6CPL Immune System date Mar 13, 2018
title Crystal Structure Of Dr11 Presenting The Gag293 Epitope
authors C.Farenc, S.Gras, 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

Molecule: Hla Class II Histocompatibility Antigen, Drb1-11 Chain;
Chain: B
Synonym: Dr-5,Dr5,Drw11,Mhc Class II Antigen Drb111
Engineered: Yes

Organism_scientific: Homo Sapiens
Organism_common: Human
Organism_taxid: 9606
Gene: Hla-Drb1
Expression_system: Homo Sapiens
Expression_system_taxid: 9606

Molecule: Gag Polyprotein
Chain: C
Synonym: Pr55gag
Engineered: Yes

Synthetic: Yes
Organism_scientific: Hiv-1 M:B_hxb2r
Organism_taxid: 11706
symmetry Space Group: P 31 1 2
R_factor 0.224 R_Free 0.253
crystal
cell
length a length b length c angle alpha angle beta angle gamma
65.746 65.746 222.514 90.00 90.00 120.00
method X-Ray Diffractionresolution 2.45 Å
ligand ACT, NA, NAG, SO4 enzyme
Gene
Ontology
ChainFunctionProcessComponent
A


B


Primary referenceCD4(+) T cell-mediated HLA class II cross-restriction in HIV controllers., Galperin M, Farenc C, Mukhopadhyay M, Jayasinghe D, Decroos A, Benati D, Tan LL, Ciacchi L, Reid HH, Rossjohn J, Chakrabarti LA, Gras S, Sci Immunol. 2018 Jun 8;3(24). pii: 3/24/eaat0687. doi:, 10.1126/sciimmunol.aat0687. PMID:29884618
Data retrieval
  • Asymmetric unit, PDB entry: [header only] [complete with coordinates] (75 Kb) [Save to disk]
  • Biological Unit Coordinates (6cpl.pdb1.gz) 70 Kb
  • LPC: Ligand-Protein Contacts for 6CPL
  • CSU: Contacts of Structural Units for 6CPL
  • Structure Factors (718 Kb)
  • Retrieve 6CPL in mmCIF format [Save to disk]
  • SEQRES to COORDINATES correlation for 6CPL from S2C, [Save to disk]
  • View 6CPL 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 6CPL
  • Ramachandran plot from PDBSum
  • Structure-derived information
  • Dipole moment, from Dipole Server at Weizmann Institute
  • Sequence-derived information
  • View one-letter amino acid or nucleotide sequence for each chain: [6cpl_A] [6cpl_B] [6cpl_C]
  • SWISS-PROT database:
  • Domain organization of by SWISSPFAM
  • Other resources with information on 6CPL
  • Community annotation for 6CPL at PDBWiki (http://pdbwiki.org)

  • You may enter another PDB ID code
    Go [Back], to the [PDB Lite page], to the [OCA Search page] or to the [PDB Home page]
    OCA© by Jaime Prilusky, 1996-2014,2022
    Bioinformatics Unit
    Weizmann Institute of Science