1AC6

CRYSTAL STRUCTURE OF A VARIABLE DOMAIN MUTANT OF A T-CELL RECEPTOR ALPHA CHAIN


Experimental Data Snapshot

  • Method: X-RAY DIFFRACTION
  • Resolution: 2.30 Å
  • R-Value Free: 0.279 
  • R-Value Work: 0.161 
  • R-Value Observed: 0.161 

wwPDB Validation 3D Report Full Report


This is version 1.3 of the entry. See complete history


Literature

Dual conformations of a T cell receptor V alpha homodimer: implications for variability in V alpha V beta domain association.

Li, H.Lebedeva, M.I.Ward, E.S.Mariuzza, R.A.

(1997) J Mol Biol 269: 385-394

  • DOI: 10.1006/jmbi.1997.1047
  • Primary Citation of Related Structures:  
    1AC6

  • PubMed Abstract: 
  • The crystal structure of a mutant T cell receptor (TCR) V alpha domain containing a grafted third complementarity-determining region (CDR3) from a different V alpha was determined at 2.3 A resolution by molecular replacement using the wild-type V alp ...

    The crystal structure of a mutant T cell receptor (TCR) V alpha domain containing a grafted third complementarity-determining region (CDR3) from a different V alpha was determined at 2.3 A resolution by molecular replacement using the wild-type V alpha structure as a search model. Like the wild-type V alpha domain, the mutant crystallized as a homodimer very similar to TCR V alpha V beta and antibody V(L)V(H) heterodimers, with the CDR loops disposed to form part of the antigen-binding site. However, the relative orientation of the two chains in the mutant V alpha homodimer differs from that in the wild-type by a rotation of 14 degrees such that the buried surface area in the dimer interface of the mutant is 140 A2 less than in the wild-type. While the residues forming the interface are essentially the same in the two structures, there are only four pairs of interface hydrogen bonds in the case of the mutant compared with eight for the wild-type. These results suggest that multiple relative orientations of the V alpha and V beta domains of TCRs may be possible, providing a significant contribution to TCR combining site diversity.


    Related Citations: 
    • Crystal Structure of a T-Cell Receptor Beta-Chain Complexed with a Superantigen
      Fields, B.A., Malchiodi, E.L., Li, H., Ysern, X., Stauffacher, C.V., Schlievert, P.M., Karjalainen, K., Mariuzza, R.A.
      (1996) Nature 384: 188
    • Crystal Structure of the Beta Chain of a T Cell Antigen Receptor
      Bentley, G.A., Boulot, G., Karjalainen, K., Mariuzza, R.A.
      (1995) Science 267: 1984
    • Crystal Structure of the V Alpha Domain of a T Cell Antigen Receptor
      Fields, B.A., Ober, B., Malchiodi, E.L., Lebedeva, M.I., Braden, B.C., Ysern, X., Kim, J.K., Shao, X., Ward, E.S., Mariuzza, R.A.
      (1995) Science 270: 1821

    Organizational Affiliation

    Center for Advanced Research in Biotechnology, University of Maryland Biotechnology Institute, Rockville 20850, USA.



Macromolecules
Find similar proteins by:  (by identity cutoff)  |  Structure
Entity ID: 1
MoleculeChainsSequence LengthOrganismDetailsImage
T-CELL RECEPTOR ALPHAAB110Mus musculusMutation(s): 4 
Gene Names: TRAV6D-7
Find proteins for Q5R1F5 (Mus musculus)
Explore Q5R1F5 
Go to UniProtKB:  Q5R1F5
Protein Feature View
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  • Reference Sequence
Experimental Data & Validation

Experimental Data

  • Method: X-RAY DIFFRACTION
  • Resolution: 2.30 Å
  • R-Value Free: 0.279 
  • R-Value Work: 0.161 
  • R-Value Observed: 0.161 
  • Space Group: P 21 21 21
Unit Cell:
Length ( Å )Angle ( ˚ )
a = 72.43α = 90
b = 64.82β = 90
c = 45.54γ = 90
Software Package:
Software NamePurpose
XENGEN21data collection
XENGEN21data reduction
AMoREphasing
X-PLORrefinement
XENGENdata reduction
XENGENdata scaling

Structure Validation

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Entry History 

Deposition Data

Revision History 

  • Version 1.0: 1998-02-25
    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: 2013-03-20
    Changes: Database references