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- EMDB-4304: Cryo-EM subtomogram average of IFT complex A in anterograde IFT t... -

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Basic information

Database: EMDB / ID: 4304
TitleCryo-EM subtomogram average of IFT complex A in anterograde IFT trains (Chlamydomonas reinhardtii)
Map dataCryo-EM subtomogram average of IFT complex A in anterograde IFT trains (Chlamydomonas reinhartdii)
SampleIntraflagellar transport complex A:
SourceChlamydomonas reinhardtii (plant)
Methodsubtomogram averaging / cryo EM / 33 Å resolution
AuthorsPigino G / Jordan MA
CitationJournal: Nat. Cell Biol. / Year: 2018
Title: The cryo-EM structure of intraflagellar transport trains reveals how dynein is inactivated to ensure unidirectional anterograde movement in cilia.
Authors: Mareike A Jordan / Dennis R Diener / Ludek Stepanek / Gaia Pigino
DateDeposition: Feb 21, 2018 / Header (metadata) release: Mar 28, 2018 / Map release: Oct 31, 2018 / Last update: Nov 7, 2018

Structure visualization

  • Surface view with section colored by density value
  • Surface level: 0.512
  • Imaged by UCSF Chimera
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  • Surface view colored by height
  • Surface level: 0.512
  • Imaged by UCSF Chimera
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Movie viewer
Structure viewerEM map:
Supplemental images

Downloads & links


Fileemd_4304.map.gz (map file in CCP4 format, 50 KB)
Projections & slices

Image control

AxesZ (Sec.)Y (Row.)X (Col.)
33 pix
14.13 Å/pix.
= 466.29 Å
17 pix
14.13 Å/pix.
= 240.21 Å
22 pix
14.13 Å/pix.
= 310.86 Å



Slices (1/3)

Slices (1/2)

Slices (2/3)

Images are generated by Spider.

(generated in cubic-lattice coordinate)

Voxel sizeX=Y=Z: 14.13 Å
Contour Level:0.512 (by author), 0.512 (movie #1):
Minimum - Maximum-2.6606517 - 2.8285213
Average (Standard dev.)0.0071905465 (0.53182364)


Space Group Number1
Map Geometry
Axis orderXYZ
CellA: 310.86002 Å / B: 240.21 Å / C: 466.29 Å
α=β=γ: 90.0 deg.

CCP4 map header:

modeImage stored as Reals
Å/pix. X/Y/Z14.1314.1314.13
M x/y/z221733
origin x/y/z0.0000.0000.000
length x/y/z310.860240.210466.290
start NX/NY/NZ000
MAP C/R/S123
start NC/NR/NS-8-10-7
D min/max/mean-2.6612.8290.007

Supplemental data

Sample components

Entire Intraflagellar transport complex A

EntireName: Intraflagellar transport complex A / Number of components: 1

Component #1: protein, Intraflagellar transport complex A

ProteinName: Intraflagellar transport complex A / Recombinant expression: No
SourceSpecies: Chlamydomonas reinhardtii (plant) / Strain: CC-124

Experimental details

Sample preparation

SpecimenSpecimen state: 2D array / Method: cryo EM
Sample solutionpH: 7
VitrificationInstrument: LEICA EM GP / Cryogen name: ETHANE

Electron microscopy imaging

ImagingMicroscope: FEI TITAN
Electron gunElectron source: FIELD EMISSION GUN / Accelerating voltage: 300 kV / Electron dose: 2.1 e/Å2 / Illumination mode: FLOOD BEAM
LensImaging mode: BRIGHT FIELD / Energy filter: GIF Quantum LS
Specimen HolderModel: OTHER
CameraDetector: GATAN K2 SUMMIT (4k x 4k)

Image processing

ProcessingMethod: subtomogram averaging / Number of subtomograms: 1450
3D reconstructionSoftware: PEET / Resolution: 33 Å / Resolution method: FSC 0.5 CUT-OFF

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