4K3J
Crystal structure of Onartuzumab Fab in complex with MET and HGF-beta
External Resource: Annotation
- Domain Annotation: SCOP2 Classification
- Domain Annotation: ECOD Classification
- Domain Annotation: CATH
- IMGT Antibody Annotation
- SAbDab Antibody Annotation
- Thera-SAbDab Antibody Annotation
- Protein Family Annotation
- Gene Ontology: Gene Product Annotation
- InterPro: Protein Family Classification
- Pharos: Disease Associations
Domain Annotation: SCOP2 Classification SCOP2 Database Homepage
Chains | Type | Family Name | Domain Identifier | Family Identifier | Provenance Source (Version) |
---|---|---|---|---|---|
A | SCOP2B Superfamily | Trypsin-like serine proteases | 8042342 | 3000114 | SCOP2B (2022-06-29) |
B | SCOP2B Superfamily | Sema domain-like | 8039465 | 3000180 | SCOP2B (2022-06-29) |
B | SCOP2B Superfamily | Plexin repeat-like | 8039466 | 3000415 | 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 | Trypsin_1 | e4k3jA1 | A: beta barrels | X: cradle loop barrel | H: RIFT-related | T: FMN-binding split barrel 2 | F: Trypsin_1 | ECOD (1.6) |
B | Sema_2 | e4k3jB1 | A: beta duplicates or obligate multimers | X: beta-propeller-like | H: beta-propeller | T: 7-bladed | F: Sema_2 | ECOD (1.6) |
B | PSI_1 | e4k3jB2 | A: few secondary structure elements | X: Trefoil/Plexin domain-like (From Topology) | H: Trefoil/Plexin domain-like (From Topology) | T: Trefoil/Plexin domain-like | F: PSI_1 | ECOD (1.6) |
C [auth H] | V-set_8 | e4k3jH2 | 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) |
C [auth H] | C1-set_1 | e4k3jH1 | A: beta sandwiches | X: Immunoglobulin-like beta-sandwich | H: Immunoglobulin-related | T: Immunoglobulin/Fibronectin type III/E set domains/PapD-like | F: C1-set_1 | ECOD (1.6) |
D [auth L] | C1-set_4 | e4k3jL1 | A: beta sandwiches | X: Immunoglobulin-like beta-sandwich | H: Immunoglobulin-related | T: Immunoglobulin/Fibronectin type III/E set domains/PapD-like | F: C1-set_4 | ECOD (1.6) |
D [auth L] | V-set | e4k3jL2 | 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) |
---|---|---|---|---|---|---|
A | 2.40.10.10 | Mainly Beta | Beta Barrel | Thrombin, subunit H | Trypsin-like serine proteases | CATH (4.3.0) |
B | 2.130.10.10 | Mainly Beta | 7 Propeller | Methylamine Dehydrogenase | Chain H | CATH (4.3.0) |
B | 3.30.1680.10 | Alpha Beta | 2-Layer Sandwich | ligand-binding face of the semaphorins, domain 2 | ligand-binding face of the semaphorins, domain 2 | CATH (4.3.0) |
C [auth H] | 2.60.40.10 | Mainly Beta | Sandwich | Immunoglobulin-like | Immunoglobulins | CATH (4.3.0) |
D [auth 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 H] | OA5D5, anti-MET | VH-CH1 | Humanized (humanized) | IGHV3-74*01, IGHV3-74*02, IGHV3-74*03, IGHV3-23*04, IGHJ4*01, IGHJ4*02, IGHJ4*03, IGHG1*01, IGHG1*02, IGHG1*04 | V-DOMAIN VH, C-DOMAIN CH1 | IG | FAB-GAMMA-1_KAPPA | IMGT (202507-0) |
D [auth L] | OA5D5, anti-MET | L-KAPPA | Humanized (humanized) | IGKV1D-13*01, IGKV1-13*02, IGKJ1*01, IGKC*01 | V-DOMAIN V-KAPPA, C-DOMAIN C-KAPPA | IG | FAB-GAMMA-1_KAPPA | IMGT (202507-0) |
SAbDab Antibody Annotation SAbDab Database Homepage
Chain | Chain Class | Chain Subclass | Chain Type | Antigen Name(s) | Provenance Source |
---|---|---|---|---|---|
C [auth H] | Heavy Chain | IGHV3 | - | hepatocyte growth factor beta chain | SAbDab (2025-02-28) |
D [auth L] | Light Chain | IGKV1 | Kappa | hepatocyte growth factor beta chain | SAbDab (2025-02-28) |
Thera-SAbDab Antibody Annotation Thera-SAbDab Database Homepage
Chain | Name | Target | Provenance Source |
---|---|---|---|
C [auth H] | Onartuzumab | MET/HGFR | Therapeutic SAbDab (2025-02-28) |
D [auth L] | Onartuzumab | MET/HGFR | Therapeutic SAbDab (2025-02-28) |
Protein Family Annotation Pfam Database Homepage
Chains | Accession | Name | Description | Comments | Source |
---|---|---|---|---|---|
PF00089 | Trypsin (Trypsin) | Trypsin | Domain | ||
PF01437 | Plexin repeat (PSI) | Plexin repeat | - | Family | |
PF01403 | Sema domain (Sema) | Sema domain | - | Repeat | |