8Z9H

Cryo-EM structure of Thogoto virus polymerase in a transcription elongation-reception conformation


Experimental Data Snapshot

  • Method: ELECTRON MICROSCOPY
  • Resolution: 2.70 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 structures of Thogoto virus polymerase reveal unique RNA transcription and replication mechanisms among orthomyxoviruses.

Xue, L.Chang, T.Li, Z.Wang, C.Zhao, H.Li, M.Tang, P.Wen, X.Yu, M.Wu, J.Bao, X.Wang, X.Gong, P.He, J.Chen, X.Xiong, X.

(2024) Nat Commun 15: 4620-4620

  • DOI: https://doi.org/10.1038/s41467-024-48848-3
  • Primary Citation of Related Structures:  
    8Z85, 8Z8J, 8Z8N, 8Z8X, 8Z90, 8Z97, 8Z98, 8Z9H, 8Z9Q, 8Z9R

  • PubMed Abstract: 

    Influenza viruses and thogotoviruses account for most recognized orthomyxoviruses. Thogotoviruses, exemplified by Thogoto virus (THOV), are capable of infecting humans using ticks as vectors. THOV transcribes mRNA without the extraneous 5' end sequences derived from cap-snatching in influenza virus mRNA. Here, we report cryo-EM structures to characterize THOV polymerase RNA synthesis initiation and elongation. The structures demonstrate that THOV RNA transcription and replication are able to start with short dinucleotide primers and that the polymerase cap-snatching machinery is likely non-functional. Triggered by RNA synthesis, asymmetric THOV polymerase dimers can form without the involvement of host factors. We confirm that, distinctive from influenza viruses, THOV-polymerase RNA synthesis is weakly dependent of the host factors ANP32A/B/E in human cells. This study demonstrates varied mechanisms in RNA synthesis and host factor utilization among orthomyxoviruses, providing insights into the mechanisms behind thogotoviruses' broad-infectivity range.


  • Organizational Affiliation

    State Key Laboratory of Respiratory Disease, Guangdong Provincial Key Laboratory of Stem Cell and Regenerative Medicine, Guangdong Provincial Key Laboratory of Biocomputing, GIBH-CUHK Joint Research Laboratory on Stem Cell and Regenerative Medicine, Guangzhou Institutes of Biomedicine and Health, Chinese Academy of Sciences, Guangzhou, China.


Macromolecules

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Entity ID: 1
MoleculeChains Sequence LengthOrganismDetailsImage
Polymerase acidic protein
A, H
622Thogoto virus (isolate SiAr 126)Mutation(s): 0 
Gene Names: Segment 3
UniProt
Find proteins for P27194 (Thogoto virus (isolate SiAr 126))
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Go to UniProtKB:  P27194
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UniProt GroupP27194
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  • Reference Sequence
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Entity ID: 2
MoleculeChains Sequence LengthOrganismDetailsImage
RNA-directed RNA polymerase catalytic subunit
B, I
710Thogoto virus (isolate SiAr 126)Mutation(s): 0 
Gene Names: Segment 2
EC: 2.7.7.48
UniProt
Find proteins for O41353 (Thogoto virus (isolate SiAr 126))
Explore O41353 
Go to UniProtKB:  O41353
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UniProt GroupO41353
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Entity ID: 3
MoleculeChains Sequence LengthOrganismDetailsImage
Polymerase basic protein 2
C, J
827Thogoto virus (isolate SiAr 126)Mutation(s): 0 
Gene Names: Segment 1
UniProt
Find proteins for Q9YNA4 (Thogoto virus (isolate SiAr 126))
Explore Q9YNA4 
Go to UniProtKB:  Q9YNA4
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UniProt GroupQ9YNA4
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  • Reference Sequence

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Entity ID: 4
MoleculeChains LengthOrganismImage
RNA (5'-R(*AP*GP*AP*GP*AP*AP*AP*UP*CP*AP*AP*GP*GP*CP*AP*GP*UP*U)-3')18Thogoto virus (isolate SiAr 126)
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Entity ID: 5
MoleculeChains LengthOrganismImage
RNA (5'-R(*GP*AP*CP*UP*GP*CP*CP*UP*GP*UP*UP*UP*UP*UP*GP*CP*U)-3')
E, F
17Thogoto virus (isolate SiAr 126)
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Entity ID: 6
MoleculeChains LengthOrganismImage
RNA (5'-R(P*GP*CP*AP*AP*AP*AP*AP*CP*A)-3')
G, K
9Thogoto virus (isolate SiAr 126)
Sequence Annotations
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  • Reference Sequence
Small Molecules
Ligands 1 Unique
IDChains Name / Formula / InChI Key2D Diagram3D Interactions
V9G (Subject of Investigation/LOI)
Query on V9G

Download Ideal Coordinates CCD File 
L [auth G],
M [auth K]
7-METHYL-GUANOSINE-5'-TRIPHOSPHATE-5'-(2'-O-METHYL)-ADENOSINE
C22 H32 N10 O17 P3
WZAAWBDISKLAIE-NAGRZYTCSA-N
Experimental Data & Validation

Experimental Data

  • Method: ELECTRON MICROSCOPY
  • Resolution: 2.70 Å
  • Aggregation State: PARTICLE 
  • Reconstruction Method: SINGLE PARTICLE 

Structure Validation

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Entry History & Funding Information

Deposition Data


Funding OrganizationLocationGrant Number
National Natural Science Foundation of China (NSFC)China82341085 to X.X.

Revision History  (Full details and data files)

  • Version 1.0: 2024-05-29
    Type: Initial release
  • Version 1.1: 2024-06-12
    Changes: Database references
  • Version 1.2: 2024-06-19
    Changes: Data collection, Structure summary