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- EMDB-64945: Overall structure of HKU5 S protein in closed conformation in C3 ... -

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Basic information

Entry
Database: EMDB / ID: EMD-64945
TitleOverall structure of HKU5 S protein in closed conformation in C3 symmetry
Map data
Sample
  • Complex: Overall structure of HKU5 S protein in closed conformation in C3 symmetry
KeywordsHCoV-HKU1 / VIRAL PROTEIN
Biological speciesBat coronavirus
Methodsingle particle reconstruction / cryo EM / Resolution: 2.24 Å
AuthorsZhang YY / Xia LY / Zhou Q
Funding support China, 1 items
OrganizationGrant numberCountry
National Natural Science Foundation of China (NSFC)82241081 China
CitationJournal: To Be Published
Title: Molecular Insights into Species-Specific ACE2 Recognition of Coronavirus HKU5
Authors: Zhang YY / Xia LY / Zhou Q
History
DepositionJun 5, 2025-
Header (metadata) releaseNov 5, 2025-
Map releaseNov 5, 2025-
UpdateNov 5, 2025-
Current statusNov 5, 2025Processing site: PDBc / Status: Released

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Structure visualization

Supplemental images

emd_64945.png

Downloads & links

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Map

FileDownload / File: emd_64945.map.gz / Format: CCP4 / Size: 125 MB / Type: IMAGE STORED AS FLOATING POINT NUMBER (4 BYTES)
Projections & slices

Image control

Size
Brightness
Contrast
Others
AxesZ (Sec.)Y (Row.)X (Col.)
1.09 Å/pix.
x 320 pix.
= 347.84 Å		1.09 Å/pix.
x 320 pix.
= 347.84 Å		1.09 Å/pix.
x 320 pix.
= 347.84 Å

Surface

Projections

Slices (1/3)

Slices (1/2)

Slices (2/3)

Images are generated by Spider.

Voxel sizeX=Y=Z: 1.087 Å
Density

Histogram

Histogram (log scale)
Contour LevelBy AUTHOR: 0.8
Minimum - Maximum-4.54661 - 7.5308433
Average (Standard dev.)-0.0012868561 (±0.19387683)
SymmetrySpace group: 1
Details

EMDB XML:

Map geometry
Axis orderXYZ
Origin000
Dimensions320320320
Spacing320320320
CellA=B=C: 347.84 Å
α=β=γ: 90.0 °

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Supplemental data

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Half map: #1

Fileemd_64945_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_64945_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 : Overall structure of HKU5 S protein in closed conformation in C3 ...

EntireName: Overall structure of HKU5 S protein in closed conformation in C3 symmetry
Components
  • Complex: Overall structure of HKU5 S protein in closed conformation in C3 symmetry

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Supramolecule #1: Overall structure of HKU5 S protein in closed conformation in C3 ...

SupramoleculeName: Overall structure of HKU5 S protein in closed conformation in C3 symmetry
type: complex / ID: 1 / Parent: 0
Source (natural)Organism: Bat coronavirus

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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

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Electron microscopy

MicroscopeFEI TECNAI ARCTICA
Image recordingFilm or detector model: GATAN K3 (6k x 4k) / Average electron dose: 50.0 e/Å2
Electron beamAcceleration voltage: 300 kV / Electron source: FIELD EMISSION GUN
Electron opticsIllumination mode: FLOOD BEAM / Imaging mode: BRIGHT FIELD / Nominal defocus max: 2.2 µm / Nominal defocus min: 1.2 µm
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: OTHER
Final reconstructionResolution.type: BY AUTHOR / Resolution: 2.24 Å / Resolution method: FSC 0.143 CUT-OFF / Number images used: 801468
Initial angle assignmentType: ANGULAR RECONSTITUTION
Final angle assignmentType: MAXIMUM LIKELIHOOD

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