+Open data
-Basic information
Entry | Database: EMDB / ID: EMD-30993 | |||||||||
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Title | SARS-CoV-2 S trimer with three-antibody cocktail complex | |||||||||
Map data | ||||||||||
Sample |
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Function / homology | Function and homology information Maturation of spike protein / viral translation / Translation of Structural Proteins / Virion Assembly and Release / host cell surface / host extracellular space / suppression by virus of host tetherin activity / Induction of Cell-Cell Fusion / structural constituent of virion / entry receptor-mediated virion attachment to host cell ...Maturation of spike protein / viral translation / Translation of Structural Proteins / Virion Assembly and Release / host cell surface / host extracellular space / suppression by virus of host tetherin activity / Induction of Cell-Cell Fusion / structural constituent of virion / entry receptor-mediated virion attachment to host cell / host cell endoplasmic reticulum-Golgi intermediate compartment membrane / membrane fusion / receptor-mediated endocytosis of virus by host cell / Attachment and Entry / positive regulation of viral entry into host cell / receptor-mediated virion attachment to host cell / receptor ligand activity / symbiont-mediated suppression of host innate immune response / host cell surface receptor binding / fusion of virus membrane with host plasma membrane / fusion of virus membrane with host endosome membrane / viral envelope / virion attachment to host cell / SARS-CoV-2 activates/modulates innate and adaptive immune responses / host cell plasma membrane / virion membrane / identical protein binding / membrane / plasma membrane Similarity search - Function | |||||||||
Biological species | Severe acute respiratory syndrome coronavirus 2 / Homo sapiens (human) | |||||||||
Method | single particle reconstruction / cryo EM / Resolution: 3.6 Å | |||||||||
Authors | Sun Y / Wang L / Wang N / Feng R / Wang X | |||||||||
Funding support | China, 1 items
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Citation | Journal: Cell Res / Year: 2021 Title: Structure-based development of three- and four-antibody cocktails against SARS-CoV-2 via multiple mechanisms. Authors: Yao Sun / Lei Wang / Rui Feng / Nan Wang / Yuxi Wang / Dandan Zhu / Xiaorui Xing / Peng Yang / Yanjun Zhang / Weimin Li / Xiangxi Wang / | |||||||||
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_30993.map.gz | 221.6 MB | EMDB map data format | |
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Header (meta data) | emd-30993-v30.xml emd-30993.xml | 18.9 KB 18.9 KB | Display Display | EMDB header |
Images | emd_30993.png | 60 KB | ||
Archive directory | http://ftp.pdbj.org/pub/emdb/structures/EMD-30993 ftp://ftp.pdbj.org/pub/emdb/structures/EMD-30993 | HTTPS FTP |
-Validation report
Summary document | emd_30993_validation.pdf.gz | 432.6 KB | Display | EMDB validaton report |
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Full document | emd_30993_full_validation.pdf.gz | 432.2 KB | Display | |
Data in XML | emd_30993_validation.xml.gz | 6.8 KB | Display | |
Data in CIF | emd_30993_validation.cif.gz | 7.8 KB | Display | |
Arichive directory | https://ftp.pdbj.org/pub/emdb/validation_reports/EMD-30993 ftp://ftp.pdbj.org/pub/emdb/validation_reports/EMD-30993 | HTTPS FTP |
-Related structure data
Related structure data | 7e5rMC 7e5sC M: atomic model generated by this map C: citing same article (ref.) |
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Similar structure data |
-Links
EMDB pages | EMDB (EBI/PDBe) / EMDataResource |
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Related items in Molecule of the Month |
-Map
File | Download / File: emd_30993.map.gz / Format: CCP4 / Size: 244.1 MB / Type: IMAGE STORED AS FLOATING POINT NUMBER (4 BYTES) | ||||||||||||||||||||||||||||||||||||||||||||||||||||||||||||
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Projections & slices | Image control
Images are generated by Spider. | ||||||||||||||||||||||||||||||||||||||||||||||||||||||||||||
Voxel size | X=Y=Z: 1.04 Å | ||||||||||||||||||||||||||||||||||||||||||||||||||||||||||||
Density |
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Symmetry | Space group: 1 | ||||||||||||||||||||||||||||||||||||||||||||||||||||||||||||
Details | EMDB XML:
CCP4 map header:
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-Supplemental data
-Sample components
+Entire : SARS-CoV-2 S trimer with three-antibody cocktail complex
+Supramolecule #1: SARS-CoV-2 S trimer with three-antibody cocktail complex
+Supramolecule #2: SARS-CoV-2 S
+Supramolecule #3: antibody
+Macromolecule #1: H014 light chain
+Macromolecule #2: H014 heavy chain
+Macromolecule #3: Spike glycoprotein
+Macromolecule #4: P17 heavy chain
+Macromolecule #5: P17 light chain
+Macromolecule #6: FC05 light chain
+Macromolecule #7: FC05 heavy chain
-Experimental details
-Structure determination
Method | cryo EM |
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Processing | single particle reconstruction |
Aggregation state | particle |
-Sample preparation
Buffer | pH: 8 |
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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 K2 SUMMIT (4k 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 |
Experimental equipment | Model: Titan Krios / Image courtesy: FEI Company |
-Image processing
Final reconstruction | Resolution.type: BY AUTHOR / Resolution: 3.6 Å / Resolution method: FSC 0.143 CUT-OFF / Number images used: 92127 |
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Initial angle assignment | Type: RANDOM ASSIGNMENT |
Final angle assignment | Type: MAXIMUM LIKELIHOOD |