6F5P

A mechanism for the activation of the influenza virus transcriptase


Experimental Data Snapshot

  • Method: X-RAY DIFFRACTION
  • Resolution: 4.14 Å
  • R-Value Free: 0.296 
  • R-Value Work: 0.260 
  • R-Value Observed: 0.262 

wwPDB Validation   3D Report Full Report


This is version 1.0 of the entry. See complete history


Literature

A Mechanism for the Activation of the Influenza Virus Transcriptase.

Serna Martin, I.Hengrung, N.Renner, M.Sharps, J.Martinez-Alonso, M.Masiulis, S.Grimes, J.M.Fodor, E.

(2018) Mol Cell 70: 1101-1110.e4

  • DOI: 10.1016/j.molcel.2018.05.011
  • Primary Citation of Related Structures:  
    6F5P, 6F5O

  • PubMed Abstract: 
  • Influenza virus RNA polymerase (FluPol), a heterotrimer composed of PB1, PB2, and PA subunits (P3 in influenza C), performs both transcription and replication of the viral RNA genome. For transcription, FluPol interacts with the C-terminal domain (CTD) of RNA polymerase II (Pol II), which enables FluPol to snatch capped RNA primers from nascent host RNAs ...

    Influenza virus RNA polymerase (FluPol), a heterotrimer composed of PB1, PB2, and PA subunits (P3 in influenza C), performs both transcription and replication of the viral RNA genome. For transcription, FluPol interacts with the C-terminal domain (CTD) of RNA polymerase II (Pol II), which enables FluPol to snatch capped RNA primers from nascent host RNAs. Here, we describe the co-crystal structure of influenza C virus polymerase (FluPol C ) bound to a Ser5-phosphorylated CTD (pS 5 -CTD) peptide. The position of the CTD-binding site at the interface of PB1, P3, and the flexible PB2 C-terminal domains suggests that CTD binding stabilizes the transcription-competent conformation of FluPol. In agreement, both cap snatching and capped primer-dependent transcription initiation by FluPol C are enhanced in the presence of pS 5 -CTD. Mutations of amino acids in the CTD-binding site reduce viral mRNA synthesis. We propose a model for the activation of the influenza virus transcriptase through its association with pS 5 -CTD of Pol II.


    Organizational Affiliation

    Sir William Dunn School of Pathology, University of Oxford, South Parks Road, Oxford OX1 3RE, UK. Electronic address: ervin.fodor@path.ox.ac.uk.



Macromolecules
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Entity ID: 1
MoleculeChainsSequence LengthOrganismDetailsImage
Polymerase acidic proteinA, B [auth D]709Influenza C virus (C/Johannesburg/1/66)Mutation(s): 0 
Gene Names: PAP3
EC: 3.1
Find proteins for Q9IMP5 (Influenza C virus (strain C/Johannesburg/1/1966))
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Go to UniProtKB:  Q9IMP5
Protein Feature View
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  • Reference Sequence
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Entity ID: 2
MoleculeChainsSequence LengthOrganismDetailsImage
RNA-directed RNA polymerase catalytic subunitC [auth B], D [auth C]754Influenza C virus (C/Johannesburg/1/66)Mutation(s): 0 
Gene Names: PB1
EC: 2.7.7.48
Find proteins for Q9IMP4 (Influenza C virus (strain C/Johannesburg/1/1966))
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Go to UniProtKB:  Q9IMP4
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  • Reference Sequence
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Entity ID: 3
MoleculeChainsSequence LengthOrganismDetailsImage
Polymerase basic protein 2E, F774Influenza C virus (C/Johannesburg/1/66)Mutation(s): 0 
Gene Names: PB2
Find proteins for Q9IMP3 (Influenza C virus (strain C/Johannesburg/1/1966))
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Go to UniProtKB:  Q9IMP3
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Entity ID: 4
MoleculeChainsSequence LengthOrganismDetailsImage
DNA-directed RNA polymerase subunitG28Fopius arisanusMutation(s): 0 
Gene Names: RpII215_0g.45518
EC: 2.7.7.6 (PDB Primary Data), 2.7.7.48 (UniProt)
Find proteins for P24928 (Homo sapiens)
Explore P24928 
Go to UniProtKB:  P24928
NIH Common Fund Data Resources
PHAROS:  P24928
Protein Feature View
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Entity ID: 5
MoleculeChainsSequence LengthOrganismDetailsImage
ALA-ALA-ALA-ALA-ALA-ALA-ALA-ALA-ALA-ALAH10Homo sapiensMutation(s): 0 
Protein Feature View
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  • Reference Sequence
Small Molecules
Modified Residues  1 Unique
IDChainsTypeFormula2D DiagramParent
SEP
Query on SEP
GL-PEPTIDE LINKINGC3 H8 N O6 PSER
Experimental Data & Validation

Experimental Data

  • Method: X-RAY DIFFRACTION
  • Resolution: 4.14 Å
  • R-Value Free: 0.296 
  • R-Value Work: 0.260 
  • R-Value Observed: 0.262 
  • Space Group: P 43 21 2
Unit Cell:
Length ( Å )Angle ( ˚ )
a = 185.7α = 90
b = 185.7β = 90
c = 597.59γ = 90
Software Package:
Software NamePurpose
PHENIXrefinement
xia2data reduction
xia2data scaling
PHENIXphasing

Structure Validation

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Entry History & Funding Information

Deposition Data


Funding OrganizationLocationGrant Number
Medical Research Council (United Kingdom)United KingdomMR/K000241/1
Wellcome TrustUnited Kingdom200835/Z/16/Z
Wellcome TrustUnited Kingdom092931/Z/10/Z

Revision History  (Full details and data files)

  • Version 1.0: 2018-09-19
    Type: Initial release