
This is version 1.0 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 catalytic subunit | 1,235 | Human alphaherpesvirus 1 strain KOS | Mutation(s): 1 Gene Names: UL30 EC: 2.7.7.7 (PDB Primary Data), 3.1.26.4 (PDB Primary Data) |  | |
UniProt | |||||
Find proteins for P04293 (Human herpesvirus 1 (strain 17)) Explore P04293 Go to UniProtKB: P04293 | |||||
Entity Groups | |||||
| Sequence Clusters | 30% Identity50% Identity70% Identity90% Identity95% Identity100% Identity | ||||
| UniProt Group | P04293 | ||||
Sequence AnnotationsExpand | |||||
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Find similar proteins by:
(by identity cutoff) | 3D Structure
Entity ID: 2 | |||||
|---|---|---|---|---|---|
| Molecule | Chains | Sequence Length | Organism | Details | Image |
| DNA polymerase processivity factor | 488 | Human alphaherpesvirus 1 strain KOS | Mutation(s): 0 Gene Names: UL42 |  | |
UniProt | |||||
Find proteins for P10226 (Human herpesvirus 1 (strain 17)) Explore P10226 Go to UniProtKB: P10226 | |||||
Entity Groups | |||||
| Sequence Clusters | 30% Identity50% Identity70% Identity90% Identity95% Identity100% Identity | ||||
| UniProt Group | P10226 | ||||
Sequence AnnotationsExpand | |||||
| |||||
Find similar nucleic acids by:
(by identity cutoff) | 3D Structure
Entity ID: 3 | |||||
|---|---|---|---|---|---|
| Molecule | Chains | Length | Organism | Image | |
| DNA (47-MER) | 47 | synthetic construct |  | ||
Sequence AnnotationsExpand | |||||
| |||||
Find similar nucleic acids by:
(by identity cutoff) | 3D Structure
Entity ID: 4 | |||||
|---|---|---|---|---|---|
| Molecule | Chains | Length | Organism | Image | |
| DNA (68-MER) | 68 | synthetic construct |  | ||
Sequence AnnotationsExpand | |||||
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Small Molecules
| Ligands 1 Unique | |||||
|---|---|---|---|---|---|
| ID | Chains | Name / Formula / InChI Key | 2D Diagram | 3D Interactions | |
| CA (Subject of Investigation/LOI) Query on CA | E [auth A], F [auth A] | CALCIUM ION Ca BHPQYMZQTOCNFJ-UHFFFAOYSA-N |  | ||
Experimental Data & Validation
Experimental Data
- Method: ELECTRON MICROSCOPY
- Resolution: 1.87 Å
- Aggregation State: PARTICLE
- Reconstruction Method: SINGLE PARTICLE
| Task | Software Package | Version |
|---|---|---|
| RECONSTRUCTION | cryoSPARC | 4 |
| MODEL REFINEMENT | Coot |
Entry History & Funding Information
Deposition Data
- Released Date: 2024-04-03 Deposition Author(s): Gustavsson, E., Grunewald, K., Elias, P., Hallberg, B.M.
| Funding Organization | Location | Grant Number |
|---|---|---|
| Swedish Research Council | Sweden | 2017-06702 |
| German Research Foundation (DFG) | Germany | 152/772-1|152/774-1|152/775-1|152/776-1|152/777-1 FUGG |
Revision History (Full details and data files)
- Version 1.0: 2024-04-03
Type: Initial release
