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6voy

Cryo-EM structure of HTLV-1 instasome

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

DNA-binding protein 7d

Human T-cell leukemia virus type I

UniProt A0A1Y1CAW1

State in the Current Structure

Assembly Physical composition Protein state Molecular copy count Associated components Data consistency
1 Insufficient information Heteromer Protein 6 DNA 6 Serine/threonine-protein phosphatase 2A 56 kDa regulatory subunit gamma isoform × 2 （Q13362） ;DNA (5'-D(P*AP*CP*AP*CP*AP*CP*TP*TP*GP*AP*CP*TP*AP*GP*GP*GP*TP*G)-3') ; × 2 DNA (25-MER) × 2 ;DNA (5'-D(P*AP*CP*AP*CP*AP*CP*TP*TP*GP*AP*CP*TP*AP*GP*GP*GP*TP*G)-3') ; × 2 ZINC ION × 4 MAGNESIUM ION × 2 Consistent with all polymers

Other States of the Same Protein in the Database

Monomer

None

Homodimer

None

Homotetramer

None

Other homooligomers

None

Heteromeric or nucleic-acid complex
6voy

1 assemblies

View Construct and Data Evidence
UniProt name A0A1Y1CAW1_9DELA
Isoform —
PDB entities 1
Chains and sequence ranges Author chain A； PDBConstruct 96–390； UniProt 569–863 Author chain B； PDBConstruct 96–390； UniProt 569–863 Author chain C； PDBConstruct 96–390； UniProt 569–863 Author chain D； PDBConstruct 96–390； UniProt 569–863

DNA-binding protein 7d

Human T-cell leukemia virus type I

UniProt P39476

State in the Current Structure

Assembly Physical composition Protein state Molecular copy count Associated components Data consistency
1 Insufficient information Heteromer Protein 6 DNA 6 Serine/threonine-protein phosphatase 2A 56 kDa regulatory subunit gamma isoform × 2 （Q13362） ;DNA (5'-D(P*AP*CP*AP*CP*AP*CP*TP*TP*GP*AP*CP*TP*AP*GP*GP*GP*TP*G)-3') ; × 2 DNA (25-MER) × 2 ;DNA (5'-D(P*AP*CP*AP*CP*AP*CP*TP*TP*GP*AP*CP*TP*AP*GP*GP*GP*TP*G)-3') ; × 2 ZINC ION × 4 MAGNESIUM ION × 2 Consistent with all polymers

Other States of the Same Protein in the Database

Monomer
1jic

1 assemblies

Homodimer

None

Homotetramer

None

Other homooligomers

None

Heteromeric or nucleic-acid complex
1bbx 1c8c 5b02 5b02 5b03 5b03 5b0i 5b0i 5b0j 5b0j 5b0k 5b0k

44 assemblies; showing the first 12

View Construct and Data Evidence
UniProt name DN7D_SACS2
Isoform —
PDB entities 1
Chains and sequence ranges Author chain A； PDBConstruct 21–84； UniProt 1–64 Author chain B； PDBConstruct 21–84； UniProt 1–64 Author chain C； PDBConstruct 21–84； UniProt 1–64 Author chain D； PDBConstruct 21–84； UniProt 1–64

Serine/threonine-protein phosphatase 2A 56 kDa regulatory subunit gamma isoform

Homo sapiens

UniProt Q13362

State in the Current Structure

Assembly Physical composition Protein state Molecular copy count Associated components Data consistency
1 Insufficient information Heteromer Protein 6 DNA 6 DNA-binding protein 7d × 4 （A0A1Y1CAW1,P39476） ;DNA (5'-D(P*AP*CP*AP*CP*AP*CP*TP*TP*GP*AP*CP*TP*AP*GP*GP*GP*TP*G)-3') ; × 2 DNA (25-MER) × 2 ;DNA (5'-D(P*AP*CP*AP*CP*AP*CP*TP*TP*GP*AP*CP*TP*AP*GP*GP*GP*TP*G)-3') ; × 2 ZINC ION × 4 MAGNESIUM ION × 2 Consistent with all polymers

Other States of the Same Protein in the Database

Monomer
2jak

1 assemblies

Homodimer

None

Homotetramer

None

Other homooligomers

None

Heteromeric or nucleic-acid complex
2iae 2iae 2npp 2npp 2nyl 2nyl 2nym 2nym 3fga 5jja 5jja 5k6s

25 assemblies; showing the first 12

View Construct and Data Evidence
UniProt name 2A5G_HUMAN
Isoform —
PDB entities 2
Chains and sequence ranges Author chain E； PDBConstruct 1–343； UniProt 30–372 Author chain F； PDBConstruct 1–343； UniProt 30–372

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_id6voy
Deposition date deposition_date2020-02-01
Structure title titleCryo-EM structure of HTLV-1 instasome
Keywords keywordsIntegrase, Intasome, DNA BINDING PROTEIN-DNA complex; DNA BINDING PROTEIN/DNA
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.

6voy__assembly_1__model_1

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

Download this curve (.dat)

6voy__assembly_1__model_1 | I(q)

10-2 10-1 106 107 108 109 q (1/Angstrom) I(q)
100 plotted points; both axes use logarithmic scales.

6voy__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）48.76 Å
Rg (electron density)49.35 Å
Total Rg49.46 Å
Atom count17556
Residues1904
Excluded volume301940 ų
Maximum q0.500 Å⁻¹
Assembly Model Structure unit Oligomeric description Status CRYSOL Actions
1 1 6voy__assembly_1__model_1 dodecameric （12） 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 (7)

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6. Fold Classification (SCOP + CATH) 2 domains

CATH v4.4 (2 domains)

Domain ID domain_id6voyE00
Class class1 — Mainly Alpha
Architecture architecture25 — Alpha Horseshoe
Topology topology10 — Leucine-rich Repeat Variant
Homologous superfamily homologous superfamily10 — Leucine-rich Repeat Variant
Domain ID domain_id6voyF00
Class class1 — Mainly Alpha
Architecture architecture25 — Alpha Horseshoe
Topology topology10 — Leucine-rich Repeat Variant
Homologous superfamily homologous superfamily10 — Leucine-rich Repeat Variant
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7. Citations (1)