7UN6

Complex of UBE2O with NAP1L1

  • Classification: CYTOSOLIC PROTEIN
  • Organism(s): Homo sapiens
  • Expression System: Homo sapiens
  • Mutation(s): No 

  • Deposited: 2022-04-09 Released: 2022-08-03 
  • Deposition Author(s): Yip, M.C.J., Sedor, S.F., Shao, S.
  • Funding Organization(s): National Institutes of Health/National Institute of General Medical Sciences (NIH/NIGMS), David and Lucile Packard Foundation, Other private, American Heart Association, National Institutes of Health/National Heart, Lung, and Blood Institute (NIH/NHLBI)

Experimental Data Snapshot

  • Method: ELECTRON MICROSCOPY
  • Resolution: 3.30 Å
  • Aggregation State: PARTICLE 
  • Reconstruction Method: SINGLE PARTICLE 

wwPDB Validation   3D Report Full Report


This is version 1.4 of the entry. See complete history


Literature

Mechanism of client selection by the protein quality-control factor UBE2O.

Yip, M.C.J.Sedor, S.F.Shao, S.

(2022) Nat Struct Mol Biol 29: 774-780

  • DOI: https://doi.org/10.1038/s41594-022-00807-6
  • Primary Citation of Related Structures:  
    7UN3, 7UN6

  • PubMed Abstract: 

    The E2/E3 enzyme UBE2O ubiquitylates diverse clients to mediate important processes, including targeting unassembled 'orphan' proteins for quality control and clearing ribosomes during erythropoiesis. How quality-control factors, such as UBE2O, select clients on the basis of heterogeneous features is largely unknown. Here, we show that UBE2O client selection is regulated by ubiquitin binding and a cofactor, NAP1L1. Attaching a single ubiquitin onto a client enhances UBE2O binding and multi-mono-ubiquitylation. UBE2O also repurposes the histone chaperone NAP1L1 as an adapter to recruit a subset of clients. Cryo-EM structures of human UBE2O in complex with NAP1L1 reveal a malleable client recruitment interface that is autoinhibited by the intrinsically reactive UBC domain. Adding a ubiquitylated client identifies a distinct ubiquitin-binding SH3-like domain required for client selection. Our findings reveal how multivalency and a feed-forward mechanism drive the selection of protein quality-control clients.


  • Organizational Affiliation

    Department of Cell Biology, Harvard Medical School, Boston, MA, USA.


Macromolecules
Find similar proteins by:  (by identity cutoff)  |  3D Structure
Entity ID: 1
MoleculeChains Sequence LengthOrganismDetailsImage
(E3-independent) E2 ubiquitin-conjugating enzyme1,342Homo sapiensMutation(s): 0 
Gene Names: UBE2OKIAA1734
EC: 2.3.2.24
UniProt & NIH Common Fund Data Resources
Find proteins for Q9C0C9 (Homo sapiens)
Explore Q9C0C9 
Go to UniProtKB:  Q9C0C9
PHAROS:  Q9C0C9
GTEx:  ENSG00000175931 
Entity Groups  
Sequence Clusters30% Identity50% Identity70% Identity90% Identity95% Identity100% Identity
UniProt GroupQ9C0C9
Sequence Annotations
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  • Reference Sequence
Find similar proteins by:  (by identity cutoff)  |  3D Structure
Entity ID: 2
MoleculeChains Sequence LengthOrganismDetailsImage
Nucleosome assembly protein 1-like 1
B, C
416Homo sapiensMutation(s): 0 
Gene Names: NAP1L1NRP
UniProt & NIH Common Fund Data Resources
Find proteins for P55209 (Homo sapiens)
Explore P55209 
Go to UniProtKB:  P55209
PHAROS:  P55209
GTEx:  ENSG00000187109 
Entity Groups  
Sequence Clusters30% Identity50% Identity70% Identity90% Identity95% Identity100% Identity
UniProt GroupP55209
Sequence Annotations
Expand
  • Reference Sequence
Experimental Data & Validation

Experimental Data

  • Method: ELECTRON MICROSCOPY
  • Resolution: 3.30 Å
  • Aggregation State: PARTICLE 
  • Reconstruction Method: SINGLE PARTICLE 

Structure Validation

View Full Validation Report



Entry History & Funding Information

Deposition Data


Funding OrganizationLocationGrant Number
National Institutes of Health/National Institute of General Medical Sciences (NIH/NIGMS)United StatesDP2GM137415
David and Lucile Packard FoundationUnited States2019-69660
Other privateVallee Foundation
American Heart AssociationUnited States287375208
National Institutes of Health/National Heart, Lung, and Blood Institute (NIH/NHLBI)United StatesF31HL157976

Revision History  (Full details and data files)

  • Version 1.0: 2022-08-03
    Type: Initial release
  • Version 1.1: 2022-08-10
    Changes: Database references
  • Version 1.2: 2022-08-17
    Changes: Database references
  • Version 1.3: 2022-08-24
    Changes: Database references
  • Version 1.4: 2024-02-14
    Changes: Data collection