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2ayg

Crystal structure of HPV6a E2 DNA binding domain bound to an 18 base pair DNA target

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

Regulatory protein E2

Human papillomavirus type 6a

UniProt Q84294

State in the Current Structure

Assembly Physical composition Protein state Molecular copy count Associated components Data consistency
1 Protein–DNA Homooligomer Protein 2 DNA 2 5'-D(*GP*CP*AP*AP*CP*CP*GP*AP*AP*TP*TP*CP*GP*GP*TP*TP*GP*C)-3' × 2 water × 3 Consistent with all polymers

Other States of the Same Protein in the Database

Monomer

None

Homodimer
1r8h 1r8h 1r8h 1r8h 1r8h 1r8h 2aye 2aye 2aye

9 assemblies

Homotetramer

None

Other homooligomers
1r8h 2aye

2 assemblies

Heteromeric or nucleic-acid complex
2ayb 2ayg

2 assemblies

View Construct and Data Evidence
UniProt name VE2_HPV6A
Isoform —
PDB entities 2
Chains and sequence ranges Author chain A； PDBConstruct 1–87； UniProt 282–368 Author chain B； PDBConstruct 1–87； UniProt 282–368

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_id2ayg
Deposition date deposition_date2005-09-07
Structure title titleCrystal structure of HPV6a E2 DNA binding domain bound to an 18 base pair DNA target
Keywords keywordsbeta barrel, double helix, protein-DNA complex, TRANSCRIPTION-DNA COMPLEX; TRANSCRIPTION/DNA
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.

2ayg__assembly_1__model_1

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

Download this curve (.dat)

2ayg__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.

2ayg__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）20.20 Å
Rg (electron density)19.09 Å
Total Rg19.95 Å
Atom count2176
Residues210
Excluded volume36363 ų
Maximum q0.500 Å⁻¹
Assembly Model Structure unit Oligomeric description Status CRYSOL Actions
1 1 2ayg__assembly_1__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 (3)

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6. Fold Classification (SCOP + CATH) 4 domains

SCOP 2.08 (2 domains)

Domain ID domain_idd2ayga_
Class classd — Alpha and beta proteins (a+b)
Fold Fold foldd.58 — Ferredoxin-like
Superfamily Superfamily superfamilyd.58.8 — Viral DNA-binding domain
Family Family familyd.58.8.1 — Viral DNA-binding domain
Domain ID domain_idd2aygb_
Class classd — Alpha and beta proteins (a+b)
Fold Fold foldd.58 — Ferredoxin-like
Superfamily Superfamily superfamilyd.58.8 — Viral DNA-binding domain
Family Family familyd.58.8.1 — Viral DNA-binding domain

CATH v4.4 (2 domains)

Domain ID domain_id2aygA00
Class class3 — Alpha Beta
Architecture architecture30 — 2-Layer Sandwich
Topology topology70 — Alpha-Beta Plaits
Homologous superfamily homologous superfamily330 — RRM (RNA recognition motif) domain
Domain ID domain_id2aygB00
Class class3 — Alpha Beta
Architecture architecture30 — 2-Layer Sandwich
Topology topology70 — Alpha-Beta Plaits
Homologous superfamily homologous superfamily330 — RRM (RNA recognition motif) domain
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7. Citations (1)