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- EMDB-34559: Immune complex of W313-6D11 IgG binding the RBD of SARS-CoV-1 2P ... -
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Open data
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Basic information
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Title | Immune complex of W313-6D11 IgG binding the RBD of SARS-CoV-1 2P spike protein | |||||||||
![]() | Immune complex of W313-6D11 IgG binding the RBD of SARS-CoV-1 2P spike protein | |||||||||
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![]() | Complex / SARS-CoV-1 / antibody / Homo sapiens / RBD / VIRAL PROTEIN | |||||||||
Biological species | ![]() ![]() | |||||||||
Method | single particle reconstruction / negative staining / Resolution: 25.0 Å | |||||||||
![]() | Zhu JY / Zhou BN | |||||||||
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 | ![]() | 20.7 MB | ![]() | |
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Header (meta data) | ![]() ![]() | 14 KB 14 KB | Display Display | ![]() |
Images | ![]() | 38.5 KB | ||
Filedesc metadata | ![]() | 4 KB | ||
Others | ![]() ![]() | 20.7 MB 20.7 MB | ||
Archive directory | ![]() ![]() | HTTPS FTP |
-Validation report
Summary document | ![]() | 701.3 KB | Display | ![]() |
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Full document | ![]() | 700.9 KB | Display | |
Data in XML | ![]() | 10.7 KB | Display | |
Data in CIF | ![]() | 12.4 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 | Immune complex of W313-6D11 IgG binding the RBD of SARS-CoV-1 2P spike protein | ||||||||||||||||||||
Voxel size | X=Y=Z: 2.21 Å | ||||||||||||||||||||
Density |
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Symmetry | Space group: 1 | ||||||||||||||||||||
Details | EMDB XML:
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-Supplemental data
-Half map: Immune complex of W313-6D11 IgG binding the RBD...
File | emd_34559_half_map_1.map | ||||||||||||
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Annotation | Immune complex of W313-6D11 IgG binding the RBD of SARS-CoV-1 2P spike protein | ||||||||||||
Projections & Slices |
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Density Histograms |
-Half map: Immune complex of W313-6D11 IgG binding the RBD...
File | emd_34559_half_map_2.map | ||||||||||||
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Annotation | Immune complex of W313-6D11 IgG binding the RBD of SARS-CoV-1 2P spike protein | ||||||||||||
Projections & Slices |
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Density Histograms |
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Sample components
-Entire : SARS-CoV-1 2P in complex with W313-6D11 IgG
Entire | Name: SARS-CoV-1 2P in complex with W313-6D11 IgG |
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Components |
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-Supramolecule #1: SARS-CoV-1 2P in complex with W313-6D11 IgG
Supramolecule | Name: SARS-CoV-1 2P in complex with W313-6D11 IgG / type: complex / ID: 1 / Parent: 0 Details: Immune complex of W313-6D11 IgG binding the RBD of SARS-CoV-1 2P spike protein |
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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 / Details: SARS-CoV-1 2P |
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Source (natural) | Organism: ![]() |
-Supramolecule #3: W313-6D11 IgG
Supramolecule | Name: W313-6D11 IgG / type: complex / ID: 3 / Parent: 1 / Details: W313-6D11 IgG |
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Source (natural) | Organism: ![]() |
-Experimental details
-Structure determination
Method | negative staining |
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![]() | single particle reconstruction |
Aggregation state | particle |
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Sample preparation
Concentration | 0.015 mg/mL |
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Buffer | pH: 7.4 |
Staining | Type: NEGATIVE / Material: Uranyl Acetate |
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Electron microscopy
Microscope | JEOL 2100F |
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Image recording | Film or detector model: OTHER / Average electron dose: 25.0 e/Å2 |
Electron beam | Acceleration voltage: 200 kV / Electron source: ![]() |
Electron optics | Illumination mode: FLOOD BEAM / Imaging mode: BRIGHT FIELD / Cs: 2.7 mm / Nominal defocus max: 1.5 µm / Nominal defocus min: 1.5 µm |
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Image processing
Startup model | Type of model: PDB ENTRY PDB model - PDB ID: |
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Final reconstruction | Resolution.type: BY AUTHOR / Resolution: 25.0 Å / Resolution method: FSC 0.5 CUT-OFF / Number images used: 1366 |
Initial angle assignment | Type: MAXIMUM LIKELIHOOD |
Final angle assignment | Type: MAXIMUM LIKELIHOOD |