6QX3

Influenza A virus (A/NT/60/1968) polymerase Hetermotrimer in complex with 3'5' cRNA promoter and Nb8205

Experimental Data Snapshot

  • Method: ELECTRON MICROSCOPY
  • Resolution: 3.79 Å
  • Aggregation State: PARTICLE 
  • Reconstruction Method: SINGLE PARTICLE 

wwPDB Validation   3D Report Full Report


This is version 2.1 of the entry. See complete history. 


Literature

Structures of influenza A virus RNA polymerase offer insight into viral genome replication.

Fan, H., Walker, A.P., Carrique, L., Keown, J.R., Serna Martin, I., Karia, D., Sharps, J., Hengrung, N., Pardon, E., Steyaert, J., Grimes, J.M., Fodor, E.

(2019) Nature 573: 287-290

  • DOI: 10.1038/s41586-019-1530-7
  • Primary Citation of Related Structures:  
    6QX8, 6QWL, 6QX3, 6QXE, 6RR7, 6QNW, 6QPF, 6QPG

  • PubMed Abstract: 

    • Influenza A viruses are responsible for seasonal epidemics, and pandemics can arise from the transmission of novel zoonotic influenza A viruses to humans 1,2 . Influenza A viruses contain a segmented negative-sense RNA genome, which is tra ...

    Influenza A viruses are responsible for seasonal epidemics, and pandemics can arise from the transmission of novel zoonotic influenza A viruses to humans 1,2 . Influenza A viruses contain a segmented negative-sense RNA genome, which is transcribed and replicated by the viral-RNA-dependent RNA polymerase (FluPol A ) composed of PB1, PB2 and PA subunits 3-5 . Although the high-resolution crystal structure of FluPol A of bat influenza A virus has previously been reported 6 , there are no complete structures available for human and avian FluPol A . Furthermore, the molecular mechanisms of genomic viral RNA (vRNA) replication-which proceeds through a complementary RNA (cRNA) replicative intermediate, and requires oligomerization of the polymerase 7-10 -remain largely unknown. Here, using crystallography and cryo-electron microscopy, we determine the structures of FluPol A from human influenza A/NT/60/1968 (H3N2) and avian influenza A/duck/Fujian/01/2002 (H5N1) viruses at a resolution of 3.0-4.3 Å, in the presence or absence of a cRNA or vRNA template. In solution, FluPol A forms dimers of heterotrimers through the C-terminal domain of the PA subunit, the thumb subdomain of PB1 and the N1 subdomain of PB2. The cryo-electron microscopy structure of monomeric FluPol A bound to the cRNA template reveals a binding site for the 3' cRNA at the dimer interface. We use a combination of cell-based and in vitro assays to show that the interface of the FluPol A dimer is required for vRNA synthesis during replication of the viral genome. We also show that a nanobody (a single-domain antibody) that interferes with FluPol A dimerization inhibits the synthesis of vRNA and, consequently, inhibits virus replication in infected cells. Our study provides high-resolution structures of medically relevant FluPol A , as well as insights into the replication mechanisms of the viral RNA genome. In addition, our work identifies sites in FluPol A that could be targeted in the development of antiviral drugs.

    Organizational Affiliation: 

    Sir William Dunn School of Pathology, University of Oxford, Oxford, UK. ervin.fodor@path.ox.ac.uk.



Macromolecules

Find similar proteins by: 
(by identity cutoff)  |  Structure
Entity ID: 3
MoleculeChainsSequence LengthOrganismDetailsImage
Nb8205O134Lama glamaMutation(s): 0 
Protein Feature View
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  • Reference Sequence
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(by identity cutoff)  |  Structure
Entity ID: 4
MoleculeChainsSequence LengthOrganismDetailsImage
RNA-directed RNA polymerase catalytic subunitB757Influenza A virus (A/Hong Kong/1/1968(H3N2))Mutation(s): 0 
Gene Names: PB1
EC: 2.7.7.48
Find proteins for Q910D6 (Influenza A virus (strain A/Hong Kong/1/1968 H3N2))
Explore Q910D6 
Go to UniProtKB:  Q910D6
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  • Reference Sequence
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Entity ID: 5
MoleculeChainsSequence LengthOrganismDetailsImage
Polymerase acidic proteinA716Influenza A virus (A/nt/60/1968(H3N2))Mutation(s): 0 
Gene Names: PA
EC: 3.1
Find proteins for P03434 (Influenza A virus (strain A/Northern Territory/60/1968 H3N2))
Explore P03434 
Go to UniProtKB:  P03434
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Entity ID: 6
MoleculeChainsSequence LengthOrganismDetailsImage
Polymerase basic protein 2C762Influenza A virus (A/nt/60/1968(H3N2))Mutation(s): 0 
Gene Names: PB2
Find proteins for P03429 (Influenza A virus (strain A/Northern Territory/60/1968 H3N2))
Explore P03429 
Go to UniProtKB:  P03429
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  • Reference Sequence
  • Find similar nucleic acids by:  Sequence   |   Structure
    • Entity ID: 1
    MoleculeChainsLengthOrganismImage
    RNA (5'-R(P*AP*GP*CP*AP*AP*AP*AP*GP*CP*A)-3')D15Influenza A virus (A/nt/60/1968(H3N2))
    • Find similar nucleic acids by:  Sequence   |   Structure
      • Entity ID: 2
      MoleculeChainsLengthOrganismImage
      RNA (5'-R(P*UP*UP*CP*U)-3')G15Influenza A virus (A/nt/60/1968(H3N2))
      Experimental Data & Validation

      Experimental Data

      • Method: ELECTRON MICROSCOPY
      • Resolution: 3.79 Å
      • Aggregation State: PARTICLE 
      • Reconstruction Method: SINGLE PARTICLE 

      Structure Validation

      View Full Validation Report


      View more in-depth experimental data

      Entry History & Funding Information

      Deposition Data

      Funding OrganizationLocationGrant Number
      Wellcome TrustUnited Kingdom200835/Z/16/Z
      Medical Research Council (United Kingdom)United KingdomMR/R009945/1
      Medical Research Council (United Kingdom)United KingdomMR/K000241/1

      Revision History 

      • Version 1.0: 2019-09-04
        Type: Initial release
      • Version 1.1: 2019-09-11
        Changes: Data collection, Other
      • Version 1.2: 2019-09-18
        Changes: Data collection, Database references
      • Version 1.3: 2019-09-25
        Changes: Data collection, Database references
      • Version 1.4: 2019-11-06
        Changes: Data collection, Refinement description
      • Version 2.0: 2019-12-18
        Changes: Other, Polymer sequence
      • Version 2.1: 2020-11-18
        Changes: Data collection