1BD2

COMPLEX BETWEEN HUMAN T-CELL RECEPTOR B7, VIRAL PEPTIDE (TAX) AND MHC CLASS I MOLECULE HLA-A 0201

Experimental Data Snapshot

  • Method: X-RAY DIFFRACTION
  • Resolution: 2.50 Å
  • R-Value Free: 0.312 
  • R-Value Work: 0.238 
  • R-Value Observed: 0.238 

wwPDB Validation   3D Report Full Report


This is version 1.5 of the entry. See complete history. 


Literature

Two human T cell receptors bind in a similar diagonal mode to the HLA-A2/Tax peptide complex using different TCR amino acids.

Ding, Y.H., Smith, K.J., Garboczi, D.N., Utz, U., Biddison, W.E., Wiley, D.C.

(1998) Immunity 8: 403-411

  • DOI: 10.1016/s1074-7613(00)80546-4
  • Primary Citation of Related Structures:  
    1BD2

  • PubMed Abstract: 

    • The three-dimensional structure of a human alphabeta T cell receptor (TCR), B7, bound to the HLA-A2 molecule/HTLV-1 Tax peptide complex was determined by x-ray crystallography. Although different from the A6 TCR, previously studied, in 16 of the 17 residues that contact HLA-A2/Tax, the B7 TCR binds in a similar diagonal manner, only slightly tipped and rotated, relative to the A6 TCR ...

    The three-dimensional structure of a human alphabeta T cell receptor (TCR), B7, bound to the HLA-A2 molecule/HTLV-1 Tax peptide complex was determined by x-ray crystallography. Although different from the A6 TCR, previously studied, in 16 of the 17 residues that contact HLA-A2/Tax, the B7 TCR binds in a similar diagonal manner, only slightly tipped and rotated, relative to the A6 TCR. The structure explains data from functional assays on the specificity differences between the B7 and A6 TCRs for agonist, partial agonist, and null peptides. The existence of a structurally similar diagonal binding mode for TCRs favors mechanisms based on the formation of geometrically defined supramolecular assemblies for initiating signaling.

    Related Citations: 
    • Structure of the Complex between Human T-Cell Receptor, Viral Peptide and Hla-A2
      Garboczi, D.N., Ghosh, P., Utz, U., Fan, Q.R., Biddison, W.E., Wiley, D.C.
      (1996) Nature 384: 134
    Organizational Affiliation: 

    Department of Molecular and Cellular Biology, Harvard University, Howard Hughes Medical Institute, Cambridge, Massachusetts 02138, USA. ding@crystal.harvard.edu



Macromolecules
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Entity ID: 1
MoleculeChainsSequence LengthOrganismDetailsImage
HLA-A 0201A275Homo sapiensMutation(s): 0 
Gene Names: HLA-A 0201, HLA-A, HLAA
Find proteins for P04439 (Homo sapiens)
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Go to UniProtKB:  P04439
NIH Common Fund Data Resources
PHAROS:  P04439
GTEx:  ENSG00000206503
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  • Reference Sequence
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Entity ID: 2
MoleculeChainsSequence LengthOrganismDetailsImage
BETA-2 MICROGLOBULINB100Homo sapiensMutation(s): 0 
Gene Names: V BETA 12.3 J BETA 2.7 (BV13S1), B2M, CDABP0092, HDCMA22P
Find proteins for P61769 (Homo sapiens)
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PHAROS:  P61769
GTEx:  ENSG00000166710
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Entity ID: 3
MoleculeChainsSequence LengthOrganismDetailsImage
TAX PEPTIDEC9Human T-cell leukemia virus type IMutation(s): 0 
Find proteins for P14079 (Human T-cell leukemia virus 1 (isolate Caribbea HS-35 subtype A))
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Entity ID: 4
MoleculeChainsSequence LengthOrganismDetailsImage
T CELL RECEPTOR ALPHAD204Homo sapiensMutation(s): 0 
Gene Names: V ALPHA 17.2, J ALPHA 54 (ADV21S1A1N2), TRAV29DV5, TRAC, TCRA
Find proteins for P04437 (Homo sapiens)
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PHAROS:  P04437
GTEx:  ENSG00000211810
Find proteins for P01848 (Homo sapiens)
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PHAROS:  P01848
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Entity ID: 5
MoleculeChainsSequence LengthOrganismDetailsImage
T CELL RECEPTOR BETAE244Homo sapiensMutation(s): 0 
Gene Names: V BETA 12.3, J BETA 2.7 (BV13S1), TRBC2, TCRBC2, TRBV6-5
Find proteins for A0A5B9 (Homo sapiens)
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PHAROS:  A0A5B9
Find proteins for A0A0K0K1A5 (Homo sapiens)
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PHAROS:  A0A0K0K1A5
GTEx:  ENSG00000211721
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Experimental Data & Validation

Experimental Data

  • Method: X-RAY DIFFRACTION
  • Resolution: 2.50 Å
  • R-Value Free: 0.312 
  • R-Value Work: 0.238 
  • R-Value Observed: 0.238 
  • Space Group: P 21 21 21
Unit Cell:
Length ( Å )Angle ( ˚ )
a = 63.8α = 90
b = 73.3β = 90
c = 217.7γ = 90
Software Package:
Software NamePurpose
DENZOdata reduction
SCALEPACKdata scaling
X-PLORmodel building
X-PLORrefinement
X-PLORphasing

Structure Validation

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Entry History 

Deposition Data

Revision History  (Full details and data files)

  • Version 1.0: 1998-08-19
    Type: Initial release
  • Version 1.1: 2008-03-24
    Changes: Version format compliance
  • Version 1.2: 2011-07-13
    Changes: Version format compliance
  • Version 1.3: 2012-12-12
    Changes: Other
  • Version 1.4: 2013-03-13
    Changes: Other
  • Version 1.5: 2016-05-25
    Changes: Structure summary