6BIX Immune System date Nov 03, 2017
title Hla-Drb1 In Complex With Citrullinated Ll37 Peptide
authors Y.T.Ting, S.W.Scally, J.Rossjohn
compound source
Molecule: Hla Class II Histocompatibility Antigen, Dr Alpha
Chain: A
Synonym: Mhc Class II Antigen Dra
Engineered: Yes
 Organism_scientific: Homo Sapiens
Organism_common: Human
Organism_taxid: 9606
Gene: Hla-Dra, Hla-Dra1
Expression_system: Homo Sapiens
Expression_system_taxid: 9606
Expression_system_cell_line: Hek293s Gnti-

Molecule: Hla Class II Dr-Beta (Hla-Dr B)
Chain: B
Engineered: Yes
Organism_scientific: Homo Sapiens
Organism_common: Human
Organism_taxid: 9606
Expression_system: Homo Sapiens
Expression_system_taxid: 9606
Expression_system_cell_line: Hek293s Gnti-

Molecule: Ll37_cit91
Chain: C
Engineered: Yes
Synthetic: Yes
Organism_scientific: Homo Sapiens
Organism_taxid: 9606
symmetry Space Group: C 2 2 21
R_factor 0.169 R_Free 0.213
crystal
cell
length a length b length c angle alpha angle beta angle gamma
67.337 183.059 78.435 90.00 90.00 90.00
method X-Ray Diffractionresolution 2.20 Å
ligand CIR, NAG enzyme
Gene
Ontology
ChainFunctionProcessComponent
A


B


Primary referenceThe interplay between citrullination and HLA-DRB1 polymorphism in shaping peptide binding hierarchies in Rheumatoid Arthritis., Ting YT, Petersen J, Ramarathinam SH, Scally SW, Loh KL, Thomas R, Suri A, Baker DG, Purcell AW, Reid HH, Rossjohn J, J Biol Chem. 2018 Jan 9. pii: RA117.001013. doi: 10.1074/jbc.RA117.001013. PMID:29317506
Data retrieval
  • Asymmetric unit, PDB entry: [header only] [complete with coordinates] (73 Kb) [Save to disk]
  • Biological Unit Coordinates (6bix.pdb1.gz) 68 Kb
  • LPC: Ligand-Protein Contacts for 6BIX
  • CSU: Contacts of Structural Units for 6BIX
  • Structure Factors (1143 Kb)
  • Retrieve 6BIX in mmCIF format [Save to disk]
  • SEQRES to COORDINATES correlation for 6BIX from S2C, [Save to disk]
    • View 6BIX 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 6BIX
  • 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: [6bix_A] [6bix_C] [6bix_B]
  • SWISS-PROT database:
  • Domain organization of by SWISSPFAM
    • Other resources with information on 6BIX
  • Community annotation for 6BIX at PDBWiki (http://pdbwiki.org)

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