6B3S
Crystal structure of the Fab fragment of necitumumab (Fab11F8) in complex with domain III from a cetuximab resistant variant of EGFR (sEGFRd3-S468R)
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
- Thera-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
Domain Annotation: SCOP2 Classification SCOP2 Database Homepage
Chains | Type | Family Name | Domain Identifier | Family Identifier | Provenance Source (Version) |
---|---|---|---|---|---|
A | SCOP2B Superfamily | L domain-like | 8038760 | 3001010 | SCOP2B (2022-06-29) |
A | SCOP2B Superfamily | Growth factor receptor domain-like | 8038763 | 3000398 | SCOP2B (2022-06-29) |
D [auth B] | SCOP2B Superfamily | L domain-like | 8038760 | 3001010 | SCOP2B (2022-06-29) |
D [auth B] | SCOP2B Superfamily | Growth factor receptor domain-like | 8038763 | 3000398 | SCOP2B (2022-06-29) |
G [auth E] | SCOP2B Superfamily | Growth factor receptor domain-like | 8038763 | 3000398 | SCOP2B (2022-06-29) |
G [auth E] | SCOP2B Superfamily | L domain-like | 8038760 | 3001010 | SCOP2B (2022-06-29) |
J [auth I] | SCOP2B Superfamily | Growth factor receptor domain-like | 8038763 | 3000398 | SCOP2B (2022-06-29) |
J [auth I] | SCOP2B Superfamily | L domain-like | 8038760 | 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 | GF_recep_IV,Recep_L_domain | e6b3sA1 | A: beta duplicates or obligate multimers | X: Single-stranded right-handed beta-helix | H: Leucine-rich repeats (From Topology) | T: Leucine-rich repeats | F: GF_recep_IV,Recep_L_domain | ECOD (1.6) |
D [auth B] | Recep_L_domain | e6b3sB1 | 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) |
G [auth E] | Recep_L_domain | e6b3sE1 | 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) |
J [auth I] | Recep_L_domain | e6b3sI1 | 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) |
B [auth H] | V-set_8 | e6b3sH2 | 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) |
B [auth H] | C1-set_1 | e6b3sH1 | 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 C] | V-set_8 | e6b3sC1 | 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 C] | C1-set_1 | e6b3sC2 | 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) |
H [auth F] | V-set_8 | e6b3sF2 | 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) |
H [auth F] | C1-set_1 | e6b3sF1 | 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) |
K [auth J] | V-set_8 | e6b3sJ2 | 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) |
K [auth J] | C1-set_1 | e6b3sJ1 | 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) |
C [auth L] | C1-set_4 | e6b3sL1 | 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) |
C [auth L] | V-set | e6b3sL2 | 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 D] | C1-set_4 | e6b3sD1 | 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 D] | V-set | e6b3sD2 | 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) |
I [auth G] | C1-set_4 | e6b3sG1 | 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) |
I [auth G] | V-set | e6b3sG2 | 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) |
L [auth K] | C1-set_4 | e6b3sK1 | 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) |
L [auth K] | V-set | e6b3sK2 | 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
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, D [auth B], G [auth E], J [auth I] | Epidermal Growth Factor Receptor (EGFR) | EGFR1 | Homo sapiens (human) | EGFR*01 | R-LIKE-DOMAIN EGFR (Pr28-459) | RPI | EGFR1 | IMGT (202448-0) |
B [auth H], E [auth C], H [auth F], K [auth J] | Necitumumab Fab | VH-CH1 | Homo sapiens (human) | IGHV4-30-4*01, 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 (202448-0) |
C [auth L], F [auth D], I [auth G], L [auth K] | Necitumumab Fab | L-KAPPA | Homo sapiens (human) | IGKV3D-11*02, IGKJ4*01, IGKJ4*02, IGKC*01 | V-DOMAIN V-KAPPA, C-DOMAIN C-KAPPA | IG | FAB-GAMMA-1_KAPPA | IMGT (202448-0) |
SAbDab Antibody Annotation SAbDab Database Homepage
Chain | Chain Class | Chain Subclass | Chain Type | Antigen Name(s) | Provenance Source |
---|---|---|---|---|---|
B [auth H], E [auth C], H [auth F], K [auth J] | Heavy Chain | IGHV4 | - | epidermal growth factor receptor | SAbDab (2024-12-06) |
C [auth L], F [auth D], I [auth G], L [auth K] | Light Chain | IGKV3 | Kappa | epidermal growth factor receptor | SAbDab (2024-12-06) |
Thera-SAbDab Antibody Annotation Thera-SAbDab Database Homepage
Chain | Name | Target | Provenance Source |
---|---|---|---|
B [auth H], E [auth C], H [auth F], K [auth J] | Necitumumab | EGFR/ERBB1/HER1 | Therapeutic SAbDab (2024-12-06) |
C [auth L], F [auth D], I [auth G], L [auth K] | Necitumumab | EGFR/ERBB1/HER1 | Therapeutic SAbDab (2024-12-06) |
Protein Family Annotation Pfam Database Homepage
Chains | Accession | Name | Description | Comments | Source |
---|---|---|---|---|---|
A, D [auth B], G [auth E], J [auth I] | PF01030 | Receptor L domain (Recep_L_domain) | Receptor L domain | - | Repeat |