3FQR Immune System date Jan 07, 2009
title Phosphorylation Of Self-Peptides Alters Human Leukocyte Anti I-Restricted Antigen Presentation And Generates Tumor Speci Epitopes
authors J.Petersen, J.Rossjohn
compound source
Molecule: Hla Class I Histocompatibility Antigen, A-2 Alpha
Chain: A
Fragment: Extracellular Domains Alpha1, Alpha2, Alpha3, Unp 25-299;
Synonym: Mhc Class I Antigen A2
Engineered: Yes
Organism_scientific: Homo Sapiens
Organism_common: Human
Organism_taxid: 9606
Gene: Hla-A, Hlaa
Expression_system: Escherichia Coli
Expression_system_taxid: 562
Expression_system_strain: Bl21(De3)
Expression_system_vector_type: Plasmid
Expression_system_plasmid: Pet 30

Molecule: Beta-2-Microglobulin
Chain: B
Engineered: Yes

Organism_scientific: Homo Sapiens
Organism_common: Human
Organism_taxid: 9606
Gene: B2m
Expression_system: Escherichia Coli
Expression_system_taxid: 562
Expression_system_strain: Bl21(De3)
Expression_system_vector_type: Plasmid
Expression_system_plasmid: Pet 30

Molecule: Phospho-Peptide 30-39 From Beta-Catenin: Yld(Sep)
Chain: C
Engineered: Yes

Synthetic: Yes
Other_details: Synthetic Peptide
symmetry Space Group: P 21 21 21
R_factor 0.169 R_Free 0.189
crystal
cell
length a length b length c angle alpha angle beta angle gamma
59.678 79.706 111.558 90.00 90.00 90.00
method X-Ray Diffractionresolution 1.70 Å
ligand CD, GOL, MG, SEP enzyme
Gene
Ontology
ChainFunctionProcessComponent
A


B


Primary referencePhosphorylated self-peptides alter human leukocyte antigen class I-restricted antigen presentation and generate tumor-specific epitopes., Petersen J, Wurzbacher SJ, Williamson NA, Ramarathinam SH, Reid HH, Nair AK, Zhao AY, Nastovska R, Rudge G, Rossjohn J, Purcell AW, Proc Natl Acad Sci U S A. 2009 Feb 24;106(8):2776-81. Epub 2009 Feb 5. PMID:19196958
Data retrieval
  • Asymmetric unit, PDB entry: [header only] [complete with coordinates] (154 Kb) [Save to disk]
  • Biological Unit Coordinates (3fqr.pdb1.gz) 147 Kb
  • LPC: Ligand-Protein Contacts for 3FQR
  • CSU: Contacts of Structural Units for 3FQR
  • Likely Quarternary Molecular Structure file(s) for 3FQR
  • Structure Factors (1452 Kb)
  • Retrieve 3FQR in mmCIF format [Save to disk]
  • SEQRES to COORDINATES correlation for 3FQR from S2C, [Save to disk]
  • Re-refined 3fqr structure from PDB_REDO, a databank with updated and optimised macromolecular X-ray diffraction structure models
  • View 3FQR 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 3FQR
  • 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 3FQR, from MSDmotif at EBI
  • Fold representative 3fqr from FSSP and Dali (Families of Structurally Similar Proteins)
  • Sequence-derived information
  • View one-letter amino acid or nucleotide sequence for each chain: [3fqr_C] [3fqr_A] [3fqr_B] [3fqr]
  • SWISS-PROT database: [P01892] [P61769] [P35222]
  • Domain organization of [1A02_HUMAN] [B2MG_HUMAN] [CTNB1_HUMAN] by SWISSPFAM
  • Domain found in 3FQR: [IGc1 ] by SMART
  • Alignments of the sequence of 3FQR with the sequences similar proteins can be viewed for 3FQR's classification [1A02_HUMAN] [B2MG_HUMAN] [CTNB1_HUMAN] at ProtoMap. Click on "Neighbors List", then on the "See Alignments" button below the list.
  • A sequence distance tree ("phylogenetic tree") can be viewed for 1ACL's classification [1A02_HUMAN] [B2MG_HUMAN] [CTNB1_HUMAN] at ProtoMap. Click on the Cluster number.
  • Other resources with information on 3FQR
  • Community annotation for 3FQR at PDBWiki (http://pdbwiki.org)
  • MMDB (Entrez's Structure Database)
  • Movements, Movies and Images
  • Images from IMB Jena Image Library of Biological Macromolecules.

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