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- EMDB-54409: Human Acyl-CoA dehydrogenase family member 9 (ACAD9) -

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Open data


ID or keywords:

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Basic information

Entry
Database: EMDB / ID: EMD-54409
TitleHuman Acyl-CoA dehydrogenase family member 9 (ACAD9)
Map dataAcyl-CoA dehydrogenase family member 9
Sample
  • Complex: Homodimer of Human Acyl-CoA dehydrogenase family member 9 (ACAD9)
KeywordsAssembly factor / acyl-CoA dehydrogenase / FLAVOPROTEIN
Biological speciesHomo sapiens (human)
Methodsingle particle reconstruction / cryo EM / Resolution: 4.7 Å
AuthorsGiachin G / Grinzato A / Buratto C / Battistutta R / Forneris F / Glatt S
Funding support1 items
OrganizationGrant numberCountry
Not funded
CitationJournal: To Be Published
Title: Metabolic crosstalk at the inner mitochondrial membrane: cryo-EM reveals a regulatory role for ACAD9 in Complex I architecture
Authors: Giachin G
History
DepositionJul 16, 2025-
Header (metadata) releaseJul 29, 2026-
Map releaseJul 29, 2026-
UpdateJul 29, 2026-
Current statusJul 29, 2026Processing site: PDBe / Status: Released

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Structure visualization

Supplemental images

emd_54409.png

Downloads & links

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Map

FileDownload / File: emd_54409.map.gz / Format: CCP4 / Size: 18.7 MB / Type: IMAGE STORED AS FLOATING POINT NUMBER (4 BYTES)
AnnotationAcyl-CoA dehydrogenase family member 9
Projections & slices

Image control

Size
Brightness
Contrast
Others
AxesZ (Sec.)Y (Row.)X (Col.)
0.86 Å/pix.
x 170 pix.
= 146.2 Å		0.86 Å/pix.
x 170 pix.
= 146.2 Å		0.86 Å/pix.
x 170 pix.
= 146.2 Å

Surface

Projections

Slices (1/3)

Slices (1/2)

Slices (2/3)

Images are generated by Spider.

Voxel sizeX=Y=Z: 0.86 Å
Density

Histogram

Histogram (log scale)
Contour LevelBy AUTHOR: 0.0709
Minimum - Maximum-0.19721346 - 0.4209093
Average (Standard dev.)0.0039207777 (±0.022479853)
SymmetrySpace group: 1
Details

EMDB XML:

Map geometry
Axis orderXYZ
Origin000
Dimensions170170170
Spacing170170170
CellA=B=C: 146.2 Å
α=β=γ: 90.0 °

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Supplemental data

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Half map: half map A

Fileemd_54409_half_map_1.map
Annotationhalf map A
Projections & Slices
AxesZYX

Projections

Slices (1/2)
Density Histograms

Histogram

Histogram (log scale)

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Half map: half map B

Fileemd_54409_half_map_2.map
Annotationhalf map B
Projections & Slices
AxesZYX

Projections

Slices (1/2)
Density Histograms

Histogram

Histogram (log scale)

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Sample components

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Entire : Homodimer of Human Acyl-CoA dehydrogenase family member 9 (ACAD9)

EntireName: Homodimer of Human Acyl-CoA dehydrogenase family member 9 (ACAD9)
Components
  • Complex: Homodimer of Human Acyl-CoA dehydrogenase family member 9 (ACAD9)

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Supramolecule #1: Homodimer of Human Acyl-CoA dehydrogenase family member 9 (ACAD9)

SupramoleculeName: Homodimer of Human Acyl-CoA dehydrogenase family member 9 (ACAD9)
type: complex / ID: 1 / Parent: 0
Source (natural)Organism: Homo sapiens (human)
Molecular weightTheoretical: 132 KDa

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Experimental details

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Structure determination

Methodcryo EM
Processingsingle particle reconstruction
Aggregation stateparticle

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Sample preparation

BufferpH: 7.4
VitrificationCryogen name: ETHANE

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Electron microscopy

MicroscopeTFS KRIOS
Image recordingFilm or detector model: GATAN K3 (6k x 4k) / Average electron dose: 39.94 e/Å2
Electron beamAcceleration voltage: 300 kV / Electron source: FIELD EMISSION GUN
Electron opticsIllumination mode: FLOOD BEAM / Imaging mode: BRIGHT FIELD / Nominal defocus max: 2.0 µm / Nominal defocus min: 0.8 µm
Experimental equipment
Model: Titan Krios / Image courtesy: FEI Company

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Image processing

CTF correctionType: PHASE FLIPPING AND AMPLITUDE CORRECTION
Startup modelType of model: NONE
Final reconstructionResolution.type: BY AUTHOR / Resolution: 4.7 Å / Resolution method: FSC 0.143 CUT-OFF / Software - Name: cryoSPARC / Number images used: 44234
Initial angle assignmentType: MAXIMUM LIKELIHOOD
Final angle assignmentType: MAXIMUM LIKELIHOOD

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