2BVL Toxin date Jun 30, 2005
title Crystal Structure Of The Catalytic Domain Of Toxin B From Cl Difficile In Complex With Udp, Glc And Manganese Ion
authors D.J.Reinert, T.Jank, K.Aktories, G.E.Schulz
compound source
Molecule: Toxin B
Chain: A
Fragment: Catalytic Domain, Residues 1-543
Ec: 2.4.1.-
Engineered: Yes
Mutation: Yes
Organism_scientific: Clostridium Difficile
Organism_taxid: 1496
Strain: Vpi 10463
Expression_system: Escherichia Coli
Expression_system_taxid: 511693
Expression_system_strain: Bl21
symmetry Space Group: P 21 21 21
R_factor 0.197 R_Free 0.244
crystal
cell
length a length b length c angle alpha angle beta angle gamma
63.010 95.797 112.915 90.00 90.00 90.00
method X-Ray Diffractionresolution 2.20 Å
ligand GLC, MN, SO4, TBR, UDP enzyme Transferase E.C.2.4.1 BRENDA
Gene
Ontology
ChainFunctionProcessComponent
A


Primary referenceStructural basis for the function of Clostridium difficile toxin B., Reinert DJ, Jank T, Aktories K, Schulz GE, J Mol Biol. 2005 Sep 2;351(5):973-81. PMID:16054646
Data retrieval
  • Asymmetric unit, PDB entry: [header only] [complete with coordinates] (103 Kb) [Save to disk]
  • Biological Unit Coordinates (2bvl.pdb1.gz) 97 Kb
  • LPC: Ligand-Protein Contacts for 2BVL
  • CSU: Contacts of Structural Units for 2BVL
  • Likely Quarternary Molecular Structure file(s) for 2BVL
  • Structure Factors (470 Kb)
  • Retrieve 2BVL in mmCIF format [Save to disk]
  • SEQRES to COORDINATES correlation for 2BVL from S2C, [Save to disk]
  • Re-refined 2bvl structure from PDB_REDO, a databank with updated and optimised macromolecular X-ray diffraction structure models
  • View 2BVL 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 2BVL
  • 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 2BVL, from MSDmotif at EBI
  • Sequence-derived information
  • View one-letter amino acid or nucleotide sequence for each chain: [2bvl_A] [2bvl]
  • SWISS-PROT database: [P18177]
  • Belongs to the clostridial cytotoxin (cct) family according to TCDB.
  • Domain organization of [TOXB_CLODI] by SWISSPFAM
  • Other resources with information on 2BVL
  • Community annotation for 2BVL 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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