8Y2Z | pdb_00008y2z

MPXV mRNA cap N7 methyltransferase


Experimental Data Snapshot

  • Method: X-RAY DIFFRACTION
  • Resolution: 3.94 Å
  • R-Value Free: 
    0.316 (Depositor), 0.336 (DCC) 
  • R-Value Work: 
    0.273 (Depositor), 0.294 (DCC) 
  • R-Value Observed: 
    0.275 (Depositor) 

Starting Model: experimental
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wwPDB Validation   3D Report Full Report


This is version 1.1 of the entry. See complete history


Literature

Structural basis of the monkeypox virus mRNA cap N7 methyltransferase complex.

Chen, A.Fang, N.Zhang, Z.Wen, Y.Shen, Y.Zhang, Y.Zhang, L.Zhao, G.Ding, J.Li, J.

(2024) Emerg Microbes Infect 13: 2369193-2369193

  • DOI: https://doi.org/10.1080/22221751.2024.2369193
  • Primary Citation of Related Structures:  
    8Y2Y, 8Y2Z, 8ZE4

  • PubMed Abstract: 

    The global outbreak of Mpox, caused by the monkeypox virus (MPXV), has attracted international attention and become another major infectious disease event after COVID-19. The mRNA cap N7 methyltransferase (RNMT) of MPXV methylates the N7 position of the added guanosine to the 5'-cap structure of mRNAs and plays a vital role in evading host antiviral immunity. MPXV RNMT is composed of the large subunit E1 and the small subunit E12. How E1 and E12 of MPXV assembly remains unclear. Here, we report the crystal structures of E12, the MTase domain of E1 with E12 (E1 CTD -E12) complex, and the E1 CTD -E12-SAM ternary complex, revealing the detailed conformations of critical residues and the structural changes upon E12 binding to E1. Functional studies suggest that E1 CTD N-terminal extension (Asp545-Arg562) and the small subunit E12 play an essential role in the binding process of SAM. Structural comparison of the AlphaFold2-predicted E1, E1 CTD -E12 complex, and the homologous D1-D12 complex of vaccinia virus (VACV) indicates an allosteric activating effect of E1 in MPXV. Our findings provide the structural basis for the MTase activity stimulation of the E1-E12 complex and suggest a potential interface for screening the anti-poxvirus inhibitors.


  • Organizational Affiliation

    State Key Laboratory of Genetic Engineering, School of Life Sciences and Huashan Hospital, Shanghai Engineering Research Center of Industrial Microorganisms, Fudan University, Shanghai, People's Republic of China.


Macromolecules
Find similar proteins by:  (by identity cutoff)  |  3D Structure
Entity ID: 1
MoleculeChains Sequence LengthOrganismDetailsImage
mRNA-capping enzyme catalytic subunit300Monkeypox virusMutation(s): 0 
Gene Names: OPG113MPXVgp098
EC: 3.1.3.33 (PDB Primary Data), 2.7.7.50 (PDB Primary Data), 2.1.1.56 (PDB Primary Data), 3.6.1.74 (UniProt)
UniProt
Find proteins for A0A7H0DN85 (Monkeypox virus)
Explore A0A7H0DN85 
Go to UniProtKB:  A0A7H0DN85
Entity Groups  
Sequence Clusters30% Identity50% Identity70% Identity90% Identity95% Identity100% Identity
UniProt GroupA0A7H0DN85
Sequence Annotations
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  • Reference Sequence
Find similar proteins by:  (by identity cutoff)  |  3D Structure
Entity ID: 2
MoleculeChains Sequence LengthOrganismDetailsImage
mRNA-capping enzyme regulatory subunit OPG124287Monkeypox virusMutation(s): 0 
Gene Names: OPG124MPXVgp109
UniProt
Find proteins for A0A7H0DN96 (Monkeypox virus)
Explore A0A7H0DN96 
Go to UniProtKB:  A0A7H0DN96
Entity Groups  
Sequence Clusters30% Identity50% Identity70% Identity90% Identity95% Identity100% Identity
UniProt GroupA0A7H0DN96
Sequence Annotations
Expand
  • Reference Sequence
Experimental Data & Validation

Experimental Data

  • Method: X-RAY DIFFRACTION
  • Resolution: 3.94 Å
  • R-Value Free:  0.316 (Depositor), 0.336 (DCC) 
  • R-Value Work:  0.273 (Depositor), 0.294 (DCC) 
  • R-Value Observed: 0.275 (Depositor) 
Space Group: P 65 2 2
Unit Cell:
Length ( Å )Angle ( ˚ )
a = 138.55α = 90
b = 138.55β = 90
c = 178.36γ = 120
Software Package:
Software NamePurpose
PHENIXrefinement
xia2data scaling
DIALSdata reduction
PHASERphasing

Structure Validation

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Entry History & Funding Information

Deposition Data


Funding OrganizationLocationGrant Number
Ministry of Science and Technology (MoST, China)China--

Revision History  (Full details and data files)

  • Version 1.0: 2025-01-29
    Type: Initial release
  • Version 1.1: 2025-03-12
    Changes: Database references