3BVN Immune System date Jan 07, 2008
title High Resolution Crystal Structure Of Hla-B1402 In Complex With The Latent Membrane Protein 2 Peptide (Lmp2) Of Epstein-Barr Virus
authors P.Kumar, A.Vahedi-Faridi, W.Saenger, B.Uchanska-Ziegler, A.Ziegler
compound source
Molecule: Hla Class I Histocompatibility Antigen, B1402 Alpha Chain;
Chain: A, D
Engineered: Yes
Organism_scientific: Homo Sapiens
Organism_common: Human
Gene: Hla-B
Expression_system: Escherichia Coli
Expression_system_strain: Jm109
Expression_system_plasmid: Phn

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

Organism_scientific: Homo Sapiens
Organism_common: Human
Gene: B2m
Expression_system: Escherichia Coli
Expression_system_strain: Xa90
Expression_system_plasmid: Phn

Molecule: Latent Membrane Protein 2 Peptide
Chain: C, F
Engineered: Yes

Synthetic: Yes
Other_details: Peptide Plmp2 Chemically Synthesized
symmetry Space Group: P 1 21 1
R_factor 0.240 R_Free 0.268
crystal
cell
length a length b length c angle alpha angle beta angle gamma
53.383 79.953 105.440 90.00 99.51 90.00
method X-Ray Diffractionresolution 2.55 Å
Gene
Ontology
ChainFunctionProcessComponent
E, B
  • cellular response to iron io...

  • Primary referenceStructural basis for T cell alloreactivity among three HLA-B14 and HLA-B27 antigens., Kumar P, Vahedi-Faridi A, Saenger W, Merino E, Lopez de Castro JA, Uchanska-Ziegler B, Ziegler A, J Biol Chem. 2009 Jul 18. PMID:19617632
    Data retrieval
  • Asymmetric unit, PDB entry: [header only] [complete with coordinates] (138 Kb) [Save to disk]
  • Biological Unit Coordinates (3bvn.pdb1.gz) 68 Kb
  • Biological Unit Coordinates (3bvn.pdb2.gz) 69 Kb
  • CSU: Contacts of Structural Units for 3BVN
  • Likely Quarternary Molecular Structure file(s) for 3BVN
  • Structure Factors (207 Kb)
  • Retrieve 3BVN in mmCIF format [Save to disk]
  • SEQRES to COORDINATES correlation for 3BVN from S2C, [Save to disk]
  • Re-refined 3bvn structure from PDB_REDO, a databank with updated and optimised macromolecular X-ray diffraction structure models
  • View 3BVN 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 3BVN
  • 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 3BVN, from MSDmotif at EBI
  • Fold representative 3bvn from FSSP and Dali (Families of Structurally Similar Proteins)
  • Sequence-derived information
  • View one-letter amino acid or nucleotide sequence for each chain: [3bvn_A] [3bvn_F] [3bvn_C] [3bvn_D] [3bvn_B] [3bvn] [3bvn_E]
  • SWISS-PROT database: [P61769] [P13285] [Q56H30]
  • Domain organization of [B2MG_HUMAN] [LMP2_EBVB9] [Q56H30_HUMAN] by SWISSPFAM
  • Domain found in 3BVN: [IGc1 ] by SMART
  • Other resources with information on 3BVN
  • Community annotation for 3BVN 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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