Download Mendeleystructure of phage T4 topoisomerase II central domain bound with DNA
Chen, Y.T., Xin, Y.H., Xian, R.Q.To be published.
8YO4
structure of phage T4 topoisomerase II central domain bound with DNA
- PDB DOI: https://doi.org/10.2210/pdb8YO4/pdb
- EM Map EMD-39435: EMDB EMDataResource
- NAKB: 8YO4
- Classification: ISOMERASE
- Organism(s): Escherichia phage T4, DNA molecule
- Expression System: Escherichia coli
- Mutation(s): No
- Deposited: 2024-03-12 Released: 2024-09-25
- Funding Organization(s): Chinese Academy of Sciences
Experimental Data Snapshot
- Method: ELECTRON MICROSCOPY
- Resolution: 3.20 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 topoisomerase medium subunit | A, C [auth B] | 452 | Escherichia phage T4 | Mutation(s): 0 Gene Names: 52 EC: 5.6.2.2 |  |
UniProt | |||||
Find proteins for P07065 (Enterobacteria phage T4) Explore P07065 Go to UniProtKB: P07065 | |||||
Entity Groups | |||||
| Sequence Clusters | 30% Identity50% Identity70% Identity90% Identity95% Identity100% Identity | ||||
| UniProt Group | P07065 | ||||
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 |
| phage T4 topoisomerase II gp39-gp60 subunit | B [auth C], D | 682 | Escherichia phage T4 | Mutation(s): 0 EC: 5.6.2.2 |  |
UniProt | |||||
Find proteins for P09176 (Enterobacteria phage T4) Explore P09176 Go to UniProtKB: P09176 | |||||
Entity Groups | |||||
| Sequence Clusters | 30% Identity50% Identity70% Identity90% Identity95% Identity100% Identity | ||||
| UniProt Group | P09176 | ||||
Sequence AnnotationsExpand | |||||
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Find similar nucleic acids by:
(by identity cutoff) | 3D Structure
Entity ID: 3 | |||||
|---|---|---|---|---|---|
| Molecule | Chains | Length | Organism | Image | |
| DNA (5'-D(P*TP*GP*TP*GP*TP*GP*TP*AP*TP*AP*TP*AP*TP*AP*CP*AP*CP*AP*TP*AP*TP*AP*TP*A)-3') | 52 | DNA molecule |  | ||
Sequence AnnotationsExpand | |||||
| |||||
Find similar nucleic acids by:
(by identity cutoff) | 3D Structure
Entity ID: 4 | |||||
|---|---|---|---|---|---|
| Molecule | Chains | Length | Organism | Image | |
| DNA (5'-D(P*AP*TP*AP*TP*AP*TP*GP*TP*GP*TP*AP*TP*AP*TP*AP*TP*AP*CP*AP*CP*AP*CP*AP*T)-3') | 52 | DNA molecule |  | ||
Sequence AnnotationsExpand | |||||
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Small Molecules
| Ligands 1 Unique | |||||
|---|---|---|---|---|---|
| ID | Chains | Name / Formula / InChI Key | 2D Diagram | 3D Interactions | |
| MG (Subject of Investigation/LOI) Query on MG | G [auth C], H [auth C], I [auth D], J [auth D] | MAGNESIUM ION Mg JLVVSXFLKOJNIY-UHFFFAOYSA-N |  | ||
Experimental Data & Validation
Experimental Data
- Method: ELECTRON MICROSCOPY
- Resolution: 3.20 Å
- Aggregation State: PARTICLE
- Reconstruction Method: SINGLE PARTICLE
Entry History & Funding Information
Deposition Data
- Released Date: 2024-09-25 Deposition Author(s): Chen, Y.T., Xin, Y.H., Xian, R.Q.
| Funding Organization | Location | Grant Number |
|---|---|---|
| Chinese Academy of Sciences | China | -- |
Revision History (Full details and data files)
- Version 1.0: 2024-09-25
Type: Initial release
