8ONK | pdb_00008onk

Human insulin in complex with the analytical antibody S1 Fab and the analytical antibody HUI-001 Fab


Experimental Data Snapshot

  • Method: X-RAY DIFFRACTION
  • Resolution: 3.40 Å
  • R-Value Free: 
    0.311 (Depositor), 0.311 (DCC) 
  • R-Value Work: 
    0.258 (Depositor), 0.257 (DCC) 
  • R-Value Observed: 
    0.260 (Depositor) 

Starting Models: experimental
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wwPDB Validation 3D Report Full Report

Validation slider image for 8ONK

This is version 1.2 of the entry. See complete history

Literature

IgE clonality and aggregation of insulin affect IgE-mediated activation of sensitized basophils.

Christoffersen, S.Baumann, K.Millner, A.H.Toft-Hansen, H.Johansson, E.Thorlaksen, C.Skov, P.S.

(2025) J Allergy Clin Immunol Glob 4: 100502-100502

  • DOI: https://doi.org/10.1016/j.jacig.2025.100502
  • Primary Citation Related Structures: 
    8ONI, 8ONK

  • PubMed Abstract: 

    Skin prick testing and specific IgE determination do not discriminate between sensitization and clinically relevant insulin allergic reactions, whereas the basophil histamine release assay has proven useful in identifying clinically relevant food and drug allergic reactions. We investigated IgE-mediated allergic reactions to insulin by studying the effect of insulin dimerization, superstructures (aggregates), and IgE clonality on activation of sensitized basophils. Three humanized IgE molecules directed against distinct insulin epitopes were developed, and basophils, alone or in combination, were sensitized with these antibodies. Insulin in monomeric or dimeric form and superstructures in solution or coupled to a Sepharose matrix were used to stimulate histamine release. Different insulin structures were tested on basophils sensitized with sera from 3 diabetic patients with allergic reactions and insulin-specific IgE during insulin treatment. Monoclonal humanized IgE molecules triggered basophil histamine release when insulin was dimerized, presented in a superstructure, or coupled to a Sepharose matrix-but not when insulin was monomeric. Monomeric insulin only induced histamine release when basophils were sensitized with a specific pair of IgE molecules. In basophils sensitized with sera from insulin-allergic patients containing insulin-specific IgE, only insulin in dimer formation, presented in a superstructure or coupled to a Sepharose matrix, could induce robust histamine release. Free monomeric insulin could not. This study illustrates why diagnostic methods for insulin allergy are difficult to correlate to clinical symptoms. Insulin aggregation and IgE clonality may be important factors in developing clinical symptoms of insulin allergy and should be addressed to improve the diagnostic outcome of insulin allergy testing.


  • Organizational Affiliation
    • RefLab ApS, Hvidovre, Denmark.

Macromolecule Content 

  • Total Structure Weight: 200.88 kDa 
  • Atom Count: 13,887 
  • Modeled Residue Count: 1,812 
  • Deposited Residue Count: 1,844 
  • Unique protein chains: 6

Macromolecules

Find similar proteins by:|  3D Structure
Entity ID: 1
MoleculeChains  Sequence LengthOrganismDetailsImage
Heavy chain of analytical antibody S1 FabA [auth H],
E [auth C]
223Mus musculusMutation(s): 0 
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Entity ID: 2
MoleculeChains  Sequence LengthOrganismDetailsImage
Light chain of analytical antibody S1 FabB [auth L],
F [auth E]
213Mus musculusMutation(s): 0 
Find similar proteins by:  Sequence   |   3D Structure  
Entity ID: 3
MoleculeChains  Sequence LengthOrganismDetailsImage
Insulin A chainC [auth I],
G [auth D]
21Homo sapiensMutation(s): 0 
Gene Names: INS
UniProt & NIH Common Fund Data Resources
Find proteins for P01308 (Homo sapiens)
Explore P01308 
Go to UniProtKB:  P01308
PHAROS:  P01308
GTEx:  ENSG00000254647 
Entity Groups
Sequence Clusters30% Identity50% Identity70% Identity90% Identity95% Identity100% Identity
UniProt GroupP01308
Sequence Annotations
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Reference Sequence
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Entity ID: 4
MoleculeChains  Sequence LengthOrganismDetailsImage
Insulin B chainD [auth B],
H [auth A]
30Homo sapiensMutation(s): 0 
Gene Names: INS
UniProt & NIH Common Fund Data Resources
Find proteins for P01308 (Homo sapiens)
Explore P01308 
Go to UniProtKB:  P01308
PHAROS:  P01308
GTEx:  ENSG00000254647 
Entity Groups
Sequence Clusters30% Identity50% Identity70% Identity90% Identity95% Identity100% Identity
UniProt GroupP01308
Sequence Annotations
Expand
Reference Sequence
Find similar proteins by:|  3D Structure
Entity ID: 5
MoleculeChains  Sequence LengthOrganismDetailsImage
Light chain of analytical antibody HUI-001 FabI [auth F],
K [auth J]
215Mus musculusMutation(s): 0 
Find similar proteins by:|  3D Structure
Entity ID: 6
MoleculeChains  Sequence LengthOrganismDetailsImage
Heavy chain of analytical antibody HUI-001 FabJ [auth G],
L [auth K]
220Mus musculusMutation(s): 0 

Experimental Data & Validation

Experimental Data

  • Method: X-RAY DIFFRACTION
  • Resolution: 3.40 Å
  • R-Value Free:  0.311 (Depositor), 0.311 (DCC) 
  • R-Value Work:  0.258 (Depositor), 0.257 (DCC) 
  • R-Value Observed: 0.260 (Depositor) 
Space Group: C 1 2 1
Unit Cell:
Length ( Å )Angle ( ˚ )
a = 278.9α = 90
b = 52.326β = 101.14
c = 179.504γ = 90
Software Package:
Software NamePurpose
PHENIXrefinement
XDSdata reduction
XSCALEdata scaling
PHASERphasing

Structure Validation

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Entry History 

& Funding Information

Deposition Data


Funding OrganizationLocationGrant Number
Not fundedDenmark--

Revision History  (Full details and data files)

  • Version 1.0: 2024-04-10
    Type: Initial release
  • Version 1.1: 2024-10-16
    Changes: Structure summary
  • Version 1.2: 2025-10-22
    Changes: Database references