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- EMDB-7880: Infectious microvesicles (Class 1 and 3) from poliovirus-infected... -

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Database: EMDB / ID: EMD-7880
TitleInfectious microvesicles (Class 1 and 3) from poliovirus-infected HeLa cells, displaying clusters of virions and additional inner vesicular structures
Map data
SampleHuman poliovirus 1 Mahoney:
SourceHuman poliovirus 1 Mahoney
Methodelectron tomography / cryo EM
AuthorsYang JE
CitationJournal: To Be Published
Title: Picornavirus PACKETs accelerate viral RNA replication
Authors: Yang JE / Rossignol ED / Chang D / Zaia J / Forrester I / Nicastro D / Jackson W / Bullitt E
DateDeposition: May 15, 2018 / Header (metadata) release: Jul 25, 2018 / Map release: May 15, 2019 / Update: May 15, 2019

Structure visualization

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FileDownload / File: emd_7880.map.gz / Format: CCP4 / Size: 260.9 MB / Type: IMAGE STORED AS SIGNED BYTE
Voxel sizeX=Y=Z: 4.01 Å
Minimum - Maximum-70.0 - 61.0
Average (Standard dev.)-1.6020291 (±5.747377)
SymmetrySpace group: 1


Map geometry
Axis orderXYZ
CellA: 3019.5303 Å / B: 3380.4302 Å / C: 1728.31 Å
α=β=γ: 90.0 °

CCP4 map header:

modeenvelope stored as signed bytes (from -128 lowest to 127 highest)
Å/pix. X/Y/Z4.014.014.01
M x/y/z753843431
origin x/y/z0.0000.0000.000
length x/y/z3019.5303380.4301728.310
start NX/NY/NZ000
MAP C/R/S123
start NC/NR/NS-886-2414442
D min/max/mean-70.00061.000-1.602

Supplemental data

Sample components

Entire Human poliovirus 1 Mahoney

EntireName: Human poliovirus 1 Mahoney / Number of components: 1

Component #1: virus, Human poliovirus 1 Mahoney

VirusName: Human poliovirus 1 Mahoney / Class: VIRUS-LIKE PARTICLE / Empty: No / Enveloped: No / Isolate: STRAIN
SpeciesSpecies: Human poliovirus 1 Mahoney
Source (natural)Host Species: Homo sapiens (human)

Experimental details

Sample preparation

SpecimenSpecimen state: Particle / Method: cryo EM
Sample solutionSpecimen conc.: 1.5 mg/mL / Buffer solution: 1% glutaraldehyde in 1x PBS / pH: 7
VitrificationInstrument: FEI VITROBOT MARK II / Cryogen name: ETHANE / Temperature: 283.15 K / Humidity: 100 %

Electron microscopy imaging

ImagingMicroscope: JEOL 2200FS
Electron gunElectron source: FIELD EMISSION GUN / Accelerating voltage: 200 kV / Electron dose: 1.02 e/Å2 / Illumination mode: FLOOD BEAM
LensImaging mode: BRIGHT FIELD
Specimen HolderModel: OTHER
CameraDetector: DIRECT ELECTRON DE-20 (5k x 3k)

Image processing

ProcessingMethod: electron tomography / Number of sections: 62
3D reconstructionSoftware: eTomo

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