2AK4	Immune System	date	Aug 03, 2005
title	Crystal Structure Of Sb27 Tcr In Complex With Hla-B3508- 13mer Peptide
authors	F.E.Tynan, S.R.Burrows, A.M.Buckle, C.S.Clements, N.A.Borg, J.J.Miles, T.Beddoe, J.C.Whisstock, M.C.Wilce, S.L.Silins, J.M.Burrows, L.Kjer-Nielsen, L.Konstenko, A.W.Purcell, J.Mccluskey, J.Rossjohn
compound		source
Molecule: Hla-B35 Variant Chain: A, F, K, Q Fragment: Extracellular Domains, Alpha1,2,3 Engineered: Yes		Organism_scientific: Homo Sapiens Organism_common: Human Organism_taxid: 9606 Expression_system: Escherichia Coli Bl21(De3) Expression_system_taxid: 469008 Expression_system_strain: Bl21 (De3) Expression_system_vector_type: Plasmid Expression_system_plasmid: Pet 30
Molecule: Beta-2-Microglobulin Chain: B, G, L, R Engineered: Yes		Organism_scientific: Homo Sapiens Organism_common: Human Organism_taxid: 9606 Expression_system: Escherichia Coli Bl21(De3) Expression_system_taxid: 469008 Expression_system_strain: Bl21 (De3) Expression_system_vector_type: Plasmid Expression_system_plasmid: Pet30
Molecule: Ebv Peptide Lpeplpqgqltay Chain: C, H, M, S Engineered: Yes		Synthetic: Yes Other_details: Synthetic Peptide Lpeplpqgqltay
Molecule: Sb27 T Cell Receptor Alpha Chain Chain: D, I, N, T Fragment: Extracellular Domain Engineered: Yes		Organism_scientific: Homo Sapiens Organism_common: Human Organism_taxid: 9606 Expression_system: Escherichia Coli Bl21(De3) Expression_system_taxid: 469008 Expression_system_strain: Bl21 (De3) Expression_system_vector_type: Plasmid Expression_system_plasmid: Pet30
Molecule: Sb27 T Cell Receptor Beta Chain Chain: E, J, P, U Fragment: Extracellular Domain Engineered: Yes		Organism_scientific: Homo Sapiens Organism_common: Human Organism_taxid: 9606 Expression_system: Escherichia Coli Bl21(De3) Expression_system_taxid: 469008 Expression_system_strain: Bl21 (De3) Expression_system_vector_type: Plasmid Expression_system_plasmid: Pet30
symmetry	Space Group: P 1 21 1	R_factor 0.246 R_Free 0.278
crystal cell	length a length b length c angle alpha angle beta angle gamma 79.154 213.282 122.303 90.00 89.94 90.00
method	X-Ray Diffraction	resolution	2.50 Å
ligand	IOD	enzyme
Gene Ontology	Chain Function Process Component R, G, L, B cellular response to iron io...
Primary reference	T cell receptor recognition of a 'super-bulged' major histocompatibility complex class I-bound peptide., Tynan FE, Burrows SR, Buckle AM, Clements CS, Borg NA, Miles JJ, Beddoe T, Whisstock JC, Wilce MC, Silins SL, Burrows JM, Kjer-Nielsen L, Kostenko L, Purcell AW, McCluskey J, Rossjohn J, Nat Immunol 2005 Sep 25;. PMID:16186824

Data retrieval

Asymmetric unit, PDB entry: [header only] [complete with coordinates] (539 Kb) [Save to disk] Biological Unit Coordinates (2ak4.pdb1.gz) 140 Kb Biological Unit Coordinates (2ak4.pdb2.gz) 140 Kb Biological Unit Coordinates (2ak4.pdb3.gz) 140 Kb Biological Unit Coordinates (2ak4.pdb4.gz) 139 Kb LPC: Ligand-Protein Contacts for 2AK4 CSU: Contacts of Structural Units for 2AK4 Likely Quarternary Molecular Structure file(s) for 2AK4 Structure Factors (1059 Kb) Retrieve 2AK4 in mmCIF format [Save to disk] SEQRES to COORDINATES correlation for 2AK4 from S2C, [Save to disk] Re-refined 2ak4 structure from PDB_REDO, a databank with updated and optimised macromolecular X-ray diffraction structure models

View 2AK4 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 2AK4

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 3D motif for 2AK4, from MSDmotif at EBI

Sequence-derived information

View one-letter amino acid or nucleotide sequence for each chain: [2ak4_U] [2ak4_Q] [2ak4_R] [2ak4_G] [2ak4_N] [2ak4_C] [2ak4_I] [2ak4_E] [2ak4_H] [2ak4_J] [2ak4_F] [2ak4_D] [2ak4_P] [2ak4_L] [2ak4_B] [2ak4_A] [2ak4_K] [2ak4_T] [2ak4] [2ak4_S] [2ak4_M] SWISS-PROT database: [P30685] [P61769] [P03206] [P01848] [P01850] Domain organization of [1B35_HUMAN] [B2MG_HUMAN] [BZLF1_EBVB9] [TCA_HUMAN] [TCB_HUMAN] by SWISSPFAM Domains found in 2AK4: [IG_like] [IGc1] [IGv ] by SMART

Other resources with information on 2AK4

Community annotation for 2AK4 at PDBWiki (http://pdbwiki.org) MMDB (Entrez's Structure Database)

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