5W9P
MERS S ectodomain trimer in complex with variable domain of neutralizing antibody G4
Domain Annotation: SCOP2 Classification SCOP2 Database Homepage
Chains | Type | Family Name | Domain Identifier | Family Identifier | Provenance Source (Version) |
---|---|---|---|---|---|
A [auth J] | SCOP2B Superfamily | Coronavirus spike S2 glycoprotein connector domain-like | 8092156 | 3002562 | SCOP2B (2022-06-29) |
A [auth J] | SCOP2B Superfamily | Coronavirus S2 glycoprotein stalk-like | 8092154 | 3000282 | SCOP2B (2022-06-29) |
B [auth A] | SCOP2B Superfamily | Concanavalin A-like lectins/glucanases | 8092152 | 3000120 | SCOP2B (2022-06-29) |
B [auth A] | SCOP2B Superfamily | Coronavirus S1 glycoprotein, domain C-like | 8092665 | 3002615 | SCOP2B (2022-06-29) |
B [auth A] | SCOP2B Superfamily | Coronavirus S1 glycoprotein, domain D-like | 8092667 | 3002616 | SCOP2B (2022-06-29) |
E [auth B] | SCOP2B Superfamily | Coronavirus spike S2 glycoprotein connector domain-like | 8092156 | 3002562 | SCOP2B (2022-06-29) |
E [auth B] | SCOP2B Superfamily | Coronavirus S2 glycoprotein stalk-like | 8092154 | 3000282 | SCOP2B (2022-06-29) |
F [auth C] | SCOP2B Superfamily | Coronavirus S1 glycoprotein, domain C-like | 8092665 | 3002615 | SCOP2B (2022-06-29) |
F [auth C] | SCOP2B Superfamily | Concanavalin A-like lectins/glucanases | 8092152 | 3000120 | SCOP2B (2022-06-29) |
F [auth C] | SCOP2B Superfamily | Coronavirus S1 glycoprotein, domain D-like | 8092667 | 3002616 | SCOP2B (2022-06-29) |
I [auth H] | SCOP2B Superfamily | Coronavirus spike S2 glycoprotein connector domain-like | 8092156 | 3002562 | SCOP2B (2022-06-29) |
I [auth H] | SCOP2B Superfamily | Coronavirus S2 glycoprotein stalk-like | 8092154 | 3000282 | SCOP2B (2022-06-29) |
J [auth I] | SCOP2B Superfamily | Coronavirus S1 glycoprotein, domain C-like | 8092665 | 3002615 | SCOP2B (2022-06-29) |
J [auth I] | SCOP2B Superfamily | Concanavalin A-like lectins/glucanases | 8092152 | 3000120 | SCOP2B (2022-06-29) |
J [auth I] | SCOP2B Superfamily | Coronavirus S1 glycoprotein, domain D-like | 8092667 | 3002616 | SCOP2B (2022-06-29) |
Domain Annotation: ECOD Classification ECOD Database Homepage
Chains | Family Name | Domain Identifier | Architecture | Possible Homology | Homology | Topology | Family | Provenance Source (Version) |
---|---|---|---|---|---|---|---|---|
A [auth J] | Corona_S2 | e5w9pJ1 | 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 A] | Spike_NTD | e5w9pA1 | A: beta sandwiches | X: jelly-roll | H: Concanavalin A-like | T: Concanavalin A-like lectins/glucanases | F: Spike_NTD | ECOD (1.6) |
B [auth A] | Corona_S1_3rd | e5w9pA2 | 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: Corona_S1_3rd | ECOD (1.6) |
E [auth B] | Corona_S2 | e5w9pB1 | 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) |
F [auth C] | Spike_NTD | e5w9pC1 | A: beta sandwiches | X: jelly-roll | H: Concanavalin A-like | T: Concanavalin A-like lectins/glucanases | F: Spike_NTD | ECOD (1.6) |
F [auth C] | Corona_S1_3rd | e5w9pC2 | 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: Corona_S1_3rd | ECOD (1.6) |
I [auth H] | Corona_S2 | e5w9pH1 | 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) |
J [auth I] | Spike_NTD | e5w9pI1 | A: beta sandwiches | X: jelly-roll | H: Concanavalin A-like | T: Concanavalin A-like lectins/glucanases | F: Spike_NTD | ECOD (1.6) |
