3J9B

Electron cryo-microscopy of an RNA polymerase


Experimental Data Snapshot

  • Method: ELECTRON MICROSCOPY
  • Resolution: 4.30 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

Cryo-EM Structure of Influenza Virus RNA Polymerase Complex at 4.3 angstrom Resolution.

Chang, S.Sun, D.Liang, H.Wang, J.Li, J.Guo, L.Wang, X.Guan, C.Boruah, B.M.Yuan, L.Feng, F.Yang, M.Wang, L.Wang, Y.Wojdyla, J.Li, L.Wang, J.Wang, M.Cheng, G.Wang, H.W.Liu, Y.

(2015) Mol Cell 

  • DOI: 10.1016/j.molcel.2014.12.031
  • Primary Citation of Related Structures:  
    3J9B

  • PubMed Abstract: 
  • Replication and transcription of influenza virus genome mainly depend on its RNA-dependent RNA polymerase (RdRP), composed of the PA, PB1, and PB2 subunits. Although extensively studied, the underlying mechanism of the RdRP complex is still unclear. Here we report the biochemical characterization of influenza RdRP subcomplex comprising PA, PB1, and N terminus of PB2, which exist as dimer in solution and can assemble into a tetramer state, regulated by vRNA promoter ...

    Replication and transcription of influenza virus genome mainly depend on its RNA-dependent RNA polymerase (RdRP), composed of the PA, PB1, and PB2 subunits. Although extensively studied, the underlying mechanism of the RdRP complex is still unclear. Here we report the biochemical characterization of influenza RdRP subcomplex comprising PA, PB1, and N terminus of PB2, which exist as dimer in solution and can assemble into a tetramer state, regulated by vRNA promoter. Using single-particle cryo-electron microscopy, we have reconstructed the RdRP tetramer complex at 4.3 Å, highlighting the assembly and interfaces between monomers within the tetrameric structure. The individual RdRP subcomplex contains all the characterized motifs and appears as a cage-like structure. High-throughput mutagenesis profiling revealed that residues involved in the oligomer state formation are critical for viral life cycle. Our results lay a solid base for understanding the mechanism of replication of influenza and other negative-stranded RNA viruses.


    Organizational Affiliation

    National Key Laboratory of Biomacromolecules, University of Chinese Academy of Sciences, Institute of Biophysics, Chinese Academy of Sciences,Beijing, China 100101; The State Key Laboratory for DTID, First Affiliated Hospital, College of Medicine, Zhejiang University; Collaborative Innovation Center for DTID, 79 Qingchun Road, Hangzhou 310003, China. Electronic address: liuy@ibp.ac.cn.



Macromolecules

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Entity ID: 1
MoleculeChainsSequence LengthOrganismDetailsImage
PolymeraseA, D [auth H]509Influenza A virus (A/goose/Guangdong/3/1997(H5N1))Mutation(s): 0 
Gene Names: PA
EC: 3.1
UniProt
Find proteins for Q91R78 (Influenza A virus)
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Entity ID: 2
MoleculeChainsSequence LengthOrganismDetailsImage
RNA-directed RNA polymerase catalytic subunitB, E [auth I]440Influenza A virus (A/goose/Guangdong/1/1996(H5N1))Mutation(s): 0 
Gene Names: PB1
EC: 2.7.7.48
UniProt
Find proteins for Q9Q0V0 (Influenza A virus (strain A/Goose/Guangdong/1/1996 H5N1 genotype Gs/Gd))
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Go to UniProtKB:  Q9Q0V0
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Entity ID: 3
MoleculeChainsSequence LengthOrganismDetailsImage
Polymerase basic protein 2C, F [auth J]66Influenza A virus (A/goose/Guangdong/1/1996(H5N1))Mutation(s): 0 
Gene Names: PB2
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  • Entity ID: 4
    MoleculeChainsLengthOrganismImage
    RNA (5'-R(P*AP*AP*AP*AP*AP*A)-3')G [auth D], I [auth K]6synthetic construct
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    • Entity ID: 5
      MoleculeChainsLengthOrganismImage
      RNA (5'-R(*UP*UP*UP*UP*UP*A)-3')H [auth E]6synthetic construct
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      • Entity ID: 6
        MoleculeChainsLengthOrganismImage
        RNA (5'-R(P*UP*UP*UP*UP*UP*U)-3')J [auth L]6synthetic construct
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        Experimental Data & Validation

        Experimental Data

        • Method: ELECTRON MICROSCOPY
        • Resolution: 4.30 Å
        • Aggregation State: PARTICLE 
        • Reconstruction Method: SINGLE PARTICLE 

        Structure Validation

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        Entry History 

        Deposition Data

        Revision History  (Full details and data files)

        • Version 1.0: 2015-02-18
          Type: Initial release
        • Version 1.1: 2019-10-09
          Changes: Data collection, Database references, Other, Source and taxonomy
        • Version 1.2: 2019-12-18
          Changes: Database references