1SR4 Toxin date Mar 22, 2004
title Crystal Structure Of The Haemophilus Ducreyi Cytolethal Distending Toxin
authors D.Nesic, Y.Hsu, C.E.Stebbins
compound source
Molecule: Cytolethal Distending Toxin Subunit A
Chain: A
Synonym: Cdt A
Engineered: Yes
 Organism_scientific: Haemophilus Ducreyi
Organism_taxid: 730
Gene: Cdta, Hd0902
Expression_system: Escherichia Coli
Expression_system_taxid: 562
Expression_system_vector_type: Plasmid
Expression_system_vector: Pet28a

Molecule: Cytolethal Distending Toxin Protein B
Chain: B
Synonym: Cdt B
Engineered: Yes
Organism_scientific: Haemophilus Ducreyi
Organism_taxid: 730
Expression_system: Escherichia Coli
Expression_system_taxid: 562
Expression_system_vector_type: Plasmid
Expression_system_vector: Pac28

Molecule: Cytolethal Distending Toxin Protein C
Chain: C
Synonym: Cdt C
Engineered: Yes
Organism_scientific: Haemophilus Ducreyi
Organism_taxid: 730
Expression_system: Escherichia Coli
Expression_system_taxid: 562
Expression_system_vector_type: Plasmid
Expression_system_vector: Pet21a
symmetry Space Group: P 21 21 21
R_factor 0.182 R_Free 0.214
crystal
cell
length a length b length c angle alpha angle beta angle gamma
71.652 75.653 121.637 90.00 90.00 90.00
method X-Ray Diffractionresolution 2.00 Å
ligand BR enzyme
note 1SR4 is a representative structure
Gene
Ontology
ChainFunctionProcessComponent
A
  • toxin activity


    • B


    C


    Primary referenceAssembly and function of a bacterial genotoxin., Nesic D, Hsu Y, Stebbins CE, Nature 2004 May 27;429(6990):429-33. PMID:15164065
    Data retrieval
  • Asymmetric unit, PDB entry: [header only] [complete with coordinates] (107 Kb) [Save to disk]
  • Biological Unit Coordinates (1sr4.pdb1.gz) 103 Kb
  • LPC: Ligand-Protein Contacts for 1SR4
  • CSU: Contacts of Structural Units for 1SR4
  • Likely Quarternary Molecular Structure file(s) for 1SR4
  • Structure Factors (392 Kb)
  • Retrieve 1SR4 in mmCIF format [Save to disk]
  • SEQRES to COORDINATES correlation for 1SR4 from S2C, [Save to disk]
  • Re-refined 1sr4 structure from PDB_REDO, a databank with updated and optimised macromolecular X-ray diffraction structure models
    • View 1SR4 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 1SR4
  • 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 1SR4, from MSDmotif at EBI
  • Classification of representative domains in scop (Structural Classification of Proteins)
        - Domain d1sr4a_, region A [Jmol] [rasmolscript] [script source]
        - Domain d1sr4b_, region B [Jmol] [rasmolscript] [script source]
        - Domain d1sr4c_, region C [Jmol] [rasmolscript] [script source]
    • Sequence-derived information
  • View one-letter amino acid or nucleotide sequence for each chain: [1sr4_A] [1sr4_C] [1sr4] [1sr4_B]
  • SWISS-PROT database: [O06522] [O06523] [O06524]
  • Domain organization of [CDTA_HAEDU] [O06523_HAEDU] [O06524_HAEDU] by SWISSPFAM
    • Other resources with information on 1SR4
  • Community annotation for 1SR4 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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