5AOE Toxin date Sep 10, 2015
title Crystal Structure Of Pneumolysin D168a Mutant.
authors K.Van Pee, O.Yildiz
compound source
Molecule: Pneumolysin
Chain: A, B
Synonym: Thiol-Activated Cytolysin, Cholesterol Dependent C
Engineered: Yes
Mutation: 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 1 21 1
R_factor 0.222 R_Free 0.250
crystal
cell
length a length b length c angle alpha angle beta angle gamma
160.860 24.660 208.350 90.00 90.26 90.00
method X-Ray Diffractionresolution 2.50 Å
Gene
Ontology
ChainFunctionProcessComponent
A, B
  • toxin activity


    • Primary referenceCryoEM structures of membrane pore and prepore complex reveal cytolytic mechanism of Pneumolysin., van Pee K, Neuhaus A, D'Imprima E, Mills DJ, Kuhlbrandt W, Yildiz O, Elife. 2017 Mar 21;6. pii: e23644. doi: 10.7554/eLife.23644. PMID:28323617
    Data retrieval
  • Asymmetric unit, PDB entry: [header only] [complete with coordinates] (327 Kb) [Save to disk]
  • Biological Unit Coordinates (5aoe.pdb1.gz) 162 Kb
  • Biological Unit Coordinates (5aoe.pdb2.gz) 163 Kb
  • CSU: Contacts of Structural Units for 5AOE
  • Structure Factors (521 Kb)
  • Retrieve 5AOE in mmCIF format [Save to disk]
  • SEQRES to COORDINATES correlation for 5AOE from S2C, [Save to disk]
  • Re-refined 5aoe structure from PDB_REDO, a databank with updated and optimised macromolecular X-ray diffraction structure models
    • View 5AOE 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 5AOE
  • 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: [5aoe_A] [5aoe_B] [5aoe]
  • SWISS-PROT database:
  • Domain organization of by SWISSPFAM
    • Other resources with information on 5AOE
  • Community annotation for 5AOE at PDBWiki (http://pdbwiki.org)

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