Crystal Structure of Staphylococcal Eenterotoxin B in complex with a novel neutralization monoclonal antibody Fab fragment
External Resource: Annotation
Chains | Domain Info | Class | Fold | Superfamily | Family | Domain | Species | Provenance Source (Version) |
A | d3w2da1 | All beta proteins | OB-fold | Bacterial enterotoxins | Superantigen toxins, N-terminal domain | Staphylococcal enterotoxin B, SEB | (Staphylococcus aureus ) [TaxId: 1280 ], | SCOPe (2.08) |
A | d3w2da2 | Alpha and beta proteins (a+b) | beta-Grasp (ubiquitin-like) | Superantigen toxins, C-terminal domain | Superantigen toxins, C-terminal domain | Staphylococcal enterotoxin B, SEB | (Staphylococcus aureus ) [TaxId: 1280 ], | SCOPe (2.08) |
B [auth L] | d3w2dl2 | All beta proteins | Immunoglobulin-like beta-sandwich | Immunoglobulin | C1 set domains (antibody constant domain-like) | automated matches | mouse (Mus musculus ) [TaxId: 10090 ], | SCOPe (2.08) |
B [auth L] | d3w2dl1 | All beta proteins | Immunoglobulin-like beta-sandwich | Immunoglobulin | automated matches | automated matches | mouse (Mus musculus ) [TaxId: 10090 ], | SCOPe (2.08) |
C [auth H] | d3w2dh_ | All beta proteins | Immunoglobulin-like beta-sandwich | Immunoglobulin | V set domains (antibody variable domain-like) | automated matches | mouse (Mus musculus ) [TaxId: 10090 ], | SCOPe (2.08) |
Domain Annotation: SCOP2 Classification SCOP2 Database Homepage
Chains | Type | Family Name | Domain Identifier | Family Identifier | Provenance Source (Version) |
A | SCOP2B Superfamily | Bacterial enterotoxins | 8041881 | 3000434 | SCOP2B (2022-06-29) |
A | SCOP2B Superfamily | Superantigen toxins C-terminal domain-like | 8034577 | 3000376 | SCOP2B (2022-06-29) |
Chains | Family Name | Domain Identifier | Architecture | Possible Homology | Homology | Topology | Family | Provenance Source (Version) |
A | PF01123 | e3w2dA1 | A: beta barrels | X: OB-fold | H: Bacterial enterotoxins (From Topology) | T: Bacterial enterotoxins | F: PF01123 | ECOD (1.6) |
A | PF02876 | e3w2dA2 | A: a+b two layers | X: beta-Grasp | H: Ubiquitin-related | T: Ubiquitin-like | F: PF02876 | ECOD (1.6) |
B [auth L] | PF07654 | e3w2dL1 | A: beta sandwiches | X: Immunoglobulin-like beta-sandwich | H: Immunoglobulin-related | T: Immunoglobulin/Fibronectin type III/E set domains/PapD-like | F: PF07654 | ECOD (1.6) |
B [auth L] | PF07686 | e3w2dL2 | A: beta sandwiches | X: Immunoglobulin-like beta-sandwich | H: Immunoglobulin-related | T: Immunoglobulin/Fibronectin type III/E set domains/PapD-like | F: PF07686 | ECOD (1.6) |
C [auth H] | PF07654 | e3w2dH1 | A: beta sandwiches | X: Immunoglobulin-like beta-sandwich | H: Immunoglobulin-related | T: Immunoglobulin/Fibronectin type III/E set domains/PapD-like | F: PF07654 | ECOD (1.6) |
C [auth H] | PF07686 | e3w2dH2 | A: beta sandwiches | X: Immunoglobulin-like beta-sandwich | H: Immunoglobulin-related | T: Immunoglobulin/Fibronectin type III/E set domains/PapD-like | F: PF07686 | ECOD (1.6) |
Chain | Protein Name | Description | Organism Name | Gene Allele Name(s) | Domain Name(s) | Receptor Type | Receptor Description | Provenance Source |
---|
| Superantigen enterotoxin type B (SEB) | Toxin | Staphylococcus aureus | entB*01 | R-LIKE-DOMAIN SAG-DOMAIN | TOX | Protein | IMGT (202416-0) |
B [auth L] | 3E2 Fab | L-KAPPA | Mus musculus (house mouse) | IGKV4-57-1*01, IGKJ1*01, IGKJ2*01, IGKC*01, IGKC*02 | V-DOMAIN V-KAPPA, C-DOMAIN C-KAPPA | IG | FAB-GAMMA-1_KAPPA | IMGT (202416-0) |
C [auth H] | 3E2 Fab | VH-CH1 | Mus musculus (house mouse) | IGHV3-2*02, IGHJ3*01, IGHG1*01 | V-DOMAIN VH, C-DOMAIN CH1 | IG | FAB-GAMMA-1_KAPPA | IMGT (202416-0) |
Chain | Chain Class | Chain Subclass | Chain Type | Antigen Name(s) | Provenance Source |
---|
B [auth L] | Light Chain | IGKV4 | Kappa | enterotoxin type b | SAbDab (2024-04-26) |
C [auth H] | Heavy Chain | IGHV3 | - | enterotoxin type b | SAbDab (2024-04-26) |
Chains | Polymer | Molecular Function | Biological Process | Cellular Component |
---|
| Enterotoxin type B | | - | |
B [auth L] | Monoclonal Antibody 3E2 Fab figment light chain | - | - | - |
C [auth H] | Monoclonal Antibody 3E2 Fab figment heavy chain | - | - | - |