6TU5

Influenza A/H7N9 polymerase core (apo)


Experimental Data Snapshot

  • Method: X-RAY DIFFRACTION
  • Resolution: 3.33 Å
  • R-Value Free: 0.268 
  • R-Value Work: 0.204 

wwPDB Validation   3D Report Full Report


This is version 1.3 of the entry. See complete history


Literature

A Structure-Based Model for the Complete Transcription Cycle of Influenza Polymerase.

Wandzik, J.M.Kouba, T.Karuppasamy, M.Pflug, A.Drncova, P.Provaznik, J.Azevedo, N.Cusack, S.

(2020) Cell 181: 877

  • DOI: https://doi.org/10.1016/j.cell.2020.03.061
  • Primary Citation of Related Structures:  
    6SZU, 6SZV, 6T0N, 6T0R, 6T0S, 6T0U, 6T0V, 6T0W, 6T2C, 6TU5, 6TW1

  • PubMed Abstract: 

    Influenza polymerase uses unique mechanisms to synthesize capped and polyadenylated mRNAs from the genomic viral RNA (vRNA) template, which is packaged inside ribonucleoprotein particles (vRNPs). Here, we visualize by cryoelectron microscopy the conformational dynamics of the polymerase during the complete transcription cycle from pre-initiation to termination, focusing on the template trajectory. After exiting the active site cavity, the template 3' extremity rebinds into a specific site on the polymerase surface. Here, it remains sequestered during all subsequent transcription steps, forcing the template to loop out as it further translocates. At termination, the strained connection between the bound template 5' end and the active site results in polyadenylation by stuttering at uridine 17. Upon product dissociation, further conformational changes release the trapped template, allowing recycling back into the pre-initiation state. Influenza polymerase thus performs transcription while tightly binding to and protecting both template ends, allowing efficient production of multiple mRNAs from a single vRNP.


  • Organizational Affiliation

    European Molecular Biology Laboratory, 71 Avenue des Martyrs, CS 90181, 38042 Grenoble Cedex 9, France.


Macromolecules
Find similar proteins by:  (by identity cutoff)  |  3D Structure
Entity ID: 1
MoleculeChains Sequence LengthOrganismDetailsImage
Polymerase acidic proteinA [auth AAA],
D [auth DDD]
517Influenza A virus (A/Zhejiang/DTID-ZJU01/2013(H7N9))Mutation(s): 0 
Gene Names: PA
EC: 3.1
UniProt
Find proteins for M9TI86 (Influenza A virus)
Explore M9TI86 
Go to UniProtKB:  M9TI86
Entity Groups  
Sequence Clusters30% Identity50% Identity70% Identity90% Identity95% Identity100% Identity
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 subunitB [auth BBB],
E [auth EEE]
757Influenza 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
Entity Groups  
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UniProt GroupM9TLW3
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  • Reference Sequence
Find similar proteins by:  (by identity cutoff)  |  3D Structure
Entity ID: 3
MoleculeChains Sequence LengthOrganismDetailsImage
Polymerase basic protein 2C [auth CCC],
F [auth FFF]
137Influenza A virus (A/Zhejiang/DTID-ZJU01/2013(H7N9))Mutation(s): 0 
Gene Names: PB2
UniProt
Find proteins for X5F427 (Influenza A virus)
Explore X5F427 
Go to UniProtKB:  X5F427
Entity Groups  
Sequence Clusters30% Identity50% Identity70% Identity90% Identity95% Identity100% Identity
UniProt GroupX5F427
Sequence Annotations
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  • Reference Sequence
Experimental Data & Validation

Experimental Data

  • Method: X-RAY DIFFRACTION
  • Resolution: 3.33 Å
  • R-Value Free: 0.268 
  • R-Value Work: 0.204 
  • Space Group: P 21 21 21
Unit Cell:
Length ( Å )Angle ( ˚ )
a = 75.512α = 90
b = 143.173β = 90
c = 335.372γ = 90
Software Package:
Software NamePurpose
REFMACrefinement
XDSdata reduction
autoPROCdata scaling
MOLREPphasing

Structure Validation

View Full Validation Report



Entry History & Funding Information

Deposition Data


Funding OrganizationLocationGrant Number
European Research Council (ERC)France322586

Revision History  (Full details and data files)

  • Version 1.0: 2020-04-15
    Type: Initial release
  • Version 1.1: 2020-04-29
    Changes: Database references
  • Version 1.2: 2020-05-27
    Changes: Database references
  • Version 1.3: 2024-01-24
    Changes: Data collection, Database references, Derived calculations, Refinement description