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- EMDB-66418: Structure of dimeric mouse NLRP14-KDM2A-SKP1 complex /Consensus Map -

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Basic information

Entry
Database: EMDB / ID: EMD-66418
TitleStructure of dimeric mouse NLRP14-KDM2A-SKP1 complex /Consensus Map
Map data
Sample
  • Complex: Dimeric mouse NLRP14-KDM2A-SKP1 complex
KeywordsCryo-EM / NLRP14 / KDM2A / SKP1 / early embryonic development / CYTOSOLIC PROTEIN
Biological speciesMus musculus (house mouse)
Methodsingle particle reconstruction / cryo EM / Resolution: 3.46 Å
AuthorsLiu S / Jiao H / Yan L / Qi Q / Chi P / Lu Y / Li JH / Li JL / Ju S / Wang X ...Liu S / Jiao H / Yan L / Qi Q / Chi P / Lu Y / Li JH / Li JL / Ju S / Wang X / Hu H / Deng D
Funding support China, 1 items
OrganizationGrant numberCountry
National Natural Science Foundation of China (NSFC)31971132 China
CitationJournal: To Be Published
Title: Structure of dimeric mouse NLRP14-KDM2A-SKP1 complex /Focused Map A
Authors: Liu S / Jiao H / Yan L / Hu H / Wang X / Deng D
History
DepositionSep 29, 2025-
Header (metadata) releaseMar 18, 2026-
Map releaseMar 18, 2026-
UpdateMar 18, 2026-
Current statusMar 18, 2026Processing site: PDBc / Status: Released

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Structure visualization

Supplemental images

emd_66418.png

Downloads & links

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Map

FileDownload / File: emd_66418.map.gz / Format: CCP4 / Size: 178 MB / Type: IMAGE STORED AS FLOATING POINT NUMBER (4 BYTES)
Projections & slices

Image control

Size
Brightness
Contrast
Others
AxesZ (Sec.)Y (Row.)X (Col.)
0.85 Å/pix.
x 360 pix.
= 306. Å		0.85 Å/pix.
x 360 pix.
= 306. Å		0.85 Å/pix.
x 360 pix.
= 306. Å

Surface

Projections

Slices (1/3)

Slices (1/2)

Slices (2/3)

Images are generated by Spider.

Voxel sizeX=Y=Z: 0.85 Å
Density

Histogram

Histogram (log scale)
Contour LevelBy AUTHOR: 0.064
Minimum - Maximum-0.24450451 - 0.5401442
Average (Standard dev.)0.00042212056 (±0.01544437)
SymmetrySpace group: 1
Details

EMDB XML:

Map geometry
Axis orderXYZ
Origin000
Dimensions360360360
Spacing360360360
CellA=B=C: 306.0 Å
α=β=γ: 90.0 °

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Supplemental data

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Half map: #1

Fileemd_66418_half_map_1.map
Projections & Slices
AxesZYX

Projections

Slices (1/2)
Density Histograms

Histogram

Histogram (log scale)

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Half map: #2

Fileemd_66418_half_map_2.map
Projections & Slices
AxesZYX

Projections

Slices (1/2)
Density Histograms

Histogram

Histogram (log scale)

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Sample components

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Entire : Dimeric mouse NLRP14-KDM2A-SKP1 complex

EntireName: Dimeric mouse NLRP14-KDM2A-SKP1 complex
Components
  • Complex: Dimeric mouse NLRP14-KDM2A-SKP1 complex

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Supramolecule #1: Dimeric mouse NLRP14-KDM2A-SKP1 complex

SupramoleculeName: Dimeric mouse NLRP14-KDM2A-SKP1 complex / type: complex / ID: 1 / Parent: 0 / Macromolecule list: #1
Source (natural)Organism: Mus musculus (house mouse)

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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: 8
VitrificationCryogen name: ETHANE / Chamber humidity: 100 %

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Electron microscopy

MicroscopeTFS KRIOS
Image recordingFilm or detector model: GATAN K3 BIOQUANTUM (6k x 4k) / Average electron dose: 53.633 e/Å2
Electron beamAcceleration voltage: 300 kV / Electron source: FIELD EMISSION GUN
Electron opticsC2 aperture diameter: 100.0 µm / Illumination mode: FLOOD BEAM / Imaging mode: BRIGHT FIELD / Cs: 2.7 mm / Nominal defocus max: 1.8 µm / Nominal defocus min: 1.2 µm / Nominal magnification: 105000
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: 3.46 Å / Resolution method: FSC 0.143 CUT-OFF / Software - Name: cryoSPARC / Number images used: 49652
Initial angle assignmentType: RANDOM ASSIGNMENT
Final angle assignmentType: PROJECTION MATCHING
FSC plot (resolution estimation)

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