5BO1
Crystal structure of a human Jag1 fragment in complex with an anti-Jag1 Fab
External Resource: Annotation
Domain Annotation: SCOP/SCOPe Classification SCOP-e Database Homepage
Domain Annotation: ECOD Classification ECOD Database Homepage
Chains | Family Name | Domain Identifier | Architecture | Possible Homology | Homology | Topology | Family | Provenance Source (Version) |
---|---|---|---|---|---|---|---|---|
A | DSL | e5bo1A4 | A: few secondary structure elements | X: EGF-like | H: EGF-related | T: EGF/Laminin | F: DSL | ECOD (1.6) |
A | hEGF_4 | e5bo1A2 | A: few secondary structure elements | X: EGF-like | H: EGF-related | T: EGF/Laminin | F: hEGF_4 | ECOD (1.6) |
A | EGF_2_like | e5bo1A1 | A: few secondary structure elements | X: EGF-like | H: EGF-related | T: EGF/Laminin | F: EGF_2_like | ECOD (1.6) |
A | hEGF_6 | e5bo1A3 | A: few secondary structure elements | X: EGF-like | H: EGF-related | T: EGF/Laminin | F: hEGF_6 | ECOD (1.6) |
B | DSL | e5bo1B4 | A: few secondary structure elements | X: EGF-like | H: EGF-related | T: EGF/Laminin | F: DSL | ECOD (1.6) |
B | hEGF_4 | e5bo1B2 | A: few secondary structure elements | X: EGF-like | H: EGF-related | T: EGF/Laminin | F: hEGF_4 | ECOD (1.6) |
B | EGF_2_like | e5bo1B1 | A: few secondary structure elements | X: EGF-like | H: EGF-related | T: EGF/Laminin | F: EGF_2_like | ECOD (1.6) |
B | hEGF_6 | e5bo1B3 | A: few secondary structure elements | X: EGF-like | H: EGF-related | T: EGF/Laminin | F: hEGF_6 | ECOD (1.6) |
C [auth H] | V-set_8 | e5bo1H2 | 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 | e5bo1H3 | 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 I] | V-set_8 | e5bo1I2 | 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 I] | C1-set_1 | e5bo1I1 | 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) |
E [auth L] | C1-set_4 | e5bo1L2 | 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) |
E [auth L] | V-set | e5bo1L1 | 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) |
F [auth M] | C1-set_4 | e5bo1M2 | 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) |
F [auth M] | V-set | e5bo1M1 | 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) |
---|---|---|---|---|---|---|
C [auth H] | 2.60.40.10 | Mainly Beta | Sandwich | Immunoglobulin-like | Immunoglobulins | CATH (4.3.0) |
D [auth I] | 2.60.40.10 | Mainly Beta | Sandwich | Immunoglobulin-like | Immunoglobulins | CATH (4.3.0) |
E [auth L] | 2.60.40.10 | Mainly Beta | Sandwich | Immunoglobulin-like | Immunoglobulins | CATH (4.3.0) |
F [auth M] | 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], D [auth I] | Fab anti-Jag1 | VH-CH1 | Homo sapiens (human) | IGHV3-74*01, IGHV3-74*02, IGHV3-74*03, IGHV3-23*04, IGHJ4*01, IGHJ4*02, IGHJ4*03, IGHG1*01, IGHG1*02, IGHG1*04, IGHG1*05 | V-DOMAIN VH, C-DOMAIN CH1 | IG | FAB-GAMMA-1_KAPPA | IMGT (202436-0) |
E [auth L], F [auth M] | Fab anti-Jag1 | L-KAPPA | Homo sapiens (human) | IGKV1-12*01, IGKV1D-12*01, IGKV1-12*02, IGKV1D-13*01, IGKV1-13*02, IGKV1D-12*02, IGKV1D-13*02, IGKJ1*01, IGKC*01 | V-DOMAIN V-KAPPA, C-DOMAIN C-KAPPA | IG | FAB-GAMMA-1_KAPPA | IMGT (202436-0) |
SAbDab Antibody Annotation SAbDab Database Homepage
Chain | Chain Class | Chain Subclass | Chain Type | Antigen Name(s) | Provenance Source |
---|---|---|---|---|---|
C [auth H], D [auth I] | Heavy Chain | IGHV3 | - | protein jagged-1 | SAbDab (2024-09-13) |
E [auth L], F [auth M] | Light Chain | IGKV1 | Kappa | protein jagged-1 | SAbDab (2024-09-13) |
Protein Family Annotation Pfam Database Homepage
Chains | Accession | Name | Description | Comments | Source |
---|---|---|---|---|---|
PF01414 | Delta serrate ligand (DSL) | Delta serrate ligand | This family has been redefined to correspond to the EGF-like domain defined by structure. | Domain | |
PF00008 | EGF-like domain (EGF) | EGF-like domain | There is no clear separation between noise and signal. Pfam:PF00053 is very similar, but has 8 instead of 6 conserved cysteines. Includes some cytokine receptors. The EGF domain misses the N-terminus regions of the Ca2+ binding EGF domains (this is t ... | Domain | |
PF21700 | Delta-like/Jagged, EGF-like domain (DL-JAG_EGF-like) | Delta-like/Jagged, EGF-like domain | This entry represents a EGF-like domain found in delta-like, jagged and Wnt inhibitory factor 1, which are involved in different signalling pathways [1-5]. | Domain | |
Gene Ontology: Gene Product Annotation Gene Ontology Database Homepage
InterPro: Protein Family Classification InterPro Database Homepage
Chains | Accession | Name | Type |
---|---|---|---|
IPR051830 | Neurogenic locus notch homolog | Family | |
IPR018097 | EGF-like calcium-binding, conserved site | Conserved Site | |
IPR026219 | Jagged/Serrate protein | Family | |
IPR013032 | EGF-like, conserved site | Conserved Site | |
IPR049883 | NOTCH1 EGF-like calcium-binding domain | Domain | |
IPR001881 | EGF-like calcium-binding domain | Domain | |
IPR001007 | VWFC domain | Domain | |
IPR001774 | Delta/Serrate/lag-2 (DSL) protein | Domain | |
IPR000742 | EGF-like domain | Domain | |
IPR011651 | Notch ligand, N-terminal domain | Domain | |
IPR009030 | Growth factor receptor cysteine-rich domain superfamily | Homologous Superfamily | |
IPR000152 | EGF-type aspartate/asparagine hydroxylation site | PTM |