1BD2 Complex (Mhc Viral Peptide Receptor) date May 12, 1998
title Complex Between Human T-Cell Receptor B7, Viral Peptide (Tax Class I Molecule Hla-A 0201
authors Y.H.Ding, K.J.Smith, D.N.Garboczi, U.Utz, W.E.Biddison, D.C.Wile
compound source
Molecule: Hla-A 0201
Chain: A
Fragment: Extracellular Domains Alpha 1, Alpha 2, Alpha 3
Synonym: Hla A2 Heavy Chain
Engineered: Yes
Organism_scientific: Homo Sapiens
Organism_common: Human
Organism_taxid: 9606
Cell_line: Bl21
Organ: Plasma
Cellular_location: Plasma Membrane
Gene: Hla-A 0201
Expression_system: Escherichia Coli
Expression_system_taxid: 562
Expression_system_strain: Xa90
Expression_system_cellular_location: Refolded From Inclusio
Expression_system_plasmid: Phn1

Molecule: Beta-2 Microglobulin
Chain: B
Engineered: Yes

Organism_scientific: Homo Sapiens
Organism_common: Human
Organism_taxid: 9606
Cell_line: Bl21
Organ: Plasma
Cellular_location: Extracellular
Gene: V Beta 12.3 J Beta 2.7 (Bv13s1)
Expression_system: Escherichia Coli Bl21(De3)
Expression_system_taxid: 469008
Expression_system_strain: Bl21 (De3)
Expression_system_cellular_location: Refolded From Inclusio
Expression_system_plasmid: Plm1

Molecule: Tax Peptide
Chain: C
Fragment: Residues 11 - 19 From Tax Protein Of Human T Lymp Virus Type 1;
Engineered: Yes

Organism_scientific: Human T-Lymphotropic Virus 1
Organism_taxid: 11908

Molecule: T Cell Receptor Alpha
Chain: D
Fragment: Extracellular Domains V And C, Residues 1 - 210
Engineered: Yes

Organism_scientific: Homo Sapiens
Organism_common: Human
Organism_taxid: 9606
Cell_line: Bl21
Organ: Plasma
Cell: T-Lymphocyte
Cellular_location: Plasma Membrane
Gene: V Alpha 17.2, J Alpha 54 (Adv21s1a1n2)
Expression_system: Escherichia Coli Bl21(De3)
Expression_system_taxid: 469008
Expression_system_strain: Bl21 (De3)
Expression_system_cellular_location: Refolded From Inclusio
Expression_system_plasmid: Plm1

Molecule: T Cell Receptor Beta
Chain: E
Fragment: Extracellular Domains V And C, Residues 1 - 247
Engineered: Yes

Organism_scientific: Homo Sapiens
Organism_common: Human
Organism_taxid: 9606
Cell_line: Bl21
Organ: Plasma
Cell: T-Lymphocyte
Cellular_location: Plasma Membrane
Gene: V Beta 12.3, J Beta 2.7 (Bv13s1)
Expression_system: Escherichia Coli Bl21(De3)
Expression_system_taxid: 469008
Expression_system_strain: Bl21 (De3)
Expression_system_cellular_location: Refolded From Inclusio
Expression_system_plasmid: Plm1
symmetry Space Group: P 21 21 21
R_factor 0.238 R_Free 0.312
crystal
cell
length a length b length c angle alpha angle beta angle gamma
63.800 73.300 217.700 90.00 90.00 90.00
method X-Ray Diffractionresolution 2.50 Å
note 1BD2 (Molecule of the Month:pdb63)
related structures by homologous chain: 1B0G, 1FYT, 1MI5, 1R3H, 1S9X
Gene
Ontology
ChainFunctionProcessComponent
B
  • cellular response to iron io...

  • D


    Primary referenceTwo human T cell receptors bind in a similar diagonal mode to the HLA-A2/Tax peptide complex using different TCR amino acids., Ding YH, Smith KJ, Garboczi DN, Utz U, Biddison WE, Wiley DC, Immunity 1998 Apr;8(4):403-11. PMID:9586631
    Data retrieval
  • Asymmetric unit, PDB entry: [header only] [complete with coordinates] (136 Kb) [Save to disk]
  • Biological Unit Coordinates (1bd2.pdb1.gz) 131 Kb
  • CSU: Contacts of Structural Units for 1BD2
  • Likely Quarternary Molecular Structure file(s) for 1BD2
  • Retrieve 1BD2 in mmCIF format [Save to disk]
  • SEQRES to COORDINATES correlation for 1BD2 from S2C, [Save to disk]
  • View 1BD2 in 3D
  • Proteopedia, because life has more than 2D.
  • On Jmol, a nice Rasmol like molecule viewer. This is good for easiest viewing of basic structure.
  • On FirstGlance, an excellent tool for a guided tour on the structure components, by E. Martz.
  • Visual 3D analysis of 1BD2
  • Cartoon representation from PDB Cartoon
  • Ramachandran plot from PDBSum
  • Structure-derived information
  • Dipole moment, from Dipole Server at Weizmann Institute
  • Crystal Contacts, from CryCo at Weizmann Institute
  • 3D motif for 1BD2, from MSDmotif at EBI
  • Classification of representative domains in scop (Structural Classification of Proteins)
        - Domain d1bd2a2, region A:1-181 [Jmol] [rasmolscript] [script source]
        - Domain d1bd2a1, region A:182-275 [Jmol] [rasmolscript] [script source]
        - Domain d1bd2b_, region B [Jmol] [rasmolscript] [script source]
        - Domain d1bd2d1, region D:1-117 [Jmol] [rasmolscript] [script source]
        - Domain d1f1bd2, region D:101-153 [Jmol] [rasmolscript] [script source]
        - Domain d1bd2d2, region D:118-203 [Jmol] [rasmolscript] [script source]
        - Domain d1q1bd2, region D:4-235 [Jmol] [rasmolscript] [script source]
        - Domain d1bd2e2, region E:119-247 [Jmol] [rasmolscript] [script source]
        - Domain d1bd2e1, region E:3-118 [Jmol] [rasmolscript] [script source]
  • Fold representative 1bd2 from FSSP and Dali (Families of Structurally Similar Proteins)
  • Class (fold), Architecture (subfold), Topology, Homologous superfamily from CATH
  • Summaries and structural analyses of PDB data files from PDBSum
  • Identification of Protein Pockets & Cavities at CASTp
  • Sequence-derived information
  • View one-letter amino acid or nucleotide sequence for each chain: [1bd2_A] [1bd2_E] [1bd2_B] [1bd2] [1bd2_D] [1bd2_C]
  • SWISS-PROT database: [P01892] [P61769] [P0C213]
  • Domain organization of [1A02_HUMAN] [B2MG_HUMAN] [TAX_HTL1F] by SWISSPFAM
  • Domains found in 1BD2: [IG] [IG_like] [IGc1 ] by SMART
  • Other resources with information on 1BD2
  • Community annotation for 1BD2 at PDBWiki (http://pdbwiki.org)
  • MMDB (Entrez's Structure Database)
  • Movements, Movies and Images
  • Images from IMB Jena Image Library of Biological Macromolecules.

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