› 5ljm

X-ray diffraction
1.45Å resolution

Structure of SPATA2 PUB domain

Released:
DOI: 10.2210/pdb5ljm/pdb
PDB entry 5ljm coloured by chain, front view.
PDB entry 5ljm coloured by chain, side view.
PDB entry 5ljm coloured by chain, top view.
Source organism: Homo sapiens
Primary publication:
SPATA2 Links CYLD to LUBAC, Activates CYLD, and Controls LUBAC Signaling.
Elliott PR, Leske D, Hrdinka M, Bagola K, Fiil BK, McLaughlin SH, Wagstaff J, Volkmar N, Christianson JC, Kessler BM, Freund SM, Komander D, Gyrd-Hansen M
Mol Cell 63 990-1005 (2016)
PMID: 27591049

Function and Biology Details

Biochemical function:
  • not assigned
Biological process:
  • not assigned
Cellular component:
  • not assigned

Structure analysis Details

Assembly composition:
monomeric (preferred)
Assembly name:
PDBe Complex ID:
PDB-CPX-193964 (preferred)
Entry contents:
1 distinct polypeptide molecule
Macromolecule:
Spermatogenesis-associated protein 2 Chain: A
Molecule details ›
Chain: A
Length: 215 amino acids
Theoretical weight: 24.85 KDa
Source organism: Homo sapiens
Expression system: Escherichia coli BL21(DE3)
UniProt:
  • Canonical: Q9UM82 (Residues: 7-219; Coverage: 41%)
Gene names: KIAA0757, PD1, SPATA2
Sequence domains: Spermatogenesis-associated protein 2, PUB-like domain
Structure domains: Methane Monooxygenase Hydroxylase; Chain G, domain 1

Ligands and Environments

1 bound ligand:
Ligand GOL 2 x GOL
No modified residues

Experiments and Validation Details

Entry percentile scores
X-ray source: DIAMOND BEAMLINE I02
Spacegroup: P21
Unit cell:
a: 43.48Å b: 51.14Å c: 56.29Å
α: 90° β: 105.97° γ: 90°
R-values:
R R work R free
0.184 0.182 0.225
Expression system: Escherichia coli BL21(DE3)

Quick links

Citations

47 review citations

Breaking the chains: deubiquitylating enzyme specificity begets function.
Clague et al. (2019)
46 more

1 mention without citation

Structure of the PUB Domain from Ubiquitin Regulatory X Domain Protein 1 (UBXD1) and Its Interaction with the p97 AAA+ ATPase.
Blueggel et al. (2019)