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Yorodumi- EMDB-23319: CryoEM map of monoclonal Fabs 45 and 56 binding the esterase and ... -
+Open data
-Basic information
Entry | Database: EMDB / ID: EMD-23319 | |||||||||
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Title | CryoEM map of monoclonal Fabs 45 and 56 binding the esterase and lateral patch of H1 HA | |||||||||
Map data | CryoEM map of monoclonal Fabs 45 and 56 binding the esterase and lateral patch of H1 HA | |||||||||
Sample |
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Biological species | Homo sapiens (human) / Influenza A virus | |||||||||
Method | single particle reconstruction / cryo EM / Resolution: 3.72 Å | |||||||||
Authors | Han J / Freyn AW / Turner HL / Ward AB | |||||||||
Funding support | United States, 1 items
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Citation | Journal: Proc Natl Acad Sci U S A / Year: 2021 Title: Influenza hemagglutinin-specific IgA Fc-effector functionality is restricted to stalk epitopes. Authors: Alec W Freyn / Julianna Han / Jenna J Guthmiller / Mark J Bailey / Karlynn Neu / Hannah L Turner / Victoria C Rosado / Veronika Chromikova / Min Huang / Shirin Strohmeier / Sean T H Liu / ...Authors: Alec W Freyn / Julianna Han / Jenna J Guthmiller / Mark J Bailey / Karlynn Neu / Hannah L Turner / Victoria C Rosado / Veronika Chromikova / Min Huang / Shirin Strohmeier / Sean T H Liu / Viviana Simon / Florian Krammer / Andrew B Ward / Peter Palese / Patrick C Wilson / Raffael Nachbagauer / Abstract: In this study, we utilized a panel of human immunoglobulin (Ig) IgA monoclonal antibodies isolated from the plasmablasts of eight donors after 2014/2015 influenza virus vaccination (Fluarix) to study ...In this study, we utilized a panel of human immunoglobulin (Ig) IgA monoclonal antibodies isolated from the plasmablasts of eight donors after 2014/2015 influenza virus vaccination (Fluarix) to study the binding and functional specificities of this isotype. In this cohort, isolated IgA monoclonal antibodies were primarily elicited against the hemagglutinin protein of the H1N1 component of the vaccine. To compare effector functionalities, an H1-specific subset of antibodies targeting distinct epitopes were expressed as monomeric, dimeric, or secretory IgA, as well as in an IgG1 backbone. When expressed with an IgG Fc domain, all antibodies elicited Fc-effector activity in a primary polymorphonuclear cell-based assay which differs from previous observations that found only stalk-specific antibodies activate the low-affinity FcγRIIIa. However, when expressed with IgA Fc domains, only antibodies targeting the stalk domain showed Fc-effector activity in line with these previous findings. To identify the cause of this discrepancy, we then confirmed that IgG signaling through the high-affinity FcγI receptor was not restricted to stalk epitopes. Since no corresponding high-affinity Fcα receptor exists, the IgA repertoire may therefore be limited to stalk-specific epitopes in the context of Fc receptor signaling. | |||||||||
History |
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-Structure visualization
Movie |
Movie viewer |
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Structure viewer | EM map: SurfViewMolmilJmol/JSmol |
Supplemental images |
-Downloads & links
-EMDB archive
Map data | emd_23319.map.gz | 118.2 MB | EMDB map data format | |
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Header (meta data) | emd-23319-v30.xml emd-23319.xml | 17.8 KB 17.8 KB | Display Display | EMDB header |
FSC (resolution estimation) | emd_23319_fsc.xml | 11.2 KB | Display | FSC data file |
Images | emd_23319.png | 217.6 KB | ||
Masks | emd_23319_msk_1.map | 125 MB | Mask map | |
Others | emd_23319_half_map_1.map.gz emd_23319_half_map_2.map.gz | 115.8 MB 115.8 MB | ||
Archive directory | http://ftp.pdbj.org/pub/emdb/structures/EMD-23319 ftp://ftp.pdbj.org/pub/emdb/structures/EMD-23319 | HTTPS FTP |
-Validation report
Summary document | emd_23319_validation.pdf.gz | 564.7 KB | Display | EMDB validaton report |
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Full document | emd_23319_full_validation.pdf.gz | 564.3 KB | Display | |
Data in XML | emd_23319_validation.xml.gz | 17.3 KB | Display | |
Arichive directory | https://ftp.pdbj.org/pub/emdb/validation_reports/EMD-23319 ftp://ftp.pdbj.org/pub/emdb/validation_reports/EMD-23319 | HTTPS FTP |
-Related structure data
Related structure data | C: citing same article (ref.) |
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Similar structure data |
-Links
EMDB pages | EMDB (EBI/PDBe) / EMDataResource |
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-Map
File | Download / File: emd_23319.map.gz / Format: CCP4 / Size: 125 MB / Type: IMAGE STORED AS FLOATING POINT NUMBER (4 BYTES) | ||||||||||||||||||||||||||||||||||||||||||||||||||||||||||||||||||||
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Annotation | CryoEM map of monoclonal Fabs 45 and 56 binding the esterase and lateral patch of H1 HA | ||||||||||||||||||||||||||||||||||||||||||||||||||||||||||||||||||||
Voxel size | X=Y=Z: 1.15 Å | ||||||||||||||||||||||||||||||||||||||||||||||||||||||||||||||||||||
Density |
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Symmetry | Space group: 1 | ||||||||||||||||||||||||||||||||||||||||||||||||||||||||||||||||||||
Details | EMDB XML:
CCP4 map header:
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-Supplemental data
-Mask #1
File | emd_23319_msk_1.map | ||||||||||||
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Projections & Slices |
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Density Histograms |
-Half map: CryoEM half map A of monoclonal Fabs 45...
