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- EMDB-38672: Icosahedral Reconstructed map of Car4-bound state AAV9P31 at 1.76... -

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Basic information

Entry
Database: EMDB / ID: EMD-38672
TitleIcosahedral Reconstructed map of Car4-bound state AAV9P31 at 1.76 Angstroms
Map data
SampleAdeno-associated virus != Adeno-associated virus 9

Adeno-associated virus

  • Virus: Adeno-associated virus 9
KeywordsAdeno-associated virus 9P31 / complex / Cryo-EM / VIRUS
Biological speciesAdeno-associated virus 9
Methodsingle particle reconstruction / cryo EM / Resolution: 1.76 Å
AuthorsZhang R / Liu Y / Yu F / Xu G / Li L / Li B / Lou Z
Funding support China, 2 items
OrganizationGrant numberCountry
National Natural Science Foundation of China (NSFC)32301011 China
National Natural Science Foundation of China (NSFC)31971126 China
CitationJournal: To Be Published
Title: Icosahedral Reconstructed map of Car4-bound state AAV9P31 at 1.76 Angstroms
Authors: Zhang R / Liu Y / Yu F / Xu G / Li L / Li B / Lou Z
History
DepositionJan 12, 2024-
Header (metadata) releaseJan 24, 2024-
Map releaseJan 24, 2024-
UpdateJan 24, 2024-
Current statusJan 24, 2024Processing site: PDBj / Status: Released

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Structure visualization

Supplemental images

emd_38672.png

Downloads & links

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Map

FileDownload / File: emd_38672.map.gz / Format: CCP4 / Size: 325 MB / Type: IMAGE STORED AS FLOATING POINT NUMBER (4 BYTES)
Voxel sizeX=Y=Z: 0.8433 Å
Density
Contour Level1: 0.026
Minimum - Maximum-0.15581055 - 0.2904823
Average (Standard dev.)0.0003418482 (±0.01441278)
SymmetrySpace group: 1
Details

EMDB XML:

Map geometry
Axis orderXYZ
Origin000
Dimensions440440440
Spacing440440440
CellA=B=C: 371.052 Å
α=β=γ: 90.0 °

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Supplemental data

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Half map: #1

Fileemd_38672_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_38672_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 : Adeno-associated virus

EntireName: Adeno-associated virus
Components
  • Virus: Adeno-associated virus 9

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Supramolecule #1: Adeno-associated virus 9

SupramoleculeName: Adeno-associated virus 9 / type: virus / ID: 1 / Parent: 0 / NCBI-ID: 235455 / Sci species name: Adeno-associated virus 9 / Sci species strain: 9P31 / Virus type: VIRION / Virus isolate: SEROTYPE / Virus enveloped: No / Virus empty: No
Host (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: 7.4
VitrificationCryogen name: ETHANE / Chamber humidity: 100 %

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Electron microscopy

MicroscopeFEI TITAN
Electron beamAcceleration voltage: 300 kV / Electron source: FIELD EMISSION GUN
Electron opticsC2 aperture diameter: 70.0 µm / Illumination mode: FLOOD BEAM / Imaging mode: BRIGHT FIELDBright-field microscopy / Nominal defocus max: 1.6 µm / Nominal defocus min: 0.8 µm
Image recordingFilm or detector model: GATAN K3 (6k x 4k) / Average electron dose: 50.0 e/Å2

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Image processing

Startup modelType of model: NONE
Initial angle assignmentType: MAXIMUM LIKELIHOOD
Final angle assignmentType: MAXIMUM LIKELIHOOD
Final reconstructionResolution.type: BY AUTHOR / Resolution: 1.76 Å / Resolution method: FSC 0.143 CUT-OFF / Number images used: 226745

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