› 7bbf

X-ray diffraction
2.54Å resolution

Crystal structure of ubiquitin charged Ube2N (Ube2N~Ub) in complex with Ube2V2

Released:
DOI: 10.2210/pdb7bbf/pdb
PDB entry 7bbf coloured by chain, front view.
PDB entry 7bbf coloured by chain, side view.
PDB entry 7bbf coloured by chain, top view.
Source organism: Homo sapiens
Primary publication:
RING domains act as both substrate and enzyme in a catalytic arrangement to drive self-anchored ubiquitination.
Kiss L, Clift D, Renner N, Neuhaus D, James LC
Nat Commun 12 1220 (2021)
PMID: 33619271

Function and Biology Details

Reaction catalysed: 
S-ubiquitinyl-[E1 ubiquitin-activating enzyme]-L-cysteine + [E2 ubiquitin-conjugating enzyme]-L-cysteine = [E1 ubiquitin-activating enzyme]-L-cysteine + S-ubiquitinyl-[E2 ubiquitin-conjugating enzyme]-L-cysteine
Biochemical function:
Biological process:
Cellular component:
Sequence domains:

Structure analysis Details

Assembly composition:
hetero nonamer (preferred)
PDBe Complex ID:
PDB-CPX-143447 (preferred)
Entry contents:
3 distinct polypeptide molecules
Macromolecules (3 distinct):
Ubiquitin-conjugating enzyme E2 variant 2 Chains: B, E, H
Molecule details ›
Chains: B, E, H
Length: 150 amino acids
Theoretical weight: 16.93 KDa
Source organism: Homo sapiens
Expression system: Escherichia coli BL21(DE3)
UniProt:
  • Canonical: Q15819 (Residues: 1-145; Coverage: 100%)
Gene names: MMS2, UBE2V2, UEV2
Sequence domains: Ubiquitin-conjugating enzyme
Ubiquitin-conjugating enzyme E2 N Chains: A, D, G
Molecule details ›
Chains: A, D, G
Length: 153 amino acids
Theoretical weight: 17.18 KDa
Source organism: Homo sapiens
Expression system: Escherichia coli BL21(DE3)
UniProt:
  • Canonical: P61088 (Residues: 1-152; Coverage: 100%)
Gene names: BLU, UBE2N
Sequence domains: Ubiquitin-conjugating enzyme
Ubiquitin Chains: C, F, I
Molecule details ›
Chains: C, F, I
Length: 76 amino acids
Theoretical weight: 8.58 KDa
Source organism: Homo sapiens
Expression system: Escherichia coli BL21(DE3)
UniProt:
  • Canonical: P0CG48 (Residues: 609-684; Coverage: 11%)
Gene name: UBC
Sequence domains: Ubiquitin family

Ligands and Environments

No bound ligands
No modified residues

Experiments and Validation Details

Entry percentile scores
X-ray source: DIAMOND BEAMLINE I03
Spacegroup: P32
Unit cell:
a: 145.84Å b: 145.84Å c: 49.23Å
α: 90° β: 90° γ: 120°
R-values:
R R work R free
0.208 0.206 0.253
Expression system: Escherichia coli BL21(DE3)

Quick links

Citations

2 review citations

TRIM21/Ro52 - Roles in Innate Immunity and Autoimmune Disease.
Jones et al. (2021)
1 more

1 mention without citation

RING domains act as both substrate and enzyme in a catalytic arrangement to drive self-anchored ubiquitination.
Kiss et al. (2021)