› 3nii

X-ray diffraction
2.1Å resolution

The structure of UBR box (KIAA)

Released:
DOI: 10.2210/pdb3nii/pdb
PDB entry 3nii coloured by chain, front view.
PDB entry 3nii coloured by chain, side view.
PDB entry 3nii coloured by chain, top view.
Source organism: Saccharomyces cerevisiae
Primary publication:
Structural basis for the recognition of N-end rule substrates by the UBR box of ubiquitin ligases.
Choi WS, Jeong BC, Joo YJ, Lee MR, Kim J, Eck MJ, Song HK
Nat Struct Mol Biol 17 1175-81 (2010)
PMID: 20835240

Function and Biology Details

Reaction catalysed: 
S-ubiquitinyl-[E2 ubiquitin-conjugating enzyme]-L-cysteine + [acceptor protein]-L-lysine = [E2 ubiquitin-conjugating enzyme]-L-cysteine + N(6)-ubiquitinyl-[acceptor protein]-L-lysine
Biochemical function:
Biological process:
Cellular component:
  • not assigned
Sequence domains:

Structure analysis Details

Assembly composition:
hetero dimer (preferred)
Assembly name:
PDBe Complex ID:
PDB-CPX-148747 (preferred)
Entry contents:
2 distinct polypeptide molecules
Macromolecules (2 distinct):
E3 ubiquitin-protein ligase UBR1 Chain: A
Molecule details ›
Chain: A
Length: 82 amino acids
Theoretical weight: 9.24 KDa
Source organism: Saccharomyces cerevisiae
Expression system: Escherichia coli BL21(DE3)
UniProt:
  • Canonical: P19812 (Residues: 115-194; Coverage: 4%)
Gene names: G7168, PTR1, UBR1, YGR184C
Sequence domains: Putative zinc finger in N-recognin (UBR box)
Peptide KIAA Chain: B
Molecule details ›
Chain: B
Length: 4 amino acids
Theoretical weight: 403 Da
Source organism: Saccharomyces cerevisiae
Expression system: Not provided

Ligands and Environments

1 bound ligand:
Ligand ZN 3 x ZN
No modified residues

Experiments and Validation Details

Entry percentile scores
X-ray source: PAL/PLS BEAMLINE 4A
Spacegroup: P6122
Unit cell:
a: 58.153Å b: 58.153Å c: 110.856Å
α: 90° β: 90° γ: 120°
R-values:
R R work R free
0.253 0.251 0.282
Expression systems:
  • Escherichia coli BL21(DE3)
  • Not provided

Quick links

Citations

18 review citations

Ubiquitin Ligases: Structure, Function, and Regulation.
Zheng et al. (2017)
17 more

1 mention without citation

The UBR-box and its relationship to binuclear RING-like treble clef zinc fingers.
Kaur et al. (2015)