6C0B Toxin date Dec 28, 2017
title Structural Basis For Recognition Of Frizzled Proteins By Clo Difficile Toxin B
authors P.Chen, K.Lam, R.Jin
compound source
Molecule: Toxin B
Chain: A
Engineered: Yes
Organism_scientific: Clostridioides Difficile
Organism_common: Peptoclostridium Difficile
Organism_taxid: 1496
Gene: Tcdb
Expression_system: Escherichia Coli
Expression_system_taxid: 562

Molecule: Frizzled-2
Chain: B
Synonym: Hfz2,Fze2
Engineered: Yes

Organism_scientific: Homo Sapiens
Organism_common: Human
Organism_taxid: 9606
Gene: Fzd2
Expression_system: Mammalia
Expression_system_taxid: 40674
symmetry Space Group: C 2 2 21
R_factor 0.199 R_Free 0.237
length a length b length c angle alpha angle beta angle gamma
74.611 175.613 174.423 90.00 90.00 90.00
method X-Ray Diffractionresolution 2.50 Å
ligand MLI, NAG, PAM enzyme


Primary referenceStructural basis for recognition of frizzled proteins by Clostridium difficile toxin B., Chen P, Tao L, Wang T, Zhang J, He A, Lam KH, Liu Z, He X, Perry K, Dong M, Jin R, Science. 2018 May 11;360(6389):664-669. doi: 10.1126/science.aar1999. PMID:29748286
Data retrieval
  • Asymmetric unit, PDB entry: [header only] [complete with coordinates] (216 Kb) [Save to disk]
  • Biological Unit Coordinates (6c0b.pdb1.gz) 210 Kb
  • Biological Unit Coordinates (6c0b.pdb2.gz) 419 Kb
  • LPC: Ligand-Protein Contacts for 6C0B
  • CSU: Contacts of Structural Units for 6C0B
  • Structure Factors (991 Kb)
  • Retrieve 6C0B in mmCIF format [Save to disk]
  • SEQRES to COORDINATES correlation for 6C0B from S2C, [Save to disk]
  • View 6C0B 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 6C0B
  • Cartoon representation from PDB Cartoon
  • Ramachandran plot from PDBSum
  • Structure-derived information
  • Dipole moment, from Dipole Server at Weizmann Institute
  • Crystal Contacts, from CryCo at Weizmann Institute
  • Fold representative 6c0b from FSSP and Dali (Families of Structurally Similar Proteins)
  • Sequence-derived information
  • View one-letter amino acid or nucleotide sequence for each chain: [6c0b_A] [6c0b_B]
  • SWISS-PROT database:
  • Domain organization of by SWISSPFAM
  • Other resources with information on 6C0B
  • Community annotation for 6C0B at PDBWiki (http://pdbwiki.org)

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