4IS6 Immune System date Jan 16, 2013
title Crystal Structure Of Hla-Dr4 Bound To Gp100 Peptide
authors Y.Li
compound source
Molecule: Hla Class II Histocompatibility Antigen, Dr Alpha
Chain: A
Fragment: Unp Residues 26-207
Synonym: Hla-Dr4a, Mhc Class II Antigen Dra
Engineered: Yes
Organism_scientific: Homo Sapiens
Organism_common: Human
Organism_taxid: 9606
Gene: Hla-Dra, Hla-Dra1
Expression_system: Escherichia Coli
Expression_system_taxid: 469008
Expression_system_strain: Bl21(De3)
Expression_system_vector_type: Plasmid
Expression_system_plasmid: Pet-26b

Molecule: Hla Class II Histocompatibility Antigen, Drb1-4 B
Chain: B
Fragment: Unp Residues 30-221
Synonym: Hla-Dr4b, Mhc Class II Antigen Drb14, Dr-4, Dr4
Engineered: Yes

Organism_scientific: Homo Sapiens
Organism_common: Human
Organism_taxid: 9606
Gene: Hla-Drb1
Expression_system: Escherichia Coli
Expression_system_taxid: 469008
Expression_system_strain: Bl21(De3)
Expression_system_vector_type: Plasmid
Expression_system_plasmid: Pet-26b

Molecule: Melanocyte Protein Pmel
Chain: C
Fragment: Unp Residues 44-59
Synonym: Me20-M, Me20m, Melanocyte Protein Pmel 17, Melanoc Lineage-Specific Antigen Gp100, Melanoma-Associated Me20 An P100, Premelanosome Protein, Silver Locus Protein Homolog;
Engineered: Yes

Synthetic: Yes
Organism_scientific: Homo Sapiens
Organism_common: Human
Organism_taxid: 9606
symmetry Space Group: P 21 21 2
R_factor 0.265 R_Free 0.298
crystal
cell
length a length b length c angle alpha angle beta angle gamma
90.290 117.590 41.890 90.00 90.00 90.00
method X-Ray Diffractionresolution 2.50 Å
Gene
Ontology
ChainFunctionProcessComponent
A


B


Primary referenceStructure-Based Design of Altered MHC Class II-Restricted Peptide Ligands with Heterogeneous Immunogenicity., Chen S, Li Y, Depontieu FR, McMiller TL, English AM, Shabanowitz J, Kos F, Sidney J, Sette A, Rosenberg SA, Hunt DF, Mariuzza RA, Topalian SL, J Immunol. 2013 Oct 9. PMID:24108701
Data retrieval
  • Asymmetric unit, PDB entry: [header only] [complete with coordinates] (68 Kb) [Save to disk]
  • Biological Unit Coordinates (4is6.pdb1.gz) 64 Kb
  • CSU: Contacts of Structural Units for 4IS6
  • Structure Factors (126 Kb)
  • Retrieve 4IS6 in mmCIF format [Save to disk]
  • SEQRES to COORDINATES correlation for 4IS6 from S2C, [Save to disk]
  • Re-refined 4is6 structure from PDB_REDO, a databank with updated and optimised macromolecular X-ray diffraction structure models
  • View 4IS6 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 4IS6
  • 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 4IS6, from MSDmotif at EBI
  • Fold representative 4is6 from FSSP and Dali (Families of Structurally Similar Proteins)
  • Sequence-derived information
  • View one-letter amino acid or nucleotide sequence for each chain: [4is6_A] [4is6_C] [4is6] [4is6_B]
  • SWISS-PROT database:
  • Domain organization of by SWISSPFAM
  • Domains found in 4IS6: [IGc1] [MHC_II_alpha] [MHC_II_beta ] by SMART
  • Other resources with information on 4IS6
  • Community annotation for 4IS6 at PDBWiki (http://pdbwiki.org)

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