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    Yorodumi
    - EMDB-1832: Drosophila melanogaster CMG complex bound to ADP.BeF3 -

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    Basic information

    Entry
    Database: EMDB / ID: 1832
    TitleDrosophila melanogaster CMG complex bound to ADP.BeF3
    KeywordsAAA+ ATPase / Helicase / DNA replication
    SampleDrosophila melanogaster CMG complex bound to ADP.BeF3
    SourceDrosophila melanogaster / arthropod / Fruit Fly /
    Map dataVolume file of the ADP.BeF3-bound CMG complex
    Methodsingle particle reconstruction, at 28 A resolution
    AuthorsCosta A / Ilves I / Tamberg N / Petojevic T / Nogales E / Botchan MR / Berger JM
    CitationNat. Struct. Mol. Biol., 2011, 18, 471-477

    Nat. Struct. Mol. Biol., 2011, 18, 471-477 StrPapers
    The structural basis for MCM2-7 helicase activation by GINS and Cdc45.
    Alessandro Costa / Ivar Ilves / Nele Tamberg / Tatjana Petojevic / Eva Nogales / Michael R Botchan / James M Berger

    DateDeposition: Nov 28, 2010 / Header (metadata) release: Dec 9, 2010 / Map release: Apr 8, 2011 / Last update: Nov 28, 2010

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    Structure visualization

    Movie
    • Surface view with section colored by density value
    • Surface level: 0.42
    • Imaged by UCSF CHIMERA
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    • Surface view colored by radius
    • Surface level: 0.42
    • Imaged by UCSF CHIMERA
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    Supplemental images

    Downloads & links

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    Map

    Fileemd_1832.map.gz (map file in CCP4 format, 1025 KB)
    Projections & slicesSize of images:
    AxesZ (Sec.)Y (Row.)X (Col.)
    64 pix
    5.7 A/pix
    = 364.8 A
    64 pix
    5.7 A/pix
    = 364.8 A
    64 pix
    5.7 A/pix
    = 364.8 A

    Surface

    Projections

    Slices (1/3)

    Slices (1/2)

    Slices (2/3)

    Images are generated by Spider package.

    Voxel sizeX=Y=Z: 5.7 A
    Density
    Contour Level:0.42 (by author), 0.42 (movie #1):
    Minimum - Maximum-0.15938 - 2.05233
    Average (Standard dev.)-0.00245379 (0.155001)
    Details

    EMDB XML:

    Space Group Number1
    Map Geometry
    Axis orderXYZ
    Dimensions646464
    Origin-32-32-32
    Limit313131
    Spacing646464
    CellA=B=C: 364.8 A
    Alpha=beta=gamma: 90 deg.

    CCP4 map header:

    modeImage stored as Reals
    A/pix X/Y/Z5.75.75.7
    M x/y/z646464
    origin x/y/z0.0000.0000.000
    length x/y/z364.800364.800364.800
    alpha/beta/gamma90.00090.00090.000
    start NX/NY/NZ-30-24-70
    NX/NY/NZ6149141
    MAP C/R/S123
    start NC/NR/NS-32-32-32
    NC/NR/NS646464
    D min/max/mean-0.1592.052-0.002

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    Supplemental data

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    Sample components

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    Entire Drosophila melanogaster CMG complex bound to ADP.BeF3

    EntireName: Drosophila melanogaster CMG complex bound to ADP.BeF3 / Details: The sample was monodisperse / Number of components: 11
    Oligomeric State: One Mcm2-7 heterohexamer binds to one GINS heterotetramer and a Cdc45 monomer
    MassTheoretical: 700 kDa

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    Component #1: protein, Mcm2

    ProteinName: Mcm2 / a.k.a: Mcm2 / Oligomeric Details: Monomer / Number of Copies: 1 / Recombinant expression: Yes
    MassExperimental: 100 kDa
    SourceSpecies: Drosophila melanogaster / arthropod / Fruit Fly /
    Source (engineered)Expression System: Baculovirus infected insect cells / virus
    Source (natural)Location in cell: Nucleus / Cell: Baculovirus infected insect cells

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    Component #2: protein, Mcm3

    ProteinName: Mcm3 / a.k.a: Mcm3 / Oligomeric Details: Monomer / Number of Copies: 1 / Recombinant expression: Yes
    MassExperimental: 91 kDa
    SourceSpecies: Drosophila melanogaster / arthropod / Fruit Fly /
    Source (engineered)Expression System: Baculovirus infected insect cells / virus
    Source (natural)Location in cell: Nucleus / Cell: Baculovirus infected insect cells

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    Component #3: protein, Mcm4

    ProteinName: Mcm4 / a.k.a: Mcm4 / Oligomeric Details: Monomer / Recombinant expression: Yes / Number of Copies: 1
    MassExperimental: 97 kDa
    SourceSpecies: Drosophila melanogaster / arthropod / Fruit Fly /
    Source (engineered)Expression System: Baculovirus infected insect cells / virus
    Source (natural)Location in cell: Nucleus / Cell: Baculovirus infected insect cells