J [auth I] | Corona_S1_3rd | e5w9pI2 | 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: Corona_S1_3rd | ECOD (1.6) |
C [auth F] | V-set_8 | e5w9pF1 | 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_8 | e5w9pD1 | 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) |
K | V-set_8 | e5w9pK1 | 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) |
D [auth G] | V-set | e5w9pG1 | A: beta sandwiches | X: Immunoglobulin-like beta-sandwich | H: Immunoglobulin-related | T: Immunoglobulin/Fibronectin type III/E set domains/PapD-like | F: V-set | ECOD (1.6) |
H [auth E] | V-set | e5w9pE1 | A: beta sandwiches | X: Immunoglobulin-like beta-sandwich | H: Immunoglobulin-related | T: Immunoglobulin/Fibronectin type III/E set domains/PapD-like | F: V-set | ECOD (1.6) |
L | V-set | e5w9pL1 | A: beta sandwiches | X: Immunoglobulin-like beta-sandwich | H: Immunoglobulin-related | T: Immunoglobulin/Fibronectin type III/E set domains/PapD-like | F: V-set | ECOD (1.6) |
Domain Annotation: CATH CATH Database Homepage
Chain | Domain | Class | Architecture | Topology | Homology | Provenance Source (Version) |
---|---|---|---|---|---|---|
D [auth G] | 2.60.40.10 | Mainly Beta | Sandwich | Immunoglobulin-like | Immunoglobulins | CATH (4.3.0) |
H [auth E] | 2.60.40.10 | Mainly Beta | Sandwich | Immunoglobulin-like | Immunoglobulins | CATH (4.3.0) |
L | 2.60.40.10 | Mainly Beta | Sandwich | Immunoglobulin-like | Immunoglobulins | CATH (4.3.0) |
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 |
---|---|---|---|---|---|---|---|---|
C [auth F], G [auth D], K | Fab G4 , neutralizing | VH-CH1 | Mus musculus (house mouse) | IGHV1S137*01, IGHJ4*01, IGHG1*02 | V-DOMAIN VH, C-DOMAIN CH1 | IG | FAB-GAMMA-1_KAPPA | IMGT (202440-0) |
D [auth G], H [auth E], L | Fab G4 , neutralizing | L-KAPPA | Mus musculus (house mouse) | IGKV3-2*01, IGKJ1*01, IGKJ2*01, IGKC*01, IGKC*02 | V-DOMAIN V-KAPPA, C-DOMAIN C-KAPPA | IG | FAB-GAMMA-1_KAPPA | IMGT (202440-0) |
SAbDab Antibody Annotation SAbDab Database Homepage
Chain | Chain Class | Chain Subclass | Chain Type | Antigen Name(s) | Provenance Source |
---|---|---|---|---|---|
C [auth F], G [auth D], K | Heavy Chain | IGHV1 | - | spike glycoprotein | SAbDab (2024-10-11) |
D [auth G], H [auth E], L | Light Chain | IGKV3 | Kappa | spike glycoprotein | SAbDab (2024-10-11) |
Protein Family Annotation Pfam Database Homepage
Chains | Accession | Name | Description | Comments | Source |
---|---|---|---|---|---|
PF01601 | Coronavirus spike glycoprotein S2 (CoV_S2) | Coronavirus spike glycoprotein S2 | - | Family | |
PF16451 | Betacoronavirus-like spike glycoprotein S1, N-terminal (bCoV_S1_N) | Betacoronavirus-like spike glycoprotein S1, N-terminal | This entry represents the N-terminal domain of the betacoronavirus-like trimeric spike glycoprotein. The distal S1 subunit of the coronavirus spike protein is responsible for receptor binding. S1 contains two domains; an N-terminal galectin-like doma ... | Domain | |
PF19209 | Coronavirus spike glycoprotein S1, C-terminal (CoV_S1_C) | Coronavirus spike glycoprotein S1, C-terminal | This entry represents a domain found at the C-terminus of the Coronavirus S1 protein. It is found across a range of alpha, beta and gamma coronaviruses. This small all beta stranded domain is known as subdomain 2 in the structure of the porcine epide ... | Domain | |