2YWY Immune System date Apr 23, 2007
title Structure Of New Antigen Receptor Variable Domain From Shark
authors V.A.Streltsov
compound source
Molecule: New Antigen Receptor Variable Domain
Chain: A, B, C, D
Engineered: Yes
 Organism_scientific: Orectolobus Maculatus
Organism_common: Spotted Wobbegong
Organism_taxid: 168098
Expression_system: Escherichia Coli
Expression_system_taxid: 562
Expression_system_strain: Tg1
Expression_system_vector_type: Plasmid
Expression_system_plasmid: Pgc
symmetry Space Group: P 21 21 21
R_factor 0.180 R_Free 0.270
crystal
cell
length a length b length c angle alpha angle beta angle gamma
80.498 88.661 101.754 90.00 90.00 90.00
method X-Ray Diffractionresolution 2.71 Å
Primary referenceShark IgNAR antibody mimotopes target a murine immunoglobulin through extended CDR3 loop structures., Simmons DP, Streltsov VA, Dolezal O, Hudson PJ, Coley AM, Foley M, Proll DF, Nuttall SD, Proteins. 2007 Oct 11;. PMID:17932913
Data retrieval
  • Asymmetric unit, PDB entry: [header only] [complete with coordinates] (78 Kb) [Save to disk]
  • Biological Unit Coordinates (2ywy.pdb1.gz) 20 Kb
  • Biological Unit Coordinates (2ywy.pdb2.gz) 19 Kb
  • Biological Unit Coordinates (2ywy.pdb3.gz) 20 Kb
  • Biological Unit Coordinates (2ywy.pdb4.gz) 19 Kb
  • CSU: Contacts of Structural Units for 2YWY
  • Likely Quarternary Molecular Structure file(s) for 2YWY
  • Structure Factors (297 Kb)
  • Retrieve 2YWY in mmCIF format [Save to disk]
  • SEQRES to COORDINATES correlation for 2YWY from S2C, [Save to disk]
  • Re-refined 2ywy structure from PDB_REDO, a databank with updated and optimised macromolecular X-ray diffraction structure models
    • View 2YWY 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 2YWY
  • 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 2YWY, from MSDmotif at EBI
    • Sequence-derived information
  • View one-letter amino acid or nucleotide sequence for each chain: [2ywy_B] [2ywy] [2ywy_A] [2ywy_C] [2ywy_D]
  • SWISS-PROT database: [A9CBG4]
  • Domain organization of [A9CBG4_9CHON] by SWISSPFAM
  • Domain found in 2YWY: [IG ] by SMART
    • Other resources with information on 2YWY
  • Community annotation for 2YWY 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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