6Z6B

Structure of full-length La Crosse virus L protein (polymerase)


Experimental Data Snapshot

  • Method: X-RAY DIFFRACTION
  • Resolution: 3.96 Å
  • R-Value Free: 0.299 
  • R-Value Work: 0.264 

wwPDB Validation   3D Report Full Report


This is version 1.0 of the entry. See complete history


Literature

Pre-initiation and elongation structures of full-length La Crosse virus polymerase reveal functionally important conformational changes.

Arragain, B.Effantin, G.Gerlach, P.Reguera, J.Schoehn, G.Cusack, S.Malet, H.

(2020) Nat Commun 11: 3590-3590

  • DOI: 10.1038/s41467-020-17349-4
  • Primary Citation of Related Structures:  
    6Z6B, 6Z6G, 6Z8K

  • PubMed Abstract: 
  • Bunyavirales is an order of segmented negative-strand RNA viruses comprising several life-threatening pathogens against which no effective treatment is currently available. Replication and transcription of the RNA genome constitute essential processes performed by the virally encoded multi-domain RNA-dependent RNA polymerase ...

    Bunyavirales is an order of segmented negative-strand RNA viruses comprising several life-threatening pathogens against which no effective treatment is currently available. Replication and transcription of the RNA genome constitute essential processes performed by the virally encoded multi-domain RNA-dependent RNA polymerase. Here, we describe the complete high-resolution cryo-EM structure of La Crosse virus polymerase. It reveals the presence of key protruding C-terminal domains, notably the cap-binding domain, which undergoes large movements related to its role in transcription initiation, and a zinc-binding domain that displays a fold not previously observed. We capture the polymerase structure at pre-initiation and elongation states, uncovering the coordinated movement of the priming loop, mid-thumb ring linker and lid domain required for the establishment of a ten-base-pair template-product RNA duplex before strand separation into respective exit tunnels. These structural details and the observed dynamics of key functional elements will be instrumental for structure-based development of polymerase inhibitors.


    Organizational Affiliation

    Université Grenoble Alpes, CNRS, CEA, Institute for Structural Biology (IBS), F-38000, Grenoble, France. helene.malet@ibs.fr.



Macromolecules

Find similar proteins by:  (by identity cutoff)  |  Structure
Entity ID: 4
MoleculeChainsSequence LengthOrganismDetailsImage
RNA-directed RNA polymerase LD [auth EEE], F [auth PPP]2285La Crosse virusMutation(s): 0 
Gene Names: L
EC: 2.7.7.48 (PDB Primary Data), 3.1 (PDB Primary Data)
UniProt
Find proteins for A5HC98 (Bunyavirus La Crosse)
Explore A5HC98 
Go to UniProtKB:  A5HC98
Protein Feature View
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  • Reference Sequence
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  • Entity ID: 1
    MoleculeChainsLengthOrganismImage
    RNA (5'-R(P*AP*GP*UP*AP*GP*UP*GP*UP*GP*C)-3')A [auth BBB], G [auth UUU]10La Crosse orthobunyavirus
    Protein Feature View
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    • Reference Sequence
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    • Entity ID: 2
      MoleculeChainsLengthOrganismImage
      RNA (5'-R(P*UP*UP*AP*GP*UP*AP*GP*UP*AP*CP*AP*CP*UP*AP*CP*U)-3')B [auth CCC], E [auth HHH]16La Crosse orthobunyavirus
      Protein Feature View
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      • Reference Sequence
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      • Entity ID: 3
        MoleculeChainsLengthOrganismImage
        RNA (5'-R(*GP*CP*UP*AP*CP*UP*AP*A)-3')C [auth DDD], H [auth XXX]8La Crosse orthobunyavirus
        Protein Feature View
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        • Reference Sequence
        Small Molecules
        Ligands 1 Unique
        IDChainsName / Formula / InChI Key2D Diagram3D Interactions
        ZN (Subject of Investigation/LOI)
        Query on ZN

        Download Ideal Coordinates CCD File 
        I [auth EEE], J [auth PPP]ZINC ION
        Zn
        PTFCDOFLOPIGGS-UHFFFAOYSA-N
         Ligand Interaction
        Experimental Data & Validation

        Experimental Data

        • Method: X-RAY DIFFRACTION
        • Resolution: 3.96 Å
        • R-Value Free: 0.299 
        • R-Value Work: 0.264 
        • Space Group: C 1 2 1
        Unit Cell:
        Length ( Å )Angle ( ˚ )
        a = 371.187α = 90
        b = 145.32β = 116.333
        c = 234.193γ = 90
        Software Package:
        Software NamePurpose
        REFMACrefinement
        XDSdata reduction
        STARANISOdata scaling
        MOLREPphasing

        Structure Validation

        View Full Validation Report




        Entry History 

        Deposition Data

        Revision History  (Full details and data files)

        • Version 1.0: 2020-07-29
          Type: Initial release