1NAM

MURINE ALLOREACTIVE SCFV TCR-PEPTIDE-MHC CLASS I MOLECULE COMPLEX


Experimental Data Snapshot

  • Method: X-RAY DIFFRACTION
  • Resolution: 2.70 Å
  • R-Value Free: 0.298 
  • R-Value Work: 0.230 
  • R-Value Observed: 0.237 

wwPDB Validation   3D Report Full Report



Literature

CDR3 loop flexibility contributes to the degeneracy of TCR recognition

Reiser, J.-B.Darnault, C.Gregoire, C.Mosser, T.Mazza, G.Kearnay, A.van der Merwe, P.A.Fontecilla-Camps, J.C.Housset, D.Malissen, B.

(2003) Nat Immunol 4: 241-247

  • DOI: 10.1038/ni891
  • Primary Citation of Related Structures:  
    1NAN, 1NAM

  • PubMed Abstract: 
  • T cell receptor (TCR) binding degeneracy lies at the heart of several physiological and pathological phenomena, yet its structural basis is poorly understood. We determined the crystal structure of a complex involving the BM3.3 TCR and an octapeptide ...

    T cell receptor (TCR) binding degeneracy lies at the heart of several physiological and pathological phenomena, yet its structural basis is poorly understood. We determined the crystal structure of a complex involving the BM3.3 TCR and an octapeptide (VSV8) bound to the H-2K(b) major histocompatibility complex molecule at a 2.7 A resolution, and compared it with the BM3.3 TCR bound to the H-2K(b) molecule loaded with a peptide that has no primary sequence identity with VSV8. Comparison of these structures showed that the BM3.3 TCR complementarity-determining region (CDR) 3alpha could undergo rearrangements to adapt to structurally different peptide residues. Therefore, CDR3 loop flexibility helps explain TCR binding cross-reactivity.


    Related Citations: 
    • Crystal structure of a T cell receptor bound to an allogeneic MHC molecule
      Reiser, J.-B., Darnault, C., Guimezanes, A., Gregoire, C., Mosser, T., Schmitt-Verhulst, A.-M., Fontecilla-Camps, J.C., Malissen, B., Housset, D., Mazza, G.
      (2000) Nat Immunol 1: 291
    • A T-Cell Receptor CDR3Beta Loop Undergoes Conformational Changes of Unprecedented Magnitude Upon Binding to a Peptide/MHC Class I Complex
      Reiser, J.-B., Gregoire, C., Darnault, C., Mosser, T., Guimezanes, A., Schmitt-Verhulst, A.-M., Fontecilla-Camps, J.C., Mazza, G., Malissen, B., Housset, D.
      (2002) Immunity 16: 345
    • Crystal Structures of Two Viral Peptides in Complex with Murine MHC Class I H-2Kb
      Fremont, D.H., Matsumura, M., Stura, E.A., Peterson, P.A., Wilson, I.A.
      (1992) Science 257: 919

    Organizational Affiliation

    Laboratoire de Cristallographie et Cristallogenèse des Protéines, Institut de Biologie Structurale J.-P. Ebel, CEA-CNRS-UJF, 41 rue Jules Horowitz, F-38027 Grenoble Cedex 1, France.



Macromolecules
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Entity ID: 1
MoleculeChainsSequence LengthOrganismDetailsImage
BM3.3 T Cell Receptor alpha-ChainA116Mus musculusMutation(s): 0 
Gene Names: TRADV16DTRAV16
Find proteins for Q5R1F1 (Mus musculus)
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Go to UniProtKB:  Q5R1F1
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  • Reference Sequence
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Entity ID: 2
MoleculeChainsSequence LengthOrganismDetailsImage
BM3.3 T Cell Receptor beta-ChainB113Mus musculusMutation(s): 0 
Find proteins for P04214 (Mus musculus)
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Go to UniProtKB:  P04214
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  • Reference Sequence
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Entity ID: 3
MoleculeChainsSequence LengthOrganismDetailsImage
H-2 class I histocompatibility antigen, K-B alpha chain precursorH275Mus musculusMutation(s): 0 
Gene Names: H2-KH2-K1
Find proteins for P01901 (Mus musculus)
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Go to UniProtKB:  P01901
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Entity ID: 4
MoleculeChainsSequence LengthOrganismDetailsImage
NucleocapsidP8N/AMutation(s): 0 
Find proteins for P11212 (Vesicular stomatitis Indiana virus (strain Glasgow))
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Go to UniProtKB:  P11212
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Entity ID: 5
MoleculeChainsSequence LengthOrganismDetailsImage
Beta-2-microglobulinL100Mus musculusMutation(s): 0 
Gene Names: B2m
Find proteins for P01887 (Mus musculus)
Explore P01887 
Go to UniProtKB:  P01887
NIH Common Fund Data Resources
IMPC  MGI:88127
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  • Reference Sequence
Oligosaccharides

Help

Entity ID: 6
MoleculeChainsChain Length2D Diagram Glycosylation3D Interactions
2-acetamido-2-deoxy-beta-D-glucopyranose-(1-4)-2-acetamido-2-deoxy-beta-D-glucopyranose
C
2 N-Glycosylation Oligosaccharides Interaction
Experimental Data & Validation

Experimental Data

  • Method: X-RAY DIFFRACTION
  • Resolution: 2.70 Å
  • R-Value Free: 0.298 
  • R-Value Work: 0.230 
  • R-Value Observed: 0.237 
  • Space Group: P 43 21 2
Unit Cell:
Length ( Å )Angle ( ˚ )
a = 101.86α = 90
b = 101.86β = 90
c = 201.36γ = 90
Software Package:
Software NamePurpose
MOSFLMdata reduction
SCALAdata scaling
AMoREphasing
REFMACrefinement
CCP4data scaling

Structure Validation

View Full Validation Report



Entry History 

Deposition Data

Revision History 

  • Version 1.0: 2003-03-11
    Type: Initial release
  • Version 1.1: 2008-04-28
    Changes: Version format compliance
  • Version 1.2: 2011-07-13
    Changes: Non-polymer description, Version format compliance
  • Version 2.0: 2020-07-29
    Type: Remediation
    Reason: Carbohydrate remediation
    Changes: Advisory, Atomic model, Data collection, Database references, Derived calculations, Structure summary