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- EMDB-61269: Cryo-EM structure of the type VII CRISPR-Cas14 effector complex (... -

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Basic information

Entry
Database: EMDB / ID: EMD-61269
TitleCryo-EM structure of the type VII CRISPR-Cas14 effector complex (Cas7.7/Cas7.8 focused)
Map data
Sample
  • Complex: The type VII CRISPR-Cas14 effector complex
Keywordsbeta-CASP / RNA BINDING PROTEIN
Methodsingle particle reconstruction / cryo EM / Resolution: 3.1 Å
AuthorsHiraizumi M / Yamashita K / Nishimasu H
Funding support Japan, 1 items
OrganizationGrant numberCountry
Japan Science and TechnologyJPMJCR23B6 Japan
CitationJournal: To Be Published
Title: Cryo-EM structure of the type VII CRISPR-Cas14 effector complex
Authors: Hiraizumi M
History
DepositionAug 22, 2024-
Header (metadata) releaseFeb 25, 2026-
Map releaseFeb 25, 2026-
UpdateFeb 25, 2026-
Current statusFeb 25, 2026Processing site: PDBj / Status: Released

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Structure visualization

Supplemental images

emd_61269.png

Downloads & links

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Map

FileDownload / File: emd_61269.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.)
1.11 Å/pix.
x 360 pix.
= 398.4 Å		1.11 Å/pix.
x 360 pix.
= 398.4 Å		1.11 Å/pix.
x 360 pix.
= 398.4 Å

Surface

Projections

Slices (1/3)

Slices (1/2)

Slices (2/3)

Images are generated by Spider.

Voxel sizeX=Y=Z: 1.10667 Å
Density

Histogram

Histogram (log scale)
Contour LevelBy AUTHOR: 0.04
Minimum - Maximum-0.17759708 - 0.44942883
Average (Standard dev.)0.000049817478 (±0.005206736)
SymmetrySpace group: 1
Details

EMDB XML:

Map geometry
Axis orderXYZ
Origin000
Dimensions360360360
Spacing360360360
CellA=B=C: 398.40015 Å
α=β=γ: 90.0 °

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Supplemental data

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Mask #1

Fileemd_61269_msk_1.map
Projections & Slices
AxesZYX

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Slices (1/2)
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Histogram

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Half map: #2

Fileemd_61269_half_map_1.map
Projections & Slices
AxesZYX

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Slices (1/2)
Density Histograms

Histogram

Histogram (log scale)

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Half map: #1

Fileemd_61269_half_map_2.map
Projections & Slices
AxesZYX

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Slices (1/2)
Density Histograms

Histogram

Histogram (log scale)

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Sample components

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Entire : The type VII CRISPR-Cas14 effector complex

EntireName: The type VII CRISPR-Cas14 effector complex
Components
  • Complex: The type VII CRISPR-Cas14 effector complex

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Supramolecule #1: The type VII CRISPR-Cas14 effector complex

SupramoleculeName: The type VII CRISPR-Cas14 effector complex / type: complex / ID: 1 / Parent: 0 / Macromolecule list: #1-#8

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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

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Electron microscopy

MicroscopeTFS KRIOS
Image recordingFilm or detector model: GATAN K3 BIOQUANTUM (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: 2.0 µm / Nominal defocus min: 0.8 µm
Experimental equipment
Model: Titan Krios / Image courtesy: FEI Company

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Image processing

CTF correctionSoftware - Name: cryoSPARC / Type: PHASE FLIPPING AND AMPLITUDE CORRECTION
Startup modelType of model: NONE
Final reconstructionApplied symmetry - Point group: C1 (asymmetric) / Resolution.type: BY AUTHOR / Resolution: 3.1 Å / Resolution method: FSC 0.143 CUT-OFF / Software - Name: cryoSPARC / Number images used: 74619
Initial angle assignmentType: MAXIMUM LIKELIHOOD / Software - Name: cryoSPARC
Final angle assignmentType: MAXIMUM LIKELIHOOD / Software - Name: cryoSPARC
FSC plot (resolution estimation)

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