3J9F

Poliovirus complexed with soluble, deglycosylated poliovirus receptor (Pvr) at 4 degrees C


Experimental Data Snapshot

  • Method: ELECTRON MICROSCOPY
  • Resolution: 9 Å
  • Aggregation State: PARTICLE 
  • Reconstruction Method: SINGLE PARTICLE 

wwPDB Validation 3D Report Full Report


This is version 1.1 of the entry. See complete history

Literature

Nectin-Like Interactions between Poliovirus and Its Receptor Trigger Conformational Changes Associated with Cell Entry.

Strauss, M.Filman, D.J.Belnap, D.M.Cheng, N.Noel, R.T.Hogle, J.M.

(2015) J.Virol. 89: 4143-4157

  • DOI: 10.1128/JVI.03101-14
  • Primary Citation of Related Structures:  

  • PubMed Abstract: 
  • Poliovirus infection is initiated by attachment to a receptor on the cell surface called Pvr or CD155. At physiological temperatures, the receptor catalyzes an irreversible expansion of the virus to form an expanded form of the capsid called the 135S ...

    Poliovirus infection is initiated by attachment to a receptor on the cell surface called Pvr or CD155. At physiological temperatures, the receptor catalyzes an irreversible expansion of the virus to form an expanded form of the capsid called the 135S particle. This expansion results in the externalization of the myristoylated capsid protein VP4 and the N-terminal extension of the capsid protein VP1, both of which become inserted into the cell membrane. Structures of the expanded forms of poliovirus and of several related viruses have recently been reported. However, until now, it has been unclear how receptor binding triggers viral expansion at physiological temperature. Here, we report poliovirus in complex with an enzymatically partially deglycosylated form of the 3-domain ectodomain of Pvr at a 4-Å resolution, as determined by cryo-electron microscopy. The interaction of the receptor with the virus in this structure is reminiscent of the interactions of Pvr with its natural ligands. At a low temperature, the receptor induces very few changes in the structure of the virus, with the largest changes occurring within the footprint of the receptor, and in a loop of the internal protein VP4. Changes in the vicinity of the receptor include the displacement of a natural lipid ligand (called "pocket factor"), demonstrating that the loss of this ligand, alone, is not sufficient to induce particle expansion. Finally, analogies with naturally occurring ligand binding in the nectin family suggest which specific structural rearrangements in the virus-receptor complex could help to trigger the irreversible expansion of the capsid.


    Organizational Affiliation

    Department of Biological Chemistry and Molecular Pharmacology, Harvard Medical School, Boston, Massachusetts, USA james_hogle@hms.harvard.edu.,Department of Biological Chemistry and Molecular Pharmacology, Harvard Medical School, Boston, Massachusetts, USA.,Laboratory of Structural Biology Research, National Institute of Arthritis and Musculoskeletal and Skin Diseases, National Institutes of Health, Bethesda, Maryland, USA.,Department of Chemistry and Biochemistry, Brigham Young University, Provo, Utah, USA.,Laboratory of Structural Biology Research, National Institute of Arthritis and Musculoskeletal and Skin Diseases, National Institutes of Health, Bethesda, Maryland, USA Department of Chemistry and Biochemistry, Brigham Young University, Provo, Utah, USA Departments of Biology and Biochemistry, University of Utah, Salt Lake City, Utah, USA.




Macromolecules

Find similar proteins by: Sequence  |  Structure

Entity ID: 1
MoleculeChainsSequence LengthOrganismDetails
Protein VP1
1
302Poliovirus 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
Protein VP2
2
272Poliovirus type 1 (strain Mahoney)Mutation(s): 0 
Find proteins for P03300 (Poliovirus type 1 (strain Mahoney))
Go to UniProtKB:  P03300
Entity ID: 3
MoleculeChainsSequence LengthOrganismDetails
Protein VP3
3
238Poliovirus 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
Protein VP4
4
69Poliovirus 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
Poliovirus receptor
7
116Homo sapiensMutation(s): 0 
Gene Names: PVR (PVS)
Find proteins for P15151 (Homo sapiens)
Go to Gene View: PVR
Go to UniProtKB:  P15151
Entity ID: 6
MoleculeChainsSequence LengthOrganismDetails
Poliovirus receptor
8
102Homo sapiensMutation(s): 0 
Gene Names: PVR (PVS)
Find proteins for P15151 (Homo sapiens)
Go to Gene View: PVR
Go to UniProtKB:  P15151
Entity ID: 7
MoleculeChainsSequence LengthOrganismDetails
Poliovirus receptor
9
92Homo sapiensMutation(s): 0 
Gene Names: PVR (PVS)
Find proteins for P15151 (Homo sapiens)
Go to Gene View: PVR
Go to UniProtKB:  P15151
Small Molecules
Ligands 5 Unique
IDChainsName / Formula / InChI Key2D Diagram3D Interactions
MAN
Query on MAN

Download SDF File 
Download CCD File 
7
ALPHA-D-MANNOSE
C6 H12 O6
WQZGKKKJIJFFOK-PQMKYFCFSA-N
 Ligand Interaction
FUC
Query on FUC

Download SDF File 
Download CCD File 
7, 9
ALPHA-L-FUCOSE
C6 H12 O5
SHZGCJCMOBCMKK-SXUWKVJYSA-N
 Ligand Interaction
BMA
Query on BMA

Download SDF File 
Download CCD File 
7, 8, 9
BETA-D-MANNOSE
C6 H12 O6
WQZGKKKJIJFFOK-RWOPYEJCSA-N
 Ligand Interaction
NAG
Query on NAG

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Download CCD File 
7, 8, 9
N-ACETYL-D-GLUCOSAMINE
C8 H15 N O6
OVRNDRQMDRJTHS-FMDGEEDCSA-N
 Ligand Interaction
PLM
Query on PLM

Download SDF File 
Download CCD File 
1
PALMITIC ACID
C16 H32 O2
IPCSVZSSVZVIGE-UHFFFAOYSA-N
 Ligand Interaction
Modified Residues  1 Unique
IDChainsTypeFormula2D DiagramParent
MYR
Query on MYR
4
NON-POLYMERC14 H28 O2

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Experimental Data & Validation

Experimental Data

  • Method: ELECTRON MICROSCOPY
  • Resolution: 9 Å
  • Aggregation State: PARTICLE 
  • Reconstruction Method: SINGLE PARTICLE 

Structure Validation

View Full Validation Report or Ramachandran Plots



Entry History 

Deposition Data

Revision History 

  • Version 1.0: 2015-02-11
    Type: Initial release
  • Version 1.1: 2015-04-01
    Type: Database references