› 2jf5

X-ray diffraction
1.95Å resolution

crystal structure of Lys63-linked di-ubiquitin

Released:
DOI: 10.2210/pdb2jf5/pdb
PDB entry 2jf5 coloured by chain, front view.
PDB entry 2jf5 coloured by chain, side view.
PDB entry 2jf5 coloured by chain, top view.
Source organism: Homo sapiens
Primary publication:
Molecular discrimination of structurally equivalent Lys 63-linked and linear polyubiquitin chains.
Komander D, Reyes-Turcu F, Licchesi JD, Odenwaelder P, Wilkinson KD, Barford D
EMBO Rep 10 466-73 (2009)
PMID: 19373254

Function and Biology Details

Biochemical function:
  • not assigned
Biological process:
  • not assigned
Cellular component:
  • not assigned
Sequence domains:
Structure domain:

Structure analysis Details

Assembly composition:
homo dimer (preferred)
Assembly name:
PDBe Complex ID:
PDB-CPX-143418 (preferred)
Entry contents:
1 distinct polypeptide molecule
Macromolecule:
Ubiquitin Chains: A, B
Molecule details ›
Chains: A, B
Length: 76 amino acids
Theoretical weight: 8.58 KDa
Source organism: Homo sapiens
Expression system: Escherichia coli
UniProt:
  • Canonical: P0CG48 (Residues: 609-684; Coverage: 11%)
Gene name: UBC
Sequence domains: Ubiquitin family
Structure domains: Phosphatidylinositol 3-kinase Catalytic Subunit; Chain A, domain 1

Ligands and Environments

4 bound ligands:
Ligand CD 2 x CD
Ligand MG 1 x MG
Ligand CO 2 x CO
Ligand CL 1 x CL
No modified residues

Experiments and Validation Details

Entry percentile scores
X-ray source: ESRF BEAMLINE ID23-2
Spacegroup: P4332
Unit cell:
a: 105.021Å b: 105.021Å c: 105.021Å
α: 90° β: 90° γ: 90°
R-values:
R R work R free
0.208 0.206 0.25
Expression system: Escherichia coli

Quick links

Citations

140 review citations

The ubiquitin code.
Komander et al. (2012)
139 more

37 mentions without citation

Ubiquitin-binding domains - from structures to functions.
Dikic et al. (2009)
36 more