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Yorodumi- EMDB-39033: Structure of the human ige-fc bound to its high affinity receptor... -
+Open data
-Basic information
Entry | Database: EMDB / ID: EMD-39033 | |||||||||
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Title | Structure of the human ige-fc bound to its high affinity receptor fc(epsilon) | |||||||||
Map data | ||||||||||
Sample |
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Keywords | complex / IMMUNE SYSTEM | |||||||||
Function / homology | Function and homology information high-affinity IgE receptor activity / adaptive immune memory response / primary adaptive immune response / IgE B cell receptor complex / type I hypersensitivity / B cell antigen processing and presentation / Fc receptor-mediated immune complex endocytosis / eosinophil degranulation / IgE immunoglobulin complex / macrophage activation ...high-affinity IgE receptor activity / adaptive immune memory response / primary adaptive immune response / IgE B cell receptor complex / type I hypersensitivity / B cell antigen processing and presentation / Fc receptor-mediated immune complex endocytosis / eosinophil degranulation / IgE immunoglobulin complex / macrophage activation / IgE binding / type 2 immune response / Fc epsilon receptor (FCERI) signaling / antibody-dependent cellular cytotoxicity / mast cell degranulation / B cell proliferation / macrophage differentiation / immunoglobulin mediated immune response / Role of LAT2/NTAL/LAB on calcium mobilization / immunoglobulin complex, circulating / immunoglobulin receptor binding / FCERI mediated Ca+2 mobilization / complement activation, classical pathway / antigen binding / FCERI mediated MAPK activation / B cell receptor signaling pathway / FCERI mediated NF-kB activation / antibacterial humoral response / Interleukin-4 and Interleukin-13 signaling / adaptive immune response / cell surface receptor signaling pathway / inflammatory response / immune response / external side of plasma membrane / cell surface / extracellular space / extracellular region / plasma membrane Similarity search - Function | |||||||||
Biological species | Homo sapiens (human) | |||||||||
Method | single particle reconstruction / cryo EM / Resolution: 3.58 Å | |||||||||
Authors | Du S / Deng MJ / Xiao JY | |||||||||
Funding support | 1 items
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Citation | Journal: To Be Published Title: Structure of the human ige-fc bound to its high affinity receptor fc(epsilon) Authors: Du S / Deng MJ / Xiao JY | |||||||||
History |
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-Structure visualization
Supplemental images |
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-Downloads & links
-EMDB archive
Map data | emd_39033.map.gz | 79.1 MB | EMDB map data format | |
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Header (meta data) | emd-39033-v30.xml emd-39033.xml | 10.8 KB 10.8 KB | Display Display | EMDB header |
Images | emd_39033.png | 14.9 KB | ||
Filedesc metadata | emd-39033.cif.gz | 3.5 KB | ||
Others | emd_39033_half_map_1.map.gz emd_39033_half_map_2.map.gz | 77.8 MB 77.8 MB | ||
Archive directory | http://ftp.pdbj.org/pub/emdb/structures/EMD-39033 ftp://ftp.pdbj.org/pub/emdb/structures/EMD-39033 | HTTPS FTP |
-Validation report
Summary document | emd_39033_validation.pdf.gz | 857 KB | Display | EMDB validaton report |
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Full document | emd_39033_full_validation.pdf.gz | 856.6 KB | Display | |
Data in XML | emd_39033_validation.xml.gz | 12.5 KB | Display | |
Data in CIF | emd_39033_validation.cif.gz | 14.5 KB | Display | |
Arichive directory | https://ftp.pdbj.org/pub/emdb/validation_reports/EMD-39033 ftp://ftp.pdbj.org/pub/emdb/validation_reports/EMD-39033 | HTTPS FTP |
-Related structure data
Related structure data | 8z0tMC M: atomic model generated by this map C: citing same article (ref.) |
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Similar structure data | Similarity search - Function & homologyF&H Search |
-Links
EMDB pages | EMDB (EBI/PDBe) / EMDataResource |
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Related items in Molecule of the Month |
-Map
File | Download / File: emd_39033.map.gz / Format: CCP4 / Size: 83.7 MB / Type: IMAGE STORED AS FLOATING POINT NUMBER (4 BYTES) | ||||||||||||||||||||
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Voxel size | X=Y=Z: 1.07 Å | ||||||||||||||||||||
Density |
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Symmetry | Space group: 1 | ||||||||||||||||||||
Details | EMDB XML:
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-Supplemental data
-Half map: #1
File | emd_39033_half_map_1.map | ||||||||||||
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Projections & Slices |
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Density Histograms |
-Half map: #2
File | emd_39033_half_map_2.map | ||||||||||||
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Projections & Slices |
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Density Histograms |
-Sample components
-Entire : Structure of the human ige-fc bound to its high affinity receptor...
Entire | Name: Structure of the human ige-fc bound to its high affinity receptor fc(epsilon)ri |
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Components |
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-Supramolecule #1: Structure of the human ige-fc bound to its high affinity receptor...
Supramolecule | Name: Structure of the human ige-fc bound to its high affinity receptor fc(epsilon)ri type: complex / ID: 1 / Parent: 0 |
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Source (natural) | Organism: Homo sapiens (human) |
-Experimental details
-Structure determination
Method | cryo EM |
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Processing | single particle reconstruction |
Aggregation state | particle |
-Sample preparation
Buffer | pH: 7.2 |
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Vitrification | Cryogen name: ETHANE |
-Electron microscopy
Microscope | FEI TITAN KRIOS |
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Image recording | Film or detector model: GATAN K3 (6k x 4k) / Average electron dose: 60.0 e/Å2 |
Electron beam | Acceleration voltage: 300 kV / Electron source: FIELD EMISSION GUN |
Electron optics | Illumination mode: FLOOD BEAM / Imaging mode: BRIGHT FIELD / Nominal defocus max: 1.5 µm / Nominal defocus min: 1.0 µm |
Experimental equipment | Model: Titan Krios / Image courtesy: FEI Company |
-Image processing
Startup model | Type of model: NONE |
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Final reconstruction | Resolution.type: BY AUTHOR / Resolution: 3.58 Å / Resolution method: FSC 0.143 CUT-OFF / Number images used: 101369 |
Initial angle assignment | Type: MAXIMUM LIKELIHOOD |
Final angle assignment | Type: MAXIMUM LIKELIHOOD |