5CZX
Crystal structure of Notch3 NRR in complex with 20358 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 | NOD | e5czxA4 | A: a+b two layers | X: Alpha-beta plaits | H: Notch heterodimerization domain (From Topology) | T: Notch heterodimerization domain | F: NOD | ECOD (1.6) |
A | Notch | e5czxA1 | A: few secondary structure elements | X: Lin12/Notch repeat (From Topology) | H: Lin12/Notch repeat (From Topology) | T: Lin12/Notch repeat | F: Notch | ECOD (1.6) |
B | NOD | e5czxB4 | A: a+b two layers | X: Alpha-beta plaits | H: Notch heterodimerization domain (From Topology) | T: Notch heterodimerization domain | F: NOD | ECOD (1.6) |
B | Notch | e5czxB1 | A: few secondary structure elements | X: Lin12/Notch repeat (From Topology) | H: Lin12/Notch repeat (From Topology) | T: Lin12/Notch repeat | F: Notch | ECOD (1.6) |
C | V-set_8 | e5czxC2 | 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 | C1-set_1 | e5czxC1 | 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 H] | V-set_8 | e5czxH1 | 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) |
E [auth H] | C1-set_1 | e5czxH2 | 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 | C1-set_4 | e5czxD1 | 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 | V-set | e5czxD2 | 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 L] | C1-set_4 | e5czxL2 | 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 L] | V-set | e5czxL1 | 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 | 3.30.300.320 | Alpha Beta | 2-Layer Sandwich | GMP Synthetase | Chain A, domain 3 | CATH (4.3.0) |
A | 3.30.70.3310 | Alpha Beta | 2-Layer Sandwich | Alpha-Beta Plaits | CATH (4.3.0) | |
B | 3.30.300.320 | Alpha Beta | 2-Layer Sandwich | GMP Synthetase | Chain A, domain 3 | CATH (4.3.0) |
B | 3.30.70.3310 | Alpha Beta | 2-Layer Sandwich | Alpha-Beta Plaits | CATH (4.3.0) | |
C | 2.60.40.10 | Mainly Beta | Sandwich | Immunoglobulin-like | Immunoglobulins | CATH (4.3.0) |
E [auth H] | 2.60.40.10 | Mainly Beta | Sandwich | Immunoglobulin-like | Immunoglobulins | CATH (4.3.0) |
D | 2.60.40.10 | Mainly Beta | Sandwich | Immunoglobulin-like | Immunoglobulins | CATH (4.3.0) |
F [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, E [auth H] | 20358 Fab | VH-CH1 | Homo sapiens (human) | IGHV1-69*01, IGHV1-69*10, IGHV1-69*12, IGHV1-69*13, IGHV1-69D*01, IGHJ4*01, IGHJ4*02, IGHJ4*03, IGHG1*03 | V-DOMAIN VH, C-DOMAIN CH1 | IG | FAB-GAMMA-1_KAPPA | IMGT (202432-0) |
D, F [auth L] | 20358 Fab | L-KAPPA | Homo sapiens (human) | IGKV1-39*01, IGKV1D-39*01, IGKJ1*01, IGKJ2*01, IGKC*01 | V-DOMAIN V-KAPPA, C-DOMAIN C-KAPPA | 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 |
---|---|---|---|---|---|
C, E [auth H] | Heavy Chain | IGHV1 | - | neurogenic locus notch homolog protein 3 | SAbDab (2024-08-16) |
D, F [auth L] | Light Chain | IGKV1 | Kappa | neurogenic locus notch homolog protein 3 | SAbDab (2024-08-16) |
Protein Family Annotation Pfam Database Homepage
Chains | Accession | Name | Description | Comments | Source |
---|---|---|---|---|---|
PF06816 | NOTCH protein (NOD) | NOTCH protein | - | Family | |
PF07684 | NOTCH protein (NODP) | NOTCH protein | - | Family | |
PF00066 | LNR domain (Notch) | LNR domain | The LNR (Lin-12/Notch repeat) domain is found in three tandem copies in Notch related proteins. The structure of the domain has been determined by NMR [1] and was shown to contain three disulphide bonds and coordinate a calcium ion. Three repeats ar ... | Domain | |
Gene Ontology: Gene Product Annotation Gene Ontology Database Homepage
InterPro: Protein Family Classification InterPro Database Homepage
Chains | Accession | Name | Type |
---|---|---|---|
IPR008297 | Notch | Family | |
IPR010660 | Notch, NOD domain | Domain | |
IPR036770 | Ankyrin repeat-containing domain superfamily | Homologous Superfamily | |
IPR018097 | EGF-like calcium-binding, conserved site | Conserved Site | |
IPR000800 | Notch domain | Domain | |
IPR024600 | Notch, C-terminal | Domain | |
IPR013032 | EGF-like, conserved site | Conserved Site | |
IPR000742 | EGF-like domain | Domain | |
IPR002110 | Ankyrin repeat | Repeat | |
IPR049883 | NOTCH1 EGF-like calcium-binding domain | Domain | |
IPR022331 | Neurogenic locus Notch 3 | Family | |
IPR035993 | Notch-like domain superfamily | Homologous Superfamily | |
IPR050906 | Notch signaling pathway | Family | |
IPR011656 | Notch, NODP domain | Domain | |
IPR009030 | Growth factor receptor cysteine-rich domain superfamily | Homologous Superfamily | |
IPR001881 | EGF-like calcium-binding domain | Domain | |
IPR000152 | EGF-type aspartate/asparagine hydroxylation site | PTM |