3J3O

Conformational Shift of a Major Poliovirus Antigen Confirmed by Immuno-Cryogenic Electron Microscopy: 160S Poliovirus and C3-Fab Complex


Experimental Data Snapshot

  • Method: ELECTRON MICROSCOPY
  • Resolution: 11.1 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

Conformational shift of a major poliovirus antigen confirmed by immuno-cryogenic electron microscopy.

Lin, J.Cheng, N.Hogle, J.M.Steven, A.C.Belnap, D.M.

(2013) J.Immunol. 191: 884-891

  • DOI: 10.4049/jimmunol.1202014
  • Primary Citation of Related Structures:  

  • PubMed Abstract: 
  • Small, interfacial conformational changes occur in some Ag-Ab interactions. Using cryogenic electron microscopy (cryo-EM), we have demonstrated such changes in a major antigenic site of a poliovirus capsid protein. During cell entry, native human pol ...

    Small, interfacial conformational changes occur in some Ag-Ab interactions. Using cryogenic electron microscopy (cryo-EM), we have demonstrated such changes in a major antigenic site of a poliovirus capsid protein. During cell entry, native human poliovirus (160S particle) converts to a cell entry intermediate (135S particle) and later to an RNA-released (80S) particle. By mixing particles with Fabs of the neutralizing C3 mAb, we labeled the external loop connecting the B and C β-strands (BC loop) of the capsid protein VP1 (residues 95-105) in the 160S and 135S states. We then determined three-dimensional structures by cryo-EM and enhanced their interpretability by fitting high-resolution coordinates of C3 Fab and the capsid proteins into the density maps. Binding of C3 to either 160S or 135S particles caused residues of the BC loop, located on the tip of a prominent peak known as the "mesa," to move by an estimated 5 Å. C3 Abs are neutralizing and can bind bivalently. The orientation of the bound Fabs in our reconstructions suggests that C3 neutralizes poliovirus by binding two adjacent BC loops on the same mesa and inhibiting conformational changes in the viral capsid.


    Organizational Affiliation

    Department of Chemistry and Biochemistry, Brigham Young University, Provo, UT 84602, USA.




Macromolecules

Find similar proteins by: Sequence  |  Structure

Entity ID: 1
MoleculeChainsSequence LengthOrganismDetails
C3 antibody, light chain
L
219N/AMutation(s): 0 
Protein Feature View is not available: No corresponding UniProt sequence found.
Entity ID: 2
MoleculeChainsSequence LengthOrganismDetails
C3 antibody, heavy chain
H
220N/AMutation(s): 0 
Protein Feature View is not available: No corresponding UniProt sequence found.
Entity ID: 3
MoleculeChainsSequence LengthOrganismDetails
unknown peptide
0
5N/AMutation(s): 0 
Protein Feature View is not available: No corresponding UniProt sequence found.
Entity ID: 4
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: 5
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: 6
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: 7
MoleculeChainsSequence LengthOrganismDetails
Protein VP4
4
68Poliovirus type 1 (strain Mahoney)Mutation(s): 0 
Find proteins for P03300 (Poliovirus type 1 (strain Mahoney))
Go to UniProtKB:  P03300
Small Molecules
Ligands 2 Unique
IDChainsName / Formula / InChI Key2D Diagram3D Interactions
MYR
Query on MYR

Download SDF File 
Download CCD File 
4
MYRISTIC ACID
C14 H28 O2
TUNFSRHWOTWDNC-UHFFFAOYSA-N
 Ligand Interaction
SPH
Query on SPH

Download SDF File 
Download CCD File 
1
SPHINGOSINE
C18 H37 N O2
WWUZIQQURGPMPG-MSOLQXFVSA-N
 Ligand Interaction
Experimental Data & Validation

Experimental Data

  • Method: ELECTRON MICROSCOPY
  • Resolution: 11.1 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: 2013-07-03
    Type: Initial release
  • Version 1.1: 2013-07-17
    Type: Database references
  • Version 1.2: 2018-07-18
    Type: Data collection