5JLZ Immune System date Apr 28, 2016
title Crystal Structure Of Hla-Drb104:01 In Complex With Modified Enolase Peptide 26-40 With Citrulline At The Position 32
authors A.Dubnovitsky, G.Kozhukh, T.Sandalova, A.Achour
compound source
Molecule: Hla Class II Histocompatibility Antigen, Dr Alpha
Chain: A, C
Synonym: Mhc Class II Antigen Dra
Engineered: Yes
Other_details: Extracellular Domain, Unp Residues 26-206
 Organism_scientific: Homo Sapiens
Organism_common: Human
Organism_taxid: 9606
Gene: Hla-Dra, Hla-Dra1
Expression_system: Escherichia Coli Bl21(De3)
Expression_system_taxid: 469008

Molecule: Hla Class II Histocompatibility Antigen, Drb1-4 B
Chain: B, D
Synonym: Mhc Class II Antigen Drb14,Dr4
Engineered: Yes
Other_details: Extracellular Domain, Unp Residues 30-219
Organism_scientific: Homo Sapiens
Organism_common: Human
Organism_taxid: 9606
Gene: Hla-Drb1
Expression_system: Escherichia Coli Bl21(De3)
Expression_system_taxid: 469008

Molecule: Alpha-Enolase
Chain: E, F
Engineered: Yes
Other_details: Post-Translational Modification Of Arg32 Of Alpha-Enolase
Synthetic: Yes
Organism_scientific: Homo Sapiens
Organism_common: Human
Organism_taxid: 9606
symmetry Space Group: P 21 21 21
R_factor 0.206 R_Free 0.243
crystal
cell
length a length b length c angle alpha angle beta angle gamma
69.442 73.782 145.482 90.00 90.00 90.00
method X-Ray Diffractionresolution 1.99 Å
ligand CIR, MLA enzyme
Gene
Ontology
ChainFunctionProcessComponent
A, C


D, B


Primary referenceFunctional and Structural Characterization of a Novel HLA-DRB1*04:01-Restricted alpha-Enolase T Cell Epitope in Rheumatoid Arthritis., Gerstner C, Dubnovitsky A, Sandin C, Kozhukh G, Uchtenhagen H, James EA, Ronnelid J, Ytterberg AJ, Pieper J, Reed E, Tandre C, Rieck M, Zubarev RA, Ronnblom L, Sandalova T, Buckner JH, Achour A, Malmstrom V, Front Immunol. 2016 Nov 14;7:494. eCollection 2016. PMID:27895642
Data retrieval
  • Asymmetric unit, PDB entry: [header only] [complete with coordinates] (272 Kb) [Save to disk]
  • Biological Unit Coordinates (5jlz.pdb1.gz) 135 Kb
  • Biological Unit Coordinates (5jlz.pdb2.gz) 133 Kb
  • LPC: Ligand-Protein Contacts for 5JLZ
  • CSU: Contacts of Structural Units for 5JLZ
  • Structure Factors (448 Kb)
  • Retrieve 5JLZ in mmCIF format [Save to disk]
  • SEQRES to COORDINATES correlation for 5JLZ from S2C, [Save to disk]
  • Re-refined 5jlz structure from PDB_REDO, a databank with updated and optimised macromolecular X-ray diffraction structure models
    • View 5JLZ 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 5JLZ
  • 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
    • Sequence-derived information
  • View one-letter amino acid or nucleotide sequence for each chain: [5jlz_C] [5jlz] [5jlz_F] [5jlz_A] [5jlz_D] [5jlz_B] [5jlz_E]
  • SWISS-PROT database:
  • Domain organization of by SWISSPFAM
    • Other resources with information on 5JLZ
  • Community annotation for 5JLZ at PDBWiki (http://pdbwiki.org)

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