3KXF Immune System date Dec 03, 2009
title Crystal Structure Of Sb27 Tcr In Complex With The 'Restricti Mutant Hla-B3508-13mer
authors J.K.Archbold, F.E.Tynan, S.Gras, J.Rossjohn
compound source
Molecule: Hla Class I Histocompatibility Antigen, B-35 Alph
Chain: A, C, K, I
Fragment: Residues In Unp 25-300
Synonym: Mhc Class I Antigen B35
Engineered: Yes
Mutation: Yes
Organism_scientific: Homo Sapiens
Organism_common: Human
Organism_taxid: 9606
Expression_system: Escherichia Coli
Expression_system_taxid: 562
Expression_system_strain: Bl21(De3)
Expression_system_vector_type: Plasmid
Expression_system_plasmid: Pet30

Molecule: Beta-2-Microglobulin
Chain: B, F, L, J
Synonym: Beta-2-Microglobulin Form Pi 5.3
Engineered: Yes

Organism_scientific: Homo Sapiens
Organism_common: Human
Organism_taxid: 9606
Expression_system: Escherichia Coli
Expression_system_taxid: 562
Expression_system_strain: Bl21(De3)
Expression_system_vector_type: Plasmid
Expression_system_plasmid: Pet30

Molecule: Sb27 T Cell Receptor Alpha Chain
Chain: D, G, N, M
Engineered: Yes

Organism_scientific: Homo Sapiens
Organism_common: Human
Organism_taxid: 9606
Expression_system: Escherichia Coli
Expression_system_taxid: 562
Expression_system_strain: Bl21(De3)
Expression_system_vector_type: Plasmid
Expression_system_plasmid: Pet30

Molecule: Sb27 T Cell Receptor Beta Chain
Chain: E, H, P, O
Engineered: Yes

Organism_scientific: Homo Sapiens
Organism_common: Human
Organism_taxid: 9606
Expression_system: Escherichia Coli
Expression_system_taxid: 562
Expression_system_strain: Bl21(De3)
Expression_system_vector_type: Plasmid
Expression_system_plasmid: Pet30

Molecule: Peptide From Trans-Activator Protein Bzlf1
Chain: Q, R, T, S
Synonym: Eb1, Protein Zebra
Engineered: Yes

Synthetic: Yes
Other_details: Synthetic Peptide Of Naturally Occurring Vir Peptide
symmetry Space Group: P 1 21 1
R_factor 0.213 R_Free 0.291
crystal
cell
length a length b length c angle alpha angle beta angle gamma
78.690 207.077 123.512 90.00 90.19 90.00
method X-Ray Diffractionresolution 3.10 Å
ligand IOD enzyme
Gene
Ontology
ChainFunctionProcessComponent
A, K, C, I


F, J, B, L


Primary referenceHard wiring of T cell receptor specificity for the major histocompatibility complex is underpinned by TCR adaptability., Burrows SR, Chen Z, Archbold JK, Tynan FE, Beddoe T, Kjer-Nielsen L, Miles JJ, Khanna R, Moss DJ, Liu YC, Gras S, Kostenko L, Brennan RM, Clements CS, Brooks AG, Purcell AW, McCluskey J, Rossjohn J, Proc Natl Acad Sci U S A. 2010 May 18. PMID:20483993
Data retrieval
  • Asymmetric unit, PDB entry: [header only] [complete with coordinates] (546 Kb) [Save to disk]
  • Biological Unit Coordinates (3kxf.pdb1.gz) 142 Kb
  • Biological Unit Coordinates (3kxf.pdb2.gz) 142 Kb
  • Biological Unit Coordinates (3kxf.pdb3.gz) 142 Kb
  • Biological Unit Coordinates (3kxf.pdb4.gz) 142 Kb
  • LPC: Ligand-Protein Contacts for 3KXF
  • CSU: Contacts of Structural Units for 3KXF
  • Structure Factors (1035 Kb)
  • Retrieve 3KXF in mmCIF format [Save to disk]
  • SEQRES to COORDINATES correlation for 3KXF from S2C, [Save to disk]
  • Re-refined 3kxf structure from PDB_REDO, a databank with updated and optimised macromolecular X-ray diffraction structure models
  • View 3KXF 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 3KXF
  • 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 3KXF, from MSDmotif at EBI
  • Fold representative 3kxf from FSSP and Dali (Families of Structurally Similar Proteins)
  • Sequence-derived information
  • View one-letter amino acid or nucleotide sequence for each chain: [3kxf_K] [3kxf_T] [3kxf_G] [3kxf_M] [3kxf_O] [3kxf_B] [3kxf_S] [3kxf_L] [3kxf] [3kxf_I] [3kxf_P] [3kxf_C] [3kxf_E] [3kxf_Q] [3kxf_J] [3kxf_D] [3kxf_R] [3kxf_A] [3kxf_F] [3kxf_N] [3kxf_H]
  • SWISS-PROT database:
  • Domain organization of by SWISSPFAM
  • Alignments of the sequence of 3KXF with the sequences similar proteins can be viewed for 3KXF's classification 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 at ProtoMap. Click on the Cluster number.
  • Other resources with information on 3KXF
  • Community annotation for 3KXF 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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