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- EMDB-49640: Consensus map of Csm/AcrIIIA2/enolase 4:3 complex -

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Basic information

Entry
Database: EMDB / ID: EMD-49640
TitleConsensus map of Csm/AcrIIIA2/enolase 4:3 complex
Map dataConsensus map of Csm/AcrIIIA2/enolase complex
Sample
  • Complex: Csm/AcrIIIA2/enolase complex
    • Other: Csm/AcrIIIA2/enolase 4:3 complex
KeywordsANTI-CRISPR / TYPE III CRISPR / CRYO-EM / STRUCTURAL BIOLOY / ANTI-BACTERIAL / RNA BINDING PROTEIN
Biological speciesStreptococcus thermophilus (bacteria)
Methodsingle particle reconstruction / cryo EM / Resolution: 2.72 Å
AuthorsGoswami HN / Li H
Funding support United States, 1 items
OrganizationGrant numberCountry
National Institutes of Health/National Institute of General Medical Sciences (NIH/NIGMS)GR000347 United States
CitationJournal: To Be Published
Title: Cryo-EM structure of Csm/AcrIIIA2/enolase 4:3 complex
Authors: Goswami HN / Li H
History
DepositionMar 11, 2025-
Header (metadata) releaseNov 12, 2025-
Map releaseNov 12, 2025-
UpdateNov 12, 2025-
Current statusNov 12, 2025Processing site: RCSB / Status: Released

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Structure visualization

Supplemental images

emd_49640.png

Downloads & links

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Map

FileDownload / File: emd_49640.map.gz / Format: CCP4 / Size: 669.9 MB / Type: IMAGE STORED AS FLOATING POINT NUMBER (4 BYTES)
AnnotationConsensus map of Csm/AcrIIIA2/enolase complex
Projections & slices

Image control

Size
Brightness
Contrast
Others
AxesZ (Sec.)Y (Row.)X (Col.)
0.83 Å/pix.
x 560 pix.
= 463.68 Å		0.83 Å/pix.
x 560 pix.
= 463.68 Å		0.83 Å/pix.
x 560 pix.
= 463.68 Å

Surface

Projections

Slices (1/3)

Slices (1/2)

Slices (2/3)

Images are generated by Spider.

Voxel sizeX=Y=Z: 0.828 Å
Density

Histogram

Histogram (log scale)
Contour LevelBy AUTHOR: 0.255
Minimum - Maximum-0.82674694 - 1.544064
Average (Standard dev.)-0.00034707392 (±0.032282747)
SymmetrySpace group: 1
Details

EMDB XML:

Map geometry
Axis orderXYZ
Origin000
Dimensions560560560
Spacing560560560
CellA=B=C: 463.68 Å
α=β=γ: 90.0 °

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Supplemental data

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Half map: Half map A

Fileemd_49640_half_map_1.map
AnnotationHalf map A
Projections & Slices
AxesZYX

Projections

Slices (1/2)
Density Histograms

Histogram

Histogram (log scale)

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Half map: Half map B

Fileemd_49640_half_map_2.map
AnnotationHalf map B
Projections & Slices
AxesZYX

Projections

Slices (1/2)
Density Histograms

Histogram

Histogram (log scale)

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Sample components

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Entire : Csm/AcrIIIA2/enolase complex

EntireName: Csm/AcrIIIA2/enolase complex
Components
  • Complex: Csm/AcrIIIA2/enolase complex
    • Other: Csm/AcrIIIA2/enolase 4:3 complex

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Supramolecule #1: Csm/AcrIIIA2/enolase complex

SupramoleculeName: Csm/AcrIIIA2/enolase complex / type: complex / ID: 1 / Parent: 0 / Macromolecule list: all
Details: AcrIIIA2 forms a stable ternary complex with the type III-A (Csm) crRNP (CRISPR RNA-Protein complex) and host enolase
Source (natural)Organism: Streptococcus thermophilus (bacteria)
Molecular weightTheoretical: 680 KDa

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Macromolecule #1: Csm/AcrIIIA2/enolase 4:3 complex

MacromoleculeName: Csm/AcrIIIA2/enolase 4:3 complex / type: other / ID: 1 / Classification: other
Source (natural)Organism: Streptococcus thermophilus (bacteria)
SequenceString:
MKNFKISSTY RAARKQQKTA NRKSFYNDEG YMISPSEWAD GVIKGLINPK NSWSNDHVKG YLPRVSPRSH WTKNGYREYL GIGKSRDIPE KEPEVIEMMD LELVP

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Experimental details

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Structure determination

Methodcryo EM
Processingsingle particle reconstruction
Aggregation state3D array

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Sample preparation

Concentration3 mg/mL
BufferpH: 7.5 / Component - Concentration: 250.0 mM / Component - Formula: NaCl / Component - Name: Sodium Chloride / Details: 250mM NaCl, 30mM HEPES, 10mM Beta-mercaptoethanol
VitrificationCryogen name: ETHANE / Chamber humidity: 95 % / Chamber temperature: 277.15 K / Instrument: FEI VITROBOT MARK IV

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Electron microscopy

MicroscopeTFS KRIOS
Image recordingFilm or detector model: GATAN K3 BIOCONTINUUM (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: OTHER / Nominal defocus max: 2.0 µm / Nominal defocus min: 1.0 µm
Experimental equipment
Model: Titan Krios / Image courtesy: FEI Company

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Image processing

CTF correctionType: PHASE FLIPPING ONLY
Startup modelType of model: INSILICO MODEL
Final reconstructionResolution.type: BY AUTHOR / Resolution: 2.72 Å / Resolution method: FSC 0.143 CUT-OFF / Number images used: 325120
Initial angle assignmentType: MAXIMUM LIKELIHOOD
Final angle assignmentType: MAXIMUM LIKELIHOOD

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