› 3a1q

X-ray diffraction
2.2Å resolution

Crystal structure of the mouse RAP80 UIMs in complex with Lys63-linked di-ubiquitin

Released:
DOI: 10.2210/pdb3a1q/pdb
PDB entry 3a1q coloured by chain, front view.
PDB entry 3a1q coloured by chain, side view.
PDB entry 3a1q coloured by chain, top view.
Source organism: Mus musculus
Primary publication:
Structural basis for specific recognition of Lys 63-linked polyubiquitin chains by tandem UIMs of RAP80.
Sato Y, Yoshikawa A, Mimura H, Yamashita M, Yamagata A, Fukai S
EMBO J 28 2461-8 (2009)
PMID: 19536136

Function and Biology Details

Biochemical function:
Biological process:
Cellular component:
Sequence domains:

Structure analysis Details

Assembly composition:
hetero trimer (preferred)
Assembly name:
PDBe Complex ID:
PDB-CPX-143454 (preferred)
Entry contents:
3 distinct polypeptide molecules
Macromolecules (3 distinct):
Ubiquitin Chains: A, D
Molecule details ›
Chains: A, D
Length: 77 amino acids
Theoretical weight: 8.69 KDa
Source organism: Mus musculus
Expression system: Escherichia coli
UniProt:
  • Canonical: P0CG50 (Residues: 609-684; Coverage: 10%)
Gene name: Ubc
Sequence domains: Ubiquitin family
Structure domains: Phosphatidylinositol 3-kinase Catalytic Subunit; Chain A, domain 1
Ubiquitin Chains: B, E
Molecule details ›
Chains: B, E
Length: 76 amino acids
Theoretical weight: 8.6 KDa
Source organism: Mus musculus
Expression system: Escherichia coli
UniProt:
  • Canonical: P0CG50 (Residues: 609-684; Coverage: 10%)
Gene name: Ubc
Sequence domains: Ubiquitin family
Structure domains: Phosphatidylinositol 3-kinase Catalytic Subunit; Chain A, domain 1
BRCA1-A complex subunit RAP80 Chains: C, F
Molecule details ›
Chains: C, F
Length: 45 amino acids
Theoretical weight: 5.08 KDa
Source organism: Mus musculus
Expression system: Escherichia coli
UniProt:
  • Canonical: Q5U5Q9 (Residues: 80-120; Coverage: 6%)
Gene names: Rap80, Rip110, Rxrip110, Uimc1
Sequence domains: RAP80 N-terminal ubiquitin interaction motif

Ligands and Environments

No bound ligands
No modified residues

Experiments and Validation Details

Entry percentile scores
X-ray source: SPRING-8 BEAMLINE BL41XU
Spacegroup: P212121
Unit cell:
a: 65.235Å b: 74.81Å c: 83.031Å
α: 90° β: 90° γ: 90°
R-values:
R R work R free
0.216 0.216 0.268
Expression system: Escherichia coli

Quick links

Citations

41 review citations

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

23 mentions without citation

Versatile roles of k63-linked ubiquitin chains in trafficking.
Erpapazoglou et al. (2014)
22 more