2IAM Immune System date Sep 08, 2006
title Structural Basis For Recognition Of Mutant Self By A Tumor- Specific, Mhc Class II-Restricted Tcr
authors L.Deng, R.J.Langley, R.A.Mariuzza
compound source
Molecule: Hla Class II Histocompatibility Antigen, Dr Alpha Chain;
Chain: A
Fragment: Residues 1-182 (26-207)
Synonym: Mhc Class II Antigen Dra, Major Histocompatibility Complex Class II Hla-Dr1 Alpha Chain;
Engineered: Yes
Organism_scientific: Homo Sapiens
Organism_common: Human
Organism_taxid: 9606
Gene: Hla-Dra
Expression_system: Escherichia Coli Bl21
Expression_system_taxid: 511693
Expression_system_strain: Bl21
Expression_system_vector_type: Plasmid
Expression_system_plasmid: Pt7-7

Molecule: Hla Class II Histocompatibility Antigen, Drb1-1 Beta Chain;
Chain: B
Fragment: Residues 1-190 (30-219)
Synonym: Mhc Class I Antigen Drb11, Dr-1, Dr1, Major Histocompatibility Complex Class II Hla-Dr1 Beta Chain;
Engineered: Yes

Organism_scientific: Homo Sapiens
Organism_common: Human
Organism_taxid: 9606
Gene: Hla-Drb1
Expression_system: Escherichia Coli Bl21
Expression_system_taxid: 511693
Expression_system_strain: Bl21
Expression_system_vector_type: Plasmid
Expression_system_plasmid: Pt7-7

Molecule: 15-Mer Peptide From Triosephosphate Isomerase
Chain: P
Fragment: Residues 23-37 (22-36)
Ec: 5.3.1.1
Engineered: Yes
Mutation: Yes

Organism_scientific: Homo Sapiens
Organism_common: Human
Organism_taxid: 9606
Gene: Tpi1, Tpi
Expression_system: Escherichia Coli Bl21
Expression_system_taxid: 511693
Expression_system_strain: Bl21
Expression_system_vector_type: Plasmid
Expression_system_plasmid: Pt7-7

Molecule: Cd4+ T Cell Receptor E8 Alpha Chain
Chain: C
Engineered: Yes
Mutation: Yes

Organism_scientific: Homo Sapiens
Organism_common: Human
Organism_taxid: 9606
Expression_system: Escherichia Coli Bl21
Expression_system_taxid: 511693
Expression_system_strain: Bl21
Expression_system_vector_type: Plasmid
Expression_system_plasmid: Pt7-7

Molecule: Cd4+ T Cell Receptor E8 Beta Chain
Chain: D
Engineered: Yes
Mutation: Yes

Organism_scientific: Homo Sapiens
Organism_common: Human
Organism_taxid: 9606
Expression_system: Escherichia Coli Bl21
Expression_system_taxid: 511693
Expression_system_strain: Bl21
Expression_system_vector_type: Plasmid
Expression_system_plasmid: Pt7-7
symmetry Space Group: C 2 2 2
R_factor 0.207 R_Free 0.279
crystal
cell
length a length b length c angle alpha angle beta angle gamma
86.391 270.542 97.396 90.00 90.00 90.00
method X-Ray Diffractionresolution 2.80 Å
ligand
enzyme Isomerase E.C.5.3.1.1 BRENDA
Gene
Ontology
ChainFunctionProcessComponent
A


B


Primary referenceStructural basis for the recognition of mutant self by a tumor-specific, MHC class II-restricted T cell receptor., Deng L, Langley RJ, Brown PH, Xu G, Teng L, Wang Q, Gonzales MI, Callender GG, Nishimura MI, Topalian SL, Mariuzza RA, Nat Immunol. 2007 Apr;8(4):398-408. Epub 2007 Mar 4. PMID:17334368
Data retrieval
  • Asymmetric unit, PDB entry: [header only] [complete with coordinates] (139 Kb) [Save to disk]
  • Biological Unit Coordinates (2iam.pdb1.gz) 133 Kb
  • CSU: Contacts of Structural Units for 2IAM
  • Likely Quarternary Molecular Structure file(s) for 2IAM
  • Structure Factors (525 Kb)
  • Retrieve 2IAM in mmCIF format [Save to disk]
  • SEQRES to COORDINATES correlation for 2IAM from S2C, [Save to disk]
  • Re-refined 2iam structure from PDB_REDO, a databank with updated and optimised macromolecular X-ray diffraction structure models
  • View 2IAM 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 2IAM
  • 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 2IAM, from MSDmotif at EBI
  • Fold representative 2iam from FSSP and Dali (Families of Structurally Similar Proteins)
  • Sequence-derived information
  • View one-letter amino acid or nucleotide sequence for each chain: [2iam_C] [2iam_A] [2iam_B] [2iam_P] [2iam_D] [2iam]
  • SWISS-PROT database: [P04229] [P01903] [P01848] [P01850] [P60174]
  • Domain organization of [2B11_HUMAN] [DRA_HUMAN] [TCA_HUMAN] [TCB_HUMAN] [TPIS_HUMAN] by SWISSPFAM
  • Domains found in 2IAM: [IG] [IGc1] [MHC_II_alpha] [MHC_II_beta ] by SMART
  • Other resources with information on 2IAM
  • Community annotation for 2IAM at PDBWiki (http://pdbwiki.org)
  • MMDB (Entrez's Structure Database)
  • Movements, Movies and Images
  • Images from IMB Jena Image Library of Biological Macromolecules.

  • 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
    Bioinformatics Unit
    Weizmann Institute of Science