p62/SQSTM1 ZZ domain with Ile-peptide

Experimental Data Snapshot

  • Resolution: 1.63 Å
  • R-Value Free: 0.187 
  • R-Value Work: 0.147 
  • R-Value Observed: 0.151 

wwPDB Validation   3D Report Full Report

This is version 1.2 of the entry. See complete history


Insights into degradation mechanism of N-end rule substrates by p62/SQSTM1 autophagy adapter.

Kwon, D.H.Park, O.H.Kim, L.Jung, Y.O.Park, Y.Jeong, H.Hyun, J.Kim, Y.K.Song, H.K.

(2018) Nat Commun 9: 3291-3291

  • DOI: https://doi.org/10.1038/s41467-018-05825-x
  • Primary Citation of Related Structures:  
    5YP7, 5YP8, 5YPA, 5YPB, 5YPC, 5YPE, 5YPF, 5YPG, 5YPH

  • PubMed Abstract: 

    p62/SQSTM1 is the key autophagy adapter protein and the hub of multi-cellular signaling. It was recently reported that autophagy and N-end rule pathways are linked via p62. However, the exact recognition mode of degrading substrates and regulation of p62 in the autophagic pathway remain unknown. Here, we present the complex structures between the ZZ-domain of p62 and various type-1 and type-2 N-degrons. The binding mode employed in the interaction of the ZZ-domain with N-degrons differs from that employed by classic N-recognins. It was also determined that oligomerization via the PB1 domain can control functional affinity to the R-BiP substrate. Unexpectedly, we found that self-oligomerization and disassembly of p62 are pH-dependent. These findings broaden our understanding of the functional repertoire of the N-end rule pathway and provide an insight into the regulation of p62 during the autophagic pathway.

  • Organizational Affiliation

    Department of Life Sciences, Korea University, Seoul, 02841, Korea.

Find similar proteins by:  (by identity cutoff)  |  3D Structure
Entity ID: 1
MoleculeChains Sequence LengthOrganismDetailsImage
78 kDa glucose-regulated protein,Sequestosome-1
A, B
60Homo sapiensMutation(s): 0 
UniProt & NIH Common Fund Data Resources
Find proteins for Q13501 (Homo sapiens)
Explore Q13501 
Go to UniProtKB:  Q13501
PHAROS:  Q13501
GTEx:  ENSG00000161011 
Find proteins for P11021 (Homo sapiens)
Explore P11021 
Go to UniProtKB:  P11021
PHAROS:  P11021
GTEx:  ENSG00000044574 
Entity Groups  
Sequence Clusters30% Identity50% Identity70% Identity90% Identity95% Identity100% Identity
UniProt GroupsQ13501P11021
Sequence Annotations
  • Reference Sequence
Experimental Data & Validation

Experimental Data

  • Resolution: 1.63 Å
  • R-Value Free: 0.187 
  • R-Value Work: 0.147 
  • R-Value Observed: 0.151 
  • Space Group: P 1 21 1
Unit Cell:
Length ( Å )Angle ( ˚ )
a = 33.658α = 90
b = 33.381β = 103.61
c = 35.019γ = 90
Software Package:
Software NamePurpose
HKL-2000data reduction
HKL-2000data scaling

Structure Validation

View Full Validation Report

Entry History 

Deposition Data

Revision History  (Full details and data files)

  • Version 1.0: 2018-08-29
    Type: Initial release
  • Version 1.1: 2018-10-03
    Changes: Data collection, Structure summary
  • Version 1.2: 2023-11-22
    Changes: Data collection, Database references, Refinement description