5AOF Toxin date Sep 10, 2015
title Crystal Structure Of Pneumolysin Deletion Mutant Delta146_14
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 0.208 R_Free 0.234
crystal
cell
length a length b length c angle alpha angle beta angle gamma
24.730 163.500 207.800 90.00 90.00 90.00
method X-Ray Diffractionresolution 2.45 Å
Gene
Ontology
ChainFunctionProcessComponent
A
  • 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] (172 Kb) [Save to disk]
  • Biological Unit Coordinates (5aof.pdb1.gz) 167 Kb
  • CSU: Contacts of Structural Units for 5AOF
  • Structure Factors (266 Kb)
  • Retrieve 5AOF in mmCIF format [Save to disk]
  • SEQRES to COORDINATES correlation for 5AOF from S2C, [Save to disk]
  • Re-refined 5aof structure from PDB_REDO, a databank with updated and optimised macromolecular X-ray diffraction structure models
    • View 5AOF 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 5AOF
  • 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: [5aof_A] [5aof]
  • SWISS-PROT database:
  • Domain organization of by SWISSPFAM
    • Other resources with information on 5AOF
  • Community annotation for 5AOF at PDBWiki (http://pdbwiki.org)

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