1PZK Toxin date Jul 11, 2003
title Cholera Toxin B-Pentamer Complexed With N-Acyl Phenyl Galactoside 9h
authors D.D.Mitchell, J.C.Pickens, K.Korotkov, E.Fan, W.G.J.Hol
compound source
Molecule: Cholera Toxin B Subunit
Chain: D, E, F, G, H
Synonym: Ctb; Cholera Toxin B Protein; Cholera Toxin Subunit B;
Engineered: Yes
 Organism_scientific: Vibrio Cholerae
Organism_common: Bacteria
Gene: Caa41591
Expression_system: Escherichia Coli
Expression_system_common: Bacteria
Expression_system_strain: Top10
Expression_system_vector_type: Plasmid
Expression_system_plasmid: Pbad
symmetry Space Group: C 1 2 1
R_factor 0.132
crystal
cell
length a length b length c angle alpha angle beta angle gamma
102.048 66.137 78.185 90.00 105.78 90.00
method X-Ray Diffractionresolution 1.35 Å
ligand J12 enzyme
Gene
Ontology
ChainFunctionProcessComponent
H, F, D, G, E
  • pathogenesis
  • extracellular region
    • Primary reference3,5-Substituted phenyl galactosides as leads in designing effective cholera toxin antagonists; synthesis and crystallographic studies., Mitchell DD, Pickens JC, Korotkov K, Fan E, Hol WG, Bioorg Med Chem 2004 Mar 1;12(5):907-20. PMID:14980603
    Data retrieval
  • Asymmetric unit, PDB entry: [header only] [complete with coordinates] (219 Kb) [Save to disk]
  • Biological Unit Coordinates (1pzk.pdb1.gz) 192 Kb
  • CSU: Contacts of Structural Units for 1PZK
  • Likely Quarternary Molecular Structure file(s) for 1PZK
  • Structure Factors (815 Kb)
  • Retrieve 1PZK in mmCIF format [Save to disk]
    • View 1PZK in 3D
  • 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.
  • On AstexViewer, from MSD-EBI (viewer documentation).
  • On RasMol (Install RasMol freeware) Here's help on how to use RasMol.
    • Visual 3D analysis of 1PZK
  • Protein Explorer, Easier to use and more powerful than RasMol. (Win and Mac only)
  • Noncovalent Bond Finder displays the closest contacts to ligand or interface, reports distances, walks over water bridges.
  • STING, shows the sequence and maps the locations of sequence residues or residue ranges onto the 3D structure.
  • GRASS (Graphical Representation and Analysis of Structure Server)
  • Cartoon representation from PDB Cartoon
  • Ramachandran plot from PDBSum
    • Structure-derived information
  • Conformational Epitope Prediction for 1PZK 1PZKD 1PZKE 1PZKF 1PZKG 1PZKH from the CEP Server.
  • Dipole moment, from Dipole Server at Weizmann Institute
  • Crystal Contacts, from CryCo at Weizmann Institute
  • 3D motif for 1PZK, from MSDmotif at EBI
  • Classification of representative domains in scop (Structural Classification of Proteins)
        - Domain d1pzkd_, region D [Jmol] [rasmolscript] [script source]
        - Domain d1pzke_, region E [Jmol] [rasmolscript] [script source]
        - Domain d1pzkf_, region F [Jmol] [rasmolscript] [script source]
        - Domain d1pzkg_, region G [Jmol] [rasmolscript] [script source]
        - Domain d1pzkh_, region H [Jmol] [rasmolscript] [script source]
  • Fold representative 1pzk from FSSP and Dali (Families of Structurally Similar Proteins)
  • Class (fold), Architecture (subfold), Topology, Homologous superfamily from CATH
  • Summaries and structural analyses of PDB data files from PDBSum
  • Identification of Protein Pockets & Cavities at CASTp
    • Sequence-derived information
  • View one-letter amino acid or nucleotide sequence for each chain: [1pzk_G] [1pzk_H] [1pzk_D] [1pzk_E] [1pzk_F]
    • Other resources with information on 1PZK
  • MMDB (Entrez's Structure Database)
    • Movements, Movies and Images
  • Images from IMB Jena Image Library of Biological Macromolecules.

    • You may enter another PDB ID code
    Go [Back], to the [PDB Lite page], to the [OCA Search page] or to the [PDB Home page]
    OCA© by Jaime Prilusky, 1996-2006
    Bioinformatics and Biological Computing
    Weizmann Institute of Science