3fn1

X-ray diffraction
2.5Å resolution

E2-RING expansion of the NEDD8 cascade confers specificity to cullin modification.

Released:

Function and Biology Details

Reactions catalysed:
ATP + [NEDD8 protein] + [E1 NEDD8-activating enzyme]-L-cysteine = AMP + diphosphate + [E1 NEDD8-activating enzyme]-S-[NEDD8 protein]-yl-L-cysteine
S-[NEDD8-protein]-yl-[E2 NEDD8-conjugating enzyme]-L-cysteine + [cullin]-L-lysine = [E2 NEDD8-conjugating enzyme]-L-cysteine + N(6)-[NEDD8-protein]-yl-[cullin]-L-lysine
Biochemical function:
Biological process:
Cellular component:
  • not assigned

Structure analysis Details

Assembly composition:
hetero dimer (preferred)
PDBe Complex ID:
PDB-CPX-186175 (preferred)
Entry contents:
2 distinct polypeptide molecules
Macromolecules (2 distinct):
NEDD8-activating enzyme E1 catalytic subunit Chain: A
Molecule details ›
Chain: A
Length: 98 amino acids
Theoretical weight: 10.86 KDa
Source organism: Homo sapiens
Expression system: Escherichia coli
UniProt:
  • Canonical: Q8TBC4 (Residues: 368-463; Coverage: 21%)
Gene names: UBA3, UBE1C
Sequence domains: E2 binding domain
Structure domains: Ubiquitin-like 2 activating enzyme e1b. Chain: B, domain 3
NEDD8-conjugating enzyme UBE2F Chain: B
Molecule details ›
Chain: B
Length: 167 amino acids
Theoretical weight: 19.1 KDa
Source organism: Homo sapiens
Expression system: Escherichia coli
UniProt:
  • Canonical: Q969M7 (Residues: 21-185; Coverage: 89%)
Gene names: NCE2, UBE2F
Sequence domains: Ubiquitin-conjugating enzyme
Structure domains: Ubiquitin Conjugating Enzyme

Ligands and Environments

No bound ligands
1 modified residue:

Experiments and Validation Details

Entry percentile scores
X-ray source: APS BEAMLINE 24-ID-E
Spacegroup: P6422
Unit cell:
a: 81.171Å b: 81.171Å c: 212.755Å
α: 90° β: 90° γ: 120°
R-values:
R R work R free
0.226 0.224 0.265
Expression system: Escherichia coli