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- EMDB-45236: Subtomogram average (D3) of fatty acid synthase from S.cerevisiae... -

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Basic information

Entry
Database: EMDB / ID: EMD-45236
TitleSubtomogram average (D3) of fatty acid synthase from S.cerevisiae prepared using cryo-plasmaFIB milling
Map data
Sample
  • Complex: Yeast fatty acid synthase complex
KeywordsComplex / LIPID BINDING PROTEIN
Biological speciesSaccharomyces cerevisiae (brewer's yeast)
Methodsubtomogram averaging / cryo EM / Resolution: 6.8 Å
AuthorsFeathers JR / Zhong ED / Khavnekar S
Funding support United States, 1 items
OrganizationGrant numberCountry
Other private United States
CitationJournal: To Be Published
Title: CryoDRGN-ET: Deep reconstructing generative networks for visualizing dynamic biomolecules inside cells
Authors: Rangan R / Feathers JR / Khavnekar S / Lerer A / Johnston JD / Kelley R / Obr M / Kotecha A / Zhong ED
History
DepositionJun 7, 2024-
Header (metadata) releaseJul 2, 2025-
Map releaseJul 2, 2025-
UpdateJul 2, 2025-
Current statusJul 2, 2025Processing site: RCSB / Status: Released

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Structure visualization

Supplemental images

emd_45236.png

Downloads & links

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Map

FileDownload / File: emd_45236.map.gz / Format: CCP4 / Size: 103 MB / Type: IMAGE STORED AS FLOATING POINT NUMBER (4 BYTES)
Projections & slices

Image control

Size
Brightness
Contrast
Others
AxesZ (Sec.)Y (Row.)X (Col.)
1.96 Å/pix.
x 300 pix.
= 588. Å		1.96 Å/pix.
x 300 pix.
= 588. Å		1.96 Å/pix.
x 300 pix.
= 588. Å

Surface

Projections

Slices (1/3)

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Images are generated by Spider.

Voxel sizeX=Y=Z: 1.96 Å
Density

Histogram

Histogram (log scale)
Contour LevelBy AUTHOR: 0.654
Minimum - Maximum-0.4488775 - 1.3802847
Average (Standard dev.)-0.0011763441 (±0.09750414)
SymmetrySpace group: 1
Details

EMDB XML:

Map geometry
Axis orderXYZ
Origin000
Dimensions300300300
Spacing300300300
CellA=B=C: 588.0 Å
α=β=γ: 90.0 °

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Supplemental data

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Mask #1

Fileemd_45236_msk_1.map
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Additional map: #1

Fileemd_45236_additional_1.map
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Half map: #1

Fileemd_45236_half_map_1.map
Projections & Slices
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Half map: #2

Fileemd_45236_half_map_2.map
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Sample components

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Entire : Yeast fatty acid synthase complex

EntireName: Yeast fatty acid synthase complex
Components
  • Complex: Yeast fatty acid synthase complex

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Supramolecule #1: Yeast fatty acid synthase complex

SupramoleculeName: Yeast fatty acid synthase complex / type: complex / ID: 1 / Parent: 0
Source (natural)Organism: Saccharomyces cerevisiae (brewer's yeast)
Molecular weightTheoretical: 2 MDa

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Experimental details

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Structure determination

Methodcryo EM
Processingsubtomogram averaging
Aggregation statecell

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Sample preparation

BufferpH: 7
VitrificationCryogen name: ETHANE

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Electron microscopy

MicroscopeFEI TITAN KRIOS
Image recordingFilm or detector model: FEI FALCON IV (4k x 4k) / Average electron dose: 3.5 e/Å2
Electron beamAcceleration voltage: 300 kV / Electron source: FIELD EMISSION GUN
Electron opticsIllumination mode: FLOOD BEAM / Imaging mode: BRIGHT FIELD / Nominal defocus max: 3.5 µm / Nominal defocus min: 1.5 µm
Experimental equipment
Model: Titan Krios / Image courtesy: FEI Company

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Image processing

Final reconstructionApplied symmetry - Point group: D3 (2x3 fold dihedral) / Resolution.type: BY AUTHOR / Resolution: 6.8 Å / Resolution method: FSC 0.143 CUT-OFF / Software - Name: RELION / Number subtomograms used: 5239
ExtractionNumber tomograms: 263 / Number images used: 33492
CTF correctionType: PHASE FLIPPING AND AMPLITUDE CORRECTION
Final angle assignmentType: MAXIMUM LIKELIHOOD / Software - Name: RELION
FSC plot (resolution estimation)

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