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- EMDB-44883: Influenza hemagglutinin B/Maryland/2016 in complex with polyclona... -

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Basic information

Entry
Database: EMDB / ID: EMD-44883
TitleInfluenza hemagglutinin B/Maryland/2016 in complex with polyclonal antibodies from donor 2323 at day 7
Map datamap of Influenza hemagglutinin B/Maryland/2016 in complex with purified Fab from donor 2323 at day 7
Sample
  • Complex: Influenza hemagglutinin B/Maryland/2016 in complex with polyclonal antibodies from donor 2323 at day 7
KeywordsHA / influenza / polyclonal response / microfluidics / VIRAL PROTEIN
Biological speciesInfluenza B virus
Methodsingle particle reconstruction / cryo EM / Resolution: 26.0 Å
AuthorsTorrents de la Pena A / Sewall LM / Ward AB
Funding support United States, 2 items
OrganizationGrant numberCountry
National Institutes of Health/National Institute Of Allergy and Infectious Diseases (NIH/NIAID)AI136621C3 United States
Bill & Melinda Gates FoundationINV-002916 United States
CitationJournal: Nat Biomed Eng / Year: 2025
Title: Rapid and High-Throughput Imaging of Immune Complexes Using Microfluidics and Single Particle Electron Microscopy
Authors: Torrents de la Pena A / Sewall LM / Ward AB
History
DepositionMay 14, 2024-
Header (metadata) releaseApr 30, 2025-
Map releaseApr 30, 2025-
UpdateApr 30, 2025-
Current statusApr 30, 2025Processing site: RCSB / Status: Released

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Structure visualization

Supplemental images

emd_44883.png

Downloads & links

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Map

FileDownload / File: emd_44883.map.gz / Format: CCP4 / Size: 476.8 MB / Type: IMAGE STORED AS FLOATING POINT NUMBER (4 BYTES)
Annotationmap of Influenza hemagglutinin B/Maryland/2016 in complex with purified Fab from donor 2323 at day 7
Projections & slices

Image control

Size
Brightness
Contrast
Others
AxesZ (Sec.)Y (Row.)X (Col.)
0.73 Å/pix.
x 500 pix.
= 362.5 Å		0.73 Å/pix.
x 500 pix.
= 362.5 Å		0.73 Å/pix.
x 500 pix.
= 362.5 Å

Surface

Projections

Slices (1/3)

Slices (1/2)

Slices (2/3)

Images are generated by Spider.

Voxel sizeX=Y=Z: 0.725 Å
Density

Histogram

Histogram (log scale)
Contour LevelBy AUTHOR: 0.0003
Minimum - Maximum-0.00064192334 - 0.0012286971
Average (Standard dev.)0.0000016520994 (±0.00007873388)
SymmetrySpace group: 1
Details

EMDB XML:

Map geometry
Axis orderXYZ
Origin000
Dimensions500500500
Spacing500500500
CellA=B=C: 362.5 Å
α=β=γ: 90.0 °

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Supplemental data

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Half map: half map of Influenza hemagglutinin B/Maryland/2016 in complex...

Fileemd_44883_half_map_1.map
Annotationhalf map of Influenza hemagglutinin B/Maryland/2016 in complex with purified Fab from donor 2323 at day 7
Projections & Slices
AxesZYX

Projections

Slices (1/2)
Density Histograms

Histogram

Histogram (log scale)

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Half map: half map of Influenza hemagglutinin B/Maryland/2016 in complex...

Fileemd_44883_half_map_2.map
Annotationhalf map of Influenza hemagglutinin B/Maryland/2016 in complex with purified Fab from donor 2323 at day 7
Projections & Slices
AxesZYX

Projections

Slices (1/2)
Density Histograms

Histogram

Histogram (log scale)

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Sample components

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Entire : Influenza hemagglutinin B/Maryland/2016 in complex with polyclona...

EntireName: Influenza hemagglutinin B/Maryland/2016 in complex with polyclonal antibodies from donor 2323 at day 7
Components
  • Complex: Influenza hemagglutinin B/Maryland/2016 in complex with polyclonal antibodies from donor 2323 at day 7

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Supramolecule #1: Influenza hemagglutinin B/Maryland/2016 in complex with polyclona...

SupramoleculeName: Influenza hemagglutinin B/Maryland/2016 in complex with polyclonal antibodies from donor 2323 at day 7
type: complex / ID: 1 / Parent: 0
Source (natural)Organism: Influenza B virus

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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

Concentration0.02 mg/mL
BufferpH: 7.4
GridModel: EMS Lacey Carbon / Material: GRAPHENE OXIDE / Mesh: 300 / Support film - Material: GRAPHENE OXIDE / Support film - topology: CONTINUOUS
VitrificationCryogen name: ETHANE / Chamber humidity: 100 % / Chamber temperature: 277 K / Instrument: FEI VITROBOT MARK IV
Details: 2.5 seconds blot time, 30sec waiting time, blot force 1.

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Electron microscopy

MicroscopeTFS GLACIOS
Image recordingFilm or detector model: TFS FALCON 4i (4k x 4k) / Detector mode: COUNTING / Average electron dose: 50.0 e/Å2
Electron beamAcceleration voltage: 200 kV / Electron source: FIELD EMISSION GUN
Electron opticsIllumination mode: FLOOD BEAM / Imaging mode: BRIGHT FIELD / Nominal defocus max: 2.0 µm / Nominal defocus min: 1.0 µm

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Image processing

Startup modelType of model: INSILICO MODEL
Final reconstructionApplied symmetry - Point group: C1 (asymmetric) / Resolution.type: BY AUTHOR / Resolution: 26.0 Å / Resolution method: FSC 0.143 CUT-OFF / Software - Name: RELION (ver. v4.0b1) / Number images used: 549
Initial angle assignmentType: MAXIMUM LIKELIHOOD
Final angle assignmentType: MAXIMUM LIKELIHOOD / Software - Name: cryoSPARC

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