Download Mendeleystructure of phage T6 topoisomerase II central domain bound with DNA
Chen, Y.T., Xin, Y.H.To be published.
8YLU
structure of phage T6 topoisomerase II central domain bound with DNA
- PDB DOI: https://doi.org/10.2210/pdb8YLU/pdb
- EM Map EMD-39391: EMDB EMDataResource
- NAKB: 8YLU
- Classification: ISOMERASE
- Organism(s): Escherichia phage T4, Salmonella phage Chi, DNA molecule
- Expression System: Escherichia coli
- Mutation(s): No
- Deposited: 2024-03-06 Released: 2024-09-25
- Funding Organization(s): Chinese Academy of Sciences
Experimental Data Snapshot
- Method: ELECTRON MICROSCOPY
- Resolution: 2.80 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 | 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 |
| DNA topoisomerase (ATP-hydrolyzing) | 611 | Salmonella phage Chi | Mutation(s): 0 Gene Names: EcT6_00003 EC: 5.6.2.2 |  | |
UniProt | |||||
Find proteins for A0A346FJ89 (Enterobacteria phage T6) Explore A0A346FJ89 Go to UniProtKB: A0A346FJ89 | |||||
Entity Groups | |||||
| Sequence Clusters | 30% Identity50% Identity70% Identity90% Identity95% Identity100% Identity | ||||
| UniProt Group | A0A346FJ89 | ||||
Sequence AnnotationsExpand | |||||
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Find similar nucleic acids by: Sequence | 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)) | 22 | DNA molecule |  | ||
Sequence AnnotationsExpand | |||||
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Find similar nucleic acids by: Sequence | 3D Structure
Entity ID: 4 | |||||
|---|---|---|---|---|---|
| Molecule | Chains | Length | Organism | Image | |
| DNA (5'-D(P*TP*AP*TP*AP*TP*GP*TP*GP*TP*AP*TP*AP*TP*AP*TP*AP*CP*AP*CP*AP*CP*A)-3') | 22 | 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 D] | MAGNESIUM ION Mg JLVVSXFLKOJNIY-UHFFFAOYSA-N |  | ||
Experimental Data & Validation
Experimental Data
- Method: ELECTRON MICROSCOPY
- Resolution: 2.80 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.
| 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
