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4yig

vaccinia virus D4/A20(1-50) in complex with dsDNA containing an abasic site and free uracyl

Method: X-RAY DIFFRACTION
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1. Protein Identity and Related Structures Protein Identity & Related Structures

Uracil-DNA glycosylase

Vaccinia virus (strain Copenhagen)

UniProt P20536

State in the Current Structure

Assembly Physical composition Protein state Molecular copy count Associated components Data consistency
1 Protein–DNA Heteromer Protein 2 DNA 2 DNA polymerase processivity factor component A20 × 1 （P20995） ;DNA (5'-D(*CP*TP*GP*TP*(ORP)P*AP*TP*CP*TP*T)-3') ; × 1 ;DNA (5'-D(*AP*AP*GP*AP*TP*AP*AP*CP*AP*G)-3') ; × 1 URACIL × 1 water × 3 Consistent with all polymers
2 Protein–DNA Heteromer Protein 2 DNA 2 DNA polymerase processivity factor component A20 × 1 （P20995） ;DNA (5'-D(*CP*TP*GP*TP*(ORP)P*AP*TP*CP*TP*T)-3') ; × 1 ;DNA (5'-D(*AP*AP*GP*AP*TP*AP*AP*CP*AP*G)-3') ; × 1 URACIL × 1 water × 4 Consistent with all polymers
3 Protein–DNA Heteromer Protein 2 DNA 2 DNA polymerase processivity factor component A20 × 1 （P20995） ;DNA (5'-D(*CP*TP*GP*TP*(ORP)P*AP*TP*CP*TP*T)-3') ; × 1 ;DNA (5'-D(*AP*AP*GP*AP*TP*AP*AP*CP*AP*G)-3') ; × 1 URACIL × 1 water × 3 Consistent with all polymers

Other States of the Same Protein in the Database

Monomer
8qam 8qam

2 assemblies

Homodimer

None

Homotetramer

None

Other homooligomers

None

Heteromeric or nucleic-acid complex
4od8 4od8 4oda 4oda 4ygm 4ygm 4yig 4yig 4yig 5jkr 5jkr 5jks

16 assemblies; showing the first 12

View Construct and Data Evidence
UniProt name UNG_VACCC
Isoform —
PDB entities 1
Chains and sequence ranges Author chain A； PDBConstruct 15–232； UniProt 1–218 Author chain E； PDBConstruct 15–232； UniProt 1–218 Author chain I； PDBConstruct 15–232； UniProt 1–218

DNA polymerase processivity factor component A20

Vaccinia virus

UniProt P20995

State in the Current Structure

Assembly Physical composition Protein state Molecular copy count Associated components Data consistency
1 Protein–DNA Heteromer Protein 2 DNA 2 Uracil-DNA glycosylase × 1 （P20536） ;DNA (5'-D(*CP*TP*GP*TP*(ORP)P*AP*TP*CP*TP*T)-3') ; × 1 ;DNA (5'-D(*AP*AP*GP*AP*TP*AP*AP*CP*AP*G)-3') ; × 1 URACIL × 1 water × 3 Consistent with all polymers
2 Protein–DNA Heteromer Protein 2 DNA 2 Uracil-DNA glycosylase × 1 （P20536） ;DNA (5'-D(*CP*TP*GP*TP*(ORP)P*AP*TP*CP*TP*T)-3') ; × 1 ;DNA (5'-D(*AP*AP*GP*AP*TP*AP*AP*CP*AP*G)-3') ; × 1 URACIL × 1 water × 4 Consistent with all polymers
3 Protein–DNA Heteromer Protein 2 DNA 2 Uracil-DNA glycosylase × 1 （P20536） ;DNA (5'-D(*CP*TP*GP*TP*(ORP)P*AP*TP*CP*TP*T)-3') ; × 1 ;DNA (5'-D(*AP*AP*GP*AP*TP*AP*AP*CP*AP*G)-3') ; × 1 URACIL × 1 water × 3 Consistent with all polymers

Other States of the Same Protein in the Database

Monomer
6zxp 6zyc

2 assemblies

Homodimer

None

Homotetramer

None

Other homooligomers

None

Heteromeric or nucleic-acid complex
4od8 4od8 4oda 4oda 4ygm 4ygm 4yig 4yig 4yig 5jkr 5jkr 5jks

16 assemblies; showing the first 12

View Construct and Data Evidence
UniProt name A20_VACCC
Isoform —
PDB entities 2
Chains and sequence ranges Author chain B； PDBConstruct 5–52； UniProt 3–50 Author chain F； PDBConstruct 5–52； UniProt 3–50 Author chain J； PDBConstruct 5–52； UniProt 3–50

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_id4yig
Deposition date deposition_date2015-03-02
Structure title titlevaccinia virus D4/A20(1-50) in complex with dsDNA containing an abasic site and free uracyl
Keywords keywordsuracyl DNA glycosylase, DNA complex, virus replication, hydrolase; HYDROLASE
Experimental Method methodX-RAY DIFFRACTION
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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.

4yig__assembly_1__model_1

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

Download this curve (.dat)

4yig__assembly_1__model_1 | I(q)

10-2 10-1 105 106 107 q (1/Angstrom) I(q)
100 plotted points; both axes use logarithmic scales.

4yig__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）21.78 Å
Rg (electron density)20.58 Å
Total Rg21.48 Å
Atom count2590
Residues289
Excluded volume45218 ų
Maximum q0.500 Å⁻¹
Assembly Model Structure unit Oligomeric description Status CRYSOL Actions
1 1 4yig__assembly_1__model_1 tetrameric （4） Success 4.1.3-1-20251215 (887e7ef) View Download
2 1 4yig__assembly_2__model_1 tetrameric （4） Success 4.1.3-1-20251215 (887e7ef) View Download
3 1 4yig__assembly_3__model_1 tetrameric （4） 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 (6)

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6. Fold Classification (SCOP + CATH) 6 domains

CATH v4.4 (6 domains)

Domain ID domain_id4yigA00
Class class3 — Alpha Beta
Architecture architecture40 — 3-Layer(aba) Sandwich
Topology topology470 — Uracil-DNA Glycosylase, subunit E
Homologous superfamily homologous superfamily10 — Uracil-DNA glycosylase-like domain
Domain ID domain_id4yigB00
Class class6 — Special
Architecture architecture10 — Helix non-globular
Topology topology140 — Helix Hairpins
Homologous superfamily homologous superfamily1880 —
Domain ID domain_id4yigE00
Class class3 — Alpha Beta
Architecture architecture40 — 3-Layer(aba) Sandwich
Topology topology470 — Uracil-DNA Glycosylase, subunit E
Homologous superfamily homologous superfamily10 — Uracil-DNA glycosylase-like domain
Domain ID domain_id4yigF00
Class class6 — Special
Architecture architecture10 — Helix non-globular
Topology topology140 — Helix Hairpins
Homologous superfamily homologous superfamily1880 —
Domain ID domain_id4yigI00
Class class3 — Alpha Beta
Architecture architecture40 — 3-Layer(aba) Sandwich
Topology topology470 — Uracil-DNA Glycosylase, subunit E
Homologous superfamily homologous superfamily10 — Uracil-DNA glycosylase-like domain
Domain ID domain_id4yigJ00
Class class6 — Special
Architecture architecture10 — Helix non-globular
Topology topology140 — Helix Hairpins
Homologous superfamily homologous superfamily1880 —
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7. Citations (1)