2YNK Membrane Protein date Oct 16, 2012
title Wzi, An Outer Membrane Protein Involved In Group 1 Capsule A In Escherichia Coli, Is A Carbohydrate Binding Beta-Barrel
authors S.R.Bushell, I.L.Mainprize, M.A.Wear, H.Lou, L.Kong, B.Davis, H.Ba C.Whitfield, J.H.Naismith
compound source
Molecule: Wzi
Chain: A
 Organism_scientific: Escherichia Coli
Organism_taxid: 562
Strain: B44
symmetry Space Group: C 2 2 2
R_factor 0.24481 R_Free 0.27905
crystal
cell
length a length b length c angle alpha angle beta angle gamma
136.660 152.080 95.040 90.00 90.00 90.00
method X-Ray Diffractionresolution 2.64 Å
ligand D12, HEX, MSE, OCT enzyme
Primary referenceWzi Is an Outer Membrane Lectin that Underpins Group 1 Capsule Assembly in Escherichia coli., Bushell SR, Mainprize IL, Wear MA, Lou H, Whitfield C, Naismith JH, Structure. 2013 May 7;21(5):844-53. doi: 10.1016/j.str.2013.03.010. Epub 2013 Apr, 25. PMID:23623732
Data retrieval
  • Asymmetric unit, PDB entry: [header only] [complete with coordinates] (156 Kb) [Save to disk]
  • Biological Unit Coordinates (2ynk.pdb1.gz) 149 Kb
  • LPC: Ligand-Protein Contacts for 2YNK
  • CSU: Contacts of Structural Units for 2YNK
  • Structure Factors (433 Kb)
  • Retrieve 2YNK in mmCIF format [Save to disk]
  • SEQRES to COORDINATES correlation for 2YNK from S2C, [Save to disk]
  • Re-refined 2ynk structure from PDB_REDO, a databank with updated and optimised macromolecular X-ray diffraction structure models
    • View 2YNK 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 2YNK
  • 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 2YNK, from MSDmotif at EBI
    • Sequence-derived information
  • View one-letter amino acid or nucleotide sequence for each chain: [2ynk] [2ynk_A]
  • SWISS-PROT database:
  • Domain organization of by SWISSPFAM
    • Other resources with information on 2YNK
  • Community annotation for 2YNK at PDBWiki (http://pdbwiki.org)

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