9NSP | pdb_00009nsp

MPXV replisome bound to ssDNA


Experimental Data Snapshot

  • Method: ELECTRON MICROSCOPY
  • Resolution: 4.10 Å
  • Aggregation State: PARTICLE 
  • Reconstruction Method: SINGLE PARTICLE 

wwPDB Validation 3D Report Full Report

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This is version 1.1 of the entry. See complete history

Literature

Structure and operating principles of a monkeypox virus replisome.

Yu, Z.Sathyanarayana, P.Tan, J.M.J.Hu, S.Fan, X.Gao, A.Kranzusch, P.J.Loparo, J.J.Abraham, J.

(2026) Nature 

  • DOI: https://doi.org/10.1038/s41586-026-10937-2
  • Primary Citation Related Structures: 
    10WP, 11WZ, 9NSP

  • PubMed Abstract: 

    Poxviruses are double-stranded DNA viruses with large genomes. Among them, monkeypox virus (MPXV) has been responsible for two recent public health emergencies as declared by the World Health Organization 1 . The MPXV polymerase comprises three subunits-a catalytic subunit (F8) and a heterodimeric processivity factor (A22 and E4). The viral polymerase must coordinate activities with the hexameric helicase-primase (E5) to initiate replication of the viral genome 2 . Although structures of MPXV E5 (refs.  3,4 ) and the polymerase 5-7 in isolation are available, how they assemble into a functional replisome remains unclear. In isolation, E5 is in an autoinhibited conformation and has very weak helicase activity 3,4 , and the mechanism for helicase activation is unclear. Here we used cryo-electron microscopy to determine the structures of DNA-bound MPXV replisomes comprising the polymerase holoenzyme (F8, A22 and E4) and the E5 helicase hexamer. We show that, during replisome assembly, E5 undergoes large-scale conformational changes that allow two of its primase domains to interact with the polymerase F8 thumb and A22 subunit. Biochemical assays and single-molecule experiments reveal that this E5 conformational change is coupled to helicase activation and enhances primase activity. Taken together, these findings identify fundamental mechanisms governing coordinated helicase and polymerase activities during DNA replication for an important class of viral pathogens.


  • Organizational Affiliation
    • Department of Microbiology, Harvard Medical School, Boston, MA, USA.

Macromolecule Content 

  • Total Structure Weight: 743.12 kDa 
  • Atom Count: 34,677 
  • Modeled Residue Count: 4,224 
  • Deposited Residue Count: 6,389 
  • Unique protein chains: 4
  • Unique nucleic acid chains: 1

Macromolecules


Find similar proteins by:|  3D Structure
Entity ID: 1
MoleculeChains  Sequence LengthOrganismDetailsImage
Uncoating factor OPG117785Monkeypox virusMutation(s): 0 
Gene Names: OPG117MPXVgp100
EC: 3.6.4
UniProt
Find proteins for A0A7H0DN89 (Monkeypox virus)
Explore A0A7H0DN89 
Go to UniProtKB:  A0A7H0DN89
Entity Groups
Sequence Clusters30% Identity50% Identity70% Identity90% Identity95% Identity100% Identity
UniProt GroupA0A7H0DN89
Sequence Annotations
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Reference Sequence
Find similar proteins by:|  3D Structure
Entity ID: 2
MoleculeChains  Sequence LengthOrganismDetailsImage
DNA polymeraseC [auth A]1,006Monkeypox virusMutation(s): 0 
Gene Names: OPG071POLMPXVgp056
EC: 2.7.7.7
UniProt
Find proteins for A0A7H0DN44 (Monkeypox virus)
Explore A0A7H0DN44 
Go to UniProtKB:  A0A7H0DN44
Entity Groups
Sequence Clusters30% Identity50% Identity70% Identity90% Identity95% Identity100% Identity
UniProt GroupA0A7H0DN44
Sequence Annotations
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Reference Sequence
Find similar proteins by:|  3D Structure
Entity ID: 3
MoleculeChains  Sequence LengthOrganismDetailsImage
DNA polymerase processivity factor component OPG148D [auth C]426Monkeypox virusMutation(s): 0 
Gene Names: OPG148MPXVgp132
UniProt
Find proteins for A0A7H0DNC0 (Monkeypox virus)
Explore A0A7H0DNC0 
Go to UniProtKB:  A0A7H0DNC0
Entity Groups
Sequence Clusters30% Identity50% Identity70% Identity90% Identity95% Identity100% Identity
UniProt GroupA0A7H0DNC0
Sequence Annotations
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Reference Sequence
Find similar proteins by:|  3D Structure
Entity ID: 4
MoleculeChains  Sequence LengthOrganismDetailsImage
Uracil-DNA glycosylaseE [auth B]218Monkeypox virusMutation(s): 0 
Gene Names: OPG116UNGMPXVgp099
EC: 3.2.2.27
UniProt
Find proteins for M1LL92 (Monkeypox virus)
Explore M1LL92 
Go to UniProtKB:  M1LL92
Entity Groups
Sequence Clusters30% Identity50% Identity70% Identity90% Identity95% Identity100% Identity
UniProt GroupM1LL92
Sequence Annotations
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Reference Sequence
Find similar nucleic acids by:  (by identity cutoff) 
Entity ID: 5
MoleculeChains LengthOrganismImage
DNA (5'-D(P*TP*TP*TP*TP*TP*TP*TP*TP*TP*TP*TP*TP*T)-3')F [auth T]29Monkeypox virus
Sequence Annotations
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Reference Sequence

Small Molecules

Experimental Data & Validation

Experimental Data

  • Method: ELECTRON MICROSCOPY
  • Resolution: 4.10 Å
  • Aggregation State: PARTICLE 
  • Reconstruction Method: SINGLE PARTICLE 
EM Software:
TaskSoftware PackageVersion
RECONSTRUCTIONcryoSPARC

Structure Validation

View Full Validation Report



Entry History 

& Funding Information

Deposition Data


Funding OrganizationLocationGrant Number
Not funded--

Revision History  (Full details and data files)

  • Version 1.0: 2026-09-02
    Type: Initial release
  • Version 1.1: 2026-09-16
    Changes: Data collection, Database references