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1jey

Crystal Structure of the Ku heterodimer bound to DNA

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

Ku70

Homo sapiens

UniProt P12956

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 (5'-D(*GP*TP*TP*TP*TP*TP*AP*GP*TP*TP*TP*AP*TP*TP*GP*GP*GP*CP*GP*CP*G)-3') ; × 1 DNA (34-MER) × 1 Ku80 × 1 （P13010） water × 4 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
1jeq 1jey 3rzx 5y3r 6erf 6erf 6erf 6erf 6erg 6erg 6erh 6erh

63 assemblies; showing the first 12

View Construct and Data Evidence
UniProt name KU70_HUMAN
Isoform —
PDB entities 3
Chains and sequence ranges Author chain A； PDBConstruct 1–609； UniProt 0–608

Ku80

Homo sapiens

UniProt P13010

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 (5'-D(*GP*TP*TP*TP*TP*TP*AP*GP*TP*TP*TP*AP*TP*TP*GP*GP*GP*CP*GP*CP*G)-3') ; × 1 DNA (34-MER) × 1 Ku70 × 1 （P12956） water × 4 Consistent with all polymers

Other States of the Same Protein in the Database

Monomer
1q2z 1rw2

2 assemblies

Homodimer

None

Homotetramer

None

Other homooligomers

None

Heteromeric or nucleic-acid complex
1jeq 1jey 3rz9 5y3r 6erf 6erf 6erf 6erf 6erg 6erg 6erh 6erh

67 assemblies; showing the first 12

View Construct and Data Evidence
UniProt name KU86_HUMAN
Isoform —
PDB entities 4
Chains and sequence ranges Author chain B； PDBConstruct 1–565； UniProt 0–564

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_id1jey
Deposition date deposition_date2001-06-19
Structure title titleCrystal Structure of the Ku heterodimer bound to DNA
Keywords keywords;double-strand DNA break repair, non-homologous end-joining, protein-nucleic acid complex, alpha/beta domain, beta barrel, helical C-terminal arm, SAP domain, DNA BINDING PROTEIN-DNA COMPLEX ;; DNA BINDING PROTEIN/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.

1jey__assembly_1__model_1

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

Download this curve (.dat)

1jey__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.

1jey__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）34.32 Å
Rg (electron density)33.77 Å
Total Rg34.26 Å
Atom count9217
Residues1072
Excluded volume162560 ų
Maximum q0.500 Å⁻¹
Assembly Model Structure unit Oligomeric description Status CRYSOL Actions
1 1 1jey__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 (5)

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6. Fold Classification (SCOP + CATH) 11 domains

SCOP 2.08 (4 domains)

Domain ID domain_idd1jeya1
Class classb — All beta proteins
Fold Fold foldb.131 — SPOC domain-like
Superfamily Superfamily superfamilyb.131.1 — SPOC domain-like
Family Family familyb.131.1.1 — Ku70 subunit middle domain
Domain ID domain_idd1jeya2
Class classc — Alpha and beta proteins (a/b)
Fold Fold foldc.62 — vWA-like
Superfamily Superfamily superfamilyc.62.1 — vWA-like
Family Family familyc.62.1.3 — Ku70 subunit N-terminal domain
Domain ID domain_idd1jeyb1
Class classb — All beta proteins
Fold Fold foldb.131 — SPOC domain-like
Superfamily Superfamily superfamilyb.131.1 — SPOC domain-like
Family Family familyb.131.1.2 — Ku80 subunit middle domain
Domain ID domain_idd1jeyb2
Class classc — Alpha and beta proteins (a/b)
Fold Fold foldc.62 — vWA-like
Superfamily Superfamily superfamilyc.62.1 — vWA-like
Family Family familyc.62.1.4 — Ku80 subunit N-terminal domain

CATH v4.4 (7 domains)

Domain ID domain_id1jeyA01
Class class3 — Alpha Beta
Architecture architecture40 — 3-Layer(aba) Sandwich
Topology topology50 — Rossmann fold
Homologous superfamily homologous superfamily410 — von Willebrand factor, type A domain
Domain ID domain_id1jeyA02
Class class2 — Mainly Beta
Architecture architecture40 — Beta Barrel
Topology topology290 — Ku70; Chain: A; Domain 2
Homologous superfamily homologous superfamily10 —
Domain ID domain_id1jeyA03
Class class4 — Few Secondary Structures
Architecture architecture10 — Irregular
Topology topology970 — Ku70, bridge and pillars
Homologous superfamily homologous superfamily10 — Ku70, bridge and pillars
Domain ID domain_id1jeyA04
Class class1 — Mainly Alpha
Architecture architecture10 — Orthogonal Bundle
Topology topology1600 — Ku70; Chain: A; domain 4
Homologous superfamily homologous superfamily10 —
Domain ID domain_id1jeyB01
Class class3 — Alpha Beta
Architecture architecture40 — 3-Layer(aba) Sandwich
Topology topology50 — Rossmann fold
Homologous superfamily homologous superfamily410 — von Willebrand factor, type A domain
Domain ID domain_id1jeyB02
Class class2 — Mainly Beta
Architecture architecture40 — Beta Barrel
Topology topology290 — Ku70; Chain: A; Domain 2
Homologous superfamily homologous superfamily10 —
Domain ID domain_id1jeyB03
Class class1 — Mainly Alpha
Architecture architecture10 — Orthogonal Bundle
Topology topology1600 — Ku70; Chain: A; domain 4
Homologous superfamily homologous superfamily10 —
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7. Citations (1)