EMD-22491

Single-particle
3.5 Å
EMD-22491
3D View Gallery
Deposition: 20/08/2020
Map released: 14/10/2020
Last modified: 27/01/2021
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EMD-22491
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EMICSS annotations (xml)

SARS-CoV-2 spike in complex with the S2H13 neutralizing antibody Fab fragment (local refinement of the receptor-binding motif and Fab variable domains)

EMD-22491

Single-particle
3.5 Å
EMD-22491
3D View Gallery
Deposition: 20/08/2020
Map released: 14/10/2020
Last modified: 27/01/2021
Overview 3D View Sample Experiment Validation Volume Browser Additional data Links
Name: SARS-CoV-2 spike in complex with the S2H13 neutralizing antibody Fab fragment
Complex [3]
Name: SARS-CoV-2 spike in complex with the S2H13 neutralizing antibody Fab fragment
Complex Portal [3]
ID Name Overlap
CPX-7043 SARS-CoV-2 post-fusion S2 Spike complex 0.50
CPX-5682 SARS-CoV-2 cleaved Spike protein complex 0.50
CPX-7042 SARS-CoV-2 uncleaved Spike protein complex 0.50
Name: spike glycoprotein
Natural source [1]
Organism: Severe acute respiratory syndrome coronavirus 2
Recombinant Expression [1]
Organism Strain Cell Plasmid
Homo sapiens - - -
Complex Portal [3]
ID Name Overlap
CPX-7042 SARS-CoV-2 uncleaved Spike protein complex 1.00
CPX-7043 SARS-CoV-2 post-fusion S2 Spike complex 1.00
CPX-5682 SARS-CoV-2 cleaved Spike protein complex 1.00
Name: S2H13 neutralizing antibody Fab fragment
Natural source [1]
Organism: Homo sapiens
Recombinant Expression [1]
Organism Strain Cell Plasmid
Cricetulus griseus - - -
Protein [3]
LEVO
Name: S2H13 Fab heavy chain
Number of copies: 1
Natural source
Organism: Homo sapiens
Molecular weight
Experimental Theoretical Method
- 13 kDa -
Recombinant Expression
Organism Strain Cell Plasmid
Cricetulus griseus - - -
LEVO
Name: S2H13 Fab light chain
Number of copies: 1
UniProtKB AlphaFold DB
Natural source
Organism: Homo sapiens
Molecular weight
Experimental Theoretical Method
- 11 kDa -
Recombinant Expression
Organism Strain Cell Plasmid
Cricetulus griseus - - -
LEVO
Name: Spike glycoprotein
Number of copies: 1
UniProtKB PDBe-KB
Domains
Gene Ontology [29]
Biological process:
entry receptor-mediated virion attachment to host cell viral translation virion attachment to host cell fusion of virus membrane with host endosome membrane endocytosis involved in viral entry into host cell suppression by virus of host tetherin activity receptor-mediated virion attachment to host cell suppression by virus of host type I interferon-mediated signaling pathway viral entry into host cell fusion of virus membrane with host plasma membrane membrane fusion positive regulation of viral entry into host cell receptor-mediated endocytosis of virus by host cell
Molecular function:
receptor ligand activity structural constituent of virion identical protein binding host cell surface receptor binding
Cellular location:
host cell surface host extracellular space viral envelope host cell endoplasmic reticulum-Golgi intermediate compartment membrane virion membrane endocytic vesicle membrane endoplasmic reticulum lumen integral component of membrane endoplasmic reticulum-Golgi intermediate compartment host cell plasma membrane membrane plasma membrane
Natural source
Organism: Severe acute respiratory syndrome coronavirus 2
Molecular weight
Experimental Theoretical Method
- 141 kDa -
Recombinant Expression
Organism Strain Cell Plasmid
Homo sapiens - - -