6QCT

Influenza B polymerase elongation complex


Experimental Data Snapshot

  • Method: ELECTRON MICROSCOPY
  • Resolution: 3.2 Å
  • Aggregation State: PARTICLE 
  • Reconstruction Method: SINGLE PARTICLE 

wwPDB Validation 3D Report Full Report


This is version 1.2 of the entry. See complete history

Literature

Structural snapshots of actively transcribing influenza polymerase.

Kouba, T.Drncova, P.Cusack, S.

(2019) Nat.Struct.Mol.Biol. 26: 460-470

  • DOI: 10.1038/s41594-019-0232-z
  • Primary Citation of Related Structures:  

  • PubMed Abstract: 
  • Influenza virus RNA-dependent RNA polymerase uses unique mechanisms to transcribe its single-stranded genomic viral RNA (vRNA) into messenger RNA. The polymerase is initially bound to a promoter comprising the partially base-paired 3' and 5' extremit ...

    Influenza virus RNA-dependent RNA polymerase uses unique mechanisms to transcribe its single-stranded genomic viral RNA (vRNA) into messenger RNA. The polymerase is initially bound to a promoter comprising the partially base-paired 3' and 5' extremities of the RNA. A short, capped primer, 'cap-snatched' from a nascent host polymerase II transcript, is directed towards the polymerase active site to initiate RNA synthesis. Here we present structural snapshots, as determined by X-ray crystallography and cryo-electron microscopy, of actively initiating influenza polymerase as it transitions towards processive elongation. Unexpected conformational changes unblock the active site cavity to allow establishment of a nine-base-pair template-product RNA duplex before the strands separate into distinct exit channels. Concomitantly, as the template translocates, the promoter base pairs are broken and the template entry region is remodeled. These structures reveal details of the influenza polymerase active site that will help optimize nucleoside analogs or other compounds that directly inhibit viral RNA synthesis.


    Organizational Affiliation

    European Molecular Biology Laboratory, Grenoble, France. cusack@embl.fr.,European Molecular Biology Laboratory, Grenoble, France.




Macromolecules

Find similar proteins by: Sequence  |  Structure


Entity ID: 1
MoleculeChainsSequence LengthOrganismDetails
Polymerase acidic protein
A
751Influenza B virusMutation(s): 0 
Gene Names: PA
EC: 3.1.-.-
Find proteins for U3RL19 (Influenza B virus)
Go to UniProtKB:  U3RL19
Entity ID: 2
MoleculeChainsSequence LengthOrganismDetails
RNA-directed RNA polymerase catalytic subunit
B
772Influenza B virusMutation(s): 0 
Gene Names: PB1
EC: 2.7.7.48
Find proteins for Q5V8Y6 (Influenza B virus)
Go to UniProtKB:  Q5V8Y6
Entity ID: 3
MoleculeChainsSequence LengthOrganismDetails
Polymerase basic protein 2
C
798Influenza B virusMutation(s): 0 
Gene Names: PB2
Find proteins for U3RSD4 (Influenza B virus)
Go to UniProtKB:  U3RSD4
Entity ID: 4
MoleculeChainsLengthOrganism
5 endV14Influenza B virus
Entity ID: 5
MoleculeChainsLengthOrganism
3 endR21Influenza B virus
Entity ID: 6
MoleculeChainsLengthOrganism
capped RNAM20Influenza B virus
Small Molecules
Ligands 1 Unique
IDChainsName / Formula / InChI Key2D Diagram3D Interactions
MG
Query on MG

Download SDF File 
Download CCD File 
A, B
MAGNESIUM ION
Mg
JLVVSXFLKOJNIY-UHFFFAOYSA-N
 Ligand Interaction
Modified Residues  1 Unique
IDChainsTypeFormula2D DiagramParent
GTG
Query on GTG
M
NON-POLYMERC21 H30 N10 O18 P3

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Experimental Data & Validation

Experimental Data

  • Method: ELECTRON MICROSCOPY
  • Resolution: 3.2 Å
  • Aggregation State: PARTICLE 
  • Reconstruction Method: SINGLE PARTICLE 
Software Package:
Software NamePurpose
PHENIXrefinement

Structure Validation

View Full Validation Report or Ramachandran Plots



Entry History 

Deposition Data

  • Deposited Date: 2018-12-30 
  • Released Date: 2019-06-05 
  • Deposition Author(s): Cusack, S., Kouba, T.

Revision History 

  • Version 1.0: 2019-06-05
    Type: Initial release
  • Version 1.1: 2019-06-12
    Type: Data collection, Database references
  • Version 1.2: 2019-06-19
    Type: Data collection, Database references