3CHB Toxin date Mar 24, 1998
title Cholera Toxin B-Pentamer Complexed With Gm1 Pentasaccharide
authors E.A.Merritt, W.G.J.Hol
compound source
Molecule: Cholera Toxin
Chain: D, E, F, G, H
Fragment: B-Pentamer
Engineered: Yes
Mutation: Yes
Other_details: Receptor Binding Site On Each Monomer Occupied By Gm1 Pentasaccharide
Organism_scientific: Vibrio Cholerae
Organism_taxid: 666
Strain: Ogawa 41 (Classical Biotype)
Expression_system: Escherichia Coli
Expression_system_taxid: 562
symmetry Space Group: C 1 2 1
R_factor
R_Free
crystal
cell
length a length b length c angle alpha angle beta angle gamma
102.124 66.176 78.221 90.00 106.33 90.00
method X-Ray Diffractionresolution 1.25 Å
ligand BGC, GAL, GLC, MES, NGA, SIA, UNX enzyme
note 3CHB is a representative structure
related structures by homologous chain: 1JR0
Gene
Ontology
ChainFunctionProcessComponent
H, F, D, G, E
  • host cell surface binding


  • Primary referenceThe 1.25 A resolution refinement of the cholera toxin B-pentamer: evidence of peptide backbone strain at the receptor-binding site., Merritt EA, Kuhn P, Sarfaty S, Erbe JL, Holmes RK, Hol WG, J Mol Biol 1998 Oct 9;282(5):1043-59. PMID:9753553
    Data retrieval
  • Asymmetric unit, PDB entry: [header only] [complete with coordinates] (219 Kb) [Save to disk]
  • Biological Unit Coordinates (3chb.pdb1.gz) 212 Kb
  • LPC: Ligand-Protein Contacts for 3CHB
  • CSU: Contacts of Structural Units for 3CHB
  • Likely Quarternary Molecular Structure file(s) for 3CHB
  • Structure Factors (2193 Kb)
  • Retrieve 3CHB in mmCIF format [Save to disk]
  • SEQRES to COORDINATES correlation for 3CHB from S2C, [Save to disk]
  • Re-refined 3chb structure from PDB_REDO, a databank with updated and optimised macromolecular X-ray diffraction structure models
  • View 3CHB 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 3CHB
  • Cartoon representation from PDB Cartoon
  • Ramachandran plot from PDBSum
  • Structure-derived information
  • Conformational Epitope Prediction for 3CHB 3CHBD 3CHBE 3CHBF 3CHBG 3CHBH from the CEP Server.
  • Dipole moment, from Dipole Server at Weizmann Institute
  • Crystal Contacts, from CryCo at Weizmann Institute
  • 3D motif for 3CHB, from MSDmotif at EBI
  • Classification of representative domains in scop (Structural Classification of Proteins)
        - Domain d3chbd_, region D [Jmol] [rasmolscript] [script source]
        - Domain d3chbe_, region E [Jmol] [rasmolscript] [script source]
        - Domain d3chbf_, region F [Jmol] [rasmolscript] [script source]
        - Domain d3chbg_, region G [Jmol] [rasmolscript] [script source]
        - Domain d3chbh_, region H [Jmol] [rasmolscript] [script source]
  • Fold representative 3chb 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: [3chb_F] [3chb_D] [3chb_H] [3chb_G] [3chb_E] [3chb]
  • SWISS-PROT database: [P01556]
  • Domain organization of [CHTB_VIBCH] by SWISSPFAM
  • Other resources with information on 3CHB
  • Community annotation for 3CHB 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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