9LII | pdb_00009lii

structure of phage T4 topoisomerase II central domain

PDB DOI: https://doi.org/10.2210/pdb9LII/pdb
EM Map EMD-63118: EMDB EMDataResource

Classification: ISOMERASE
Organism(s): Tequatrovirus T4
Expression System: Escherichia coli
Mutation(s): No

Deposited: 2025-01-14 Released: 2025-11-26
Deposition Author(s): Chen, Y.T., Xin, Y.H.
Funding Organization(s): Chinese Academy of Sciences

Experimental Data Snapshot

Method: ELECTRON MICROSCOPY
Resolution: 3.06 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

structure of phage T4 topoisomerase II central domain bound with DNA

Chen, Y.T., Xin, Y.H.

To be published.

Macromolecule Content

Total Structure Weight: 258.95 kDa
Atom Count: 11,514
Modeled Residue Count: 1,430
Deposited Residue Count: 2,268
Unique protein chains: 2

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 [auth C], C [auth D]	452	Tequatrovirus 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 Annotations Expand
Reference Sequence

Find similar proteins by:

(by identity cutoff) | 3D Structure

Entity ID: 2
Molecule	Chains	Sequence Length	Organism	Details	Image
DNA topoisomerase large subunit,DNA topoisomerase small subunit	B [auth A], D [auth B]	682	Tequatrovirus T4	Mutation(s): 0 Gene Names: 39, 60 EC: 5.6.2.2
UniProt
Find proteins for P09176 (Enterobacteria phage T4) Explore P09176 Go to UniProtKB: P09176
Find proteins for P23992 (Enterobacteria phage T4) Explore P23992 Go to UniProtKB: P23992
Entity Groups
Sequence Clusters	30% Identity50% Identity70% Identity90% Identity95% Identity100% Identity
UniProt Groups	P23992P09176
Sequence Annotations Expand
Reference Sequence

Experimental Data & Validation

Experimental Data

Method: ELECTRON MICROSCOPY
Resolution: 3.06 Å
Aggregation State: PARTICLE
Reconstruction Method: SINGLE PARTICLE

Structure Validation

View Full Validation Report

Entry History & Funding Information

Deposition Data

Released Date: 2025-11-26

Deposition Author(s):

Funding Organization	Location	Grant Number
Chinese Academy of Sciences	China	--

Revision History (Full details and data files)

Version 1.0: 2025-11-26
Type: Initial release

RCSB PDB Core Operations are funded by the U.S. National Science Foundation (DBI-2321666), the US Department of Energy (DE-SC0019749), and the National Cancer Institute, National Institute of Allergy and Infectious Diseases, and National Institute of General Medical Sciences of the National Institutes of Health under grant R01GM157729. RCSB PDB uses resources of the National Energy Research Scientific Computing Center (NERSC), a Department of Energy User Facility.