7TQU

Coxsackievirus A21 capsid subdomain in complex with mouse polyclonal antibody pAbC-1


Experimental Data Snapshot

  • Method: ELECTRON MICROSCOPY
  • Resolution: 3.80 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

High-resolution structural analysis of enterovirus-reactive polyclonal antibodies in complex with whole virions.

Antanasijevic, A.Schulze, A.J.Reddy, V.S.Ward, A.B.

(2022) PNAS Nexus 1: pgac253-pgac253

  • DOI: https://doi.org/10.1093/pnasnexus/pgac253
  • Primary Citation of Related Structures:  
    7TQS, 7TQT, 7TQU

  • PubMed Abstract: 
  • Non-polio enteroviruses (NPEVs) cause serious illnesses in young children and neonates, including aseptic meningitis, encephalitis, and inflammatory muscle disease, among others. While over 100 serotypes have been described to date, vaccine only exists for EV-A71 ...

    Non-polio enteroviruses (NPEVs) cause serious illnesses in young children and neonates, including aseptic meningitis, encephalitis, and inflammatory muscle disease, among others. While over 100 serotypes have been described to date, vaccine only exists for EV-A71. Efforts toward rationally designed pan-NPEV vaccines would greatly benefit from structural biology methods for rapid and comprehensive evaluation of vaccine candidates and elicited antibody responses. Toward this goal, we introduced a cryo-electron-microscopy-based approach for structural analysis of virus- or vaccine-elicited polyclonal antibodies (pAbs) in complex with whole NPEV virions. We demonstrated the feasibility using coxsackievirus A21 and reconstructed five structurally distinct pAbs bound to the virus. The pAbs targeted two immunodominant epitopes, one overlapping with the receptor binding site. These results demonstrate that our method can be applied to map broad-spectrum polyclonal immune responses against intact virions and define potentially cross-reactive epitopes.


    Organizational Affiliation

    International AIDS Vaccine Initiative Neutralizing Antibody Center, Collaboration for AIDS Vaccine Discovery (CAVD) and Scripps Consortium for HIV/AIDS Vaccine Development (CHAVD), The Scripps Research Institute, La Jolla, CA 92037, USA.



Macromolecules
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Entity ID: 1
MoleculeChainsSequence LengthOrganismDetailsImage
pAbC-1 heavy chainA [auth H]112Mus musculusMutation(s): 0 
Protein Feature View
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Entity ID: 2
MoleculeChainsSequence LengthOrganismDetailsImage
pAbC-1 light chainB [auth L]102Mus musculusMutation(s): 0 
Protein Feature View
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Entity ID: 3
MoleculeChainsSequence LengthOrganismDetailsImage
VP1C [auth a],
G [auth e],
K [auth i]
298Coxsackievirus A21Mutation(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 Q7T7N6 (Coxsackievirus A21)
Explore Q7T7N6 
Go to UniProtKB:  Q7T7N6
Entity Groups  
Sequence Clusters30% Identity50% Identity70% Identity90% Identity95% Identity100% Identity
UniProt GroupQ7T7N6
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Entity ID: 4
MoleculeChainsSequence LengthOrganismDetailsImage
VP2D [auth b],
H [auth f],
L [auth j]
272Coxsackievirus A21Mutation(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 Q7T7N6 (Coxsackievirus A21)
Explore Q7T7N6 
Go to UniProtKB:  Q7T7N6
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UniProt GroupQ7T7N6
Protein Feature View
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Entity ID: 5
MoleculeChainsSequence LengthOrganismDetailsImage
VP3E [auth c],
I [auth g],
M [auth k]
240Coxsackievirus A21Mutation(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 Q7T7N6 (Coxsackievirus A21)
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UniProt GroupQ7T7N6
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Entity ID: 6
MoleculeChainsSequence LengthOrganismDetailsImage
VP4F [auth d],
J [auth h],
N [auth l]
69Coxsackievirus A21Mutation(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 Q7T7N6 (Coxsackievirus A21)
Explore Q7T7N6 
Go to UniProtKB:  Q7T7N6
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UniProt GroupQ7T7N6
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 Ideal Coordinates CCD File 
O [auth a],
P [auth e],
Q [auth i]
MYRISTIC ACID
C14 H28 O2
TUNFSRHWOTWDNC-UHFFFAOYSA-N
 Ligand Interaction
Experimental Data & Validation

Experimental Data

  • Method: ELECTRON MICROSCOPY
  • Resolution: 3.80 Å
  • Aggregation State: PARTICLE 
  • Reconstruction Method: SINGLE PARTICLE 
EM Software:
TaskSoftware PackageVersion
MODEL REFINEMENTRosettaEM
RECONSTRUCTIONRELION3.0

Structure Validation

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Entry History & Funding Information

Deposition Data


Funding OrganizationLocationGrant Number
Not funded--

Revision History  (Full details and data files)

  • Version 1.0: 2023-01-04
    Type: Initial release
  • Version 1.1: 2023-02-08
    Changes: Database references