2WBJ Immune System date Mar 02, 2009
title Tcr Complex
authors M.Harkiolaki, S.L.Holmes, P.Svendsen, J.W.Gregersen, L.T.Jensen, R.Mcmahon, M.A.Friese, G.Van Boxel, R.Etzensperger, J.S.Tzartos S.Sainsbury, K.Harlos, E.D.Mellins, J.Palace, M.M.Esiri, P.A.Van Der Merwe, E.Y.Jones, L.Fugger
compound source
Molecule: Hla Class II Histocompatibility Antigen, Dr Alpha
Chain: A, E
Fragment: Mhc Class II, Residues 26-218
Synonym: Mhc Class II Antigen Dra
Engineered: Yes
Organism_scientific: Homo Sapiens
Organism_common: Human
Organism_taxid: 9606
Expression_system: Drosophila Melanogaster
Expression_system_common: Fruit Fly
Expression_system_taxid: 7227
Expression_system_cell_line: S2 Cells

Molecule: Hla Class II Histocompatibility Antigen, Drb1-15 Chain;
Chain: B, F
Fragment: Mhc Class II, Residues 29-227
Synonym: Mhc Class I Antigen Drb115, Dw2.2dr2.2, Hla-Dr2
Engineered: Yes

Organism_scientific: Homo Sapiens
Organism_common: Human
Organism_taxid: 9606
Expression_system: Drosophila Melanogaster
Expression_system_common: Fruit Fly
Expression_system_taxid: 7227
Expression_system_cell_line: S2 Cells

Molecule: Ob Tcr
Chain: C, G
Engineered: Yes
Other_details: E. Coli Enga Peptide Covalently Bound

Organism_scientific: Homo Sapiens
Organism_common: Human
Organism_taxid: 9606
Expression_system: Escherichia Coli
Expression_system_taxid: 469008
Expression_system_strain: Bl21(De3)
Expression_system_plasmid: Pet22
Other_details: Patient Derived Sequence

Molecule: Ob Tcr
Chain: D, H
Engineered: Yes
Other_details: E. Coli Enga Peptide Covalently Bound

Organism_scientific: Homo Sapiens
Organism_common: Human
Organism_taxid: 9606
Expression_system: Escherichia Coli
Expression_system_taxid: 469008
Expression_system_strain: Bl21(De3)
Expression_system_plasmid: Pet22
Other_details: Patient Derived Sequence
symmetry Space Group: P 21 21 21
R_factor 0.24697 R_Free 0.28778
crystal
cell
length a length b length c angle alpha angle beta angle gamma
109.706 130.271 180.220 90.00 90.00 90.00
method X-Ray Diffractionresolution 3.00 Å
ligand BMA, MAN, NAG, SO4 enzyme
Gene
Ontology
ChainFunctionProcessComponent
A, E


F, B


Primary referenceT cell-mediated autoimmune disease due to low-affinity crossreactivity to common microbial peptides., Harkiolaki M, Holmes SL, Svendsen P, Gregersen JW, Jensen LT, McMahon R, Friese MA, van Boxel G, Etzensperger R, Tzartos JS, Kranc K, Sainsbury S, Harlos K, Mellins ED, Palace J, Esiri MM, van der Merwe PA, Jones EY, Fugger L, Immunity. 2009 Mar 20;30(3):348-57. PMID:19303388
Data retrieval
  • Asymmetric unit, PDB entry: [header only] [complete with coordinates] (278 Kb) [Save to disk]
  • Biological Unit Coordinates (2wbj.pdb1.gz) 135 Kb
  • Biological Unit Coordinates (2wbj.pdb2.gz) 136 Kb
  • LPC: Ligand-Protein Contacts for 2WBJ
  • CSU: Contacts of Structural Units for 2WBJ
  • Likely Quarternary Molecular Structure file(s) for 2WBJ
  • Structure Factors (732 Kb)
  • Retrieve 2WBJ in mmCIF format [Save to disk]
  • SEQRES to COORDINATES correlation for 2WBJ from S2C, [Save to disk]
  • Re-refined 2wbj structure from PDB_REDO, a databank with updated and optimised macromolecular X-ray diffraction structure models
  • View 2WBJ 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 2WBJ
  • 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 2WBJ, from MSDmotif at EBI
  • Fold representative 2wbj from FSSP and Dali (Families of Structurally Similar Proteins)
  • Sequence-derived information
  • View one-letter amino acid or nucleotide sequence for each chain: [2wbj_A] [2wbj_C] [2wbj] [2wbj_F] [2wbj_G] [2wbj_B] [2wbj_E] [2wbj_H] [2wbj_D]
  • SWISS-PROT database: [P01911] [P01903]
  • Domain organization of [2B1F_HUMAN] [DRA_HUMAN] by SWISSPFAM
  • Domains found in 2WBJ: [IG] [IGc1] [IGv] [MHC_II_alpha] [MHC_II_beta ] by SMART
  • Alignments of the sequence of 2WBJ with the sequences similar proteins can be viewed for 2WBJ's classification [2B1F_HUMAN] [DRA_HUMAN] at ProtoMap. Click on "Neighbors List", then on the "See Alignments" button below the list.
  • A sequence distance tree ("phylogenetic tree") can be viewed for 1ACL's classification [2B1F_HUMAN] [DRA_HUMAN] at ProtoMap. Click on the Cluster number.
  • Other resources with information on 2WBJ
  • Community annotation for 2WBJ 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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