6N8D
Crystal structure of GII.4 2002 norovirus P domain in complex with neutralizing human antibody A1431
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 [auth C] | Calici_coat_C_N,Calici_coat_C_C | e6n8dC1 | A: beta sandwiches | X: jelly-roll | H: Nucleoplasmin-like/VP (viral coat and capsid proteins) (From Topology) | T: Nucleoplasmin-like/VP (viral coat and capsid proteins) | F: Calici_coat_C_N,Calici_coat_C_C | ECOD (1.6) |
D [auth A] | Calici_coat_C_N,Calici_coat_C_C | e6n8dA1 | A: beta sandwiches | X: jelly-roll | H: Nucleoplasmin-like/VP (viral coat and capsid proteins) (From Topology) | T: Nucleoplasmin-like/VP (viral coat and capsid proteins) | F: Calici_coat_C_N,Calici_coat_C_C | ECOD (1.6) |
B [auth E] | C1-set_4 | e6n8dE2 | 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 E] | V-set | e6n8dE1 | 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) |
E [auth B] | C1-set_4 | e6n8dB1 | 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 B] | V-set | e6n8dB2 | 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 F] | C1-set_1 | e6n8dF2 | 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 F] | V-set_12 | e6n8dF1 | 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 D] | C1-set_1 | e6n8dD1 | 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) |
F [auth D] | V-set_12 | e6n8dD2 | 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 [auth C] | 2.40.510.10 | Mainly Beta | Beta Barrel | Nucleoplasmin-like/VP (viral coat and capsid proteins) | Positive stranded ssRNA viruses | CATH (utative) |
A [auth C] | 2.40.30.120 | Mainly Beta | Beta Barrel | Elongation Factor Tu (Ef-tu) | domain 3 | CATH (utative) |
D [auth A] | 2.40.510.10 | Mainly Beta | Beta Barrel | Nucleoplasmin-like/VP (viral coat and capsid proteins) | Positive stranded ssRNA viruses | CATH (utative) |
D [auth A] | 2.40.30.120 | Mainly Beta | Beta Barrel | Elongation Factor Tu (Ef-tu) | domain 3 | CATH (utative) |
B [auth E] | 2.60.40.10 | Mainly Beta | Sandwich | Immunoglobulin-like | Immunoglobulins | CATH (utative) |
E [auth B] | 2.60.40.10 | Mainly Beta | Sandwich | Immunoglobulin-like | Immunoglobulins | CATH (utative) |
C [auth F] | 2.60.40.10 | Mainly Beta | Sandwich | Immunoglobulin-like | Immunoglobulins | CATH (utative) |
F [auth D] | 2.60.40.10 | Mainly Beta | Sandwich | Immunoglobulin-like | Immunoglobulins | CATH (utative) |
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 E], E [auth B] | Fab A1431 | L-KAPPA | Homo sapiens (human) | IGKV3-11*01, IGKJ4*01, IGKJ4*02, IGKC*01 | V-DOMAIN V-KAPPA, C-DOMAIN C-KAPPA | IG | FAB-GAMMA-1_KAPPA | IMGT (202436-0) |
C [auth F], F [auth D] | Fab A1431 | VH-CH1 | Homo sapiens (human) | IGHV3-48*02, IGHJ4*01, IGHJ4*02, IGHJ4*03, IGHG1*01, IGHG1*02, IGHG1*04, IGHG1*05, IGHG1*12, IGHG1*14, IGHG1*13, IGHG1*09, IGHG1*10, IGHG1*07, IGHG1*11 | V-DOMAIN VH, C-DOMAIN CH1 | 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 |
---|---|---|---|---|---|
B [auth E], E [auth B] | Light Chain | IGKV3 | Kappa | major capsid protein | SAbDab (2024-09-13) |
C [auth F], F [auth D] | Heavy Chain | IGHV3 | - | major capsid protein | SAbDab (2024-09-13) |
Protein Family Annotation Pfam Database Homepage
Chains | Accession | Name | Description | Comments | Source |
---|---|---|---|---|---|
A [auth C], D [auth A] | PF08435 | Calicivirus coat protein C-terminal (Calici_coat_C) | Calicivirus coat protein C-terminal | - | Family |
InterPro: Protein Family Classification InterPro Database Homepage
Chains | Accession | Name | Type |
---|---|---|---|
A [auth C], D [auth A] | IPR029053 | Viral coat protein subunit | Homologous Superfamily |
A [auth C], D [auth A] | IPR004005 | Calicivirus coat protein | Domain |
A [auth C], D [auth A] | IPR013643 | Calicivirus coat protein C-terminal | Domain |
A [auth C], D [auth A] | IPR033703 | Picornavirus/Calicivirus coat protein | Domain |