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    Yorodumi
    - EMDB-1482: Structrue of truncated portal(portal602) complex with gp4 from ba... -

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    Basic information

    Entry
    Database: EMDB / ID: 1482
    TitleStructrue of truncated portal(portal602) complex with gp4 from bacteriophage P22
    Sampletruncated portal complex with gp4 from bacteriophage P22
    SourceEnterobacteria phage P22 / virus
    Map datamap of portal602 complex with gp4
    Methodsingle particle reconstruction, at 8.5 A resolution
    AuthorsZheng H / Olia AS / Gonen M / Andrews S / Cingolani G / Gonen T
    CitationMol. Cell, 2008, 29, 376-383

    Mol. Cell, 2008, 29, 376-383 StrPapers
    A conformational switch in bacteriophage p22 portal protein primes genome injection.
    Hongjin Zheng / Adam S Olia / Melissa Gonen / Simeon Andrews / Gino Cingolani / Tamir Gonen

    DateDeposition: Feb 26, 2008 / Header (metadata) release: Feb 26, 2008 / Map release: Mar 31, 2009 / Last update: Feb 26, 2008

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    Structure visualization

    Movie
    • Surface view with section colored by density value
    • Surface level: 3.850629391
    • Imaged by UCSF CHIMERA
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    • Surface view colored by cylindrical radius
    • Surface level: 3.850629391
    • Imaged by UCSF CHIMERA
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    Supplemental images

    Downloads & links

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    Map

    Fileemd_1482.map.gz (map file in CCP4 format, 6751 KB)
    Projections & slicesSize of images:
    AxesZ (Sec.)Y (Row.)X (Col.)
    120 pix
    2.48 A/pix
    = 297.6 A
    120 pix
    2.48 A/pix
    = 297.6 A
    120 pix
    2.48 A/pix
    = 297.6 A

    Surface

    Projections

    Slices (1/3)

    Slices (1/2)

    Slices (2/3)

    Images are generated by Spider package.

    Voxel sizeX=Y=Z: 2.48 A
    Density
    Contour Level:2.75, 3.8506294 (movie #1):
    Minimum - Maximum-2.59705 - 7.69801
    Average (Standard dev.)-7.13014e-09 (1)
    Details

    EMDB XML:

    Space Group Number1
    Map Geometry
    Axis orderXYZ
    Dimensions120120120
    Origin-60-60-60
    Limit595959
    Spacing120120120
    CellA=B=C: 297.6 A
    Alpha=beta=gamma: 90 deg.

    CCP4 map header:

    modeImage stored as Reals
    A/pix X/Y/Z2.482.482.48
    M x/y/z120120120
    origin x/y/z0.0000.0000.000
    length x/y/z297.600297.600297.600
    alpha/beta/gamma90.00090.00090.000
    start NX/NY/NZ-55-55-55
    NX/NY/NZ111111111
    MAP C/R/S123
    start NC/NR/NS-60-60-60
    NC/NR/NS120120120
    D min/max/mean-2.5977.698-0.000

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    Supplemental data

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    Sample components

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    Entire truncated portal complex with gp4 from bacteriophage P22

    EntireName: truncated portal complex with gp4 from bacteriophage P22
    Number of components: 2 / Oligomeric State: 12mer of portal with 12mer of gp4

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    Component #1: protein, gp1, gp4

    ProteinName: gp1, gp4 / a.k.a: gp1, gp4 / Recombinant expression: Yes
    SourceSpecies: Enterobacteria phage P22 / virus

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    Experimental details

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    Sample preparation

    Specimen stateparticle
    VitrificationInstrument: NONE / Cryogen name: ETHANE

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    Electron microscopy imaging

    ImagingMicroscope: FEI TECNAI F20
    Electron gunElectron source: FIELD EMISSION GUN / Accelerating voltage: 200 kV / Illumination mode: OTHER
    LensImaging mode: OTHER
    Specimen HolderHolder: Eucentric / Model: OTHER

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    Image processing

    ProcessingMethod: single particle reconstruction / Applied symmetry: C12 (12 fold cyclic)
    3D reconstructionResolution: 8.5 A / Resolution method: FSC 0.143

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