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- EMDB-3813: Tomogram of the salmonella enterica wild-type bacterial flagellar... -

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Basic information

Database: EMDB / ID: 3813
TitleTomogram of the salmonella enterica wild-type bacterial flagellar motor
Map data
SampleSalmonella enterica Flagellar motor:
SourceSalmonella (bacteria)
Methodelectron tomography / cryo EM
AuthorsBeeby M / Ribardo DA / Brennan CA / Ruby EG / Jensen GJ / Hendrixson DR
CitationJournal: Proc. Natl. Acad. Sci. U.S.A. / Year: 2016
Title: Diverse high-torque bacterial flagellar motors assemble wider stator rings using a conserved protein scaffold.
Authors: Morgan Beeby / Deborah A Ribardo / Caitlin A Brennan / Edward G Ruby / Grant J Jensen / David R Hendrixson
DateDeposition: Jul 14, 2017 / Header (metadata) release: Jul 26, 2017 / Map release: Jul 26, 2017 / Last update: Aug 2, 2017

Structure visualization

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Structure viewerEM map:
Supplemental images

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Fileemd_3813.map.gz (map file in CCP4 format, 419431 KB)
Voxel sizeX=Y=Z: 8.122 Å
Contour Level:52 (by author)
Minimum - Maximum-128 - 127
Average (Standard dev.)56.306488 (8.228934)


Space Group Number1
Map Geometry
Axis orderXYZ
CellA: 8316.928 Å / B: 8316.928 Å / C: 3248.7998 Å
α=β=γ: 90 deg.

CCP4 map header:

modeenvelope stored as signed bytes (from -128 lowest to 127 highest)
Å/pix. X/Y/Z8.1228.1228.122
M x/y/z10241024400
origin x/y/z0.0000.0000.000
length x/y/z8316.9288316.9283248.800
start NX/NY/NZ
MAP C/R/S123
start NC/NR/NS00-400
D min/max/mean-128.000127.00056.306

Supplemental data

Sample components

Entire Salmonella enterica Flagellar motor

EntireName: Salmonella enterica Flagellar motor / Number of components: 1

Component #1: cellular-component, Salmonella enterica Flagellar motor

Cellular-componentName: Salmonella enterica Flagellar motor / Recombinant expression: No
SourceSpecies: Salmonella (bacteria) / Strain: TH16943
Source (natural)Location in cell: Cell wall

Experimental details

Sample preparation

SpecimenSpecimen state: cell / Method: cryo EM
Sample solutionBuffer solution: PH is not know. PH of 7 was added because PH is a mandatory item.
pH: 7
Support filmQuantifoil R2/2 grids (200-mesh) (Quantifoil Micro Tools GmbH) were glow-discharged for 60 s at 10 mA.
VitrificationInstrument: FEI VITROBOT MARK III / Cryogen name: ETHANE-PROPANE MIXTURE / Humidity: 100 %

Electron microscopy imaging

ImagingMicroscope: FEI TECNAI 20
Electron gunElectron source: FIELD EMISSION GUN / Accelerating voltage: 200 kV / Electron dose: 0.6 e/Å2 / Illumination mode: FLOOD BEAM
LensMagnification: 50000 X (nominal) / Cs: 2 mm / Imaging mode: BRIGHT FIELD / Defocus: 4000 - 10000 nm
Specimen HolderModel: GATAN LIQUID NITROGEN / Tilt Angle: -61 - 61 deg.
CameraDetector: FEI FALCON II (4k x 4k)

Image acquisition

Raw dataEMPIAR-10111 (Title: Tilt-series of salmonella enterica wild-type bacterial flagellar motor
Data size: 328.0 MB
Data #1: Tilt-series for salmonella enterica wild-type bacterial flagellar motor [tilt series])

Image processing

ProcessingMethod: electron tomography / Tilt angle increment: 3 deg. / Number of sections: 201
3D reconstructionSoftware: IMOD, RAPTOR, Leginon / Resolution method: OTHER

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