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- EMDB-6775: Cryo-EM structure of human respiratory supercomplex I1III2IV1 -

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Basic information

Database: EMDB / ID: 6775
TitleCryo-EM structure of human respiratory supercomplex I1III2IV1
SampleHuman respiratory supercomplex I1III2IV1
SourceHomo sapiens / human
Map data
Methodsingle particle reconstruction, at 3.9 Å resolution
AuthorsGu J / Wu M / Yang M
CitationCell, 2017, 170, 1247-1257.e12

Cell, 2017, 170, 1247-1257.e12 Yorodumi Papers
Architecture of Human Mitochondrial Respiratory Megacomplex I2III2IV2.
Runyu Guo / Shuai Zong / Meng Wu / Jinke Gu / Maojun Yang

Validation ReportPDB-ID: 5xth

SummaryFull reportAbout validation report
DateDeposition: Jun 18, 2017 / Header (metadata) release: Sep 13, 2017 / Map release: Sep 13, 2017 / Last update: Dec 13, 2017

Structure visualization

  • Surface view with section colored by density value
  • Surface level: 0.04
  • Imaged by UCSF CHIMERA
  • Download
  • Surface view colored by height
  • Surface level: 0.04
  • Imaged by UCSF CHIMERA
  • Download
  • Surface view with fitted model
  • Atomic models: : PDB-5xth
  • Surface level: 0.04
  • Imaged by UCSF CHIMERA
  • Download
3D viewer

View / / Stereo:
Slabnear <=> far

fix: /
Orientation Rotation
Misc. /
Supplemental images

Downloads & links


Fileemd_6775.map.gz (map file in CCP4 format, 442369 KB)
Projections & slices

Image control

AxesZ (Sec.)Y (Row.)X (Col.)
480 pix
1.08 Å/pix.
= 519.84 Å
480 pix
1.08 Å/pix.
= 519.84 Å
480 pix
1.08 Å/pix.
= 519.84 Å



Slices (1/3)

Slices (1/2)

Slices (2/3)

Images are generated by Spider package.

Voxel sizeX=Y=Z: 1.083 Å
Contour Level:0.0354 (by author), 0.04 (movie #1):
Minimum - Maximum-0.091495745 - 0.38491186
Average (Standard dev.)0.00086070073 (0.0064994423)


Space Group Number1
Map Geometry
Axis orderXYZ
CellA=B=C: 519.83997 Å
α=β=γ: 90 deg.

CCP4 map header:

modeImage stored as Reals
Å/pix. X/Y/Z1.0831.0831.083
M x/y/z480480480
origin x/y/z0.0000.0000.000
length x/y/z519.840519.840519.840
start NX/NY/NZ
MAP C/R/S123
start NC/NR/NS000
D min/max/mean-0.0910.3850.001

Supplemental data

Sample components

Entire Human respiratory supercomplex I1III2IV1

EntireName: Human respiratory supercomplex I1III2IV1 / Number of components: 1
MassExperimental: 1.7 MDa

Component #1: protein, Human respiratory supercomplex I1III2IV1

ProteinName: Human respiratory supercomplex I1III2IV1 / Recombinant expression: No
MassExperimental: 1.7 MDa
SourceSpecies: Homo sapiens / human

Experimental details

Sample preparation

Specimen stateparticle
Sample solutionSpecimen conc.: 0.2 mg/ml / pH: 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: 1.25 e/Å2 / Illumination mode: OTHER
LensImaging mode: BRIGHT FIELD
Specimen HolderModel: OTHER
CameraDetector: FEI FALCON II (4k x 4k)

Image processing

ProcessingMethod: single particle reconstruction / Applied symmetry: C1 (asymmetric) / Number of projections: 167761
3D reconstructionSoftware: RELION / Resolution: 3.9 Å / Resolution method: FSC 0.143 CUT-OFF

Atomic model buiding

Output model

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