5MEN Immune System date Nov 16, 2016
title Human Leukocyte Antigen A02 Presenting Ilakflhwl, In Complex Cognate T-Cell Receptor
authors P.J.Rizkallah, A.Lloyd, M.Crowther, D.K.Cole, A.K.Sewell
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_common: Human
Organism_taxid: 9606
Gene: Hla-A, Hlaa
Expression_system: Escherichia Coli 'Bl21-Gold(De3)Plyss Ag
Expression_system_taxid: 866768

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

Organism_scientific: Homo Sapiens
Organism_common: Human
Organism_taxid: 9606
Gene: B2m, Cdabp0092, Hdcma22p
Expression_system: Escherichia Coli 'Bl21-Gold(De3)Plyss Ag
Expression_system_taxid: 866768

Molecule: Ile-Leu-Ala-Lys-Phe-Leu-His-Trp-Leu
Chain: C
Engineered: Yes

Synthetic: Yes
Organism_scientific: Homo Sapiens
Organism_common: Human
Organism_taxid: 9606

Molecule: Protein Trav22,Human Nkt Tcr Alpha Chain
Chain: D
Synonym: Human Nkt Tcr Beta Chain
Engineered: Yes

Organism_scientific: Homo Sapiens
Organism_common: Human
Organism_taxid: 9606
Gene: Trav22, B2m, Hdcma22p
Expression_system: Escherichia Coli
Expression_system_taxid: 562

Molecule: Protein Trbv6-5,Human Nkt Tcr Beta Chain
Chain: E
Engineered: Yes

Organism_scientific: Homo Sapiens
Organism_common: Human
Organism_taxid: 9606
Gene: Trbv6-5, B2m, Hdcma22p
Expression_system: Escherichia Coli
Expression_system_taxid: 562
symmetry Space Group: P 1 21 1
R_factor 0.189 R_Free 0.272
crystal
cell
length a length b length c angle alpha angle beta angle gamma
93.160 48.690 118.100 90.00 108.15 90.00
method X-Ray Diffractionresolution 2.81 Å
ligand EDO, GOL, SO4 enzyme
Gene
Ontology
ChainFunctionProcessComponent
B
  • cellular response to iron io...

  • Primary referenceStructural mechanism underpinning cross-reactivity of a CD8+ T-cell clone that recognises a peptide derived from human telomerase reverse transcriptase., Cole DK, van den Berg HA, Lloyd A, Crowther MD, Beck K, Ekeruche-Makinde J, Miles JJ, Bulek AM, Dolton G, Schauenburg AJ, Wall A, Fuller A, Clement M, Laugel B, Rizkallah PJ, Wooldridge L, Sewell AK, J Biol Chem. 2016 Nov 30. pii: jbc.M116.741603. PMID:27903649
    Data retrieval
  • Asymmetric unit, PDB entry: [header only] [complete with coordinates] (292 Kb) [Save to disk]
  • Biological Unit Coordinates (5men.pdb1.gz) 284 Kb
  • LPC: Ligand-Protein Contacts for 5MEN
  • CSU: Contacts of Structural Units for 5MEN
  • Structure Factors (1348 Kb)
  • Retrieve 5MEN in mmCIF format [Save to disk]
  • SEQRES to COORDINATES correlation for 5MEN from S2C, [Save to disk]
  • Re-refined 5men structure from PDB_REDO, a databank with updated and optimised macromolecular X-ray diffraction structure models
  • View 5MEN 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 5MEN
  • 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
  • Fold representative 5men from FSSP and Dali (Families of Structurally Similar Proteins)
  • Sequence-derived information
  • View one-letter amino acid or nucleotide sequence for each chain: [5men_C] [5men] [5men_A] [5men_B] [5men_D] [5men_E]
  • SWISS-PROT database:
  • Domain organization of by SWISSPFAM
  • Other resources with information on 5MEN
  • Community annotation for 5MEN at PDBWiki (http://pdbwiki.org)

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