7QHP

Structure of I-Ag7 with a bound hybrid insulin peptide


Experimental Data Snapshot

  • Method: X-RAY DIFFRACTION
  • Resolution: 1.82 Å
  • R-Value Free: 0.219 
  • R-Value Work: 0.183 
  • R-Value Observed: 0.185 

Starting Model: experimental
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wwPDB Validation   3D Report Full Report


This is version 1.5 of the entry. See complete history


Literature

Structural plasticity in I-A g7 links autoreactivity to hybrid insulin peptides in type I diabetes.

Erausquin, E.Serra, P.Parras, D.Santamaria, P.Lopez-Sagaseta, J.

(2022) Front Immunol 13: 924311-924311

  • DOI: https://doi.org/10.3389/fimmu.2022.924311
  • Primary Citation of Related Structures:  
    7QHP, 7Z50

  • PubMed Abstract: 

    We recently provided evidence for promiscuous recognition of several different hybrid insulin peptides (HIPs) by the highly diabetogenic, I-A g7 -restricted 4.1-T cell receptor (TCR). To understand the structural determinants of this phenomenon, we solved the structure of an agonistic HIP/I-A g7 complex, both in isolation as well as bound to the 4.1-TCR. We find that HIP promiscuity of the 4.1-TCR is dictated, on the one hand, by an amino acid sequence pattern that ensures I-A g7 binding and, on the other hand, by the presence of three acidic residues at positions P5, P7 and P8 that favor an optimal engagement by the 4.1-TCR's complementary determining regions. Surprisingly, comparison of the TCR-bound and unbound HIP/I-A g7 structures reveals that 4.1-TCR binding triggers several novel and unique structural motions in both the I-A g7 molecule and the peptide that are essential for docking. This observation indicates that the type 1 diabetes-associated I-A g7 molecule is structurally malleable and that this plasticity allows the recognition of multiple peptides by individual TCRs that would otherwise be unable to do so.


  • Organizational Affiliation

    Unit of Protein Crystallography and Structural Immunology, Navarrabiomed, Navarra, Spain.


Macromolecules
Find similar proteins by:  (by identity cutoff)  |  3D Structure
Entity ID: 1
MoleculeChains Sequence LengthOrganismDetailsImage
H-2 class II histocompatibility antigen, A-D alpha chain202Mus musculusMutation(s): 1 
Gene Names: H2-Aa
UniProt
Find proteins for P04228 (Mus musculus)
Explore P04228 
Go to UniProtKB:  P04228
Entity Groups  
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UniProt GroupP04228
Sequence Annotations
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  • Reference Sequence
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Entity ID: 2
MoleculeChains Sequence LengthOrganismDetailsImage
Murine MHC class II I-A beta g7230Mus musculusMutation(s): 0 
UniProt
Find proteins for Q31135 (Mus musculus)
Explore Q31135 
Go to UniProtKB:  Q31135
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UniProt GroupQ31135
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  • Reference Sequence

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Entity ID: 3
MoleculeChains Sequence LengthOrganismDetailsImage
Insulin-1C [auth T]13Mus musculusMutation(s): 0 
Gene Names: Ins1Ins-1
UniProt & NIH Common Fund Data Resources
Find proteins for P01325 (Mus musculus)
Explore P01325 
Go to UniProtKB:  P01325
IMPC:  MGI:96572
Entity Groups  
Sequence Clusters30% Identity50% Identity70% Identity90% Identity95% Identity100% Identity
UniProt GroupP01325
Sequence Annotations
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  • Reference Sequence
Experimental Data & Validation

Experimental Data

  • Method: X-RAY DIFFRACTION
  • Resolution: 1.82 Å
  • R-Value Free: 0.219 
  • R-Value Work: 0.183 
  • R-Value Observed: 0.185 
  • Space Group: C 2 2 21
Unit Cell:
Length ( Å )Angle ( ˚ )
a = 91.996α = 90
b = 108.819β = 90
c = 98.055γ = 90
Software Package:
Software NamePurpose
PHENIXrefinement
autoPROCdata reduction
autoPROCdata scaling
REFMACphasing

Structure Validation

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Entry History & Funding Information

Deposition Data


Funding OrganizationLocationGrant Number
Spanish Ministry of Economy and CompetitivenessSpainRTI2018-093964-B-I00
Spanish Ministry of Science, Innovation, and UniversitiesSpainRYC-2017-21683
Spanish Ministry of Science, Innovation, and UniversitiesSpainPGC2018-094894-B-I00

Revision History  (Full details and data files)

  • Version 1.0: 2022-07-20
    Type: Initial release
  • Version 1.1: 2022-08-10
    Changes: Database references
  • Version 1.2: 2022-08-17
    Changes: Database references
  • Version 1.3: 2022-08-24
    Changes: Database references
  • Version 1.4: 2024-01-31
    Changes: Data collection, Refinement description
  • Version 1.5: 2024-10-23
    Changes: Structure summary