REL PDBe PDBe PDBe 2014-10-14 2014-11-19 2015-02-18 2015-08-12 Membrane embedded pleurotolysin pore with 13 fold symmetry Lukoyanova N Kondos SC Farabella I Law RHP Reboul CF Caradoc-Davies TT Spicer BA Kleifeld O Perugini M Ekkel S Hatfaludi T Oliver K Hotze EM Tweten RK Whisstock JC Topf M Dunstone MA Saibil HR MACPF/CDC superfamily, pore-forming proteins Lukoyanova N Kondos SC Farabella I Law RH Reboul CF Caradoc-Davies TT Spicer BA Kleifeld O Traore DA Ekkel SM Voskoboinik I Trapani JA Hatfaludi T Oliver K Hotze EM Tweten RK Whisstock JC Topf M Saibil HR Dunstone MA Conformational Changes during Pore Formation by the Perforin-Related Protein Pleurotolysin. PLOS BIOL. 13 e1002049 e1002049 2015 25654333 doi:10.1371/journal.pbio.1002049 4v2t FULLOVERLAP pleurotolysin pore in liposomes pleurotolysin pore in liposomes
ring oligomers of 26 PlyA and 13 PlyB molecules on liposomes
2 pleurotolysin A Pleurotus ostreatus Oyster mushroom, White-rot fungus 0.017 26 true Escherichia coli BL21(DE3) Codon Plus pLysS (Novagen) pET3a Q8X1M9 GO:0019836 IPR009413 pleurotolysin B Pleurotus ostreatus Oyster mushroom, White-rot fungus 0.052 13 true Escherichia coli BL21(DE3) Codon Plus pLysS (Novagen) pUC57, pET3a Q5W9E8 GO:0019836 IPR020864 singleParticle particle 0.01 7.4
50 mM NaCl, 20 mM Hepes
300 mesh lacey copper grids
 ETHANE 80 FEI VITROBOT MARK III Pleurotolysin A was first added to sphingomyelin/cholesterol liposomes at a molar ratio of 1:2000 protein to lipid in the above buffer. After 5 min incubation at room temperature, pleurotolysin B was added to the mixture at a molar ratio of 1:2 to pleurotolysin A. The mixture was incubated at 40 C or room temperature for 30 min after which 3.5 uL were placed on negatively glow discharged lacey grids and vitrified in liquid ethane using a Vitrobot. Blotting was carried out at 36 C and 80% humidity. FEI POLARA 300 FLOOD BEAM BRIGHT FIELD FIELD EMISSION GUN 300 2.3 0.8 3.2 59000.0 76148.0 GATAN HELIUM 90 102 94 Objective lens astigmatism was corrected at 115,000 times magnification 2011-01-19 GATAN ULTRASCAN 4000 (4k x 4k) 15 350 25 16. liquid nitrogen cooled
2,500 pore top views and 14,500 pore side views with their adjacent membrane regions were extracted from liposome images and treated as single particles. These particles were initially used to separate 12- and 13-fold symmetries by angular reconstitution followed by competitive projection matching. 11,000 selected pore side views with estimated 13-fold symmetry were split randomly into 2 data sets, and again analysed independently.
Estimated with CTFFIND3, then phases flipped for each particle
 C13 OTHER 11.0 OTHER Imagic, Spider
SPIDER operation BP RP was used for reconstruction
8700 emd_2793.map.gz 1 IMAGE STORED AS FLOATING POINT NUMBER (4 BYTES) 200 200 200 0 0 0 200 200 200 400.0 400.0 400.0 90.0 90.0 90.0 X Y Z -3.04218602 4.09975386 0.00720952 0.31593281 2.0 2.0 2.0 0.25 AUTHOR map was sharpened by reducing the amplitudes of low frequency components corresponding to spacings greater than 30 A and high frequency ones less than 10A
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 4OEB FLEXIBLE FIT Chimera, Flex-EM, Modeller Cross-correlation coefficient REAL 4OEJ FLEXIBLE FIT Chimera, Flex-EM, Modeller Cross-correlation coefficient REAL