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8ylu

structure of phage T6 topoisomerase II central domain bound with DNA

Method: ELECTRON MICROSCOPY
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1. Protein Identity and Related Structures Protein Identity & Related Structures

DNA topoisomerase medium subunit

Escherichia phage T4

UniProt P07065

State in the Current Structure

Assembly Physical composition Protein state Molecular copy count Associated components Data consistency
1 Protein–DNA Heteromer Protein 4 DNA 2 DNA topoisomerase (ATP-hydrolyzing) × 2 （A0A346FJ89） 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)) × 1 ;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') ; × 1 MAGNESIUM ION × 1 Consistent with all polymers

Other States of the Same Protein in the Database

Monomer

None

Homodimer
8yo9

1 assemblies

Homotetramer

None

Other homooligomers

None

Heteromeric or nucleic-acid complex
8ylu 8yo3 8yo4 8yo5 8yo7 8yod 8yon 9jnk 9jor 9lii

10 assemblies

View Construct and Data Evidence
UniProt name TOP5_BPT4
Isoform —
PDB entities 1
Chains and sequence ranges Author chain A； PDBConstruct 1–442； UniProt 1–442 Author chain B； PDBConstruct 1–442； UniProt 1–442

DNA topoisomerase (ATP-hydrolyzing)

Salmonella phage Chi

UniProt A0A346FJ89

State in the Current Structure

Assembly Physical composition Protein state Molecular copy count Associated components Data consistency
1 Protein–DNA Heteromer Protein 4 DNA 2 DNA topoisomerase medium subunit × 2 （P07065） 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)) × 1 ;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') ; × 1 MAGNESIUM ION × 1 Consistent with all polymers

Other States of the Same Protein in the Database

Monomer

None

Homodimer
8yo1 9imj

2 assemblies

Homotetramer

None

Other homooligomers

None

Heteromeric or nucleic-acid complex
8ylu 8yo5 8yo7 8yod 8yon

5 assemblies

View Construct and Data Evidence
UniProt name A0A346FJ89_BPT6
Isoform —
PDB entities 2
Chains and sequence ranges Author chain C； PDBConstruct 1–605； UniProt 1–605 Author chain D； PDBConstruct 1–605； UniProt 1–605

The page prioritizes protein identity, the current assembly, associated components, oligomeric state and cross-PDB links. Chain mapping and sequence ranges are retained as data evidence. Internal IDs, import timestamps and assembly operation expressions are maintenance fields and are not shown here.

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2. Structure Basics 2. Structure Basics

Entry ID entry_id8ylu
Deposition date deposition_date2024-03-06
Structure title titlestructure of phage T6 topoisomerase II central domain bound with DNA
Keywords keywordstopoisomerase II, ISOMERASE; ISOMERASE
Experimental Method methodELECTRON MICROSCOPY
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3. Official assembly/model SAXS Official SAXS Profiles

This page reads only the latest assembly calculations. Every curve maps to an explicit PDB entry, official biological assembly and coordinate model.

8ylu__assembly_1__model_1

Assembly 1 · Model 1 · CRYSOL 4.1.3-1-20251215 (887e7ef)

Download this curve (.dat)

8ylu__assembly_1__model_1 | I(q)

10-2 10-1 106 107 108 q (1/Angstrom) I(q)
100 plotted points; both axes use logarithmic scales.

8ylu__assembly_1__model_1 | P(r) · Pending

The new assembly/model P(r) has not been calculated yet This placeholder does not display legacy data r (Angstrom) P(r)
P(r) will be calculated and displayed separately for the same assembly/model.
Rg（Guinier）36.49 Å
Rg (electron density)36.31 Å
Total Rg36.86 Å
Atom count11441
Residues1352
Excluded volume201510 ų
Maximum q0.500 Å⁻¹
Assembly Model Structure unit Oligomeric description Status CRYSOL Actions
1 1 8ylu__assembly_1__model_1 hexameric （6） Success 4.1.3-1-20251215 (887e7ef) View Download
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4. Crystallography and Experiment 4. Crystallography & Experiment

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5. Entities and Polymers Entities & Polymers (5)

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7. Citations (1)