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- EMDB-3810: Tomogram of e. coli carrying empty ple6 plasmid induced with 20 u... -

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Basic information

Entry
Database: EMDB / ID: 3810
TitleTomogram of e. coli carrying empty ple6 plasmid induced with 20 uM IPTG
SampleEscherichia Coli
SourceEscherichia coli / bacteria / エシェリキア・コリ, 大腸菌 /
Map data
Methodelectron tomography
AuthorsSwulius MT / Jensen GJ
CitationJ. Bacteriol., 2012, 194, 6382-6386

J. Bacteriol., 2012, 194, 6382-6386 StrPapers
The helical MreB cytoskeleton in Escherichia coli MC1000/pLE7 is an artifact of the N-Terminal yellow fluorescent protein tag.
Matthew T Swulius / Grant J Jensen

DateDeposition: Jul 14, 2017 / Header (metadata) release: Aug 30, 2017 / Map release: Aug 30, 2017 / Last update: Aug 30, 2017

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Map

Fileemd_3810.map.gz (map file in CCP4 format, 1032257 KB)
Voxel sizeX=Y=Z: 9.46 Å
Density
Contour Level:9.3 (by author)
Minimum - Maximum-128 - 127
Average (Standard dev.)11.589242 (5.4253397)
Details

EMDB XML:

Space Group Number1
Map Geometry
Axis orderXYZ
Dimensions101610161000
Origin000
Limit10151015999
Spacing101610161000
CellA: 9611.36 Å / B: 9611.36 Å / C: 9460 Å
α=β=γ: 90 deg.

CCP4 map header:

modeenvelope stored as signed bytes (from -128 lowest to 127 highest)
Å/pix. X/Y/Z9.469.469.46
M x/y/z101610161000
origin x/y/z0.0000.0000.000
length x/y/z9611.3609611.3609460.000
α/β/γ90.00090.00090.000
start NX/NY/NZ
NX/NY/NZ
MAP C/R/S123
start NC/NR/NS000
NC/NR/NS101610161000
D min/max/mean-128.000127.00011.589

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Supplemental data

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Sample components

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Entire Escherichia Coli

EntireName: Escherichia Coli / Number of components: 2

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Component #1: cellular-component, Escherichia Coli

Cellular-componentName: Escherichia Coli / Recombinant expression: No
SourceSpecies: Escherichia coli / bacteria / エシェリキア・コリ, 大腸菌 /

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Component #2: cellular-component, Helical MreB Cytoskeleton

Cellular-componentName: Helical MreB Cytoskeleton / Recombinant expression: No
SourceSpecies: Escherichia coli / bacteria / エシェリキア・コリ, 大腸菌 /

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Experimental details

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Sample preparation

Specimen statecell
Sample solutionBuffer solution: MC1000, MC1000/pLE6, and MC1000/pLE7 were grown in LB at 37C with 50 ug/ml ampicillin when appropriate.
pH: 7
VitrificationInstrument: FEI VITROBOT MARK III / Cryogen name: ETHANE-PROPANE MIXTURE / Temperature: 295 K / Humidity: 100 %

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Electron microscopy imaging

Experimental equipment
Model: Tecnai Polara / Image courtesy: FEI Company
ImagingMicroscope: FEI POLARA 300
Electron gunElectron source: FIELD EMISSION GUN / Accelerating voltage: 300 kV / Electron dose: 0.4 e/Å2 / Illumination mode: FLOOD BEAM
LensImaging mode: BRIGHT FIELD / Energy filter: FEI
Specimen HolderModel: OTHER / Tilt Angle: -64 - 64 deg. / Temperature: K ( - 123.15 K)
CameraDetector: GATAN ULTRASCAN 4000 (4k x 4k)

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Image processing

ProcessingMethod: electron tomography / Tilt angle increment: 1 deg. / Number of sections: 501
3D reconstructionSoftware: IMOD

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