1SQ2
Crystal Structure Analysis of the Nurse Shark New Antigen Receptor (NAR) Variable Domain in Complex With Lysozyme
Domain Annotation: SCOP/SCOPe Classification SCOP-e Database Homepage
Chains | Domain Info | Class | Fold | Superfamily | Family | Domain | Species | Provenance Source (Version) |
---|---|---|---|---|---|---|---|---|
A [auth L] | d1sq2l_ | Alpha and beta proteins (a+b) | Lysozyme-like | Lysozyme-like | C-type lysozyme | Lysozyme | (Gallus gallus ) [TaxId: 9031 ], | SCOPe (2.08) |
B [auth N] | d1sq2n_ | All beta proteins | Immunoglobulin-like beta-sandwich | Immunoglobulin | V set domains (antibody variable domain-like) | Novel antigen receptor (against lysozyme) | nurse shark (Ginglymostoma cirratum ) [TaxId: 7801 ], | SCOPe (2.08) |
Domain Annotation: SCOP2 Classification SCOP2 Database Homepage
Chains | Type | Family Name | Domain Identifier | Family Identifier | Provenance Source (Version) |
---|---|---|---|---|---|
A [auth L] | SCOP2B Superfamily | Lysozyme-like | 8037428 | 3001879 | SCOP2B (2022-06-29) |
B [auth N] | SCOP2 Family | V set domains-like | 8054518 | 4007530 | SCOP2 (2022-06-29) |
B [auth N] | SCOP2 Superfamily | Immunoglobulin (Ig) domain-like | 8054519 | 3000071 | SCOP2 (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 [auth L] | Lys | e1sq2L1 | A: a+b complex topology | X: Lysozyme-like (From Homology) | H: Lysozyme-like | T: Lysozyme-like | F: Lys | ECOD (1.6) |
B [auth N] | Beta-APP | e1sq2N1 | A: beta sandwiches | X: Immunoglobulin-like beta-sandwich | H: Immunoglobulin-related | T: Immunoglobulin/Fibronectin type III/E set domains/PapD-like | F: Beta-APP | ECOD (1.6) |
Domain Annotation: CATH CATH Database Homepage
Chain | Domain | Class | Architecture | Topology | Homology | Provenance Source (Version) |
---|---|---|---|---|---|---|
A [auth L] | 1.10.530.10 | Mainly Alpha | Orthogonal Bundle | Lysozyme | CATH (4.3.0) | |
B [auth N] | 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 N] | VH IGHN (IgNAR), anti-lysozyme C [hen egg white] | VH | Ginglymostoma cirratum (nurse shark) | IGHV2S46*01, IGHJ16*01, IGHJ32*01, IGHJ38*01, IGHJ45*01, IGHJ47*01 | V-DOMAIN VH | IG | (VH) | IMGT (202449-0) |
Protein Family Annotation Pfam Database Homepage
Chains | Accession | Name | Description | Comments | Source |
---|---|---|---|---|---|
A [auth L] | PF00062 | C-type lysozyme/alpha-lactalbumin family (Lys) | C-type lysozyme/alpha-lactalbumin family | Alpha-lactalbumin is the regulatory subunit of lactose synthase, changing the substrate specificity of galactosyltransferase from N-acetylglucosamine to glucose. C-type lysozymes are secreted bacteriolytic enzymes that cleave the peptidoglycan of bac ... | Domain |
B [auth N] | PF07686 | Immunoglobulin V-set domain (V-set) | Immunoglobulin V-set domain | This domain is found in antibodies as well as neural protein P0 and CTL4 amongst others. | Domain |
Gene Ontology: Gene Product Annotation Gene Ontology Database Homepage
InterPro: Protein Family Classification InterPro Database Homepage
Chains | Accession | Name | Type |
---|---|---|---|
A [auth L] | IPR001916 | Glycoside hydrolase, family 22 | Family |
A [auth L] | IPR023346 | Lysozyme-like domain superfamily | Homologous Superfamily |
A [auth L] | IPR019799 | Glycoside hydrolase family 22 domain | Domain |
A [auth L] | IPR000974 | Glycoside hydrolase, family 22, lysozyme | Family |
B [auth N] | IPR051006 | T cell receptor variable domain | Family |
B [auth N] | IPR013783 | Immunoglobulin-like fold | Homologous Superfamily |
B [auth N] | IPR036179 | Immunoglobulin-like domain superfamily | Homologous Superfamily |
B [auth N] | IPR013106 | Immunoglobulin V-set domain | Domain |
B [auth N] | IPR003599 | Immunoglobulin domain subtype | Domain |
B [auth N] | IPR007110 | Immunoglobulin-like domain | Domain |