9H2H | pdb_00009h2h

AcMNPV apical cap - composite map of the C2 plug


Experimental Data Snapshot

  • Method: ELECTRON MICROSCOPY
  • Resolution: 6.10 Å
  • Aggregation State: PARTICLE 
  • Reconstruction Method: SINGLE PARTICLE 

wwPDB Validation   3D Report Full Report


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Literature

Structure of AcMNPV nucleocapsid reveals DNA portal organization and packaging apparatus of circular dsDNA baculovirus.

Effantin, G.Kandiah, E.Pelosse, M.

(2025) Nat Commun 16: 4844-4844

  • DOI: https://doi.org/10.1038/s41467-025-60152-2
  • Primary Citation of Related Structures:  
    9H1S, 9H2A, 9H2B, 9H2C, 9H2H, 9H2J, 9H2K

  • PubMed Abstract: 

    Baculoviruses are large DNA viruses found in nature propagating amongst insects and lepidoptera in particular. They have been studied for decades and are nowadays considered as invaluable biotechnology tools used as biopesticides, recombinant expression systems or delivery vehicle for gene therapy. However, little is known about the baculovirus nucleocapsid assembly at a molecular level. Here, we solve the whole structure of the Autographa californica multiple nucleopolyhedrovirus (AcMNPV) nucleocapsid by applying cryo-electron microscopy (CryoEM) combined with de novo modelling and Alphafold predictions. Our structure completes prior observations and elucidates the intricate architecture of the apical cap, unravelling the organization of a DNA portal featuring intriguing symmetry mismatches between its core and vertex. The core, closing the capsid at the apex, holds two DNA helices of the viral genome tethered to Ac54 proteins. Different symmetry components at the apical cap and basal structure are constituted of the same building block, made of Ac101/Ac144, proving the versatility of this modular pair. The crown forming the portal vertex displays a C21 symmetry and contains, amongst others, the motor-like protein Ac66. Our findings support the viral portal to be involved in DNA packaging, probably in conjunction with other parts of a larger DNA packaging apparatus.


  • Organizational Affiliation

    Univ. Grenoble Alpes, CNRS, CEA, Institut de Biologie Structurale (IBS), 38000, Grenoble, France. gregory.effantin@ibs.fr.


Macromolecules

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Entity ID: 1
MoleculeChains Sequence LengthOrganismDetailsImage
Protein AC54
A, B, C, D
365Autographa californica nucleopolyhedrovirusMutation(s): 0 
UniProt
Find proteins for P41458 (Autographa californica nuclear polyhedrosis virus)
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Go to UniProtKB:  P41458
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UniProt GroupP41458
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  • Reference Sequence
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Entity ID: 4
MoleculeChains Sequence LengthOrganismDetailsImage
Occlusion-derived virus envelope protein E27
G, H, K, L, O
G, H, K, L, O, P, S, T
290Autographa californica nucleopolyhedrovirusMutation(s): 0 
UniProt
Find proteins for P41702 (Autographa californica nuclear polyhedrosis virus)
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Go to UniProtKB:  P41702
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UniProt GroupP41702
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Entity ID: 5
MoleculeChains Sequence LengthOrganismDetailsImage
Protein C42
I, J, M, N, Q
I, J, M, N, Q, R, U, V
361Autographa californica nucleopolyhedrovirusMutation(s): 0 
UniProt
Find proteins for P25695 (Autographa californica nuclear polyhedrosis virus)
Explore P25695 
Go to UniProtKB:  P25695
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UniProt GroupP25695
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  • Reference Sequence
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Entity ID: 2
MoleculeChains LengthOrganismImage
DNA (58-MER)58Autographa californica nucleopolyhedrovirus
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Entity ID: 3
MoleculeChains LengthOrganismImage
DNA (58-MER)58Autographa californica nucleopolyhedrovirus
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  • Reference Sequence
Experimental Data & Validation

Experimental Data

  • Method: ELECTRON MICROSCOPY
  • Resolution: 6.10 Å
  • Aggregation State: PARTICLE 
  • Reconstruction Method: SINGLE PARTICLE 

Structure Validation

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Entry History & Funding Information

Deposition Data


Funding OrganizationLocationGrant Number
Not funded--

Revision History  (Full details and data files)

  • Version 1.0: 2025-06-04
    Type: Initial release