2MP2

Solution structure of SUMO dimer in complex with SIM2-3 from RNF4


Experimental Data Snapshot

  • Method: SOLUTION NMR
  • Conformers Calculated: 60 
  • Conformers Submitted: 10 
  • Selection Criteria: structures with the lowest energy 

wwPDB Validation   3D Report Full Report


This is version 1.1 of the entry. See complete history


Literature

Structural insight into SUMO chain recognition and manipulation by the ubiquitin ligase RNF4.

Xu, Y.Plechanovova, A.Simpson, P.Marchant, J.Leidecker, O.Kraatz, S.Hay, R.T.Matthews, S.J.

(2014) Nat Commun 5: 4217-4217

  • DOI: https://doi.org/10.1038/ncomms5217
  • Primary Citation of Related Structures:  
    2MP2

  • PubMed Abstract: 

    The small ubiquitin-like modifier (SUMO) can form polymeric chains that are important signals in cellular processes such as meiosis, genome maintenance and stress response. The SUMO-targeted ubiquitin ligase RNF4 engages with SUMO chains on linked substrates and catalyses their ubiquitination, which targets substrates for proteasomal degradation. Here we use a segmental labelling approach combined with solution nuclear magnetic resonance (NMR) spectroscopy and biochemical characterization to reveal how RNF4 manipulates the conformation of the SUMO chain, thereby facilitating optimal delivery of the distal SUMO domain for ubiquitin transfer.


  • Organizational Affiliation

    1] Centre for Structural Biology, Department of Life Sciences, Imperial College London, South Kensington, London SW7 2AZ, UK [2].


Macromolecules
Find similar proteins by:  (by identity cutoff)  |  3D Structure
Entity ID: 1
MoleculeChains Sequence LengthOrganismDetailsImage
Small ubiquitin-related modifier 382Homo sapiensMutation(s): 0 
Gene Names: SMT3BSMT3H1SUMO3
UniProt & NIH Common Fund Data Resources
Find proteins for P55854 (Homo sapiens)
Explore P55854 
Go to UniProtKB:  P55854
PHAROS:  P55854
GTEx:  ENSG00000184900 
Entity Groups  
Sequence Clusters30% Identity50% Identity70% Identity90% Identity95% Identity100% Identity
UniProt GroupP55854
Sequence Annotations
Expand
  • Reference Sequence
Find similar proteins by:  (by identity cutoff)  |  3D Structure
Entity ID: 2
MoleculeChains Sequence LengthOrganismDetailsImage
Small ubiquitin-related modifier 390Homo sapiensMutation(s): 0 
Gene Names: SMT3BSMT3H1SUMO3
UniProt & NIH Common Fund Data Resources
Find proteins for P55854 (Homo sapiens)
Explore P55854 
Go to UniProtKB:  P55854
PHAROS:  P55854
GTEx:  ENSG00000184900 
Entity Groups  
Sequence Clusters30% Identity50% Identity70% Identity90% Identity95% Identity100% Identity
UniProt GroupP55854
Sequence Annotations
Expand
  • Reference Sequence

Find similar proteins by:  Sequence   |   3D Structure  

Entity ID: 3
MoleculeChains Sequence LengthOrganismDetailsImage
E3 ubiquitin-protein ligase RNF425Mus musculusMutation(s): 0 
UniProt & NIH Common Fund Data Resources
Find proteins for Q9QZS2 (Mus musculus)
Explore Q9QZS2 
Go to UniProtKB:  Q9QZS2
IMPC:  MGI:1201691
Entity Groups  
Sequence Clusters30% Identity50% Identity70% Identity90% Identity95% Identity100% Identity
UniProt GroupQ9QZS2
Sequence Annotations
Expand
  • Reference Sequence
Experimental Data & Validation

Experimental Data

  • Method: SOLUTION NMR
  • Conformers Calculated: 60 
  • Conformers Submitted: 10 
  • Selection Criteria: structures with the lowest energy 

Structure Validation

View Full Validation Report



Entry History 

Deposition Data

Revision History  (Full details and data files)

  • Version 1.0: 2014-07-02
    Type: Initial release
  • Version 1.1: 2014-07-09
    Changes: Database references