7QY5

Crystal structure of the S.pombe Ars2-Red1 complex.


Experimental Data Snapshot

  • Method: X-RAY DIFFRACTION
  • Resolution: 2.77 Å
  • R-Value Free: 0.298 
  • R-Value Work: 0.228 
  • R-Value Observed: 0.231 

wwPDB Validation   3D Report Full Report


This is version 1.0 of the entry. See complete history


Literature

Structural analysis of Red1 as a conserved scaffold of the RNA-targeting MTREC/PAXT complex.

Foucher, A.E.Touat-Todeschini, L.Juarez-Martinez, A.B.Rakitch, A.Laroussi, H.Karczewski, C.Acajjaoui, S.Soler-Lopez, M.Cusack, S.Mackereth, C.D.Verdel, A.Kadlec, J.

(2022) Nat Commun 13: 4969-4969

  • DOI: https://doi.org/10.1038/s41467-022-32542-3
  • Primary Citation of Related Structures:  
    7QUU, 7QY5

  • PubMed Abstract: 

    To eliminate specific or aberrant transcripts, eukaryotes use nuclear RNA-targeting complexes that deliver them to the exosome for degradation. S. pombe MTREC, and its human counterpart PAXT, are key players in this mechanism but inner workings of these complexes are not understood in sufficient detail. Here, we present an NMR structure of an MTREC scaffold protein Red1 helix-turn-helix domain bound to the Iss10 N-terminus and show this interaction is required for proper cellular growth and meiotic mRNA degradation. We also report a crystal structure of a Red1-Ars2 complex explaining mutually exclusive interactions of hARS2 with various ED/EGEI/L motif-possessing RNA regulators, including hZFC3H1 of PAXT, hFLASH or hNCBP3. Finally, we show that both Red1 and hZFC3H1 homo-dimerize via their coiled-coil regions indicating that MTREC and PAXT likely function as dimers. Our results, combining structures of three Red1 interfaces with in vivo studies, provide mechanistic insights into conserved features of MTREC/PAXT architecture.


  • Organizational Affiliation

    Univ. Grenoble Alpes, CNRS, CEA, IBS, F-38000, Grenoble, France.


Macromolecules
Find similar proteins by:  (by identity cutoff)  |  3D Structure
Entity ID: 1
MoleculeChains Sequence LengthOrganismDetailsImage
NURS complex subunit pir2A,
B [auth C]
120Schizosaccharomyces pombeMutation(s): 0 
Gene Names: pir2ars2SPBC725.08
UniProt
Find proteins for O94326 (Schizosaccharomyces pombe (strain 972 / ATCC 24843))
Explore O94326 
Go to UniProtKB:  O94326
Entity Groups  
Sequence Clusters30% Identity50% Identity70% Identity90% Identity95% Identity100% Identity
UniProt GroupO94326
Sequence Annotations
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  • Reference Sequence

Find similar proteins by:  Sequence   |   3D Structure  

Entity ID: 2
MoleculeChains Sequence LengthOrganismDetailsImage
RNA elimination defective protein Red1C [auth F],
D [auth G]
21Schizosaccharomyces pombeMutation(s): 0 
UniProt
Find proteins for Q9UTR8 (Schizosaccharomyces pombe (strain 972 / ATCC 24843))
Explore Q9UTR8 
Go to UniProtKB:  Q9UTR8
Entity Groups  
Sequence Clusters30% Identity50% Identity70% Identity90% Identity95% Identity100% Identity
UniProt GroupQ9UTR8
Sequence Annotations
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  • Reference Sequence
Find similar proteins by:  (by identity cutoff)  |  3D Structure
Entity ID: 3
MoleculeChains Sequence LengthOrganismDetailsImage
NURS complex subunit pir2E [auth B],
F [auth D]
338Schizosaccharomyces pombeMutation(s): 0 
Gene Names: pir2ars2SPBC725.08
UniProt
Find proteins for O94326 (Schizosaccharomyces pombe (strain 972 / ATCC 24843))
Explore O94326 
Go to UniProtKB:  O94326
Entity Groups  
Sequence Clusters30% Identity50% Identity70% Identity90% Identity95% Identity100% Identity
UniProt GroupO94326
Sequence Annotations
Expand
  • Reference Sequence
Experimental Data & Validation

Experimental Data

  • Method: X-RAY DIFFRACTION
  • Resolution: 2.77 Å
  • R-Value Free: 0.298 
  • R-Value Work: 0.228 
  • R-Value Observed: 0.231 
  • Space Group: P 1 21 1
Unit Cell:
Length ( Å )Angle ( ˚ )
a = 64.67α = 90
b = 128.281β = 108.08
c = 89.261γ = 90
Software Package:
Software NamePurpose
REFMACrefinement
Aimlessdata scaling
PDB_EXTRACTdata extraction
autoPROCdata reduction
PHASERphasing

Structure Validation

View Full Validation Report



Entry History & Funding Information

Deposition Data


Funding OrganizationLocationGrant Number
Agence Nationale de la Recherche (ANR)FranceANR-21-CE11-0021-01

Revision History  (Full details and data files)

  • Version 1.0: 2022-11-16
    Type: Initial release