3IYL

Atomic CryoEM Structure of a Nonenveloped Virus Suggests How Membrane Penetration Protein is Primed for Cell Entry


Experimental Data Snapshot

  • Method: ELECTRON MICROSCOPY
  • Resolution: 3.30 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

3.3 A cryo-EM structure of a nonenveloped virus reveals a priming mechanism for cell entry.

Zhang, X.Jin, L.Fang, Q.Hui, W.H.Zhou, Z.H.

(2010) Cell 141: 472-482

  • DOI: 10.1016/j.cell.2010.03.041
  • Primary Citation of Related Structures:  
    3IYL

  • PubMed Abstract: 
  • To achieve cell entry, many nonenveloped viruses must transform from a dormant to a primed state. In contrast to the membrane fusion mechanism of enveloped viruses (e.g., influenza virus), this membrane penetration mechanism is poorly understood. Her ...

    To achieve cell entry, many nonenveloped viruses must transform from a dormant to a primed state. In contrast to the membrane fusion mechanism of enveloped viruses (e.g., influenza virus), this membrane penetration mechanism is poorly understood. Here, using single-particle cryo-electron microscopy, we report a 3.3 A structure of the primed, infectious subvirion particle of aquareovirus. The density map reveals side-chain densities of all types of amino acids (except glycine), enabling construction of a full-atom model of the viral particle. Our structure and biochemical results show that priming involves autocleavage of the membrane penetration protein and suggest that Lys84 and Glu76 may facilitate this autocleavage in a nucleophilic attack. We observe a myristoyl group, covalently linked to the N terminus of the penetration protein and embedded in a hydrophobic pocket. These results suggest a well-orchestrated process of nonenveloped virus entry involving autocleavage of the penetration protein prior to exposure of its membrane-insertion finger.


    Organizational Affiliation

    Department of Microbiology, Immunology & Molecular Genetics, University of California, Los Angeles, Los Angeles, CA 90095-7364, USA.



Macromolecules
Find similar proteins by:  (by identity cutoff)  |  Structure
Entity ID: 1
MoleculeChainsSequence LengthOrganismDetailsImage
Outer capsid VP4ABCDEFGHIJKLMNOPQRST648Grass carp reovirusMutation(s): 0 
Find proteins for Q8JU67 (Grass carp reovirus)
Explore Q8JU67 
Go to UniProtKB:  Q8JU67
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  • Reference Sequence
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Entity ID: 2
MoleculeChainsSequence LengthOrganismDetailsImage
Core protein VP6UV412Grass carp reovirusMutation(s): 0 
Find proteins for Q8JU64 (Grass carp reovirus)
Explore Q8JU64 
Go to UniProtKB:  Q8JU64
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  • Reference Sequence
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Entity ID: 3
MoleculeChainsSequence LengthOrganismDetailsImage
VP1W1299Grass carp reovirusMutation(s): 0 
EC: 2.1.1.56 (UniProt), 2.7.7.50 (UniProt)
Find proteins for Q9E3W0 (Grass carp reovirus)
Explore Q9E3W0 
Go to UniProtKB:  Q9E3W0
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  • Reference Sequence
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Entity ID: 4
MoleculeChainsSequence LengthOrganismDetailsImage
VP3XY1214Grass carp reovirusMutation(s): 0 
Find proteins for Q9E3V8 (Grass carp reovirus)
Explore Q9E3V8 
Go to UniProtKB:  Q9E3V8
Protein Feature View
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  • Reference Sequence
Small Molecules
Ligands 1 Unique
IDChainsName / Formula / InChI Key2D Diagram3D Interactions
MYR
Query on MYR

Download CCD File 
A, C, E, G, I, K, M, O, Q, S
MYRISTIC ACID
C14 H28 O2
TUNFSRHWOTWDNC-UHFFFAOYSA-N
 Ligand Interaction
Experimental Data & Validation

Experimental Data

  • Method: ELECTRON MICROSCOPY
  • Resolution: 3.30 Å
  • Aggregation State: PARTICLE 
  • Reconstruction Method: SINGLE PARTICLE 

Structure Validation

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Entry History 

Deposition Data

Revision History 

  • Version 1.0: 2010-05-12
    Type: Initial release
  • Version 1.1: 2011-07-13
    Changes: Version format compliance
  • Version 1.2: 2018-07-18
    Changes: Data collection