File | emd_23319_half_map_1.map | ||||||||||||
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Annotation | CryoEM half map A of monoclonal Fabs 45 and 56 binding the esterase and lateral patch of H1 HA | ||||||||||||
Projections & Slices |
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Density Histograms |
-Half map: CryoEM half map B of monoclonal Fabs 45...
File | emd_23319_half_map_2.map | ||||||||||||
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Annotation | CryoEM half map B of monoclonal Fabs 45 and 56 binding the esterase and lateral patch of H1 HA | ||||||||||||
Projections & Slices |
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Density Histograms |
-Sample components
-Entire : CryoEM map of monoclonal Fabs 45 and 56 binding the esterase and ...
Entire | Name: CryoEM map of monoclonal Fabs 45 and 56 binding the esterase and lateral patch of H1 HA |
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Components |
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-Supramolecule #1: CryoEM map of monoclonal Fabs 45 and 56 binding the esterase and ...
Supramolecule | Name: CryoEM map of monoclonal Fabs 45 and 56 binding the esterase and lateral patch of H1 HA type: complex / ID: 1 / Parent: 0 |
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-Supramolecule #2: Monoclonal Fab 45
Supramolecule | Name: Monoclonal Fab 45 / type: complex / ID: 2 / Parent: 1 |
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Source (natural) | Organism: Homo sapiens (human) |
Recombinant expression | Organism: Homo sapiens (human) / Recombinant cell: 293F |
-Supramolecule #3: Monoclonal Fab 56
Supramolecule | Name: Monoclonal Fab 56 / type: complex / ID: 3 / Parent: 1 |
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Source (natural) | Organism: Homo sapiens (human) |
Recombinant expression | Organism: Homo sapiens (human) / Recombinant cell: 293F |
-Supramolecule #4: Hemagglutinin (H1)
Supramolecule | Name: Hemagglutinin (H1) / type: complex / ID: 4 / Parent: 1 |
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Source (natural) | Organism: Influenza A virus / Strain: A/California/04/2009(H1N1) |
Recombinant expression | Organism: Homo sapiens (human) / Recombinant cell: 293F |
-Experimental details
-Structure determination
Method | cryo EM |
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Processing | single particle reconstruction |
Aggregation state | particle |
-Sample preparation
Concentration | 0.8 mg/mL |
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Buffer | pH: 7.4 Details: TBS supplemented with 5 uM lauryl maltose neopentyl glycol |
Grid | Model: Quantifoil R1.2/1.3 / Material: COPPER / Mesh: 400 / Pretreatment - Type: GLOW DISCHARGE |
Vitrification | Cryogen name: ETHANE / Chamber humidity: 100 % / Chamber temperature: 277 K / Instrument: FEI VITROBOT MARK I |
-Electron microscopy
Microscope | FEI TALOS ARCTICA |
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Image recording | Film or detector model: FEI CETA (4k x 4k) / Average electron dose: 50.0 e/Å2 |
Electron beam | Acceleration voltage: 200 kV / Electron source: FIELD EMISSION GUN |
Electron optics | Illumination mode: FLOOD BEAM / Imaging mode: BRIGHT FIELD / Cs: 2.7 mm / Nominal magnification: 36000 |
Experimental equipment | Model: Talos Arctica / Image courtesy: FEI Company |