3D3V Immune System date May 12, 2008
title The Complex Between Tcr A6 And Human Class I Mhc Hla-A2 With Modified Htlv-1 Tax (Y5(3,4-Difluorophenylalanine)) Peptide
authors O.Y.Borbulevych, J.R.Clemens, B.M.Baker
compound source
Molecule: Hla Class I Histocompatibility Antigen, A-2 Alpha
Chain: A
Synonym: Mhc Class I Antigen A2
Engineered: Yes
Organism_scientific: Homo Sapiens
Organism_taxid: 9606
Gene: Hla-A, Hlaa
Expression_system: Escherichia Coli
Expression_system_taxid: 562
Expression_system_strain: Bl21
Expression_system_vector_type: Plasmid
Expression_system_plasmid: Phn1

Molecule: Beta-2-Microglobulin
Chain: B
Synonym: Beta-2-Microglobulin Form Pi 5.3
Engineered: Yes

Organism_scientific: Homo Sapiens
Organism_taxid: 9606
Gene: B2m, Cdabp0092, Hdcma22p
Expression_system: Escherichia Coli
Expression_system_taxid: 562

Molecule: Modified Htlv-1 Tax (Y5(3,4-Difluoro)F) Peptide
Chain: C
Engineered: Yes

Synthetic: Yes
Other_details: Sequence From Viral Protein Htlv-1 Tax. The Is Commercially Available;

Molecule: A6 Tcr Alpha Chain
Chain: D
Engineered: Yes

Organism_scientific: Homo Sapiens
Organism_taxid: 9606
Expression_system: Escherichia Coli
Expression_system_taxid: 562

Molecule: A6 Tcr Beta Chain
Chain: E
Engineered: Yes

Organism_scientific: Homo Sapiens
Organism_taxid: 9606
Expression_system: Escherichia Coli
Expression_system_taxid: 562
symmetry Space Group: C 1 2 1
R_factor 0.220 R_Free 0.278
crystal
cell
length a length b length c angle alpha angle beta angle gamma
224.450 48.537 93.794 90.00 90.61 90.00
method X-Ray Diffractionresolution 2.80 Å
ligand F2F, GOL enzyme
Gene
Ontology
ChainFunctionProcessComponent
B
  • cellular response to iron io...

  • Primary referenceFluorine substitutions in an antigenic peptide selectively modulate T-cell receptor binding in a minimally perturbing manner., Piepenbrink KH, Borbulevych OY, Sommese RF, Clemens J, Armstrong KM, Desmond C, Do P, Baker BM, Biochem J. 2009 Oct 12;423(3):353-61. PMID:19698083
    Data retrieval
  • Asymmetric unit, PDB entry: [header only] [complete with coordinates] (141 Kb) [Save to disk]
  • Biological Unit Coordinates (3d3v.pdb1.gz) 133 Kb
  • LPC: Ligand-Protein Contacts for 3D3V
  • CSU: Contacts of Structural Units for 3D3V
  • Likely Quarternary Molecular Structure file(s) for 3D3V
  • Structure Factors (349 Kb)
  • Retrieve 3D3V in mmCIF format [Save to disk]
  • SEQRES to COORDINATES correlation for 3D3V from S2C, [Save to disk]
  • Re-refined 3d3v structure from PDB_REDO, a databank with updated and optimised macromolecular X-ray diffraction structure models
  • View 3D3V 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 3D3V
  • Ramachandran plot from PDBSum
  • Structure-derived information
  • Electron Density related parameters from EDS Electron Density Server, at Upsala
  • Dipole moment, from Dipole Server at Weizmann Institute
  • 3D motif for 3D3V, from MSDmotif at EBI
  • Sequence-derived information
  • View one-letter amino acid or nucleotide sequence for each chain: [3d3v_B] [3d3v_A] [3d3v] [3d3v_D] [3d3v_C] [3d3v_E]
  • SWISS-PROT database: [P01892] [P61769]
  • Domain organization of [1A02_HUMAN] [B2MG_HUMAN] by SWISSPFAM
  • Domains found in 3D3V: [IG_like] [IGc1] [IGv ] by SMART
  • Other resources with information on 3D3V
  • Community annotation for 3D3V at PDBWiki (http://pdbwiki.org)
  • MMDB (Entrez's Structure Database)
  • Movements, Movies and Images
  • Images from IMB Jena Image Library of Biological Macromolecules.

  • You may enter another PDB ID code
    Go [Back], to the [PDB Lite page], to the [OCA Search page] or to the [PDB Home page]
    OCA© by Jaime Prilusky, 1996-2014,2022
    Bioinformatics Unit
    Weizmann Institute of Science