4FQX Immune System date Jun 25, 2012
title Crystal Structure Of Hla-Dm Bound To Hla-Dr1
authors D.K.Sethi, W.Pos, K.W.Wucherpfennig
compound source
Molecule: Hla Class II Histocompatibility Antigen, Dm Alpha
Chain: C
Fragment: Unp Residues 27-225
Synonym: Mhc Class II Antigen Dma, Really Interesting New G Protein;
Engineered: Yes
Organism_scientific: Homo Sapiens
Organism_common: Human
Organism_taxid: 9606
Gene: Dm Alpha Chain, Dma, Hla Class II Histocompatibility Hla-Dma, Ring6;
Expression_system: Spodoptera Frugiperda
Expression_system_taxid: 7108
Expression_system_strain: Lec3.2.8.1
Expression_system_vector_type: Plasmid
Expression_system_plasmid: Pee14.1

Molecule: Hla Class II Histocompatibility Antigen, Dm Beta
Chain: D
Fragment: Unp Residues 19-211
Synonym: Mhc Class II Antigen Dmb, Really Interesting New G Protein;
Engineered: Yes

Organism_scientific: Homo Sapiens
Organism_common: Human
Organism_taxid: 9606
Gene: Dm Beta Chain, Dmb, Hla Class II Histocompatibility A Hla-Dmb, Ring7;
Expression_system: Cricetulus Griseus
Expression_system_taxid: 10029
Expression_system_strain: Lec3.2.8.1
Expression_system_vector_type: Plasmid
Expression_system_plasmid: Pee14.1

Molecule: Synthetic Peptide
Chain: E
Engineered: Yes

Synthetic: Yes

Molecule: Hla Class II Histocompatibility Antigen, Dr Alpha
Chain: A
Fragment: Unp Residues 26-216
Synonym: Mhc Class II Antigen Dra
Engineered: Yes

Organism_scientific: Homo Sapiens
Organism_common: Human
Organism_taxid: 9606
Gene: Hla-Dr1 Alpha Chain, Hla-Dra, Hla-Dra1, Mhc Class II
Expression_system: Spodoptera Frugiperda
Expression_system_taxid: 7108

Molecule: Hla Class II Histocompatibility Antigen, Drb1-1 B
Chain: B
Fragment: Unp Residues 30-221
Synonym: Mhc Class II Antigen Drb11, Dr-1, Dr1
Engineered: Yes

Organism_scientific: Homo Sapiens
Organism_common: Human
Organism_taxid: 9606
Gene: Beta Chain, Hla-Dr1, Hla-Drb1, Mhc Class II Molecule
Expression_system: Spodoptera Frugiperda
Expression_system_taxid: 7108
symmetry Space Group: P 21 21 21
R_factor 0.194 R_Free 0.240
crystal
cell
length a length b length c angle alpha angle beta angle gamma
66.190 121.649 138.416 90.00 90.00 90.00
method X-Ray Diffractionresolution 2.60 Å
ligand NAG enzyme
Gene
Ontology
ChainFunctionProcessComponent
A, C


D, B


Primary referenceCrystal Structure of the HLA-DM-HLA-DR1 Complex Defines Mechanisms for Rapid Peptide Selection., Pos W, Sethi DK, Call MJ, Schulze MS, Anders AK, Pyrdol J, Wucherpfennig KW, Cell. 2012 Dec 21;151(7):1557-68. doi: 10.1016/j.cell.2012.11.025. PMID:23260142
Data retrieval
  • Asymmetric unit, PDB entry: [header only] [complete with coordinates] (260 Kb) [Save to disk]
  • Biological Unit Coordinates (4fqx.pdb1.gz) 252 Kb
  • Biological Unit Coordinates (4fqx.pdb2.gz) 128 Kb
  • Biological Unit Coordinates (4fqx.pdb3.gz) 128 Kb
  • LPC: Ligand-Protein Contacts for 4FQX
  • CSU: Contacts of Structural Units for 4FQX
  • Structure Factors (280 Kb)
  • Retrieve 4FQX in mmCIF format [Save to disk]
  • SEQRES to COORDINATES correlation for 4FQX from S2C, [Save to disk]
  • Re-refined 4fqx structure from PDB_REDO, a databank with updated and optimised macromolecular X-ray diffraction structure models
  • View 4FQX 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 4FQX
  • 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 4FQX, from MSDmotif at EBI
  • Fold representative 4fqx from FSSP and Dali (Families of Structurally Similar Proteins)
  • Sequence-derived information
  • View one-letter amino acid or nucleotide sequence for each chain: [4fqx] [4fqx_E] [4fqx_A] [4fqx_C] [4fqx_D] [4fqx_B]
  • SWISS-PROT database:
  • Domain organization of by SWISSPFAM
  • Domains found in 4FQX: [IGc1] [MHC_II_alpha] [MHC_II_beta ] by SMART
  • Other resources with information on 4FQX
  • Community annotation for 4FQX at PDBWiki (http://pdbwiki.org)
  • Movements, Movies and Images
  • Images from IMB Jena Image Library of Biological Macromolecules.

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