5O4G
HER2 in complex with Fab MF3958
External Resource: Annotation
- Domain Annotation: SCOP/SCOPe Classification
- Domain Annotation: SCOP2 Classification
- Domain Annotation: ECOD Classification
- Domain Annotation: CATH
- IMGT Antibody Annotation
- SAbDab Antibody Annotation
- Protein Family Annotation
- Gene Ontology: Gene Product Annotation
- InterPro: Protein Family Classification
- Pharos: Disease Associations
Domain Annotation: SCOP/SCOPe Classification SCOP-e Database Homepage
Chains | Domain Info | Class | Fold | Superfamily | Family | Domain | Species | Provenance Source (Version) |
---|---|---|---|---|---|---|---|---|
A [auth C] | d5o4gc1 | Alpha and beta proteins (a/b) | Leucine-rich repeat, LRR (right-handed beta-alpha superhelix) | L domain-like | automated matches | automated matches | Human (Homo sapiens ) [TaxId: 9606 ], | SCOPe (2.08) |
A [auth C] | d5o4gc2 | Small proteins | Knottins (small inhibitors, toxins, lectins) | Growth factor receptor domain | automated matches | automated matches | Human (Homo sapiens ) [TaxId: 9606 ], | SCOPe (2.08) |
B [auth A] | d5o4ga2 | All beta proteins | Immunoglobulin-like beta-sandwich | Immunoglobulin | C1 set domains (antibody constant domain-like) | automated matches | Human (Homo sapiens ) [TaxId: 9606 ], | SCOPe (2.08) |
B [auth A] | d5o4ga1 | All beta proteins | Immunoglobulin-like beta-sandwich | Immunoglobulin | automated matches | automated matches | Human (Homo sapiens ) [TaxId: 9606 ], | SCOPe (2.08) |
Domain Annotation: SCOP2 Classification SCOP2 Database Homepage
Chains | Type | Family Name | Domain Identifier | Family Identifier | Provenance Source (Version) |
---|---|---|---|---|---|
A [auth C] | SCOP2B Superfamily | L domain-like | 8043690 | 3001010 | SCOP2B (2022-06-29) |
A [auth C] | SCOP2B Superfamily | Growth factor receptor domain-like | 8043692 | 3000398 | SCOP2B (2022-06-29) |
A [auth C] | SCOP2B Superfamily | L domain-like | 8043691 | 3001010 | 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 C] | Recep_L_domain | e5o4gC3 | A: beta duplicates or obligate multimers | X: Single-stranded right-handed beta-helix | H: Leucine-rich repeats (From Topology) | T: Leucine-rich repeats | F: Recep_L_domain | ECOD (1.6) |
A [auth C] | GF_recep_IV | e5o4gC1 | A: few secondary structure elements | X: EGF-like | H: Growth factor receptor domain (From Topology) | T: Growth factor receptor domain | F: GF_recep_IV | ECOD (1.6) |
A [auth C] | Furin-like | e5o4gC4 | A: few secondary structure elements | X: EGF-like | H: Growth factor receptor domain (From Topology) | T: Growth factor receptor domain | F: Furin-like | ECOD (1.6) |
B [auth A] | C1-set_4 | e5o4gA2 | 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) |
B [auth A] | V-set | e5o4gA1 | 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) |
C [auth B] | V-set_8 | e5o4gB2 | 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 B] | C1-set_1 | e5o4gB1 | 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) |
Domain Annotation: CATH CATH Database Homepage
Chain | Domain | Class | Architecture | Topology | Homology | Provenance Source (Version) |
---|---|---|---|---|---|---|
B [auth A] | 2.60.40.10 | Mainly Beta | Sandwich | Immunoglobulin-like | Immunoglobulins | CATH (4.3.0) |
C [auth B] | 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 |
---|---|---|---|---|---|---|---|---|
B [auth A] | Fab MF3958 | L-KAPPA | Homo sapiens (human) | IGKV1-39*01, IGKV1D-39*01, IGKJ1*01, IGKC*01 | V-DOMAIN V-KAPPA, C-DOMAIN C-KAPPA | IG | FAB-GAMMA-1_KAPPA | IMGT (202432-0) |
C [auth B] | Fab MF3958 | VH-CH1 | Homo sapiens (human) | IGHV1-46*01, IGHV1-46*03, IGHJ4*01, IGHJ5*01, IGHJ5*02, IGHJ4*02, IGHJ4*03, IGHG1*03 | V-DOMAIN VH, C-DOMAIN CH1 | IG | FAB-GAMMA-1_KAPPA | IMGT (202432-0) |
SAbDab Antibody Annotation SAbDab Database Homepage
Chain | Chain Class | Chain Subclass | Chain Type | Antigen Name(s) | Provenance Source |
---|---|---|---|---|---|
B [auth A] | Light Chain | IGKV1 | Kappa | receptor tyrosine-protein kinase erbb-2 | SAbDab (2024-08-16) |
C [auth B] | Heavy Chain | IGHV1 | - | receptor tyrosine-protein kinase erbb-2 | SAbDab (2024-08-16) |
Protein Family Annotation Pfam Database Homepage
Chains | Accession | Name | Description | Comments | Source |
---|---|---|---|---|---|
A [auth C] | PF00757 | Furin-like cysteine rich region (Furin-like) | Furin-like cysteine rich region | - | Domain |
A [auth C] | PF01030 | Receptor L domain (Recep_L_domain) | Receptor L domain | - | Repeat |
A [auth C] | PF14843 | Growth factor receptor domain IV (GF_recep_IV) | Growth factor receptor domain IV | This is the fourth extracellular domain of receptor tyrosine protein kinases. Interaction between this domain and the furin-like domain (Pfam:PF00757) regulates the binding of ligands to the receptor L domains (Pfam:PF01030) [1]. | Domain |