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- EMDB-22570: CryoEM polyclonal immune complex of Fab binding the receptor bind... -
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Open data
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Basic information
Entry | Database: EMDB / ID: EMD-22570 | |||||||||
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Title | CryoEM polyclonal immune complex of Fab binding the receptor binding site region of H5 HA from serum of subject 4 at day 28 | |||||||||
![]() | CryoEM polyclonal immune complex of Fab binding the receptor binding site region of H5 HA from serum of subject 4 at day 28 | |||||||||
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Biological species | ![]() | |||||||||
Method | single particle reconstruction / cryo EM / Resolution: 5.9 Å | |||||||||
![]() | Ward A / Han J / Richey ST | |||||||||
Funding support | ![]()
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![]() | ![]() Title: Polyclonal epitope mapping reveals temporal dynamics and diversity of human antibody responses to H5N1 vaccination. Authors: Julianna Han / Aaron J Schmitz / Sara T Richey / Ya-Nan Dai / Hannah L Turner / Bassem M Mohammed / Daved H Fremont / Ali H Ellebedy / Andrew B Ward / ![]() Abstract: Novel influenza A virus (IAV) strains elicit recall immune responses to conserved epitopes, making them favorable antigenic choices for universal influenza virus vaccines. Evaluating these immunogens ...Novel influenza A virus (IAV) strains elicit recall immune responses to conserved epitopes, making them favorable antigenic choices for universal influenza virus vaccines. Evaluating these immunogens requires a thorough understanding of the antigenic sites targeted by the polyclonal antibody (pAb) response, which single-particle electron microscopy (EM) can sensitively detect. In this study, we employ EM polyclonal epitope mapping (EMPEM) to extensively characterize the pAb response to hemagglutinin (HA) after H5N1 immunization in humans. Cross-reactive pAbs originating from memory B cells immediately bound the stem of HA and persisted for more than a year after vaccination. In contrast, de novo pAb responses to multiple sites on the head of HA, targeting previously determined key neutralizing sites on H5 HA, expanded after the second immunization and waned quickly. Thus, EMPEM provides a robust tool for comprehensively tracking the specificity and durability of immune responses elicited by novel universal influenza vaccine candidates. | |||||||||
History |
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Structure visualization
Movie |
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Structure viewer | EM map: ![]() ![]() ![]() |
Supplemental images |
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Downloads & links
-EMDB archive
Map data | ![]() | 6.2 MB | ![]() | |
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Header (meta data) | ![]() ![]() | 21.3 KB 21.3 KB | Display Display | ![]() |
FSC (resolution estimation) | ![]() | 11.5 KB | Display | ![]() |
Images | ![]() | 99.3 KB | ||
Masks | ![]() | 125 MB | ![]() | |
Others | ![]() ![]() | 98.3 MB 98.6 MB | ||
Archive directory | ![]() ![]() | HTTPS FTP |
-Validation report
Summary document | ![]() | 512.6 KB | Display | ![]() |
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Full document | ![]() | 512.1 KB | Display | |
Data in XML | ![]() | 17 KB | Display | |
Arichive directory | ![]() ![]() | HTTPS FTP |
-Related structure data
Related structure data | C: citing same article ( |
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Similar structure data |
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Links
EMDB pages | ![]() ![]() |
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Map
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Annotation | CryoEM polyclonal immune complex of Fab binding the receptor binding site region of H5 HA from serum of subject 4 at day 28 | ||||||||||||||||||||||||||||||||||||||||||||||||||||||||||||||||||||
Voxel size | X=Y=Z: 1.03 Å | ||||||||||||||||||||||||||||||||||||||||||||||||||||||||||||||||||||
Density |
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Symmetry | Space group: 1 | ||||||||||||||||||||||||||||||||||||||||||||||||||||||||||||||||||||
Details | EMDB XML:
CCP4 map header:
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-Supplemental data
-Mask #1
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Projections & Slices |
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Density Histograms |
-Half map: Half map for cryoEM polyclonal immune complex of...
File | emd_22570_half_map_1.map | ||||||||||||
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Annotation | Half map for cryoEM polyclonal immune complex of Fab binding the receptor binding site region of H5 HA from serum of subject 4 at day 28 | ||||||||||||
Projections & Slices |
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Density Histograms |
-Half map: Half map for cryoEM polyclonal immune complex of...
File | emd_22570_half_map_2.map | ||||||||||||
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Annotation | Half map for cryoEM polyclonal immune complex of Fab binding the receptor binding site region of H5 HA from serum of subject 4 at day 28 | ||||||||||||
Projections & Slices |
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Density Histograms |
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Sample components
-Entire : CryoEM polyclonal immune complex of Fab binding the receptor bind...
Entire | Name: CryoEM polyclonal immune complex of Fab binding the receptor binding site region of H5 HA from serum of subject 4 at day 28 |
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Components |
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-Supramolecule #1: CryoEM polyclonal immune complex of Fab binding the receptor bind...
Supramolecule | Name: CryoEM polyclonal immune complex of Fab binding the receptor binding site region of H5 HA from serum of subject 4 at day 28 type: complex / ID: 1 / Parent: 0 |
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Source (natural) | Organism: ![]() |
-Experimental details
-Structure determination
Method | cryo EM |
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![]() | single particle reconstruction |
Aggregation state | particle |
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Sample preparation
Buffer | pH: 7.4 |
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Vitrification | Cryogen name: ETHANE / Chamber humidity: 100 % / Chamber temperature: 277.15 K / Instrument: FEI VITROBOT MARK IV |
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Electron microscopy
Microscope | FEI TITAN KRIOS |
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Image recording | Film or detector model: GATAN K2 SUMMIT (4k x 4k) / Average electron dose: 53.1 e/Å2 |
Electron beam | Acceleration voltage: 300 kV / Electron source: ![]() |
Electron optics | Illumination mode: FLOOD BEAM / Imaging mode: BRIGHT FIELD |
Experimental equipment | ![]() Model: Titan Krios / Image courtesy: FEI Company |