3IYB

Poliovirus early RNA-release intermediate

Experimental Data Snapshot

  • Method: ELECTRON MICROSCOPY
  • Resolution: 10 Å
  • Aggregation State: PARTICLE 
  • Reconstruction Method: SINGLE PARTICLE 

wwPDB Validation 3D Report Full Report


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:  

  • 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 us ...

    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

Find similar proteins by: Sequence  |  Structure

Entity ID: 1
MoleculeChainsSequence LengthOrganismDetails
Genome polyprotein
1
235Poliovirus type 1 (strain Mahoney)Mutation(s): 0 
Find proteins for P03300 (Poliovirus type 1 (strain Mahoney))
Go to UniProtKB:  P03300
Entity ID: 2
MoleculeChainsSequence LengthOrganismDetails
Genome polyprotein
2
14Poliovirus type 3 (strains P3/Leon/37 and P3/Leon 12A[1]B)Mutation(s): 0 
Find proteins for P03302 (Poliovirus type 3 (strains P3/Leon/37 and P3/Leon 12A[1]B))
Go to UniProtKB:  P03302
Entity ID: 3
MoleculeChainsSequence LengthOrganismDetails
Precursor polyprotein
3
231Poliovirus type 1 (strain Mahoney)Mutation(s): 0 
Find proteins for P03300 (Poliovirus type 1 (strain Mahoney))
Go to UniProtKB:  P03300
Entity ID: 4
MoleculeChainsSequence LengthOrganismDetails
Genome polyprotein
4
245Poliovirus type 1 (strain Mahoney)Mutation(s): 0 
Find proteins for P03300 (Poliovirus type 1 (strain Mahoney))
Go to UniProtKB:  P03300
Entity ID: 5
MoleculeChainsSequence LengthOrganismDetails
VP1 core
7
11N/AMutation(s): 0 
Protein Feature View is not available: No corresponding UniProt sequence found.
Small Molecules
Modified Residues  1 Unique
IDChainsTypeFormula2D DiagramParent
UNK
Query on UNK
7
L-PEPTIDE LINKINGC4 H9 N O2

--

Experimental Data & Validation

Experimental Data

  • Method: ELECTRON MICROSCOPY
  • Resolution: 10 Å
  • Aggregation State: PARTICLE 
  • Reconstruction Method: SINGLE PARTICLE 

Structure Validation

View Full Validation Report or Ramachandran Plots


View more in-depth experimental data

Entry History 

Deposition Data

Revision History 

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