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- EMDB-73601: BtCoV SL5 with SL5c truncated -

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Open data


ID or keywords:

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Basic information

Entry
Database: EMDB / ID: EMD-73601
TitleBtCoV SL5 with SL5c truncated
Map data
Sample
  • Complex: BtCoV SL5 with SL5c truncated
    • RNA: RNA (127-MER)
KeywordsRNA / SL5 / BtCoV
Biological speciesPipistrellus bat coronavirus HKU5
Methodsingle particle reconstruction / cryo EM / Resolution: 9.5 Å
AuthorsKretsch RC / Xu L / Chiu W / Das R
Funding support United States, 1 items
OrganizationGrant numberCountry
National Science Foundation (NSF, United States)2330652 United States
CitationJournal: To Be Published
Title: Assessment of nucleic acid structure prediction in CASP16
Authors: Kretsch RC / Hummer AM / He S / Yuan R / Zhang J / Karagianes T / Cong Q / Kryshtafovych A / Das R
History
DepositionOct 26, 2025-
Header (metadata) releaseAug 26, 2026-
Map releaseAug 26, 2026-
UpdateAug 26, 2026-
Current statusAug 26, 2026Processing site: RCSB / Status: Released

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Structure visualization

Supplemental images

emd_73601.png

Downloads & links

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Map

FileDownload / File: emd_73601.map.gz / Format: CCP4 / Size: 30.5 MB / Type: IMAGE STORED AS FLOATING POINT NUMBER (4 BYTES)
Projections & slices

Image control

Size
Brightness
Contrast
Others
AxesZ (Sec.)Y (Row.)X (Col.)
1.48 Å/pix.
x 200 pix.
= 296.4 Å		1.48 Å/pix.
x 200 pix.
= 296.4 Å		1.48 Å/pix.
x 200 pix.
= 296.4 Å

Surface

Projections

Slices (1/3)

Slices (1/2)

Slices (2/3)

Images are generated by Spider.

Voxel sizeX=Y=Z: 1.482 Å
Density

Histogram

Histogram (log scale)
Contour LevelBy AUTHOR: 0.295
Minimum - Maximum-0.28573614 - 1.2360244
Average (Standard dev.)0.0019344299 (±0.038979426)
SymmetrySpace group: 1
Details

EMDB XML:

Map geometry
Axis orderXYZ
Origin000
Dimensions200200200
Spacing200200200
CellA=B=C: 296.4 Å
α=β=γ: 90.0 °

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Supplemental data

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Half map: #1

Fileemd_73601_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_73601_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 : BtCoV SL5 with SL5c truncated

EntireName: BtCoV SL5 with SL5c truncated
Components
  • Complex: BtCoV SL5 with SL5c truncated
    • RNA: RNA (127-MER)

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Supramolecule #1: BtCoV SL5 with SL5c truncated

SupramoleculeName: BtCoV SL5 with SL5c truncated / type: complex / ID: 1 / Parent: 0 / Macromolecule list: all
Source (natural)Organism: Pipistrellus bat coronavirus HKU5 / Synthetically produced: Yes

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Macromolecule #1: RNA (127-MER)

MacromoleculeName: RNA (127-MER) / type: rna / ID: 1 / Number of copies: 1
Source (natural)Organism: Pipistrellus bat coronavirus HKU5
Molecular weightTheoretical: 40.908141 KDa
SequenceString:
GGAGCAUCGU GUCUCAAGUG CUUCACGGUC ACAAUAUACC GUUUCGUCGG GUGCGUGGCA AUUCGGUGCA CAUCAUGUCU UUCGUGGCU GGUGUGGUCA AGGUGCGACA AGUAUAGAGC AGAGCUCC

GENBANK: GENBANK: NC_009020.1

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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

MicroscopeTFS KRIOS
Image recordingFilm or detector model: FEI FALCON IV (4k x 4k) / Average electron dose: 60.0 e/Å2
Electron beamAcceleration voltage: 300 kV / Electron source: FIELD EMISSION GUN
Electron opticsIllumination mode: FLOOD BEAM / Imaging mode: BRIGHT FIELD / Nominal defocus max: 2.6 µm / Nominal defocus min: 1.2 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: 9.5 Å / Resolution method: FSC 0.143 CUT-OFF / Software - Name: cryoSPARC / Number images used: 21246
Initial angle assignmentType: MAXIMUM LIKELIHOOD
Final angle assignmentType: MAXIMUM LIKELIHOOD

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