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- EMDB-36636: Cryo-EM structure of SARS-CoV-1 2P spike protein in complex with ... -
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Open data
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Basic information
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Title | Cryo-EM structure of SARS-CoV-1 2P spike protein in complex with W328-6A1 IgG | |||||||||
![]() | Cryo-EM structure of SARS-CoV-1 2P spike protein in complex with W328-6A1 IgG | |||||||||
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![]() | Complex / SARS-CoV-1 / antibody / Homo sapiens / RBD / VIRAL PROTEIN | |||||||||
Biological species | ![]() ![]() | |||||||||
Method | single particle reconstruction / cryo EM / Resolution: 3.48 Å | |||||||||
![]() | Zhu JY | |||||||||
Funding support | ![]()
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![]() | ![]() Title: Dissecting the intricacies of human antibody responses to SARS-CoV-1 and SARS-CoV-2 infection. Authors: Ruoke Wang / Yang Han / Rui Zhang / Jiayi Zhu / Xuanyu Nan / Yaping Liu / Ziqing Yang / Bini Zhou / Jinfang Yu / Zichun Lin / Jinqian Li / Peng Chen / Yangjunqi Wang / Yujie Li / Dongsheng ...Authors: Ruoke Wang / Yang Han / Rui Zhang / Jiayi Zhu / Xuanyu Nan / Yaping Liu / Ziqing Yang / Bini Zhou / Jinfang Yu / Zichun Lin / Jinqian Li / Peng Chen / Yangjunqi Wang / Yujie Li / Dongsheng Liu / Xuanling Shi / Xinquan Wang / Qi Zhang / Yuhe R Yang / Taisheng Li / Linqi Zhang / ![]() Abstract: The 2003 severe acute respiratory syndrome coronavirus (SARS-CoV-1) causes more severe disease than SARS-CoV-2, which is responsible for COVID-19. However, our understanding of antibody response to ...The 2003 severe acute respiratory syndrome coronavirus (SARS-CoV-1) causes more severe disease than SARS-CoV-2, which is responsible for COVID-19. However, our understanding of antibody response to SARS-CoV-1 infection remains incomplete. Herein, we studied the antibody responses in 25 SARS-CoV-1 convalescent patients. Plasma neutralization was higher and lasted longer in SARS-CoV-1 patients than in severe SARS-CoV-2 patients. Among 77 monoclonal antibodies (mAbs) isolated, 60 targeted the receptor-binding domain (RBD) and formed 7 groups (RBD-1 to RBD-7) based on their distinct binding and structural profiles. Notably, RBD-7 antibodies bound to a unique RBD region interfaced with the N-terminal domain of the neighboring protomer (NTD proximal) and were more prevalent in SARS-CoV-1 patients. Broadly neutralizing antibodies for SARS-CoV-1, SARS-CoV-2, and bat and pangolin coronaviruses were also identified. These results provide further insights into the antibody response to SARS-CoV-1 and inform the design of more effective strategies against diverse human and animal coronaviruses. | |||||||||
History |
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Structure visualization
Supplemental images |
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Downloads & links
-EMDB archive
Map data | ![]() | 162.7 MB | ![]() | |
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Header (meta data) | ![]() ![]() | 15.7 KB 15.7 KB | Display Display | ![]() |
Images | ![]() | 61.3 KB | ||
Filedesc metadata | ![]() | 4.2 KB | ||
Others | ![]() ![]() | 301.1 MB 301.1 MB | ||
Archive directory | ![]() ![]() | HTTPS FTP |
-Validation report
Summary document | ![]() | 1.2 MB | Display | ![]() |
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Full document | ![]() | 1.2 MB | Display | |
Data in XML | ![]() | 17.2 KB | Display | |
Data in CIF | ![]() | 20.5 KB | Display | |
Arichive directory | ![]() ![]() | HTTPS FTP |
-Related structure data
Related structure data | C: citing same article ( |
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Links
EMDB pages | ![]() ![]() |
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Map
File | ![]() | ||||||||||||||||||||
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Annotation | Cryo-EM structure of SARS-CoV-1 2P spike protein in complex with W328-6A1 IgG | ||||||||||||||||||||
Voxel size | X=Y=Z: 0.97 Å | ||||||||||||||||||||
Density |
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Symmetry | Space group: 1 | ||||||||||||||||||||
Details | EMDB XML:
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-Supplemental data
-Half map: Cryo-EM structure of SARS-CoV-1 2P spike protein in...
File | emd_36636_half_map_1.map | ||||||||||||
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Annotation | Cryo-EM structure of SARS-CoV-1 2P spike protein in complex with W328-6A1 IgG | ||||||||||||
Projections & Slices |
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Density Histograms |
-Half map: Cryo-EM structure of SARS-CoV-1 2P spike protein in...
File | emd_36636_half_map_2.map | ||||||||||||
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Annotation | Cryo-EM structure of SARS-CoV-1 2P spike protein in complex with W328-6A1 IgG | ||||||||||||
Projections & Slices |
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Density Histograms |
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Sample components
-Entire : SARS-CoV-1 2P spike protein in complex with W328-6A1 IgG
Entire | Name: SARS-CoV-1 2P spike protein in complex with W328-6A1 IgG |
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Components |
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-Supramolecule #1: SARS-CoV-1 2P spike protein in complex with W328-6A1 IgG
Supramolecule | Name: SARS-CoV-1 2P spike protein in complex with W328-6A1 IgG type: complex / ID: 1 / Parent: 0 / Macromolecule list: #1-#3 Details: Cryo-EM structure of SARS-CoV-1 2P spike protein in complex with W328-6A1 IgG |
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Source (natural) | Organism: ![]() |
-Supramolecule #2: Severe acute respiratory syndrome coronavirus-1 2P
Supramolecule | Name: Severe acute respiratory syndrome coronavirus-1 2P / type: complex / ID: 2 / Parent: 1 / Macromolecule list: #2 / Details: SARS-CoV-1 2P |
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Source (natural) | Organism: ![]() |
-Supramolecule #3: W328-6A1 IgG
Supramolecule | Name: W328-6A1 IgG / type: complex / ID: 3 / Parent: 1 / Macromolecule list: #3 / Details: W328-6A1 IgG |
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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
Concentration | 0.3 mg/mL |
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Buffer | pH: 7.4 |
Grid | Model: Quantifoil R1.2/1.3 / Support film - Material: CARBON |
Vitrification | Cryogen name: ETHANE / Chamber humidity: 100 % / Chamber temperature: 295.15 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 K3 (6k x 4k) / Number real images: 6451 / Average electron dose: 50.0 e/Å2 |
Electron beam | Acceleration voltage: 300 kV / Electron source: ![]() |
Electron optics | Illumination mode: FLOOD BEAM / Imaging mode: BRIGHT FIELD / Cs: 2.7 mm / Nominal defocus max: 1.6 µm / Nominal defocus min: 0.8 µm |
Experimental equipment | ![]() Model: Titan Krios / Image courtesy: FEI Company |