2VLR Immune System date Jan 15, 2008
title The Structural Dynamics And Energetics Of An Immunodominant Receptor Are Programmed By Its Vbeta Domain
authors J.Ishizuka, G.Stewart-Jones, A.Van Der Merwe, J.Bell, A.Mcmichae
compound source
Molecule: Hla Class I Histocompatibility Antigen, A-2 Alpha
Chain: A, F
Fragment: Hla-A2, Residues 25-300
Synonym: Mhc Class I Antigen A2
Engineered: Yes
Organism_scientific: Homo Sapiens
Organism_common: Human
Organism_taxid: 9606
Expression_system: Escherichia Coli
Expression_system_taxid: 562

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

Organism_scientific: Homo Sapiens
Organism_common: Human
Organism_taxid: 9606
Expression_system: Escherichia Coli
Expression_system_taxid: 562

Molecule: Flu Matrix Peptide
Chain: C, H
Engineered: Yes

Synthetic: Yes
Organism_scientific: Unidentified Influenza Virus
Organism_taxid: 11309

Molecule: Jm22 Tcr Alpha Chain
Chain: D, I
Engineered: Yes

Organism_scientific: Homo Sapiens
Organism_common: Human
Organism_taxid: 9606
Expression_system: Escherichia Coli
Expression_system_taxid: 562

Molecule: Jm22 Tcr Beta Chain
Chain: E, J
Engineered: Yes

Organism_scientific: Homo Sapiens
Organism_common: Human
Organism_taxid: 9606
Expression_system: Escherichia Coli
Expression_system_taxid: 562
symmetry Space Group: P 1
R_factor 0.219 R_Free 0.281
crystal
cell
length a length b length c angle alpha angle beta angle gamma
48.622 95.523 122.045 110.29 98.64 93.59
method X-Ray Diffractionresolution 2.30 Å
Gene
Ontology
ChainFunctionProcessComponent
G, B
  • cellular response to iron io...

  • Primary referenceThe structural dynamics and energetics of an immunodominant T cell receptor are programmed by its Vbeta domain., Ishizuka J, Stewart-Jones GB, van der Merwe A, Bell JI, McMichael AJ, Jones EY, Immunity. 2008 Feb;28(2):171-82. PMID:18275829
    Data retrieval
  • Asymmetric unit, PDB entry: [header only] [complete with coordinates] (292 Kb) [Save to disk]
  • Biological Unit Coordinates (2vlr.pdb1.gz) 142 Kb
  • Biological Unit Coordinates (2vlr.pdb2.gz) 142 Kb
  • CSU: Contacts of Structural Units for 2VLR
  • Likely Quarternary Molecular Structure file(s) for 2VLR
  • Structure Factors (626 Kb)
  • Retrieve 2VLR in mmCIF format [Save to disk]
  • SEQRES to COORDINATES correlation for 2VLR from S2C, [Save to disk]
  • Re-refined 2vlr structure from PDB_REDO, a databank with updated and optimised macromolecular X-ray diffraction structure models
  • View 2VLR 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 2VLR
  • 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 2VLR, from MSDmotif at EBI
  • Fold representative 2vlr from FSSP and Dali (Families of Structurally Similar Proteins)
  • Sequence-derived information
  • View one-letter amino acid or nucleotide sequence for each chain: [2vlr_F] [2vlr_J] [2vlr_E] [2vlr_C] [2vlr] [2vlr_I] [2vlr_H] [2vlr_B] [2vlr_A] [2vlr_G] [2vlr_D]
  • SWISS-PROT database: [P01892] [P61769] [P01848] [P01850]
  • Domain organization of [1A02_HUMAN] [B2MG_HUMAN] [TCA_HUMAN] [TCB_HUMAN] by SWISSPFAM
  • Domains found in 2VLR: [IG_like] [IGc1] [IGv ] by SMART
  • Other resources with information on 2VLR
  • Community annotation for 2VLR 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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