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7okq

Cryo-EM Structure of the DDB1-DCAF1-CUL4A-RBX1 Complex

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

DNA damage-binding protein 1

Homo sapiens

UniProt Q16531

State in the Current Structure

Assembly Physical composition Protein state Molecular copy count Associated components Data consistency
1 Protein heterocomplex Heteromer Protein 16 DDB1- and CUL4-associated factor 1 × 4 （Q9Y4B6） Cullin-4A × 4 （Q13619） E3 ubiquitin-protein ligase RBX1 × 4 （P62877） Consistent with protein count

Other States of the Same Protein in the Database

Monomer
3e0c 8zsw 9bbe 9bbg 9bbh 9bbi 9ejq 9zxm 9zxn

9 assemblies

Homodimer

None

Homotetramer

None

Other homooligomers

None

Heteromeric or nucleic-acid complex
10ay 2hye 3ei1 3ei2 3ei3 3ei4 3ei4 3ei4 3i7h 3i7k 3i7l 3i7n

282 assemblies; showing the first 12

View Construct and Data Evidence
UniProt name DDB1_HUMAN
Isoform —
PDB entities 1
Chains and sequence ranges Author chain A； PDBConstruct 20–1159； UniProt 1–1140 Author chain E； PDBConstruct 20–1159； UniProt 1–1140 Author chain I； PDBConstruct 20–1159； UniProt 1–1140 Author chain M； PDBConstruct 20–1159； UniProt 1–1140

DDB1- and CUL4-associated factor 1

Homo sapiens

UniProt Q9Y4B6

State in the Current Structure

Assembly Physical composition Protein state Molecular copy count Associated components Data consistency
1 Protein heterocomplex Heteromer Protein 16 DNA damage-binding protein 1 × 4 （Q16531） Cullin-4A × 4 （Q13619） E3 ubiquitin-protein ligase RBX1 × 4 （P62877） Consistent with protein count

Other States of the Same Protein in the Database

Monomer
4pxw 4pxw 7ufv 7ufv 8f8e 8f8e 8og5 8og6 8og7 8og8 8og9 8oga

31 assemblies; showing the first 12

Homodimer
7sse 9ply 9y4q

3 assemblies

Homotetramer

None

Other homooligomers
9zl9 9zle 9zlg 9zli

4 assemblies

Heteromeric or nucleic-acid complex
3wa0 3wa0 4cc9 4p7i 4p7i 4z8l 4z8l 5aja 5jk7 5jk7 6n45 6zue

23 assemblies; showing the first 12

View Construct and Data Evidence
UniProt name DCAF1_HUMAN
Isoform —
PDB entities 2
Chains and sequence ranges Author chain B； PDBConstruct 20–1525； UniProt 2–1507 Author chain F； PDBConstruct 20–1525； UniProt 2–1507 Author chain J； PDBConstruct 20–1525； UniProt 2–1507 Author chain N； PDBConstruct 20–1525； UniProt 2–1507

Cullin-4A

Homo sapiens

UniProt Q13619

State in the Current Structure

Assembly Physical composition Protein state Molecular copy count Associated components Data consistency
1 Protein heterocomplex Heteromer Protein 16 DNA damage-binding protein 1 × 4 （Q16531） DDB1- and CUL4-associated factor 1 × 4 （Q9Y4B6） E3 ubiquitin-protein ligase RBX1 × 4 （P62877） Consistent with protein count

Other States of the Same Protein in the Database

Monomer

None

Homodimer

None

Homotetramer

None

Other homooligomers

None

Heteromeric or nucleic-acid complex
2hye 4a0k 7okq 7opc 7opd 8b3g 8b3i 9eg8 9lwi 9lwj 9lwl 9pvh

16 assemblies; showing the first 12

View Construct and Data Evidence
UniProt name CUL4A_HUMAN
Isoform —
PDB entities 3
Chains and sequence ranges Author chain C； PDBConstruct 18–742； UniProt 35–759 Author chain G； PDBConstruct 18–742； UniProt 35–759 Author chain K； PDBConstruct 18–742； UniProt 35–759 Author chain O； PDBConstruct 18–742； UniProt 35–759

E3 ubiquitin-protein ligase RBX1

Homo sapiens

UniProt P62877

State in the Current Structure

Assembly Physical composition Protein state Molecular copy count Associated components Data consistency
1 Protein heterocomplex Heteromer Protein 16 DNA damage-binding protein 1 × 4 （Q16531） DDB1- and CUL4-associated factor 1 × 4 （Q9Y4B6） Cullin-4A × 4 （Q13619） Consistent with protein count

Other States of the Same Protein in the Database

Monomer
2lgv

1 assemblies

Homodimer

None

Homotetramer

None

Other homooligomers

None

Heteromeric or nucleic-acid complex
1ldj 1ldk 1ldk 1u6g 29hg 29hh 29hi 2hye 3dpl 3dqv 3dqv 3dqv

107 assemblies; showing the first 12

View Construct and Data Evidence
UniProt name RBX1_HUMAN
Isoform —
PDB entities 4
Chains and sequence ranges Author chain D； PDBConstruct 1–116； UniProt 1–108 Author chain H； PDBConstruct 1–116； UniProt 1–108 Author chain L； PDBConstruct 1–116； UniProt 1–108 Author chain P； PDBConstruct 1–116； UniProt 1–108

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_id7okq
Deposition date deposition_date2021-05-18
Structure title titleCryo-EM Structure of the DDB1-DCAF1-CUL4A-RBX1 Complex
Keywords keywordsubiquitin, E3, protein degradation, LIGASE; LIGASE
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.

7okq__assembly_1__model_1

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

Download this curve (.dat)

7okq__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.

7okq__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）98.33 Å
Rg (electron density)97.83 Å
Total Rg97.83 Å
Atom count44608
Residues9028
Excluded volume717740 ų
Maximum q0.500 Å⁻¹
Assembly Model Structure unit Oligomeric description Status CRYSOL Actions
1 1 7okq__assembly_1__model_1 Hexadecameric （16） 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 (4)

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7. Citations (1)