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- EMDB-9342: Structure of the type VI secretion system TssK-TssF-TssG baseplat... -

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Basic information

Database: EMDB / ID: 9342
TitleStructure of the type VI secretion system TssK-TssF-TssG baseplate subcomplex revealed by cryo-electron microscopy - TssK focused mapType VI secretion system
Map dataTssK focused map
SampleTssK-TssF-TssG T6SS baseplate subcomplex:
SourceEscherichia coli O44:H18 (strain 042 / EAEC) (bacteria)
Methodsingle particle reconstruction / cryo EM / 3.7 Å resolution
AuthorsPark YJ / Lacourse KD / Cambillau C / Seattle Structural Genomics Center for Infectious Disease (SSGCID) / DiMaio F / Mougous JD / Veesler D
CitationJournal: Nat Commun / Year: 2018
Title: Structure of the type VI secretion system TssK-TssF-TssG baseplate subcomplex revealed by cryo-electron microscopy.
Authors: Young-Jun Park / Kaitlyn D Lacourse / Christian Cambillau / Frank DiMaio / Joseph D Mougous / David Veesler
DateDeposition: Nov 14, 2018 / Header (metadata) release: Dec 12, 2018 / Map release: Dec 26, 2018 / Last update: Jan 9, 2019

Structure visualization

  • Surface view with section colored by density value
  • Surface level: 0.075
  • Imaged by UCSF Chimera
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  • Surface view colored by radius
  • Surface level: 0.075
  • Imaged by UCSF Chimera
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Movie viewer
Structure viewerEM map:
Supplemental images

Downloads & links


Fileemd_9342.map.gz (map file in CCP4 format, 95552 KB)
Projections & slices

Image control

AxesZ (Sec.)Y (Row.)X (Col.)
288 pix
1.37 Å/pix.
= 394.56 Å
288 pix
1.37 Å/pix.
= 394.56 Å
288 pix
1.37 Å/pix.
= 394.56 Å



Slices (1/3)

Slices (1/2)

Slices (2/3)

Images are generated by Spider.

Voxel sizeX=Y=Z: 1.37 Å
Contour Level:0.075 (by author), 0.075 (movie #1):
Minimum - Maximum-0.20910932 - 0.3792051
Average (Standard dev.)0.00020507124 (0.0058576344)


Space Group Number1
Map Geometry
Axis orderXYZ
CellA=B=C: 394.56 Å
α=β=γ: 90.0 deg.

CCP4 map header:

modeImage stored as Reals
Å/pix. X/Y/Z1.371.371.37
M x/y/z288288288
origin x/y/z0.0000.0000.000
length x/y/z394.560394.560394.560
start NX/NY/NZ
MAP C/R/S123
start NC/NR/NS000
D min/max/mean-0.2090.3790.000

Supplemental data

Sample components

Entire TssK-TssF-TssG T6SS baseplate subcomplex

EntireName: TssK-TssF-TssG T6SS baseplate subcomplex / Number of components: 1

Component #1: protein, TssK-TssF-TssG T6SS baseplate subcomplex

ProteinName: TssK-TssF-TssG T6SS baseplate subcomplex / Recombinant expression: No
SourceSpecies: Escherichia coli O44:H18 (strain 042 / EAEC) (bacteria)
Source (engineered)Expression System: Escherichia coli (E. coli)

Experimental details

Sample preparation

SpecimenSpecimen state: particle / Method: cryo EM
Sample solutionSpecimen conc.: 0.12 mg/ml / pH: 7.8
Support filmunspecified
VitrificationCryogen name: ETHANE

Electron microscopy imaging

Experimental equipment
Model: Titan Krios / Image courtesy: FEI Company
ImagingMicroscope: FEI TITAN KRIOS
Electron gunElectron source: FIELD EMISSION GUN / Accelerating voltage: 300 kV / Electron dose: 4 e/Å2 / Illumination mode: FLOOD BEAM
LensImaging mode: BRIGHT FIELD
Specimen HolderModel: OTHER
CameraDetector: GATAN K2 SUMMIT (4k x 4k)

Image processing

ProcessingMethod: single particle reconstruction / Applied symmetry: C1 (asymmetric) / Number of projections: 36496
3D reconstructionResolution: 3.7 Å / Resolution method: FSC 0.143 CUT-OFF

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