7Q72

Structure of Pla1 in complex with Red1


Experimental Data Snapshot

  • Method: X-RAY DIFFRACTION
  • Resolution: 2.80 Å
  • R-Value Free: 0.283 
  • R-Value Work: 0.241 
  • R-Value Observed: 0.245 

wwPDB Validation   3D Report Full Report


This is version 1.2 of the entry. See complete history


Literature

Mechanistic insights into RNA surveillance by the canonical poly(A) polymerase Pla1 of the MTREC complex.

Soni, K.Sivadas, A.Horvath, A.Dobrev, N.Hayashi, R.Kiss, L.Simon, B.Wild, K.Sinning, I.Fischer, T.

(2023) Nat Commun 14: 772-772

  • DOI: https://doi.org/10.1038/s41467-023-36402-6
  • Primary Citation of Related Structures:  
    7Q72, 7Q73, 7Q74

  • PubMed Abstract: 

    The S. pombe orthologue of the human PAXT connection, Mtl1-Red1 Core (MTREC), is an eleven-subunit complex that targets cryptic unstable transcripts (CUTs) to the nuclear RNA exosome for degradation. It encompasses the canonical poly(A) polymerase Pla1, responsible for polyadenylation of nascent RNA transcripts as part of the cleavage and polyadenylation factor (CPF/CPSF). In this study we identify and characterise the interaction between Pla1 and the MTREC complex core component Red1 and analyse the functional relevance of this interaction in vivo. Our crystal structure of the Pla1-Red1 complex shows that a 58-residue fragment in Red1 binds to the RNA recognition motif domain of Pla1 and tethers it to the MTREC complex. Structure-based Pla1-Red1 interaction mutations show that Pla1, as part of MTREC complex, hyper-adenylates CUTs for their efficient degradation. Interestingly, the Red1-Pla1 interaction is also required for the efficient assembly of the fission yeast facultative heterochromatic islands. Together, our data suggest a complex interplay between the RNA surveillance and 3'-end processing machineries.


  • Organizational Affiliation

    Heidelberg University Biochemistry Center (BZH), INF 328, D-69120, Heidelberg, Germany.


Macromolecules
Find similar proteins by:  (by identity cutoff)  |  3D Structure
Entity ID: 1
MoleculeChains Sequence LengthOrganismDetailsImage
Poly(A) polymerase pla1A,
C [auth B]
575Schizosaccharomyces pombe 972h-Mutation(s): 0 
Gene Names: pla1SPBC646.04
EC: 2.7.7.19
UniProt
Find proteins for Q10295 (Schizosaccharomyces pombe (strain 972 / ATCC 24843))
Explore Q10295 
Go to UniProtKB:  Q10295
Entity Groups  
Sequence Clusters30% Identity50% Identity70% Identity90% Identity95% Identity100% Identity
UniProt GroupQ10295
Sequence Annotations
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  • Reference Sequence
Find similar proteins by:  (by identity cutoff)  |  3D Structure
Entity ID: 2
MoleculeChains Sequence LengthOrganismDetailsImage
NURS complex subunit red1B [auth C],
D
70Schizosaccharomyces pombe 972h-Mutation(s): 0 
Gene Names: red1iss3SPAC1006.03c
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
Experimental Data & Validation

Experimental Data

  • Method: X-RAY DIFFRACTION
  • Resolution: 2.80 Å
  • R-Value Free: 0.283 
  • R-Value Work: 0.241 
  • R-Value Observed: 0.245 
  • Space Group: P 21 21 2
Unit Cell:
Length ( Å )Angle ( ˚ )
a = 128.644α = 90
b = 151.337β = 90
c = 65.408γ = 90
Software Package:
Software NamePurpose
PHENIXrefinement
STARANISOdata scaling
XDSdata scaling
XDSdata reduction
PHASERphasing
PDB_EXTRACTdata extraction

Structure Validation

View Full Validation Report



Entry History & Funding Information

Deposition Data


Funding OrganizationLocationGrant Number
German Research Foundation (DFG)Germany--

Revision History  (Full details and data files)

  • Version 1.0: 2022-12-07
    Type: Initial release
  • Version 1.1: 2023-04-05
    Changes: Database references
  • Version 1.2: 2024-05-01
    Changes: Data collection, Refinement description