5AOD Toxin date Sep 10, 2015
title Crystal Structure Of Wild Type Pneumolysin.
authors K.Van Pee, O.Yildiz
compound source
Molecule: Pneumolysin
Chain: A
Synonym: Thiol-Activated Cytolysin, Cholesterol Dependent C
Engineered: Yes
 Organism_scientific: Streptococcus Pneumoniae
Organism_taxid: 1313
Expression_system: Escherichia Coli
Expression_system_taxid: 511693
Expression_system_strain: Bl21
Expression_system_vector_type: Plasmid
Expression_system_vector: Pet15b
symmetry Space Group: P 21 21 21
R_factor 0.218 R_Free 0.277
crystal
cell
length a length b length c angle alpha angle beta angle gamma
24.280 113.260 156.670 90.00 90.00 90.00
method X-Ray Diffractionresolution 2.40 Å
Gene
Ontology
ChainFunctionProcessComponent
A
  • toxin activity


    • Data retrieval
  • Asymmetric unit, PDB entry: [header only] [complete with coordinates] (159 Kb) [Save to disk]
  • Biological Unit Coordinates (5aod.pdb1.gz) 155 Kb
  • CSU: Contacts of Structural Units for 5AOD
  • Structure Factors (161 Kb)
  • Retrieve 5AOD in mmCIF format [Save to disk]
  • SEQRES to COORDINATES correlation for 5AOD from S2C, [Save to disk]
  • Re-refined 5aod structure from PDB_REDO, a databank with updated and optimised macromolecular X-ray diffraction structure models
    • View 5AOD 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 5AOD
  • 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
    • Sequence-derived information
  • View one-letter amino acid or nucleotide sequence for each chain: [5aod_A] [5aod]
  • SWISS-PROT database:
  • Domain organization of by SWISSPFAM
    • Other resources with information on 5AOD
  • Community annotation for 5AOD at PDBWiki (http://pdbwiki.org)

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