8YQY | pdb_00008yqy

ASFV RNA polymerase-M1249L complex complete


Experimental Data Snapshot

  • Method: ELECTRON MICROSCOPY
  • Resolution: 3.68 Å
  • Aggregation State: PARTICLE 
  • Reconstruction Method: SINGLE PARTICLE 

wwPDB Validation   3D Report Full Report


This is version 1.1 of the entry. See complete history


Literature

Transcription regulation of African swine fever virus: dual role of M1249L.

Zhao, D.Wang, N.Feng, X.Zhang, Z.Xu, K.Zheng, T.Yang, Y.Li, X.Ou, X.Zhao, R.Rao, Z.Bu, Z.Chen, Y.Wang, X.

(2024) Nat Commun 15: 10058-10058

  • DOI: https://doi.org/10.1038/s41467-024-54461-1
  • Primary Citation of Related Structures:  
    8YQT, 8YQU, 8YQV, 8YQW, 8YQX, 8YQY, 8YQZ

  • PubMed Abstract: 

    African swine fever virus (ASFV), which poses significant risks to the global economy, encodes a unique host-independent transcription system. This system comprises an eight-subunit RNA polymerase (vRNAP), temporally expressed transcription factors and transcript associated proteins, facilitating cross-species transmission via intermediate host. The protein composition of the virion and the presence of transcription factors in virus genome suggest existence of distinct transcription systems during viral infection. However, the precise mechanisms of transcription regulation remain elusive. Through analyses of dynamic transcriptome, vRNAP-associated components and cell-based assay, the critical role of M1249L in viral transcription regulation has been highlighted. Atomic-resolution structures of vRNAP-M1249L supercomplex, exhibiting a variety of conformations, have uncovered the dual functions of M1249L. During early transcription, M1249L could serve as multiple temporary transcription factors with C-terminal domain acting as a switcher for activation/inactivation, while during late transcription it aids in the packaging of the transcription machinery. The structural and functional characteristics of M1249L underscore its vital roles in ASFV transcription, packaging, and capsid assembly, presenting novel opportunities for therapeutic intervention.


  • Organizational Affiliation
    • State Key Laboratory for Animal Disease Control and Prevention, National African Swine Fever Para-reference Laboratory, National High Containment Facilities for Animal Diseases Control and Prevention, Harbin Veterinary Research Institute, Chinese Academy of Agricultural Sciences, Harbin, China.

Macromolecules
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Entity ID: 1
MoleculeChains Sequence LengthOrganismDetailsImage
DNA-directed RNA polymerase subunit1,450African swine fever virusMutation(s): 0 
EC: 2.7.7.6
UniProt
Find proteins for P42486 (African swine fever virus (strain Badajoz 1971 Vero-adapted))
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UniProt GroupP42486
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Entity ID: 2
MoleculeChains Sequence LengthOrganismDetailsImage
DNA-directed RNA polymerase subunit beta1,242African swine fever virusMutation(s): 0 
EC: 2.7.7.6
UniProt
Find proteins for P42487 (African swine fever virus (strain Badajoz 1971 Vero-adapted))
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UniProt GroupP42487
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Entity ID: 3
MoleculeChains Sequence LengthOrganismDetailsImage
DNA-directed RNA polymerase RPB3-11 homolog359African swine fever virusMutation(s): 0 
UniProt
Find proteins for Q65184 (African swine fever virus (strain Badajoz 1971 Vero-adapted))
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UniProt GroupQ65184
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Entity ID: 4
MoleculeChains Sequence LengthOrganismDetailsImage
DNA-directed RNA polymerase RPB5 homolog205African swine fever virusMutation(s): 0 
UniProt
Find proteins for Q65181 (African swine fever virus (strain Badajoz 1971 Vero-adapted))
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UniProt GroupQ65181
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Entity ID: 5
MoleculeChains Sequence LengthOrganismDetailsImage
C147L147African swine fever virusMutation(s): 0 
UniProt
Find proteins for P42484 (African swine fever virus (strain Badajoz 1971 Vero-adapted))
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UniProt GroupP42484
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Entity ID: 6
MoleculeChains Sequence LengthOrganismDetailsImage
D339L339African swine fever virusMutation(s): 0 
UniProt
Find proteins for Q89907 (African swine fever virus (strain Badajoz 1971 Vero-adapted))
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UniProt GroupQ89907
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Entity ID: 7
MoleculeChains Sequence LengthOrganismDetailsImage
C122R105African swine fever virusMutation(s): 0 
UniProt
Find proteins for Q65157 (African swine fever virus (strain Badajoz 1971 Vero-adapted))
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Entity ID: 8
MoleculeChains Sequence LengthOrganismDetailsImage
DNA-directed RNA polymerase RPB10 homolog80African swine fever virusMutation(s): 0 
UniProt
Find proteins for P42488 (African swine fever virus (strain Badajoz 1971 Vero-adapted))
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Entity ID: 9
MoleculeChains Sequence LengthOrganismDetailsImage
M1249LI [auth J]1,249African swine fever virusMutation(s): 0 
UniProt
Find proteins for Q65152 (African swine fever virus (strain Badajoz 1971 Vero-adapted))
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Small Molecules
Ligands 2 Unique
IDChains Name / Formula / InChI Key2D Diagram3D Interactions
ZN
Query on ZN

Download Ideal Coordinates CCD File 
K [auth A]
L [auth A]
M [auth B]
N [auth G]
O [auth G]
K [auth A],
L [auth A],
M [auth B],
N [auth G],
O [auth G],
P [auth H],
Q [auth J],
R [auth J],
S [auth J]
ZINC ION
Zn
PTFCDOFLOPIGGS-UHFFFAOYSA-N
MG
Query on MG

Download Ideal Coordinates CCD File 
J [auth A]MAGNESIUM ION
Mg
JLVVSXFLKOJNIY-UHFFFAOYSA-N
Experimental Data & Validation

Experimental Data

  • Method: ELECTRON MICROSCOPY
  • Resolution: 3.68 Å
  • Aggregation State: PARTICLE 
  • Reconstruction Method: SINGLE PARTICLE 

Structure Validation

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Entry History & Funding Information

Deposition Data

  • Released Date: 2024-11-06 
  • Deposition Author(s): Feng, X.Y.

Funding OrganizationLocationGrant Number
Not funded--

Revision History  (Full details and data files)

  • Version 1.0: 2024-11-06
    Type: Initial release
  • Version 1.1: 2025-06-11
    Changes: Data collection, Database references