2EYR Immune System date Nov 09, 2005
title A Structural Basis For Selection And Cross-Species Reactivit Semi-Invariant Nkt Cell Receptor In Cd1dglycolipid Recogni
authors L.Kjer-Nielsen, N.A.Borg
compound source
Molecule: Nkt12
Chain: A
Engineered: Yes
Mutation: 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: Nkt12
Chain: B
Engineered: Yes
Mutation: 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: C 2 2 21
R_factor 0.230 R_Free 0.271
crystal
cell
length a length b length c angle alpha angle beta angle gamma
58.920 131.389 117.803 90.00 90.00 90.00
method X-Ray Diffractionresolution 2.40 Å
Primary referenceA structural basis for selection and cross-species reactivity of the semi-invariant NKT cell receptor in CD1d/glycolipid recognition., Kjer-Nielsen L, Borg NA, Pellicci DG, Beddoe T, Kostenko L, Clements CS, Williamson NA, Smyth MJ, Besra GS, Reid HH, Bharadwaj M, Godfrey DI, Rossjohn J, McCluskey J, J Exp Med. 2006 Mar 20;203(3):661-73. Epub 2006 Feb 27. PMID:16505140
Data retrieval
  • Asymmetric unit, PDB entry: [header only] [complete with coordinates] (78 Kb) [Save to disk]
  • Biological Unit Coordinates (2eyr.pdb1.gz) 73 Kb
  • Biological Unit Coordinates (2eyr.pdb2.gz) 143 Kb
  • CSU: Contacts of Structural Units for 2EYR
  • Likely Quarternary Molecular Structure file(s) for 2EYR
  • Structure Factors (137 Kb)
  • Retrieve 2EYR in mmCIF format [Save to disk]
  • SEQRES to COORDINATES correlation for 2EYR from S2C, [Save to disk]
  • Re-refined 2eyr structure from PDB_REDO, a databank with updated and optimised macromolecular X-ray diffraction structure models
  • View 2EYR 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 2EYR
  • 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 2EYR, from MSDmotif at EBI
  • Fold representative 2eyr from FSSP and Dali (Families of Structurally Similar Proteins)
  • Sequence-derived information
  • View one-letter amino acid or nucleotide sequence for each chain: [2eyr_A] [2eyr] [2eyr_B]
  • SWISS-PROT database: [P01848]
  • Domain organization of [TCA_HUMAN] by SWISSPFAM
  • Domains found in 2EYR: [IG] [IGc1] [IGv ] by SMART
  • Alignments of the sequence of 2EYR with the sequences similar proteins can be viewed for 2EYR's classification [TCA_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 [TCA_HUMAN] at ProtoMap. Click on the Cluster number.
  • Other resources with information on 2EYR
  • Community annotation for 2EYR 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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