2XN9 Immune System date Jul 31, 2010
title Crystal Structure Of The Ternary Complex Between Human T Cel Receptor, Staphylococcal Enterotoxin H And Human Major Histocompatibility Complex Class II
authors M.Saline, K.E.J.Rodstrom, G.Fischer, V.Y.Orekhov, B.G.Karlsson, K.Lindkvist-Petersson
compound source
Molecule: T Cell Receptor Alpha Chain C Region
Chain: A
Fragment: Extracellular Domain, Residues 1-95
Engineered: Yes
Mutation: Yes
Other_details: Variable Domain Trav27 Fused To Constant Dom
Organism_scientific: Homo Sapiens
Organism_common: Human
Organism_taxid: 9606
Cell: T Lymphocyte
Expression_system: Escherichia Coli
Expression_system_taxid: 469008
Expression_system_strain: Bl21(De3)
Expression_system_plasmid: Pgmt7

Molecule: T Cell Receptor Beta-1 Chain C Region
Chain: B
Fragment: Extracellular Domain, Residues 1-130
Engineered: Yes
Mutation: Yes
Other_details: Variable Domain Trbv19 Fused To Constant Dom

Organism_scientific: Homo Sapiens
Organism_common: Human
Organism_taxid: 9606
Cell: T Lymphocyte
Expression_system: Escherichia Coli
Expression_system_taxid: 469008
Expression_system_strain: Bl21(De3)
Expression_system_plasmid: Pgmt7

Molecule: Enterotoxin H
Chain: C
Synonym: Seh, Staphylococcal Enterotoxin H
Engineered: Yes

Organism_scientific: Staphylococcus Aureus
Organism_taxid: 1280
Expression_system: Escherichia Coli
Expression_system_taxid: 83333
Expression_system_strain: K-12
Expression_system_variant: Ul635

Molecule: Hla Class II Histocompatibility Antigen, Dr Alpha
Chain: D
Fragment: Extracellular Domain, Residues 26-207
Synonym: Major Histocompatibility Complex Class II Alpha, M II Antigen Dra Chain;
Engineered: Yes
Other_details: Chain Dr 0101

Organism_scientific: Homo Sapiens
Organism_common: Human
Organism_taxid: 9606
Cell: Antigen Presenting Cell
Expression_system: Escherichia Coli
Expression_system_taxid: 469008
Expression_system_strain: Bl21(De3)Plys
Expression_system_plasmid: Plm1

Molecule: Major Histocompatibility Complex Class II Beta Ch
Chain: E
Fragment: Extracellular Domain, Residues 30-219
Synonym: Mhc Class II Antigen Drb1.1, Dr-1, Dr1
Engineered: Yes
Other_details: Chain Drb1 0101

Organism_scientific: Homo Sapiens
Organism_common: Human
Organism_taxid: 9606
Cell: Antigen Presenting Cell
Expression_system: Escherichia Coli
Expression_system_taxid: 469008
Expression_system_strain: Bl21(De3)
Expression_system_plasmid: Plm1

Molecule: Hemagglutinin
Chain: F
Fragment: Residues 59-71
Synonym: Influenza Hemagglutinin Peptide

Synthetic: Yes
Organism_scientific: Influenza A Virus
Organism_taxid: 11320
symmetry Space Group: C 1 2 1
R_factor 0.22150 R_Free 0.27236
crystal
cell
length a length b length c angle alpha angle beta angle gamma
191.180 48.890 166.720 90.00 113.55 90.00
method X-Ray Diffractionresolution 2.30 Å
ligand GOL, NA enzyme
Gene
Ontology
ChainFunctionProcessComponent
C


Primary referenceThe structure of superantigen complexed with TCR and MHC reveals novel insights into superantigenic T cell activation., Saline M, Rodstrom KE, Fischer G, Orekhov VY, Karlsson BG, Lindkvist-Petersson K, Nat Commun. 2010 Nov 16;1:119. PMID:21081917
Data retrieval
  • Asymmetric unit, PDB entry: [header only] [complete with coordinates] (186 Kb) [Save to disk]
  • Biological Unit Coordinates (2xn9.pdb1.gz) 177 Kb
  • LPC: Ligand-Protein Contacts for 2XN9
  • CSU: Contacts of Structural Units for 2XN9
  • Structure Factors (3237 Kb)
  • Retrieve 2XN9 in mmCIF format [Save to disk]
  • SEQRES to COORDINATES correlation for 2XN9 from S2C, [Save to disk]
  • Re-refined 2xn9 structure from PDB_REDO, a databank with updated and optimised macromolecular X-ray diffraction structure models
  • View 2XN9 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 2XN9
  • Cartoon representation from PDB Cartoon
  • 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
  • Crystal Contacts, from CryCo at Weizmann Institute
  • 3D motif for 2XN9, from MSDmotif at EBI
  • Fold representative 2xn9 from FSSP and Dali (Families of Structurally Similar Proteins)
  • Sequence-derived information
  • View one-letter amino acid or nucleotide sequence for each chain: [2xn9] [2xn9_E] [2xn9_A] [2xn9_D] [2xn9_B] [2xn9_C] [2xn9_F]
  • SWISS-PROT database:
  • Domain organization of by SWISSPFAM
  • Domains found in 2XN9: [IG] [IGc1] [IGv] [MHC_II_alpha] [MHC_II_beta ] by SMART
  • Other resources with information on 2XN9
  • Community annotation for 2XN9 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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