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4orh

Crystal structure of RNF8 bound to the UBC13/MMS2 heterodimer

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

Ubiquitin-conjugating enzyme E2 variant 2

Homo sapiens

UniProt Q15819

State in the Current Structure

Assembly Physical composition Protein state Molecular copy count Associated components Data consistency
1 Protein heterocomplex Heteromer Protein 4 Ubiquitin-conjugating enzyme E2 N × 1 （P61088） E3 ubiquitin-protein ligase RNF8 × 2 （O76064） ZINC ION × 4 Consistent with protein count
2 Protein heterocomplex Heteromer Protein 4 Ubiquitin-conjugating enzyme E2 N × 1 （P61088） E3 ubiquitin-protein ligase RNF8 × 2 （O76064） ZINC ION × 4 Consistent with protein count
3 Protein heterocomplex Heteromer Protein 3 Ubiquitin-conjugating enzyme E2 N × 1 （P61088） E3 ubiquitin-protein ligase RNF8 × 1 （O76064） ZINC ION × 2 Consistent with protein count

Other States of the Same Protein in the Database

Monomer
1j74 8wr5

2 assemblies

Homodimer
8wr5

1 assemblies

Homotetramer

None

Other homooligomers

None

Heteromeric or nucleic-acid complex
1j7d 1zgu 3von 3von 3von 3von 3von 3von 3von 3von 3von 3von

36 assemblies; showing the first 12

View Construct and Data Evidence
UniProt name UB2V2_HUMAN
Isoform —
PDB entities 1
Chains and sequence ranges Author chain A； PDBConstruct 9–153； UniProt 1–145 Author chain E； PDBConstruct 9–153； UniProt 1–145 Author chain I； PDBConstruct 9–153； UniProt 1–145

Ubiquitin-conjugating enzyme E2 N

Homo sapiens

UniProt P61088

State in the Current Structure

Assembly Physical composition Protein state Molecular copy count Associated components Data consistency
1 Protein heterocomplex Heteromer Protein 4 Ubiquitin-conjugating enzyme E2 variant 2 × 1 （Q15819） E3 ubiquitin-protein ligase RNF8 × 2 （O76064） ZINC ION × 4 Consistent with protein count
2 Protein heterocomplex Heteromer Protein 4 Ubiquitin-conjugating enzyme E2 variant 2 × 1 （Q15819） E3 ubiquitin-protein ligase RNF8 × 2 （O76064） ZINC ION × 4 Consistent with protein count
3 Protein heterocomplex Heteromer Protein 3 Ubiquitin-conjugating enzyme E2 variant 2 × 1 （Q15819） E3 ubiquitin-protein ligase RNF8 × 1 （O76064） ZINC ION × 2 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
1j7d 2c2v 2c2v 3hct 3hcu 3hcu 3von 3von 3von 3von 3von 3von

74 assemblies; showing the first 12

View Construct and Data Evidence
UniProt name UBE2N_HUMAN
Isoform —
PDB entities 2
Chains and sequence ranges Author chain B； PDBConstruct 9–160； UniProt 1–152 Author chain F； PDBConstruct 9–160； UniProt 1–152 Author chain J； PDBConstruct 9–160； UniProt 1–152

E3 ubiquitin-protein ligase RNF8

Homo sapiens

UniProt O76064

State in the Current Structure

Assembly Physical composition Protein state Molecular copy count Associated components Data consistency
1 Protein heterocomplex Heteromer Protein 4 Ubiquitin-conjugating enzyme E2 variant 2 × 1 （Q15819） Ubiquitin-conjugating enzyme E2 N × 1 （P61088） ZINC ION × 4 Consistent with protein count
2 Protein heterocomplex Heteromer Protein 4 Ubiquitin-conjugating enzyme E2 variant 2 × 1 （Q15819） Ubiquitin-conjugating enzyme E2 N × 1 （P61088） ZINC ION × 4 Consistent with protein count
3 Protein heterocomplex Heteromer Protein 3 Ubiquitin-conjugating enzyme E2 variant 2 × 1 （Q15819） Ubiquitin-conjugating enzyme E2 N × 1 （P61088） ZINC ION × 2 Consistent with protein count

Other States of the Same Protein in the Database

Monomer
2csw

1 assemblies

Homodimer

None

Homotetramer
4ayc

1 assemblies

Other homooligomers

None

Heteromeric or nucleic-acid complex
2pie 4orh 4orh 4orh 4whv 4whv

6 assemblies

View Construct and Data Evidence
UniProt name RNF8_HUMAN
Isoform —
PDB entities 3
Chains and sequence ranges Author chain C； PDBConstruct 9–149； UniProt 345–485 Author chain G； PDBConstruct 9–149； UniProt 345–485 Author chain H； PDBConstruct 9–149； UniProt 345–485 Author chain K； PDBConstruct 9–149； UniProt 345–485 Author chain L； PDBConstruct 9–149； UniProt 345–485

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_id4orh
Deposition date deposition_date2014-02-11
Structure title titleCrystal structure of RNF8 bound to the UBC13/MMS2 heterodimer
Keywords keywordsCOILED-COIL, E3 UBIQUITIN LIGASE, UBIQUITIN, PROTEIN BINDING-LIGASE, PROTEIN BINDING-LIGASE complex; PROTEIN BINDING/LIGASE
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.

4orh__assembly_1__model_1

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

Download this curve (.dat)

4orh__assembly_1__model_1 | I(q)

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

4orh__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）36.56 Å
Rg (electron density)36.38 Å
Total Rg35.93 Å
Atom count4211
Residues567
Excluded volume74575 ų
Maximum q0.500 Å⁻¹
Assembly Model Structure unit Oligomeric description Status CRYSOL Actions
1 1 4orh__assembly_1__model_1 tetrameric （4） Success 4.1.3-1-20251215 (887e7ef) View Download
2 1 4orh__assembly_2__model_1 tetrameric （4） Success 4.1.3-1-20251215 (887e7ef) View Download
3 1 4orh__assembly_3__model_1 trimeric （3） 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)