5W1W

Structure of the HLA-E-VMAPRTLVL/GF4 TCR complex


Experimental Data Snapshot

  • Method: X-RAY DIFFRACTION
  • Resolution: 3.1 Å
  • R-Value Free: 0.263 
  • R-Value Work: 0.215 

wwPDB Validation 3D Report Full Report


This is version 1.2 of the entry. See complete history

Literature

A conserved energetic footprint underpins recognition of human leukocyte antigen-E by two distinct alpha beta T cell receptors.

Sullivan, L.C.Walpole, N.G.Farenc, C.Pietra, G.Sum, M.J.W.Clements, C.S.Lee, E.J.Beddoe, T.Falco, M.Mingari, M.C.Moretta, L.Gras, S.Rossjohn, J.Brooks, A.G.

(2017) J. Biol. Chem. 292: 21149-21158

  • DOI: 10.1074/jbc.M117.807719
  • Primary Citation of Related Structures:  

  • PubMed Abstract: 
  • αβ T cell receptors (TCRs) interact with peptides bound to the polymorphic major histocompatibility complex class Ia (MHC-Ia) and class II (MHC-II) molecules as well as the essentially monomorphic MHC class Ib (MHC-Ib) molecules. Although there is a ...

    αβ T cell receptors (TCRs) interact with peptides bound to the polymorphic major histocompatibility complex class Ia (MHC-Ia) and class II (MHC-II) molecules as well as the essentially monomorphic MHC class Ib (MHC-Ib) molecules. Although there is a large amount of information on how TCRs engage with MHC-Ia and MHC-II, our understanding of TCR/MHC-Ib interactions is very limited. Infection with cytomegalovirus (CMV) can elicit a CD8 + T cell response restricted by the human MHC-Ib molecule human leukocyte antigen (HLA)-E and specific for an epitope from UL40 (VMAPRTLIL), which is characterized by biased TRBV14 gene usage. Here we describe an HLA-E-restricted CD8 + T cell able to recognize an allotypic variant of the UL40 peptide with a modification at position 8 (P8) of the peptide (VMAPRTLVL) that uses the TRBV9 gene segment. We report the structures of a TRBV9 + TCR in complex with the HLA-E molecule presenting the two peptides. Our data revealed that the TRBV9 + TCR adopts a different docking mode and molecular footprint atop HLA-E when compared with the TRBV14 + TCR-HLA-E ternary complex. Additionally, despite their differing V gene segment usage and different docking mechanisms, mutational analyses showed that the TCRs shared a conserved energetic footprint on the HLA-E molecule, focused around the peptide-binding groove. Hence, we provide new insights into how monomorphic MHC molecules interact with T cells.


    Organizational Affiliation

    Infection and Immunity Program and Department of Biochemistry and Molecular Biology, Biomedicine Discovery Institute and.,Center of Excellence for Biomedical Research, University of Genoa, 16132 Genoa, Italy.,Institute of Infection and Immunity, Cardiff University School of Medicine, Heath Park, Cardiff CF14 4XN, Wales, United Kingdom.,Australian Research Council Centre of Excellence in Advanced Molecular Imaging, Monash University, Clayton, Victoria 3800, Australia.,From the Department of Microbiology and Immunology and Peter Doherty Institute for Infection and Immunity, University of Melbourne, Melbourne 3000, Australia, agbrooks@unimelb.edu.au.,Istituto di Ricovero e Cura a Carattere Scientifico Ospedale Pediatrico Bambino Gesù, 00165 Roma, Italy, and.,Infection and Immunity Program and Department of Biochemistry and Molecular Biology, Biomedicine Discovery Institute and jamie.rossjohn@monash.edu.,From the Department of Microbiology and Immunology and Peter Doherty Institute for Infection and Immunity, University of Melbourne, Melbourne 3000, Australia.,Department of Experimental Medicine (DiMES) and.,Unità Operativa Complessa Immunologia, Ospedale Policlinico San Martino, 16132 Genoa, Italy.




Macromolecules

Find similar proteins by: Sequence  |  Structure

Entity ID: 1
MoleculeChainsSequence LengthOrganismDetails
HLA class I histocompatibility antigen, alpha chain E
A, F, K, P
278Homo sapiensMutation(s): 0 
Gene Names: HLA-E (HLA-6.2, HLAE)
Find proteins for P13747 (Homo sapiens)
Go to Gene View: HLA-E
Go to UniProtKB:  P13747
Entity ID: 2
MoleculeChainsSequence LengthOrganismDetails
Beta-2-microglobulin
B, G, L, Q
100Homo sapiensMutation(s): 0 
Gene Names: B2M
Find proteins for P61769 (Homo sapiens)
Go to Gene View: B2M
Go to UniProtKB:  P61769
Entity ID: 3
MoleculeChainsSequence LengthOrganismDetails
leader peptide of HLA class I histocompatibility antigen, A alpha chain
C, H, M, R
9Homo sapiensMutation(s): 0 
Gene Names: HLA-A (HLAA)
Find proteins for P01892 (Homo sapiens)
Go to Gene View: HLA-A
Go to UniProtKB:  P01892
Entity ID: 4
MoleculeChainsSequence LengthOrganismDetails
GF4 T cell receptor alpha chain
D, I, N, S
207N/AMutation(s): 0 
Protein Feature View is not available: No corresponding UniProt sequence found.
Entity ID: 5
MoleculeChainsSequence LengthOrganismDetails
GF4 T cell receptor beta chain
E, J, O, T
246N/AMutation(s): 0 
Protein Feature View is not available: No corresponding UniProt sequence found.
Experimental Data & Validation

Experimental Data

  • Method: X-RAY DIFFRACTION
  • Resolution: 3.1 Å
  • R-Value Free: 0.263 
  • R-Value Work: 0.215 
  • Space Group: P 21 21 21
Unit Cell:
Length (Å)Angle (°)
a = 73.371α = 90.00
b = 225.926β = 90.00
c = 276.267γ = 90.00
Software Package:
Software NamePurpose
XDSdata reduction
BUSTERrefinement
SCALAdata scaling

Structure Validation

View Full Validation Report or Ramachandran Plots



Entry History 

Deposition Data

Revision History 

  • Version 1.0: 2017-10-04
    Type: Initial release
  • Version 1.1: 2017-10-18
    Type: Database references
  • Version 1.2: 2018-01-03
    Type: Database references