6Q8I | pdb_00006q8i

Nterminal domain of human SMU1 in complex with human REDmid


Experimental Data Snapshot

  • Method: X-RAY DIFFRACTION
  • Resolution: 3.17 Å
  • R-Value Free: 
    0.277 (Depositor), 0.327 (DCC) 
  • R-Value Work: 
    0.256 (Depositor), 0.299 (DCC) 
  • R-Value Observed: 
    0.257 (Depositor) 

Starting Model: experimental
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wwPDB Validation 3D Report Full Report

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This is version 1.2 of the entry. See complete history

Literature

Destabilization of the human RED-SMU1 splicing complex as a basis for host-directed antiinfluenza strategy.

Ashraf, U.Tengo, L.Le Corre, L.Fournier, G.Busca, P.McCarthy, A.A.Rameix-Welti, M.A.Gravier-Pelletier, C.Ruigrok, R.W.H.Jacob, Y.Vidalain, P.O.Pietrancosta, N.Crepin, T.Naffakh, N.

(2019) Proc Natl Acad Sci U S A 116: 10968-10977

  • DOI: https://doi.org/10.1073/pnas.1901214116
  • Primary Citation Related Structures: 
    6Q8F, 6Q8I, 6Q8J

  • PubMed Abstract: 

    New therapeutic strategies targeting influenza are actively sought due to limitations in current drugs available. Host-directed therapy is an emerging concept to target host functions involved in pathogen life cycles and/or pathogenesis, rather than pathogen components themselves. From this perspective, we focused on an essential host partner of influenza viruses, the RED-SMU1 splicing complex. Here, we identified two synthetic molecules targeting an α-helix/groove interface essential for RED-SMU1 complex assembly. We solved the structure of the SMU1 N-terminal domain in complex with RED or bound to one of the molecules identified to disrupt this complex. We show that these compounds inhibiting RED-SMU1 interaction also decrease endogenous RED-SMU1 levels and inhibit viral mRNA splicing and viral multiplication, while preserving cell viability. Overall, our data demonstrate the potential of RED-SMU1 destabilizing molecules as an antiviral therapy that could be active against a wide range of influenza viruses and be less prone to drug resistance.


  • Organizational Affiliation
    • Unité de Génétique Moléculaire des Virus à ARN, Département de Virologie, Institut Pasteur, 75015 Paris, France.

Macromolecule Content 

  • Total Structure Weight: 986.94 kDa 
  • Atom Count: 13,701 
  • Modeled Residue Count: 1,774 
  • Deposited Residue Count: 8,568 
  • Unique protein chains: 3

Macromolecules

Find similar proteins by:|  3D Structure
Entity ID: 1
MoleculeChains  Sequence LengthOrganismDetailsImage
WD40 repeat-containing protein SMU1
A, B, E, F, I
A, B, E, F, I, J, M, N
514Homo sapiensMutation(s): 0 
Gene Names: SMU1
UniProt & NIH Common Fund Data Resources
Find proteins for Q2TAY7 (Homo sapiens)
Explore Q2TAY7 
Go to UniProtKB:  Q2TAY7
PHAROS:  Q2TAY7
GTEx:  ENSG00000122692 
Entity Groups
Sequence Clusters30% Identity50% Identity70% Identity90% Identity95% Identity100% Identity
UniProt GroupQ2TAY7
Sequence Annotations
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Reference Sequence
Find similar proteins by:|  3D Structure
Entity ID: 2
MoleculeChains  Sequence LengthOrganismDetailsImage
Protein Red
C, D, G, H, L
C, D, G, H, L, O, P
557Homo sapiensMutation(s): 0 
Gene Names: IKREDRER
UniProt & NIH Common Fund Data Resources
Find proteins for Q13123 (Homo sapiens)
Explore Q13123 
Go to UniProtKB:  Q13123
PHAROS:  Q13123
GTEx:  ENSG00000113141 
Entity Groups
Sequence Clusters30% Identity50% Identity70% Identity90% Identity95% Identity100% Identity
UniProt GroupQ13123
Sequence Annotations
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Reference Sequence
Find similar proteins by:|  3D Structure
Entity ID: 3
MoleculeChains  Sequence LengthOrganismDetailsImage
Protein Red557Homo sapiensMutation(s): 0 
Gene Names: IKREDRER
UniProt & NIH Common Fund Data Resources
Find proteins for Q13123 (Homo sapiens)
Explore Q13123 
Go to UniProtKB:  Q13123
PHAROS:  Q13123
GTEx:  ENSG00000113141 
Entity Groups
Sequence Clusters30% Identity50% Identity70% Identity90% Identity95% Identity100% Identity
UniProt GroupQ13123
Sequence Annotations
Expand
Reference Sequence

Experimental Data & Validation

Experimental Data

  • Method: X-RAY DIFFRACTION
  • Resolution: 3.17 Å
  • R-Value Free:  0.277 (Depositor), 0.327 (DCC) 
  • R-Value Work:  0.256 (Depositor), 0.299 (DCC) 
  • R-Value Observed: 0.257 (Depositor) 
Space Group: P 1 21 1
Unit Cell:
Length ( Å )Angle ( ˚ )
a = 127.983α = 90
b = 68.163β = 109.4
c = 145.296γ = 90
Software Package:
Software NamePurpose
BUSTERrefinement
XDSdata reduction
XSCALEdata scaling
MOLREPphasing

Structure Validation

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Entry History 

Revision History  (Full details and data files)

  • Version 1.0: 2019-05-22
    Type: Initial release
  • Version 1.1: 2019-06-12
    Changes: Data collection, Database references
  • Version 1.2: 2024-01-24
    Changes: Data collection, Database references, Refinement description