› 4yii

X-ray diffraction
1.8Å resolution

Structure of an APC2-UBCH10 complex reveals distinctive cullin-RING ligase mechanism for Anaphase-promoting complex/Cyclosome

Released:
DOI: 10.2210/pdb4yii/pdb
PDB entry 4yii coloured by chain, front view.
PDB entry 4yii coloured by chain, side view.
PDB entry 4yii coloured by chain, top view.
Source organism: Homo sapiens
Primary publication:
Crystal Structure of E2 Complex
Brown NG, Cho SE, Schulman BA
Proc. Natl. Acad. Sci. U.S.A. (2015)

Function and Biology Details

Reactions 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
(1a) S-ubiquitinyl-[E1 ubiquitin-activating enzyme]-L-cysteine + [(E3-independent) E2 ubiquitin-conjugating enzyme]-L-cysteine = [E1 ubiquitin-activating enzyme]-L-cysteine + S-monoubiquitinyl-[(E3-independent) ubiquitin-conjugating enzyme]-L-cysteine
Biochemical function:
  • not assigned
Biological process:
  • not assigned
Cellular component:
  • not assigned
Sequence domains:

Structure analysis Details

Assembly composition:
hetero dimer (preferred)
Assembly name:
PDBe Complex ID:
PDB-CPX-126387 (preferred)
Entry contents:
2 distinct polypeptide molecules
Macromolecules (2 distinct):
Ubiquitin-conjugating enzyme E2 C Chain: U
Molecule details ›
Chain: U
Length: 155 amino acids
Theoretical weight: 17.36 KDa
Source organism: Homo sapiens
Expression system: Escherichia coli
UniProt:
  • Canonical: O00762 (Residues: 27-179; Coverage: 86%)
Gene names: UBCH10, UBE2C
Sequence domains: Ubiquitin-conjugating enzyme
Structure domains: Ubiquitin Conjugating Enzyme
Anaphase-promoting complex subunit 2 Chain: A
Molecule details ›
Chain: A
Length: 90 amino acids
Theoretical weight: 10.26 KDa
Source organism: Homo sapiens
Expression system: Escherichia coli
UniProt:
  • Canonical: Q9UJX6 (Residues: 735-822; Coverage: 11%)
Gene names: ANAPC2, APC2, KIAA1406
Sequence domains: Anaphase promoting complex (APC) subunit 2
Structure domains: Winged helix-like DNA-binding domain superfamily/Winged helix DNA-binding domain

Ligands and Environments

No bound ligands
No modified residues

Experiments and Validation Details

Entry percentile scores
X-ray source: APS BEAMLINE 24-ID-C
Spacegroup: C2
Unit cell:
a: 133.113Å b: 33.188Å c: 51.963Å
α: 90° β: 100.12° γ: 90°
R-values:
R R work R free
0.198 0.196 0.245
Expression system: Escherichia coli

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