8BTB

Hexameric human IgG3 Fc complex

  • Classification: IMMUNE SYSTEM
  • Organism(s): Homo sapiens
  • Expression System: Homo sapiens
  • Mutation(s): No 

  • Deposited: 2022-11-28 Released: 2023-06-21 
  • Deposition Author(s): Abendstein, L., Sharp, T.H.
  • Funding Organization(s): European Research Council (ERC), Netherlands Organisation for Scientific Research (NWO)

Experimental Data Snapshot

  • Method: ELECTRON MICROSCOPY
  • Resolution: 14.0 Å
  • Aggregation State: PARTICLE 
  • Reconstruction Method: SUBTOMOGRAM AVERAGING 

wwPDB Validation   3D Report Full Report


This is version 1.1 of the entry. See complete history


Literature

Complement is activated by elevated IgG3 hexameric platforms and deposits C4b onto distinct antibody domains.

Abendstein, L.Dijkstra, D.J.Tjokrodirijo, R.T.N.van Veelen, P.A.Trouw, L.A.Hensbergen, P.J.Sharp, T.H.

(2023) Nat Commun 14: 4027-4027

  • DOI: https://doi.org/10.1038/s41467-023-39788-5
  • Primary Citation of Related Structures:  
    8BTB

  • PubMed Abstract: 

    IgG3 is unique among the IgG subclasses due to its extended hinge, allotypic diversity and enhanced effector functions, including highly efficient pathogen neutralisation and complement activation. It is also underrepresented as an immunotherapeutic candidate, partly due to a lack of structural information. Here, we use cryoEM to solve structures of antigen-bound IgG3 alone and in complex with complement components. These structures reveal a propensity for IgG3-Fab clustering, which is possible due to the IgG3-specific flexible upper hinge region and may maximise pathogen neutralisation by forming high-density antibody arrays. IgG3 forms elevated hexameric Fc platforms that extend above the protein corona to maximise binding to receptors and the complement C1 complex, which here adopts a unique protease conformation that may precede C1 activation. Mass spectrometry reveals that C1 deposits C4b directly onto specific IgG3 residues proximal to the Fab domains. Structural analysis shows this to be caused by the height of the C1-IgG3 complex. Together, these data provide structural insights into the role of the unique IgG3 extended hinge, which will aid the development and design of upcoming immunotherapeutics based on IgG3.


  • Organizational Affiliation

    Department of Cell and Chemical Biology, Leiden University Medical Center, 2300 RC, Leiden, The Netherlands.


Macromolecules
Find similar proteins by:  (by identity cutoff)  |  3D Structure
Entity ID: 1
MoleculeChains Sequence LengthOrganismDetailsImage
FLJ00385 protein (Fragment)209Homo sapiensMutation(s): 0 
Gene Names: FLJ00385
UniProt
Find proteins for Q8NF17 (Homo sapiens)
Explore Q8NF17 
Go to UniProtKB:  Q8NF17
Entity Groups  
Sequence Clusters30% Identity50% Identity70% Identity90% Identity95% Identity100% Identity
UniProt GroupQ8NF17
Sequence Annotations
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  • Reference Sequence
Find similar proteins by:  (by identity cutoff)  |  3D Structure
Entity ID: 2
MoleculeChains Sequence LengthOrganismDetailsImage
FLJ00385 protein (Fragment)209Homo sapiensMutation(s): 0 
Gene Names: FLJ00385
UniProt
Find proteins for Q8NF17 (Homo sapiens)
Explore Q8NF17 
Go to UniProtKB:  Q8NF17
Entity Groups  
Sequence Clusters30% Identity50% Identity70% Identity90% Identity95% Identity100% Identity
UniProt GroupQ8NF17
Sequence Annotations
Expand
  • Reference Sequence
Experimental Data & Validation

Experimental Data

  • Method: ELECTRON MICROSCOPY
  • Resolution: 14.0 Å
  • Aggregation State: PARTICLE 
  • Reconstruction Method: SUBTOMOGRAM AVERAGING 
EM Software:
TaskSoftware PackageVersion
RECONSTRUCTIONDynamo
MODEL REFINEMENTPHENIX

Structure Validation

View Full Validation Report



Entry History & Funding Information

Deposition Data


Funding OrganizationLocationGrant Number
European Research Council (ERC)European Union759517
Netherlands Organisation for Scientific Research (NWO)NetherlandsOCENW.KLEIN.291
Netherlands Organisation for Scientific Research (NWO)NetherlandsVI.Vidi.193.014

Revision History  (Full details and data files)

  • Version 1.0: 2023-06-21
    Type: Initial release
  • Version 1.1: 2023-07-19
    Changes: Data collection, Database references