6QWL

Influenza B virus (B/Panama/45) polymerase Hetermotrimer in complex with 3'5' cRNA promoter


Experimental Data Snapshot

  • Method: ELECTRON MICROSCOPY
  • Resolution: 4.10 Å
  • Aggregation State: PARTICLE 
  • Reconstruction Method: SINGLE PARTICLE 

wwPDB Validation 3D Report Full Report


This is version 1.4 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
  • Structures With Same Primary Citation

  • 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: Sequence  |  Structure

Entity ID: 1
MoleculeChainsSequence LengthOrganismDetails
Polymerase acidic protein
E
726Influenza B virus (B/Panama/45/1990)Mutation(s): 0 
Gene Names: PA
EC: 3.1
Find proteins for O36432 (Influenza B virus (strain B/Panama/45/1990))
Go to UniProtKB:  O36432

Find similar proteins by: Sequence  |  Structure

Entity ID: 2
MoleculeChainsSequence LengthOrganismDetails
RNA-directed RNA polymerase catalytic subunit
K
752Influenza B virus (B/Panama/45/1990)Mutation(s): 0 
Gene Names: PB1
EC: 2.7.7.48
Find proteins for O36430 (Influenza B virus (strain B/Panama/45/1990))
Go to UniProtKB:  O36430

Find similar proteins by: Sequence  |  Structure

Entity ID: 3
MoleculeChainsSequence LengthOrganismDetails
Polymerase basic protein 2
Q
778Influenza B virus (B/Panama/45/1990)Mutation(s): 0 
Gene Names: PB2
Find proteins for O36431 (Influenza B virus (strain B/Panama/45/1990))
Go to UniProtKB:  O36431
  • Find similar nucleic acids by: Sequence   |   Structure
Entity ID: 4
MoleculeChainsLengthOrganism
3' cRNAT15Influenza A virus
  • Find similar nucleic acids by: Sequence   |   Structure
Entity ID: 5
MoleculeChainsLengthOrganism
5' cRNAW14Influenza A virus
Experimental Data & Validation

Experimental Data

  • Method: ELECTRON MICROSCOPY
  • Resolution: 4.10 Å
  • Aggregation State: PARTICLE 
  • Reconstruction Method: SINGLE PARTICLE 

Structure Validation

View Full Validation Report



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: 2019-09-18
    Changes: Data collection, Database references
  • Version 1.2: 2019-09-25
    Changes: Data collection, Database references
  • Version 1.3: 2019-11-06
    Changes: Data collection, Refinement description
  • Version 1.4: 2019-12-18
    Changes: Other