2Z31

Crystal structure of immune receptor complex


Experimental Data Snapshot

  • Method: X-RAY DIFFRACTION
  • Resolution: 2.7 Å
  • R-Value Free: 0.287 
  • R-Value Work: 0.235 

wwPDB Validation 3D Report Full Report


This is version 1.1 of the entry. See complete history

Literature

Structural evidence for a germline-encoded T cell receptor-major histocompatibility complex interaction 'codon'

Feng, D.Bond, C.J.Ely, L.K.Maynard, J.Garcia, K.C.

(2007) Nat.Immunol. 8: 975-983

  • DOI: 10.1038/ni1502
  • Primary Citation of Related Structures:  2PXY, 2Z35

  • PubMed Abstract: 
  • All complexes of T cell receptors (TCRs) bound to peptide-major histocompatibility complex (pMHC) molecules assume a stereotyped binding 'polarity', despite wide variations in TCR-pMHC docking angles. However, existing TCR-pMHC crystal structures hav ...

    All complexes of T cell receptors (TCRs) bound to peptide-major histocompatibility complex (pMHC) molecules assume a stereotyped binding 'polarity', despite wide variations in TCR-pMHC docking angles. However, existing TCR-pMHC crystal structures have failed to show broadly conserved pairwise interaction motifs. Here we determined the crystal structures of two TCRs encoded by the variable beta-chain 8.2 (V(beta)8.2), each bound to the MHC class II molecule I-A(u), and did energetic mapping of V(alpha) and V(beta) contacts with I-A(u). Together with two previously solved structures of V(beta)8.2-containing TCR-MHC complexes, we found four TCR-I-A complexes with structurally superimposable interactions between the V(beta) loops and the I-A alpha-helix. This examination of a narrow 'slice' of the TCR-MHC repertoire demonstrates what is probably one of many germline-derived TCR-MHC interaction 'codons'.


    Organizational Affiliation

    Howard Hughes Medical Institute, Department of Molecular & Cellular Physiology, Stanford University School of Medicine, Stanford, California 94305, USA.




Macromolecules

Find similar proteins by: Sequence  |  Structure

Entity ID: 1
MoleculeChainsSequence LengthOrganismDetails
T-cell receptor alpha-chain
A
112Mus musculusGene Names: TRAV6D-7
Find proteins for Q5R1F5 (Mus musculus)
Go to UniProtKB:  Q5R1F5
Entity ID: 2
MoleculeChainsSequence LengthOrganismDetails
T-cell receptor beta-chain
B
111Mus musculusN/A
Find proteins for A2NTY6 (Mus musculus)
Go to UniProtKB:  A2NTY6
Entity ID: 3
MoleculeChainsSequence LengthOrganismDetails
H-2 class II histocompatibility antigen, A-U alpha chain
C
181Mus musculusGene Names: H2-Aa
Find proteins for P14438 (Mus musculus)
Go to UniProtKB:  P14438
Entity ID: 4
MoleculeChainsSequence LengthOrganismDetails
H-2 class II histocompatibility antigen, A-U beta chain precursor
D
189Mus musculusN/A
Find proteins for P06344 (Mus musculus)
Go to UniProtKB:  P06344
Entity ID: 5
MoleculeChainsSequence LengthOrganismDetails
Myelin basic protein (MBP)-peptide
P
11N/AN/A
Protein Feature View is not available: No corresponding UniProt sequence found.
Experimental Data & Validation

Experimental Data

  • Method: X-RAY DIFFRACTION
  • Resolution: 2.7 Å
  • R-Value Free: 0.287 
  • R-Value Work: 0.235 
  • Space Group: P 41 2 2
Unit Cell:
Length (Å)Angle (°)
a = 97.332α = 90.00
b = 97.332β = 90.00
c = 174.369γ = 90.00
Software Package:
Software NamePurpose
AMoREphasing
CNSrefinement
HKL-2000data collection
HKL-2000data scaling
HKL-2000data reduction

Structure Validation

View Full Validation Report or Ramachandran Plots



Entry History 

Deposition Data

Revision History 

  • Version 1.0: 2007-10-09
    Type: Initial release
  • Version 1.1: 2011-07-13
    Type: Version format compliance