› 5ypb

X-ray diffraction
2.9Å resolution

p62/SQSTM1 ZZ domain with His-peptide

Released:
DOI: 10.2210/pdb5ypb/pdb
PDB entry 5ypb coloured by chain, front view.
PDB entry 5ypb coloured by chain, side view.
PDB entry 5ypb coloured by chain, top view.
Source organism: Homo sapiens
Primary publication:
Insights into degradation mechanism of N-end rule substrates by p62/SQSTM1 autophagy adapter.
Kwon DH, Park OH, Kim L, Jung YO, Park Y, Jeong H, Hyun J, Kim YK, Song HK
Nat Commun 9 3291 (2018)
PMID: 30120248

Function and Biology Details

Reaction catalysed: 
ATP + H(2)O = ADP + phosphate
Biochemical function:
Biological process:
  • not assigned
Cellular component:
  • not assigned
Sequence domains:

Structure analysis Details

Assembly composition:
monomeric (preferred)
Assembly name:
PDBe Complex ID:
PDB-CPX-145632 (preferred)
Entry contents:
1 distinct polypeptide molecule
Macromolecule:
Endoplasmic reticulum chaperone BiP; Sequestosome-1 Chains: A, B, C, D
Molecule details ›
Chains: A, B, C, D
Length: 60 amino acids
Theoretical weight: 6.49 KDa
Source organism: Homo sapiens
Expression system: Escherichia coli BL21(DE3)
UniProt:
  • Canonical: P11021 (Residues: 19-22; Coverage: 1%)
  • Canonical: Q13501 (Residues: 126-180; Coverage: 13%)
Gene names: GRP78, HSPA5, ORCA, OSIL, SQSTM1
Sequence domains: Zinc finger, ZZ type

Ligands and Environments

1 bound ligand:
Ligand ZN 8 x ZN
No modified residues

Experiments and Validation Details

Entry percentile scores
X-ray source: PAL/PLS BEAMLINE 5C (4A)
Spacegroup: I23
Unit cell:
a: 113.981Å b: 113.981Å c: 113.981Å
α: 90° β: 90° γ: 90°
R-values:
R R work R free
0.254 0.25 0.287
Expression system: Escherichia coli BL21(DE3)

Quick links

Citations

9 review citations

Selective Autophagy Receptor p62/SQSTM1, a Pivotal Player in Stress and Aging.
Kumar et al. (2022)
8 more

2 mentions without citation

Insights into degradation mechanism of N-end rule substrates by p62/SQSTM1 autophagy adapter.
Kwon et al. (2018)
1 more