Biological Assembly 1  

 3D View: Structure

Standalone Viewers  
Protein Workshop | Ligand Explorer

Global Symmetry: Asymmetric - C1 
Global Stoichiometry: Hetero 4-mer - ABCD 

Biological assembly 1 assigned by authors and generated by PISA (software)

Macromolecule Content

• Total Structure Weight: 94860.36 
• Atom Count: 6339 
• Residue Count: 832 
• Unique protein chains: 5

1BD2

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

• DOI: 10.2210/pdb1BD2/pdb

• Classification: COMPLEX (MHC/VIRAL PEPTIDE/RECEPTOR)
• Organism(s): Homo sapiens, Human T-cell leukemia virus 1 (isolate Caribbea HS-35 subtype A)
• Expression System: Escherichia coli BL21(DE3), Escherichia coli


• Deposited: 1998-05-12 Released: 1998-08-19 
• Deposition Author(s): Ding, Y.-H., Smith, K.J., Garboczi, D.N., Utz, U., Biddison, W.E., Wiley, D.C.

---

Experimental Data Snapshot

• Method: X-RAY DIFFRACTION
• Resolution: 2.5 Å
• R-Value Free: 0.312 
• R-Value Work: 0.238 

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

• PubMed: 9586631 


• 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 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. [e-mail]

Macromolecules

Find similar proteins by: Sequence  |  Structure

Entity ID: 1
Molecule	Chains	Sequence Length	Organism	Details
HLA-A 0201	A	275	Homo sapiens	Mutation(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: 2
Molecule	Chains	Sequence Length	Organism	Details
BETA-2 MICROGLOBULIN	B	100	Homo sapiens	Mutation(s): 0  Gene Names: B2M
Find proteins for P61769 (Homo sapiens) Go to Gene View: B2M Go to UniProtKB:  P61769

Entity ID: 3
Molecule	Chains	Sequence Length	Organism	Details
TAX PEPTIDE	C	9	Human T-cell leukemia virus 1 (isolate Caribbea HS-35 subtype A)	Mutation(s): 0  Gene Names: tax
Find proteins for P14079 (Human T-cell leukemia virus 1 (isolate Caribbea HS-35 subtype A)) Go to UniProtKB:  P14079

Entity ID: 4
Molecule	Chains	Sequence Length	Organism	Details
T CELL RECEPTOR ALPHA	D	204	Homo sapiens	Mutation(s): 0  Gene Names: TRAV29DV5, TRAC (TCRA)
Find proteins for P04437 (Homo sapiens) Go to UniProtKB:  P04437
Find proteins for P01848 (Homo sapiens) Go to UniProtKB:  P01848

Entity ID: 5
Molecule	Chains	Sequence Length	Organism	Details
T CELL RECEPTOR BETA	E	244	Homo sapiens	Mutation(s): 0  Gene Names: TRBV6-5, TRBC2 (TCRBC2)
Find proteins for A0A0K0K1A5 (Homo sapiens) Go to UniProtKB:  A0A0K0K1A5
Find proteins for A0A5B9 (Homo sapiens) Go to UniProtKB:  A0A5B9

Experimental Data & Validation

Experimental Data

• Method: X-RAY DIFFRACTION
• Resolution: 2.5 Å
• R-Value Free: 0.312 
• R-Value Work: 0.238 
• Space Group: P 2₁ 2₁ 2₁

Unit Cell:

Length (Å)	Angle (°)
a = 63.800	α = 90.00
b = 73.300	β = 90.00
c = 217.700	γ = 90.00

Software Package:

Software Name	Purpose
DENZO	data reduction
X-PLOR	phasing
SCALEPACK	data scaling
X-PLOR	refinement
X-PLOR	model building

Structure Validation

Entry History 

Deposition Data

• Deposited Date: 1998-05-12 
• Released Date: 1998-08-19 
• Deposition Author(s): Ding, Y.-H., Smith, K.J., Garboczi, D.N., Utz, U., Biddison, W.E., Wiley, D.C.

Revision History 

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