3IYB

Poliovirus early RNA-release intermediate

Experimental Data Snapshot

  • Method: ELECTRON MICROSCOPY
  • Resolution: 10.0 Å
  • Aggregation State: PARTICLE 
  • Reconstruction Method: SINGLE PARTICLE 

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This is version 1.4 of the entry. See complete history. 


Literature

Catching a virus in the act of RNA release: a novel poliovirus uncoating intermediate characterized by cryo-electron microscopy.

Levy, H.C., Bostina, M., Filman, D.J., Hogle, J.M.

(2010) J Virol 84: 4426-4441

  • DOI: 10.1128/JVI.02393-09
  • Primary Citation of Related Structures:  
    3IYB, 3IYC

  • PubMed Abstract: 

    • Poliovirus infection requires that the particle undergo a series of conformational transitions that lead to cell entry and genome release. In an effort to understand the conformational changes associated with the release of the RNA genome, we have used cryo-electron microscopy to characterize the structure of the 80S "empty" particles of poliovirus that are thought to represent the final product of the cell entry pathway ...

    Poliovirus infection requires that the particle undergo a series of conformational transitions that lead to cell entry and genome release. In an effort to understand the conformational changes associated with the release of the RNA genome, we have used cryo-electron microscopy to characterize the structure of the 80S "empty" particles of poliovirus that are thought to represent the final product of the cell entry pathway. Using two-dimensional classification methods, we show that preparations of 80S particles contain at least two structures, which might represent snapshots from a continuous series of conformers. Using three-dimensional reconstruction methods, we have solved the structure of two distinct forms at subnanometric resolution, and we have built and refined pseudoatomic models into the reconstructions. The reconstructions and the derived models demonstrate that the two structural forms are both slightly expanded, resulting in partial disruption of interprotomer interfaces near their particle 2-fold axes, which may represent the site where RNA is released. The models demonstrate that each of the two 80S structures has undergone a unique set of movements of the capsid proteins, associated with rearrangement of flexible loops and amino-terminal extensions that participate in contacts between protomers, between pentamers, and with the viral RNA.

    Organizational Affiliation: 

    Department of Biological Chemistry and Molecular Pharmacology, Harvard Medical School, Boston, Massachusetts, USA.



Macromolecules
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Entity ID: 1
MoleculeChainsSequence LengthOrganismDetailsImage
Genome polyproteinA [auth 1]235Human poliovirus 1 MahoneyMutation(s): 0 
EC: 3.4.22.29 (PDB Primary Data), 3.6.1.15 (PDB Primary Data), 3.4.22.28 (PDB Primary Data), 2.7.7.48 (PDB Primary Data)
UniProt
Find proteins for P03300 (Poliovirus type 1 (strain Mahoney))
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Go to UniProtKB:  P03300
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UniProt GroupP03300
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Entity ID: 2
MoleculeChainsSequence LengthOrganismDetailsImage
Genome polyproteinB [auth 2]14Poliovirus type 3 (strains P3/LEON/37 AND P3/LEON 12A[1]B)Mutation(s): 0 
EC: 3.4.22.29 (PDB Primary Data), 3.6.1.15 (PDB Primary Data), 3.4.22.28 (PDB Primary Data), 2.7.7.48 (PDB Primary Data)
UniProt
Find proteins for P03302 (Poliovirus type 3 (strains P3/Leon/37 and P3/Leon 12A[1]B))
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Go to UniProtKB:  P03302
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UniProt GroupP03302
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Entity ID: 3
MoleculeChainsSequence LengthOrganismDetailsImage
Precursor polyproteinC [auth 3]231Human poliovirus 1Mutation(s): 0 
EC: 3.4.22.29 (UniProt), 3.6.1.15 (UniProt), 3.4.22.28 (UniProt), 2.7.7.48 (UniProt)
UniProt
Find proteins for P03300 (Poliovirus type 1 (strain Mahoney))
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Go to UniProtKB:  P03300
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UniProt GroupP03300
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Entity ID: 4
MoleculeChainsSequence LengthOrganismDetailsImage
Genome polyproteinD [auth 4]245Human poliovirus 1 MahoneyMutation(s): 0 
EC: 3.4.22.29 (PDB Primary Data), 3.6.1.15 (PDB Primary Data), 3.4.22.28 (PDB Primary Data), 2.7.7.48 (PDB Primary Data)
UniProt
Find proteins for P03300 (Poliovirus type 1 (strain Mahoney))
Explore P03300 
Go to UniProtKB:  P03300
Entity Groups  
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UniProt GroupP03300
Protein Feature View
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Entity ID: 5
MoleculeChainsSequence LengthOrganismDetailsImage
VP1 coreE [auth 7]11Human poliovirus 1Mutation(s): 0 
Protein Feature View
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Experimental Data & Validation

Experimental Data

  • Method: ELECTRON MICROSCOPY
  • Resolution: 10.0 Å
  • Aggregation State: PARTICLE 
  • Reconstruction Method: SINGLE PARTICLE 

Structure Validation

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Entry History 

Deposition Data

Revision History  (Full details and data files)

  • Version 1.0: 2010-03-16
    Type: Initial release
  • Version 1.1: 2011-07-13
    Changes: Version format compliance
  • Version 1.2: 2015-01-28
    Changes: Database references
  • Version 1.3: 2016-11-09
    Changes: Other
  • Version 1.4: 2018-07-18
    Changes: Data collection