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    Component #4: protein, Mcm5

    ProteinName: Mcm5 / a.k.a: Mcm5 / Oligomeric Details: Monomer / Number of Copies: 1 / Recombinant expression: Yes
    MassExperimental: 82 kDa
    SourceSpecies: Drosophila melanogaster / arthropod / Fruit Fly /
    Source (engineered)Expression System: Baculovirus infected insect cells / virus
    Source (natural)Location in cell: Nucleus / Cell: Baculovirus infected insect cells

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    Component #5: protein, Mcm6

    ProteinName: Mcm6 / a.k.a: Mcm6 / Oligomeric Details: Monomer / Number of Copies: 1 / Recombinant expression: Yes
    MassExperimental: 92 kDa
    SourceSpecies: Drosophila melanogaster / arthropod / Fruit Fly /
    Source (engineered)Expression System: Baculovirus infected insect cells / virus
    Source (natural)Location in cell: Nucleus / Cell: Baculovirus infected insect cells

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    Component #6: protein, Mcm7

    ProteinName: Mcm7 / a.k.a: Mcm7 / Oligomeric Details: Monomer / Recombinant expression: Yes / Number of Copies: 1
    MassExperimental: 81 kDa
    SourceSpecies: Drosophila melanogaster / arthropod / Fruit Fly /
    Source (engineered)Expression System: Baculovirus infected insect cells / virus
    Source (natural)Location in cell: Nucleus / Cell: Baculovirus infected insect cells

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    Component #7: protein, Psf1

    ProteinName: Psf1 / a.k.a: Psf1 / Oligomeric Details: Monomer / Recombinant expression: Yes / Number of Copies: 1
    MassExperimental: 23 kDa
    SourceSpecies: Drosophila melanogaster / arthropod / Fruit Fly /
    Source (engineered)Expression System: Baculovirus infected insect cells / virus
    Source (natural)Location in cell: Nucleus / Cell: Baculovirus infected insect cells

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    Component #8: protein, Psf2

    ProteinName: Psf2 / a.k.a: Psf2 / Oligomeric Details: Monomer / Recombinant expression: Yes / Number of Copies: 1
    MassExperimental: 23 kDa
    SourceSpecies: Drosophila melanogaster / arthropod / Fruit Fly /
    Source (engineered)Expression System: Baculovirus infected insect cells / virus
    Source (natural)Location in cell: Nucleus / Cell: Baculovirus infected insect cells

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    Component #9: protein, Psf3

    ProteinName: Psf3 / a.k.a: Psf3 / Oligomeric Details: Monomer / Number of Copies: 1 / Recombinant expression: Yes
    MassExperimental: 25 kDa
    SourceSpecies: Drosophila melanogaster / arthropod / Fruit Fly /
    Source (engineered)Expression System: Baculovirus infected insect cells / virus
    Source (natural)Location in cell: Nucleus / Cell: Baculovirus infected insect cells

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    Component #10: protein, Sld5

    ProteinName: Sld5 / a.k.a: Sld5 / Oligomeric Details: Monomer / Number of Copies: 1 / Recombinant expression: Yes
    MassExperimental: 26 kDa
    SourceSpecies: Drosophila melanogaster / arthropod / Fruit Fly /
    Source (engineered)Expression System: Baculovirus infected insect cells / virus
    Source (natural)Location in cell: Nucleus / Cell: Baculovirus infected insect cells

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    Component #11: protein, Cdc45

    ProteinName: Cdc45 / a.k.a: Cdc45 / Oligomeric Details: Monomer / Number of Copies: 1 / Recombinant expression: Yes
    MassExperimental: 66 kDa
    SourceSpecies: Drosophila melanogaster / arthropod / Fruit Fly /
    Source (engineered)Expression System: Baculovirus infected insect cells / virus
    Source (natural)Location in cell: Nucleus / Cell: Baculovirus infected insect cells

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    Experimental details

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    Sample preparation

    Specimen stateparticle
    VitrificationInstrument: NONE / Cryogen name: NONE

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    Electron microscopy imaging

    ImagingMicroscope: FEI TECNAI 12
    Electron gunElectron source: LAB6 / Accelerating voltage: 120 kV / Electron dose: 20 e/A2 / Illumination mode: FLOOD BEAM
    LensMagnification: 30000 X (nominal) / Imaging mode: BRIGHT FIELD
    Specimen HolderHolder: Eucentric / Model: SIDE ENTRY, EUCENTRIC
    CameraDetector: GENERIC GATAN

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    Image acquisition

    Image acquisitionBit depth: 8

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    Image processing

    ProcessingMethod: single particle reconstruction / Applied symmetry: C1 (asymmetric)
    3D reconstructionAlgorithm: Projection matching / Software: Spider / Resolution: 28 A / Resolution method: FSC 0.5

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