6XCN
Structure of the SARS-CoV-2 spike glycoprotein in complex with the C105 neutralizing antibody Fab fragment (state 2)
Domain Annotation: ECOD Classification ECOD Database Homepage
Chains | Family Name | Domain Identifier | Architecture | Possible Homology | Homology | Topology | Family | Provenance Source (Version) |
---|---|---|---|---|---|---|---|---|
A | Spike_NTD | e6xcnA3 | A: beta sandwiches | X: jelly-roll | H: Concanavalin A-like | T: Concanavalin A-like lectins/glucanases | F: Spike_NTD | ECOD (1.6) |
A | Spike_rec_bind_1 | e6xcnA1 | A: beta complex topology | X: Beta domain of coronavirus spike glycoprotein (From Topology) | H: Beta domain of coronavirus spike glycoprotein (From Topology) | T: Beta domain of coronavirus spike glycoprotein | F: Spike_rec_bind_1 | ECOD (1.6) |
A | Spike_rec_bind | e6xcnA2 | A: a+b three layers | X: Coronavirus spike protein receptor-binding domain (From Homology) | H: Coronavirus spike protein receptor-binding domain | T: Beta-coronavirus spike protein receptor-binding domain | F: Spike_rec_bind | ECOD (1.6) |
A | Corona_S2 | e6xcnA4 | A: a+b complex topology | X: S2 subunit of coronavirus spike glycoprotein (From Topology) | H: S2 subunit of coronavirus spike glycoprotein (From Topology) | T: S2 subunit of coronavirus spike glycoprotein | F: Corona_S2 | ECOD (1.6) |
B [auth C] | Spike_NTD | e6xcnC2 | A: beta sandwiches | X: jelly-roll | H: Concanavalin A-like | T: Concanavalin A-like lectins/glucanases | F: Spike_NTD | ECOD (1.6) |
B [auth C] | Spike_rec_bind_1 | e6xcnC3 | A: beta complex topology | X: Beta domain of coronavirus spike glycoprotein (From Topology) | H: Beta domain of coronavirus spike glycoprotein (From Topology) | T: Beta domain of coronavirus spike glycoprotein | F: Spike_rec_bind_1 | ECOD (1.6) |
B [auth C] | Spike_rec_bind | e6xcnC4 | A: a+b three layers | X: Coronavirus spike protein receptor-binding domain (From Homology) | H: Coronavirus spike protein receptor-binding domain | T: Beta-coronavirus spike protein receptor-binding domain | F: Spike_rec_bind | ECOD (1.6) |
B [auth C] | Corona_S2 | e6xcnC1 | A: a+b complex topology | X: S2 subunit of coronavirus spike glycoprotein (From Topology) | H: S2 subunit of coronavirus spike glycoprotein (From Topology) | T: S2 subunit of coronavirus spike glycoprotein | F: Corona_S2 | ECOD (1.6) |
C [auth E] | Spike_NTD | e6xcnE1 | A: beta sandwiches | X: jelly-roll | H: Concanavalin A-like | T: Concanavalin A-like lectins/glucanases | F: Spike_NTD | ECOD (1.6) |
C [auth E] | Spike_rec_bind_1 | e6xcnE2 | A: beta complex topology | X: Beta domain of coronavirus spike glycoprotein (From Topology) | H: Beta domain of coronavirus spike glycoprotein (From Topology) | T: Beta domain of coronavirus spike glycoprotein | F: Spike_rec_bind_1 | ECOD (1.6) |
C [auth E] | Spike_rec_bind | e6xcnE3 | A: a+b three layers | X: Coronavirus spike protein receptor-binding domain (From Homology) | H: Coronavirus spike protein receptor-binding domain | T: Beta-coronavirus spike protein receptor-binding domain | F: Spike_rec_bind | ECOD (1.6) |
C [auth E] | Corona_S2 | e6xcnE4 | A: a+b complex topology | X: S2 subunit of coronavirus spike glycoprotein (From Topology) | H: S2 subunit of coronavirus spike glycoprotein (From Topology) | T: S2 subunit of coronavirus spike glycoprotein | F: Corona_S2 | ECOD (1.6) |
D [auth B] | V-set_8 | e6xcnB1 | A: beta sandwiches | X: Immunoglobulin-like beta-sandwich | H: Immunoglobulin-related | T: Immunoglobulin/Fibronectin type III/E set domains/PapD-like | F: V-set_8 | ECOD (1.6) |
E [auth F] | V-set_8 | e6xcnF1 | A: beta sandwiches | X: Immunoglobulin-like beta-sandwich | H: Immunoglobulin-related | T: Immunoglobulin/Fibronectin type III/E set domains/PapD-like | F: V-set_8 | ECOD (1.6) |
F [auth H] | V-set_8 | e6xcnH1 | A: beta sandwiches | X: Immunoglobulin-like beta-sandwich | H: Immunoglobulin-related | T: Immunoglobulin/Fibronectin type III/E set domains/PapD-like | F: V-set_8 | ECOD (1.6) |
G [auth D] | V-set_3 | e6xcnD1 | A: beta sandwiches | X: Immunoglobulin-like beta-sandwich | H: Immunoglobulin-related | T: Immunoglobulin/Fibronectin type III/E set domains/PapD-like | F: V-set_3 | ECOD (1.6) |
H [auth G] | V-set_3 | e6xcnG1 | A: beta sandwiches | X: Immunoglobulin-like beta-sandwich | H: Immunoglobulin-related | T: Immunoglobulin/Fibronectin type III/E set domains/PapD-like | F: V-set_3 | ECOD (1.6) |
I [auth L] | V-set_3 | e6xcnL1 | A: beta sandwiches | X: Immunoglobulin-like beta-sandwich | H: Immunoglobulin-related | T: Immunoglobulin/Fibronectin type III/E set domains/PapD-like | F: V-set_3 | ECOD (1.6) |
IMGT Antibody Annotation IMGT Database Homepage
Chain | Protein Name | Description | Organism Name | Gene Allele Name(s) | Domain Name(s) | Receptor Type | Receptor Description | Provenance Source |
---|---|---|---|---|---|---|---|---|
D [auth B], E [auth F], F [auth H] | Fab C105, anti-SARS-CoV-2, neutralizing | VH-CH1 | Homo sapiens (human) | IGHV3-53*01, IGHJ4*01, IGHJ4*02, IGHJ4*03, IGHJ5*01, IGHJ6-3*01, IGHG1*03, IGHG1*08, IGHG1*06 | V-DOMAIN VH, C-DOMAIN CH1 | IG | FAB-GAMMA-1_LAMBDA | IMGT (202449-0) |
G [auth D], H [auth G], I [auth L] | Fab C105, anti-SARS-CoV-2, neutralizing | L-LAMBDA | Homo sapiens (human) | IGLV2-8*01, IGLJ2*01, IGLJ3*01, IGLC2*01, IGLC2*02, IGLC3*04 | V-DOMAIN V-LAMBDA, C-DOMAIN C-LAMBDA | IG | FAB-GAMMA-1_LAMBDA | IMGT (202449-0) |
SAbDab Antibody Annotation SAbDab Database Homepage
Chain | Chain Class | Chain Subclass | Chain Type | Antigen Name(s) | Provenance Source |
---|---|---|---|---|---|
D [auth B], E [auth F], F [auth H] | Heavy Chain | IGHV3 | - | spike glycoprotein | SAbDab (2024-12-13) |
G [auth D], H [auth G], I [auth L] | Light Chain | IGLV2 | Lambda | spike glycoprotein | SAbDab (2024-12-13) |