6ICC
The NZ-1 Fab complexed with the PDZ tandem fragment of A. aeolicus S2P homolog with the PA12 tag inserted between the residues 181 and 186
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 [auth H] | d6icch_ | All beta proteins | Immunoglobulin-like beta-sandwich | Immunoglobulin | V set domains (antibody variable domain-like) | automated matches | (Rattus norvegicus ) [TaxId: 10116 ], | SCOPe (2.08) |
C [auth L] | d6iccl1 | All beta proteins | Immunoglobulin-like beta-sandwich | Immunoglobulin | automated matches | automated matches | (Rattus norvegicus ) [TaxId: 10116 ], | 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 | PDZ_2 | e6iccA2 | A: beta barrels | X: PDZ domain (From Topology) | H: PDZ domain (From Topology) | T: PDZ domain | F: PDZ_2 | ECOD (1.6) |
B [auth H] | C1-set_1 | e6iccH1 | 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) |
B [auth H] | V-set_10 | e6iccH2 | A: beta sandwiches | X: Immunoglobulin-like beta-sandwich | H: Immunoglobulin-related | T: Immunoglobulin/Fibronectin type III/E set domains/PapD-like | F: V-set_10 | ECOD (1.6) |
C [auth L] | C1-set_1 | e6iccL1 | 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] | V-set_3 | e6iccL2 | A: beta sandwiches | X: Immunoglobulin-like beta-sandwich | H: Immunoglobulin-related | T: Immunoglobulin/Fibronectin type III/E set domains/PapD-like | F: V-set_3 | ECOD (1.6) |
Domain Annotation: CATH CATH Database Homepage
Chain | Domain | Class | Architecture | Topology | Homology | Provenance Source (Version) |
---|---|---|---|---|---|---|
A | 2.30.42.10 | Mainly Beta | Roll | Pdz3 Domain | PDZ domain | CATH (4.3.0) |
B [auth H] | 2.60.40.10 | Mainly Beta | Sandwich | Immunoglobulin-like | Immunoglobulins | CATH (utative) |
C [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 |
---|---|---|---|---|---|---|---|---|
B [auth H] | Fab NZ-1 | VH-CH1 | Rattus norvegicus (Norway rat) | IGHV5S14*01, IGHJ2*01, IGHG2A*01 | V-DOMAIN VH, C-DOMAIN CH1 | IG | FAB-GAMMA-2A_LAMBDA | IMGT (202436-0) |
C [auth L] | Fab NZ-1 | L-LAMBDA | Rattus norvegicus (Norway rat) | IGLV3S2*01, IGLJ1*01, IGLC1*01, IGLC3*01 | V-DOMAIN V-LAMBDA, C-DOMAIN C-LAMBDA | IG | FAB-GAMMA-2A_LAMBDA | IMGT (202436-0) |
SAbDab Antibody Annotation SAbDab Database Homepage
Chain | Chain Class | Chain Subclass | Chain Type | Antigen Name(s) | Provenance Source |
---|---|---|---|---|---|
B [auth H] | Heavy Chain | IGHV5 | - | pdz tandem fragment with pa tag | SAbDab (2024-09-13) |
C [auth L] | Light Chain | IGLV3 | Lambda | pdz tandem fragment with pa tag | SAbDab (2024-09-13) |
Protein Family Annotation Pfam Database Homepage
Chains | Accession | Name | Description | Comments | Source |
---|---|---|---|---|---|
PF13180 | PDZ domain (PDZ_2) | PDZ domain | - | Domain | |
PF17820 | PDZ domain (PDZ_6) | PDZ domain | This entry represents the PDZ domain from a wide variety of proteins. | Domain | |
Gene Ontology: Gene Product Annotation Gene Ontology Database Homepage
Chains | Polymer | Molecular Function | Biological Process | Cellular Component |
---|---|---|---|---|
PDZ tandem fragment with PA tag | ||||
B [auth H] | Heavy chain of antigen binding fragment, Fab of NZ-1 | - | - | - |
C [auth L] | Light chain of antigen binding fragment, Fab of NZ-1 | - | - | - |
InterPro: Protein Family Classification InterPro Database Homepage
Chains | Accession | Name | Type |
---|---|---|---|
IPR004387 | Peptidase M50, putative membrane-associated zinc metallopeptidase | Family | |
IPR041489 | PDZ domain 6 | Domain | |
IPR008915 | Peptidase M50 | Domain | |
IPR001478 | PDZ domain | Domain | |
IPR036034 | PDZ superfamily | Homologous Superfamily |
Protein Modification Annotation
Modified Residue(s) | ||
---|---|---|
Chain | Residue(s) | Description |
SNN | Parent Component: ASN :  AA0302 , AA0593 :  L-aspartimide MOD:00307 , 2-(2-aminosuccinimidyl)pentanedioic acid (Asn) MOD:01940 , 2-(2-aminosuccinimidyl)pentanedioic acid (Asp) MOD:01941 | |
C [auth L] | PCA | Parent Component: GLN :  AA0302 , AA0593 , AA0031 :  L-aspartimide MOD:00307 , 2-(2-aminosuccinimidyl)pentanedioic acid (Asn) MOD:01940 , 2-(2-aminosuccinimidyl)pentanedioic acid (Asp) MOD:01941 , 2-pyrrolidone-5-carboxylic acid (Gln) MOD:00040 , 2-pyrrolidone-5-carboxylic acid (Glu) MOD:00420 |