› 5udh

X-ray diffraction
3.24Å resolution

HHARI/ARIH1-UBCH7~Ubiquitin

Released:
DOI: 10.2210/pdb5udh/pdb
PDB entry 5udh coloured by chain, front view.
PDB entry 5udh coloured by chain, side view.
PDB entry 5udh coloured by chain, top view.
Source organism: Homo sapiens
Primary publication:
Structural Studies of HHARI/UbcH7∼Ub Reveal Unique E2∼Ub Conformational Restriction by RBR RING1.
Dove KK, Olszewski JL, Martino L, Duda DM, Wu XS, Miller DJ, Reiter KH, Rittinger K, Schulman BA, Klevit RE
Structure 25 890-900.e5 (2017)
PMID: 28552575

Function and Biology Details

Reactions catalysed: 
(1a) [E2 ubiquitin-conjugating enzyme]-S-ubiquitinyl-L-cysteine + [RBR-type E3 ubiquitin transferase]-L-cysteine = [E2 ubiquitin-conjugating enzyme]-L-cysteine + [RBR-type E3 ubiquitin transferase]-S-ubiquitinyl-L-cysteine
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

Assemblies composition:
hetero trimer (preferred)
hetero dimer
PDBe Complex ID:
PDB-CPX-143369 (preferred)
Entry contents:
3 distinct polypeptide molecules
Macromolecules (3 distinct):
E3 ubiquitin-protein ligase ARIH1 Chains: A, B
Molecule details ›
Chains: A, B
Length: 470 amino acids
Theoretical weight: 55.65 KDa
Source organism: Homo sapiens
Expression system: Escherichia coli-Pichia pastoris shuttle vector pPpARG4
UniProt:
  • Canonical: Q9Y4X5 (Residues: 90-557; Coverage: 84%)
Gene names: ARI, ARIH1, HUSSY-27, MOP6, UBCH7BP
Sequence domains:
Structure domains: Four Helix Bundle (Hemerythrin (Met), subunit A)
Ubiquitin-conjugating enzyme E2 L3 Chains: C, D
Molecule details ›
Chains: C, D
Length: 156 amino acids
Theoretical weight: 18.06 KDa
Source organism: Homo sapiens
Expression system: Escherichia coli-Pichia pastoris shuttle vector pPpARG4
UniProt:
  • Canonical: P68036 (Residues: 1-154; Coverage: 100%)
Gene names: UBCE7, UBCH7, UBE2L3
Sequence domains: Ubiquitin-conjugating enzyme
Structure domains: Ubiquitin Conjugating Enzyme
Ubiquitin Chain: E
Molecule details ›
Chain: E
Length: 82 amino acids
Theoretical weight: 9.41 KDa
Source organism: Homo sapiens
Expression system: Escherichia coli-Pichia pastoris shuttle vector pPpARG4
UniProt:
  • Canonical: P0CG48 (Residues: 609-684; Coverage: 11%)
Gene name: UBC
Sequence domains: Ubiquitin family

Ligands and Environments

1 bound ligand:
Ligand ZN 12 x ZN
No modified residues

Experiments and Validation Details

Entry percentile scores
X-ray source: APS BEAMLINE 24-ID-C
Spacegroup: C2
Unit cell:
a: 184.571Å b: 76.788Å c: 147.724Å
α: 90° β: 107.33° γ: 90°
R-values:
R R work R free
0.225 0.222 0.279
Expression system: Escherichia coli-Pichia pastoris shuttle vector pPpARG4

Quick links

Citations

7 review citations

PROTAC targeted protein degraders: the past is prologue.
Békés et al. (2022)
6 more

9 mentions without citation

RING-Between-RING E3 Ligases: Emerging Themes amid the Variations.
Dove et al. (2017)
8 more