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 Diffraction	resolution	3.10 Å
ligand	IOD	enzyme
Gene Ontology	Chain Function Process Component F, J, L, B protein binding positive regulation of T cel... response to molecule of bact... antigen processing and prese... antigen processing and prese... antigen processing and prese... antigen processing and prese... immune response viral reproduction cytokine-mediated signaling ... T cell differentiation in th... protein refolding response to drug antigen processing and prese... innate immune response response to cadmium ion regulation of defense respon... regulation of immune respons... interferon-gamma-mediated si... Golgi membrane extracellular region extracellular space endoplasmic reticulum lumen plasma membrane external side of plasma memb... ER to Golgi transport vesicl... phagocytic vesicle membrane early endosome membrane early endosome lumen MHC class I protein complex
Primary reference	Hard 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) 143 Kb Biological Unit Coordinates (3kxf.pdb2.gz) 142 Kb Biological Unit Coordinates (3kxf.pdb3.gz) 142 Kb Biological Unit Coordinates (3kxf.pdb4.gz) 143 Kb LPC: Ligand-Protein Contacts for 3KXF CSU: Contacts of Structural Units for 3KXF Structure Factors (1034 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. On AstexViewer, from MSD-EBI (viewer documentation). On RasMol (Install RasMol freeware) Here's help on how to use RasMol.

Visual 3D analysis of 3KXF

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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_A] [3kxf_B] [3kxf_C] [3kxf_D] [3kxf_E] [3kxf_F] [3kxf_G] [3kxf_H] [3kxf_I] [3kxf_J] [3kxf_K] [3kxf_L] [3kxf_M] [3kxf_N] [3kxf_O] [3kxf_P] [3kxf_Q] [3kxf_R] [3kxf_S] [3kxf_T] 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)

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