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- 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 / キイロショウジョウバエ /
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
  • Download
  • Surface view colored by radius
  • Surface level: 0.42
  • Imaged by UCSF CHIMERA
  • Download
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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 / キイロショウジョウバエ /
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 / キイロショウジョウバエ /
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 / キイロショウジョウバエ /
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 / キイロショウジョウバエ /
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 / キイロショウジョウバエ /
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 / キイロショウジョウバエ /
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 / キイロショウジョウバエ /
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 / キイロショウジョウバエ /
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 / キイロショウジョウバエ /
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 / キイロショウジョウバエ /
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 / キイロショウジョウバエ /
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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