2OJE Immune System date Jan 12, 2007
title Mycoplasma Arthritidis-Derived Mitogen Complexed With Class II Mhc Molecule Hla-Dr1ha Complex In The Presence Of Edta
authors H.Li, Y.Zhao, Y.Guo, Z.Li, L.Eisele, W.Mourad
compound source
Molecule: Hla Class II Histocompatibility Antigen, Dr Alpha Chain Precursor;
Chain: A, E
Fragment: Extracellular Domain, Residues 27-206
Synonym: Mhc Class II Antigen Dra
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)Plyss
Expression_system_vector_type: Plasmid
Expression_system_plasmid: Plm1

Molecule: Hla Class II Histocompatibility Antigen, Drb1-1 Beta Chain Precursor;
Chain: B, F
Fragment: Extracellular Domain, Residues 30-219
Synonym: Mhc Class II Antigen Drb11, Dr-1, Dr1
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)Plyss
Expression_system_vector_type: Plasmid
Expression_system_plasmid: Plm1

Molecule: Haemagglutinin Peptide 306-318
Chain: C, G
Fragment: Residues 306-318
Engineered: Yes

Synthetic: Yes
Other_details: This Sequence Occurs Naturally In Influenza Virus;

Molecule: Superantigen
Chain: D, H
Fragment: Residues 25-238
Synonym: Mycoplasma Arthritidis-Derived Mitogen
Engineered: Yes

Organism_scientific: Mycoplasma Arthritidis
Organism_taxid: 2111
Expression_system: Escherichia Coli Bl21(De3)
Expression_system_taxid: 469008
Expression_system_strain: Bl21(De3)
Expression_system_vector_type: Plasmid
Expression_system_plasmid: Pgex-6p-1
symmetry Space Group: I 2 2 2
R_factor 0.211 R_Free 0.261
crystal
cell
length a length b length c angle alpha angle beta angle gamma
137.735 179.555 179.952 90.00 90.00 90.00
method X-Ray Diffractionresolution 3.00 Å
ligand MSE, PO4 enzyme
Gene
Ontology
ChainFunctionProcessComponent
A, E


F, B


Primary referenceZinc induces dimerization of the class II major histocompatibility complex molecule that leads to cooperative binding to a superantigen., Li H, Zhao Y, Guo Y, Li Z, Eisele L, Mourad W, J Biol Chem. 2007 Mar 2;282(9):5991-6000. Epub 2006 Dec 13. PMID:17166841
Data retrieval
  • Asymmetric unit, PDB entry: [header only] [complete with coordinates] (209 Kb) [Save to disk]
  • Biological Unit Coordinates (2oje.pdb1.gz) 104 Kb
  • Biological Unit Coordinates (2oje.pdb2.gz) 103 Kb
  • Biological Unit Coordinates (2oje.pdb3.gz) 401 Kb
  • LPC: Ligand-Protein Contacts for 2OJE
  • CSU: Contacts of Structural Units for 2OJE
  • Likely Quarternary Molecular Structure file(s) for 2OJE
  • Structure Factors (348 Kb)
  • Retrieve 2OJE in mmCIF format [Save to disk]
  • SEQRES to COORDINATES correlation for 2OJE from S2C, [Save to disk]
  • Re-refined 2oje structure from PDB_REDO, a databank with updated and optimised macromolecular X-ray diffraction structure models
  • View 2OJE 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 2OJE
  • 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 2OJE, from MSDmotif at EBI
  • Fold representative 2oje from FSSP and Dali (Families of Structurally Similar Proteins)
  • Sequence-derived information
  • View one-letter amino acid or nucleotide sequence for each chain: [2oje]
  • SWISS-PROT database: [P04229] [P01903] [Q48898] [Q91LS8]
  • Domain organization of [2B11_HUMAN] [DRA_HUMAN] [Q48898_MYCAT] [Q91LS8_9INFA] by SWISSPFAM
  • Domains found in 2OJE: [IGc1] [MHC_II_alpha] [MHC_II_beta ] by SMART
  • Other resources with information on 2OJE
  • Community annotation for 2OJE 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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