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- EMDB-73107: Uncrosslinked hClpXP composite map -

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Open data


ID or keywords:

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Basic information

Entry
Database: EMDB / ID: EMD-73107
TitleUncrosslinked hClpXP composite map
Map dataunxlinked-hClpXP-composite-map
Sample
  • Complex: hClpXP
KeywordsMitochondrial AAA+ ATPase / mitochondrial protease / HYDROLASE
Biological speciesHomo sapiens (human)
Methodsingle particle reconstruction / cryo EM / Resolution: 4.5 Å
AuthorsChen W
Funding support United States, 3 items
OrganizationGrant numberCountry
National Science Foundation (NSF, United States) United States
National Institutes of Health/Office of the DirectorS10 0D032467 United States
National Institutes of Health/Office of the DirectorNS095892 United States
CitationJournal: Nat Commun / Year: 2026
Title: Cryo-EM structures of human ClpXP reveal mechanisms of assembly and proteolytic activation
Authors: Chen W / Lander GC / Yang J
History
DepositionOct 10, 2025-
Header (metadata) releaseMar 4, 2026-
Map releaseMar 4, 2026-
UpdateMar 4, 2026-
Current statusMar 4, 2026Processing site: RCSB / Status: Released

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Structure visualization

Supplemental images

emd_73107.png

Downloads & links

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Map

FileDownload / File: emd_73107.map.gz / Format: CCP4 / Size: 52 MB / Type: IMAGE STORED AS FLOATING POINT NUMBER (4 BYTES)
Annotationunxlinked-hClpXP-composite-map
Projections & slices

Image control

Size
Brightness
Contrast
Others
AxesZ (Sec.)Y (Row.)X (Col.)
1.15 Å/pix.
x 237 pix.
= 272.55 Å		1.15 Å/pix.
x 233 pix.
= 267.95 Å		1.15 Å/pix.
x 247 pix.
= 284.05 Å

Surface

Projections

Slices (1/3)

Slices (1/2)

Slices (2/3)

Images are generated by Spider.

generated in cubic-lattice coordinate

Voxel sizeX=Y=Z: 1.15 Å
Density

Histogram

Histogram (log scale)
Contour LevelBy AUTHOR: 0.23
Minimum - Maximum-0.09798191 - 1.6205267
Average (Standard dev.)0.023125676 (±0.061138436)
SymmetrySpace group: 1
Details

EMDB XML:

Map geometry
Axis orderXYZ
Origin-34-40-75
Dimensions233247237
Spacing247233237
CellA: 284.05 Å / B: 267.94998 Å / C: 272.55 Å
α=β=γ: 90.0 °

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Supplemental data

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Sample components

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Entire : hClpXP

EntireName: hClpXP
Components
  • Complex: hClpXP

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Supramolecule #1: hClpXP

SupramoleculeName: hClpXP / type: complex / ID: 1 / Parent: 0
Source (natural)Organism: Homo sapiens (human)

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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: 7.5
VitrificationCryogen name: ETHANE / Chamber humidity: 90 %

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Electron microscopy

MicroscopeFEI TALOS ARCTICA
Image recordingFilm or detector model: GATAN K2 SUMMIT (4k x 4k) / Average electron dose: 50.0 e/Å2
Electron beamAcceleration voltage: 200 kV / Electron source: FIELD EMISSION GUN
Electron opticsC2 aperture diameter: 50.0 µm / Calibrated magnification: 54945 / Illumination mode: FLOOD BEAM / Imaging mode: BRIGHT FIELD / Cs: 3.7 mm / Nominal defocus max: 3.3000000000000003 µm / Nominal defocus min: 0.23 µm / Nominal magnification: 4500
Experimental equipment
Model: Talos Arctica / Image courtesy: FEI Company

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Image processing

CTF correctionType: PHASE FLIPPING AND AMPLITUDE CORRECTION
Startup modelType of model: EMDB MAP
EMDB ID:

71595

Final reconstructionResolution.type: BY AUTHOR / Resolution: 4.5 Å / Resolution method: FSC 0.143 CUT-OFF / Software - Name: cryoSPARC (ver. 4.7.0) / Number images used: 46168
Initial angle assignmentType: MAXIMUM LIKELIHOOD
Final angle assignmentType: MAXIMUM LIKELIHOOD

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