5DMJ
Structure of the extracellular domain of the CD40 in complex with 3H56-5 DAB
External Resource: Annotation
Domain Annotation: SCOP/SCOPe Classification SCOP-e Database Homepage
Chains | Domain Info | Class | Fold | Superfamily | Family | Domain | Species | Provenance Source (Version) |
---|---|---|---|---|---|---|---|---|
B | d5dmjb_ | All beta proteins | Immunoglobulin-like beta-sandwich | Immunoglobulin | V set domains (antibody variable domain-like) | automated matches | Human (Homo sapiens ) [TaxId: 9606 ], | SCOPe (2.08) |
D [auth E] | d5dmje_ | All beta proteins | Immunoglobulin-like beta-sandwich | Immunoglobulin | V set domains (antibody variable domain-like) | automated matches | Human (Homo sapiens ) [TaxId: 9606 ], | SCOPe (2.08) |
F [auth G] | d5dmjg_ | All beta proteins | Immunoglobulin-like beta-sandwich | Immunoglobulin | V set domains (antibody variable domain-like) | automated matches | Human (Homo sapiens ) [TaxId: 9606 ], | SCOPe (2.08) |
Domain Annotation: ECOD Classification ECOD Database Homepage
Chains | Family Name | Domain Identifier | Architecture | Possible Homology | Homology | Topology | Family | Provenance Source (Version) |
---|---|---|---|---|---|---|---|---|
A | TNFR_c6 | e5dmjA2 | A: few secondary structure elements | X: EGF-like | H: EGF-related | T: TNF receptor-like | F: TNFR_c6 | ECOD (1.6) |
A | TNFRSF5 | e5dmjA3 | A: few secondary structure elements | X: EGF-like | H: EGF-related | T: TNF receptor-like | F: TNFRSF5 | ECOD (1.6) |
A | TNFRSF11A_2nd | e5dmjA1 | A: few secondary structure elements | X: EGF-like | H: EGF-related | T: TNF receptor-like | F: TNFRSF11A_2nd | ECOD (1.6) |
C [auth D] | TNFR_c6 | e5dmjD1 | A: few secondary structure elements | X: EGF-like | H: EGF-related | T: TNF receptor-like | F: TNFR_c6 | ECOD (1.6) |
C [auth D] | TNFRSF14 | e5dmjD3 | A: few secondary structure elements | X: EGF-like | H: EGF-related | T: TNF receptor-like | F: TNFRSF14 | ECOD (1.6) |
C [auth D] | TNFR_c6_2,TNFRSF5 | e5dmjD2 | A: few secondary structure elements | X: EGF-like | H: EGF-related | T: TNF receptor-like | F: TNFR_c6_2,TNFRSF5 | ECOD (1.6) |
E [auth F] | TNFR_c6 | e5dmjF3 | A: few secondary structure elements | X: EGF-like | H: EGF-related | T: TNF receptor-like | F: TNFR_c6 | ECOD (1.6) |
E [auth F] | TNFRSF5 | e5dmjF2 | A: few secondary structure elements | X: EGF-like | H: EGF-related | T: TNF receptor-like | F: TNFRSF5 | ECOD (1.6) |
E [auth F] | TNFRSF11A_2nd | e5dmjF1 | A: few secondary structure elements | X: EGF-like | H: EGF-related | T: TNF receptor-like | F: TNFRSF11A_2nd | ECOD (1.6) |
B | V-set_12 | e5dmjB1 | A: beta sandwiches | X: Immunoglobulin-like beta-sandwich | H: Immunoglobulin-related | T: Immunoglobulin/Fibronectin type III/E set domains/PapD-like | F: V-set_12 | ECOD (1.6) |
D [auth E] | V-set_12 | e5dmjE1 | A: beta sandwiches | X: Immunoglobulin-like beta-sandwich | H: Immunoglobulin-related | T: Immunoglobulin/Fibronectin type III/E set domains/PapD-like | F: V-set_12 | ECOD (1.6) |
F [auth G] | V-set_12 | e5dmjG1 | A: beta sandwiches | X: Immunoglobulin-like beta-sandwich | H: Immunoglobulin-related | T: Immunoglobulin/Fibronectin type III/E set domains/PapD-like | F: V-set_12 | ECOD (1.6) |
Domain Annotation: CATH CATH Database Homepage
Chain | Domain | Class | Architecture | Topology | Homology | Provenance Source (Version) |
---|---|---|---|---|---|---|
A | 2.10.50.10 | Mainly Beta | Ribbon | Tumor Necrosis Factor Receptor, subunit A | domain 2 | CATH (4.3.0) |
C [auth D] | 2.10.50.10 | Mainly Beta | Ribbon | Tumor Necrosis Factor Receptor, subunit A | domain 2 | CATH (4.3.0) |
E [auth F] | 2.10.50.10 | Mainly Beta | Ribbon | Tumor Necrosis Factor Receptor, subunit A | domain 2 | CATH (4.3.0) |
B | 2.60.40.10 | Mainly Beta | Sandwich | Immunoglobulin-like | Immunoglobulins | CATH (4.3.0) |
D [auth E] | 2.60.40.10 | Mainly Beta | Sandwich | Immunoglobulin-like | Immunoglobulins | CATH (4.3.0) |
F [auth G] | 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 |
---|---|---|---|---|---|---|---|---|
A, C [auth D], E [auth F] | CD40 | 4TNFR-CYS | Homo sapiens (human) | CD40*01 | R-LIKE-DOMAIN TNFR-CYS | RPI | 4-TNFR-CYS | IMGT (202432-0) |
B, D [auth E], F [auth G] | 3H56-5 dAb | VH | Homo sapiens (human) | IGHV3-23*01, IGHV3-23D*01, IGHJ4*01, IGHJ5*01, IGHJ5*02, IGHJ4*02, IGHJ4*03 | V-DOMAIN VH | IG | (VH) | IMGT (202432-0) |
SAbDab Antibody Annotation SAbDab Database Homepage
Chain | Chain Class | Chain Subclass | Chain Type | Antigen Name(s) | Provenance Source |
---|---|---|---|---|---|
B, D [auth E], F [auth G] | Heavy Chain | IGHV3 | - | tumor necrosis factor receptor superfamily member 5 | SAbDab (2024-08-16) |
Protein Family Annotation Pfam Database Homepage
Chains | Accession | Name | Description | Comments | Source |
---|---|---|---|---|---|
A, C [auth D], E [auth F] | PF00020 | TNFR/NGFR cysteine-rich region (TNFR_c6) | TNFR/NGFR cysteine-rich region | - | Domain |