8PM0

Influenza A/H7N9 polymerase in replicase-like conformation in pre-initiation state with Pol II pS5 CTD peptide mimic bound in site 1A/2A


Experimental Data Snapshot

  • Method: ELECTRON MICROSCOPY
  • Resolution: 2.90 Å
  • Aggregation State: PARTICLE 
  • Reconstruction Method: SINGLE PARTICLE 

wwPDB Validation   3D Report Full Report


This is version 1.0 of the entry. See complete history


Literature

The host RNA polymerase II C-terminal domain is the anchor for replication of the influenza virus genome.

Krischuns, T.Arragain, B.Isel, C.Paisant, S.Budt, M.Wolff, T.Cusack, S.Naffakh, N.

(2024) Nat Commun 15: 1064-1064

  • DOI: https://doi.org/10.1038/s41467-024-45205-2
  • Primary Citation of Related Structures:  
    8PM0, 8PNP, 8PNQ, 8POH, 8R3K, 8R3L

  • PubMed Abstract: 

    The current model is that the influenza virus polymerase (FluPol) binds either to host RNA polymerase II (RNAP II) or to the acidic nuclear phosphoprotein 32 (ANP32), which drives its conformation and activity towards transcription or replication of the viral genome, respectively. Here, we provide evidence that the FluPol-RNAP II binding interface, beyond its well-acknowledged function in cap-snatching during transcription initiation, has also a pivotal role in replication of the viral genome. Using a combination of cell-based and in vitro approaches, we show that the RNAP II C-terminal-domain, jointly with ANP32, enhances FluPol replication activity. We observe successive conformational changes to switch from a transcriptase to a replicase conformation in the presence of the bound RNPAII C-terminal domain and propose a model in which the host RNAP II is the anchor for transcription and replication of the viral genome. Our data open new perspectives on the spatial coupling of viral transcription and replication and the coordinated balance between these two activities.


  • Organizational Affiliation

    Institut Pasteur, Université Paris Cité, CNRS UMR 3569, RNA Biology of Influenza Virus, Paris, France. tim.krischuns@pasteur.fr.


Macromolecules

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Entity ID: 1
MoleculeChains Sequence LengthOrganismDetailsImage
Polymerase acidic protein729Influenza A virus (A/Zhejiang/DTID-ZJU01/2013(H7N9))Mutation(s): 2 
Gene Names: PA
UniProt
Find proteins for M9TI86 (Influenza A virus)
Explore M9TI86 
Go to UniProtKB:  M9TI86
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UniProt GroupM9TI86
Sequence Annotations
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  • Reference Sequence
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Entity ID: 2
MoleculeChains Sequence LengthOrganismDetailsImage
RNA-directed RNA polymerase catalytic subunit757Influenza A virus (A/Zhejiang/DTID-ZJU01/2013(H7N9))Mutation(s): 0 
Gene Names: PB1
EC: 2.7.7.48
UniProt
Find proteins for M9TLW3 (Influenza A virus)
Explore M9TLW3 
Go to UniProtKB:  M9TLW3
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UniProt GroupM9TLW3
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  • Reference Sequence
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Entity ID: 3
MoleculeChains Sequence LengthOrganismDetailsImage
Polymerase basic protein 2788Influenza A virus (A/Zhejiang/DTID-ZJU01/2013(H7N9))Mutation(s): 1 
Gene Names: PB2
UniProt
Find proteins for X5F427 (Influenza A virus)
Explore X5F427 
Go to UniProtKB:  X5F427
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UniProt GroupX5F427
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  • Reference Sequence
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Entity ID: 5
MoleculeChains Sequence LengthOrganismDetailsImage
RNA Pol II CTD 6 repeats (site 1A/2A)E [auth P],
F [auth G]
42Homo sapiensMutation(s): 0 
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  • Reference Sequence
Find similar nucleic acids by:  (by identity cutoff)  |  3D Structure
Entity ID: 4
MoleculeChains LengthOrganismImage
51-mer vRNA loop (v51_mut_S)D [auth V]51Influenza A virus (A/Zhejiang/DTID-ZJU01/2013(H7N9))
Sequence Annotations
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  • Reference Sequence
Small Molecules
Ligands 1 Unique
IDChains Name / Formula / InChI Key2D Diagram3D Interactions
MG (Subject of Investigation/LOI)
Query on MG

Download Ideal Coordinates CCD File 
G [auth B]MAGNESIUM ION
Mg
JLVVSXFLKOJNIY-UHFFFAOYSA-N
Modified Residues  1 Unique
IDChains TypeFormula2D DiagramParent
SEP
Query on SEP
E [auth P],
F [auth G]
L-PEPTIDE LINKINGC3 H8 N O6 PSER
Experimental Data & Validation

Experimental Data

  • Method: ELECTRON MICROSCOPY
  • Resolution: 2.90 Å
  • Aggregation State: PARTICLE 
  • Reconstruction Method: SINGLE PARTICLE 
EM Software:
TaskSoftware PackageVersion
MODEL REFINEMENTPHENIX
RECONSTRUCTIONRELION4.0

Structure Validation

View Full Validation Report



Entry History & Funding Information

Deposition Data


Funding OrganizationLocationGrant Number
Agence Nationale de la Recherche (ANR)FranceANR-18-CE11-0028

Revision History  (Full details and data files)

  • Version 1.0: 2024-02-21
    Type: Initial release