REL PDBe PDBe PDBe 2015-03-10 2015-04-15 2016-01-27 2016-01-27 Durand E Fronzes R Bacterial secretion, virulence Durand E Nguyen V S Zoued A Logger L Pehau-Arnaudet G Aschtgen MS Spinelli S Desmyter A Bardiaux B Dujeancourt A Roussel A Cambillau C Cascales E Fronzes R NATURE 523 555 560 2015 26200339 doi:10.1038/nature14667 Negative stain structure of the TssJ-TssM-TssL type 6 secretion membrane core complex Negative stain structure of the TssJ-TssM-TssL type 6 secretion membrane core complex Decamer 3 1.7 1.7 Relative stoichometry of the individual components is 1:1:1 for TssJ:TssM:TssL. Docking of the crystal structures of some parts of the complex indicates 10 copies of each protein. TssJ Escherichia coli (strain 55989 / EAEC) strain 55989 / EAEC Enteroaggregative Escherichia coli outer membrane 0.0184 0.0184 10 1 true Escherichia coli BL21(DE3) pRSF-Duet B7LFS8 IPR017734 TssM Escherichia coli (strain 55989 / EAEC) strain 55989 / EAEC Enteroaggregative Escherichia coli inner membrane 0.130 0.130 10 1 true Escherichia coli BL21(DE3) pRSF-Duet D3GUX0 IPR010623 IPR009612 TssL Escherichia coli (strain 55989 / EAEC) strain 55989 / EAEC Enteroaggregative Escherichia coli inner membrane 0.024 0.024 10 1 true Escherichia coli BL21(DE3) pRSF-Duet D3GU40 IPR017732 singleParticle particle 0.01 8.0

50 mM Tris-HCl pH 8.0, 50 mM NaCl, 0.025% w/v Decyl Maltose Neopentyl Glycol (DM-NPG)

NEGATIVE

Nine microlitres of TssJLM complex sample was applied to glow-discharged carbon-coated copper grids (Agar Scientific). After 30 sec of absorption, the sample was blotted, washed with three drops of water and then stained with 2% uranyl acetate.

400 mesh carbon-coated copper grids

NONE OTHER FEI TECNAI F20 FLOOD BEAM BRIGHT FIELD FIELD EMISSION GUN 200 2.1 -0.5 -2.5 50000.0 68100.0 OTHER Astigmatism was checked during imaging and during CTF correction of the micrographs. Micrographs is astigmatism >10% were discarded. 2014-11-20 FEI FALCON II (4k x 4k) 850 20 16.

A total of 72,146 particles were automatically selected from 1,200 independent images and extracted within boxes of 280 pixels x 280 pixels using EMAN2/BOXER. The CTF was estimated and corrected by phase flipping using EMAN2 (e2ctf). All two- and three-dimensional (2D and 3D) .classifications and refinements were performed using RELION 1.3 . We used three rounds of reference-free 2D class averaging to clean up the automatically selected dataset. Only highly populated classes displaying high-resolution features were conserved during this procedure and a final dataset of 26,544 particles was assembled. An initial 3D-model was generated in EMAN2 using using 30 classes. 3D classification was then performed in Relion with 5 classes. The particles corresponding to most populated class (~ 16,738) were used for refinement. Relion auto-refine procedure was used to obtain a final reconstruction at 11.56-A resolution after masking and with C5 symmetry imposed. Reported resolutions are based on the gold-standard Fourier shell correlation (FSC) 0.143 criterion, and FSC curve were corrected for the effects of a soft mask on the FSC curve using high-resolution noise substitution . A subregion of the whole reconstruction was further refined by applying a local mask in Relion 3Drefine.

Each particle

C5 OTHER 11.5 OTHER EMAN2, Relion 16738