3OKK Immune System date Aug 25, 2010
title Crystal Structure Of S25-39 In Complex With Kdo(2.4)Kdo
authors R.J.Blackler, S.V.Evans
compound source
Molecule: S25-39 Fab (Igg1k) Light Chain
Chain: A
 Organism_scientific: Mus Musculus
Organism_taxid: 10090
Strain: Balbc
Other_details: Ascites

Molecule: S25-39 Fab (Igg1k) Heavy Chain
Chain: B
Organism_scientific: Mus Musculus
Organism_taxid: 10090
Strain: Balbc
Other_details: Ascites
symmetry Space Group: P 21 21 21
R_factor 0.195 R_Free 0.235
crystal
cell
length a length b length c angle alpha angle beta angle gamma
45.628 81.441 131.577 90.00 90.00 90.00
method X-Ray Diffractionresolution 1.95 Å
ligand KDA, KDO, ZN enzyme
Primary referenceA Common NH53K Mutation in the Combining Site of Antibodies Raised against Chlamydial LPS Glycoconjugates Significantly Increases Avidity., Blackler RJ, Muller-Loennies S, Brooks CL, Evans DW, Brade L, Kosma P, Brade H, Evans SV, Biochemistry. 2011 Apr 1. PMID:21405106
Data retrieval
  • Asymmetric unit, PDB entry: [header only] [complete with coordinates] (81 Kb) [Save to disk]
  • Biological Unit Coordinates (3okk.pdb1.gz) 76 Kb
  • LPC: Ligand-Protein Contacts for 3OKK
  • CSU: Contacts of Structural Units for 3OKK
  • Structure Factors (257 Kb)
  • Retrieve 3OKK in mmCIF format [Save to disk]
  • SEQRES to COORDINATES correlation for 3OKK from S2C, [Save to disk]
  • Re-refined 3okk structure from PDB_REDO, a databank with updated and optimised macromolecular X-ray diffraction structure models
    • View 3OKK 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 3OKK
  • 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 3OKK, from MSDmotif at EBI
    • Sequence-derived information
  • View one-letter amino acid or nucleotide sequence for each chain: [3okk] [3okk_B] [3okk_A]
  • SWISS-PROT database:
  • Domain organization of by SWISSPFAM
  • Domains found in 3OKK: [IG_like] [IGv ] by SMART
    • Other resources with information on 3OKK
  • Community annotation for 3OKK 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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