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- EMDB-0006: Saccharomyces cerevisiae supercomplex class2 (III2IV2) -

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Basic information

Database: EMDB / ID: 0006
TitleSaccharomyces cerevisiae supercomplex class2 (III2IV2)
Map dataSaccharomyces cerevisiae supercomplex class2 (III2IV2)
SampleSaccharomyces cerevisiae Supercomplex:
SourceSaccharomyces cerevisiae W303 (yeast)
Methodsingle particle reconstruction / cryo EM / 3.5 Å resolution
AuthorsRathore S / Berndtsson J / Conrad J / Ott M
CitationJournal: Nat. Struct. Mol. Biol. / Year: 2019
Title: Cryo-EM structure of the yeast respiratory supercomplex.
Authors: Sorbhi Rathore / Jens Berndtsson / Lorena Marin-Buera / Julian Conrad / Marta Carroni / Peter Brzezinski / Martin Ott
DateDeposition: May 15, 2018 / Header (metadata) release: Jun 20, 2018 / Map release: Jan 2, 2019 / Last update: Jan 16, 2019

Structure visualization

  • Surface view with section colored by density value
  • Surface level: 0.28
  • Imaged by UCSF Chimera
  • Download
  • Surface view colored by height
  • Surface level: 0.28
  • Imaged by UCSF Chimera
  • Download
Movie viewer
Structure viewerEM map:
Supplemental images

Downloads & links


Fileemd_0006.map.gz (map file in CCP4 format, 202613 KB)
Projections & slices

Image control

AxesZ (Sec.)Y (Row.)X (Col.)
370 pix
1.06 Å/pix.
= 392.2 Å
370 pix
1.06 Å/pix.
= 392.2 Å
370 pix
1.06 Å/pix.
= 392.2 Å



Slices (1/3)

Slices (1/2)

Slices (2/3)

Images are generated by Spider.

Voxel sizeX=Y=Z: 1.06 Å
Contour Level:0.22 (by author), 0.28 (movie #1):
Minimum - Maximum-0.5725007 - 1.5357721
Average (Standard dev.)0.0071697747 (0.061136417)


Space Group Number1
Map Geometry
Axis orderXYZ
CellA=B=C: 392.19998 Å
α=β=γ: 90.0 deg.

CCP4 map header:

modeImage stored as Reals
Å/pix. X/Y/Z1.061.061.06
M x/y/z370370370
origin x/y/z0.0000.0000.000
length x/y/z392.200392.200392.200
start NX/NY/NZ
MAP C/R/S123
start NC/NR/NS000
D min/max/mean-0.5731.5360.007

Supplemental data

Sample components

Entire Saccharomyces cerevisiae Supercomplex

EntireName: Saccharomyces cerevisiae Supercomplex / Number of components: 1

Component #1: protein, Saccharomyces cerevisiae Supercomplex

ProteinName: Saccharomyces cerevisiae Supercomplex / Recombinant expression: No
SourceSpecies: Saccharomyces cerevisiae W303 (yeast)
Source (natural)Organelle: Mitochondria

Experimental details

Sample preparation

SpecimenSpecimen state: particle / Method: cryo EM
Sample solutionpH: 7.4
VitrificationCryogen name: ETHANE

Electron microscopy imaging

Experimental equipment
Model: Titan Krios / Image courtesy: FEI Company
ImagingMicroscope: FEI TITAN KRIOS
Electron gunElectron source: FIELD EMISSION GUN / Accelerating voltage: 300 kV / Electron dose: 1 e/Å2 / Illumination mode: FLOOD BEAM
LensImaging mode: BRIGHT FIELD
Specimen HolderModel: OTHER
CameraDetector: GATAN K2 SUMMIT (4k x 4k)

Image processing

ProcessingMethod: single particle reconstruction / Applied symmetry: C1 (asymmetric) / Number of projections: 108043
3D reconstructionSoftware: cryoSPARC / Resolution: 3.5 Å / Resolution method: FSC 0.143 CUT-OFF
FSC plot
(resolution estimation)

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