2Z8W

Structure of an IgNAR-AMA1 complex

External Resource: Annotation

Domain Annotation: SCOP/SCOPe Classification
Domain Annotation: SCOP2 Classification
Domain Annotation: ECOD Classification
Domain Annotation: CATH
IMGT Antibody Annotation
Protein Family Annotation
Gene Ontology: Gene Product Annotation
InterPro: Protein Family Classification

Domain Annotation: SCOP/SCOPe Classification SCOP-e Database Homepage

Chains	Domain Info	Class	Fold	Superfamily	Family	Domain	Species	Provenance Source (Version)
C	d2z8wc1	All beta proteins	Immunoglobulin-like beta-sandwich	Immunoglobulin	V set domains (antibody variable domain-like)	automated matches	spotted wobbegong (Orectolobus maculatus ) [TaxId: 168098 ],	SCOPe (2.08)
C	d2z8wc2	Artifacts	Tags	Tags	Tags	C-terminal Tags	spotted wobbegong (Orectolobus maculatus ) [TaxId: 168098 ],	SCOPe (2.08)
D	d2z8wd1	All beta proteins	Immunoglobulin-like beta-sandwich	Immunoglobulin	V set domains (antibody variable domain-like)	automated matches	spotted wobbegong (Orectolobus maculatus ) [TaxId: 168098 ],	SCOPe (2.08)
D	d2z8wd2	Artifacts	Tags	Tags	Tags	C-terminal Tags	spotted wobbegong (Orectolobus maculatus ) [TaxId: 168098 ],	SCOPe (2.08)

Domain Annotation: SCOP2 Classification SCOP2 Database Homepage

Chains	Type	Family Name	Domain Identifier	Family Identifier	Provenance Source (Version)
C	SCOP2B Superfamily	Immunoglobulin (Ig) domain-like	8054527	3000071	SCOP2B (2022-06-29)
D	SCOP2B Superfamily	Immunoglobulin (Ig) domain-like	8054527	3000071	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	AMA-1_1st	e2z8wA1	A: few secondary structure elements	X: Hairpin loop containing domain-like (From Topology)	H: Hairpin loop containing domain-like (From Topology)	T: Hairpin loop containing domain-like	F: AMA-1_1st	ECOD (1.6)
A	AMA-1_2nd	e2z8wA2	A: few secondary structure elements	X: Hairpin loop containing domain-like (From Topology)	H: Hairpin loop containing domain-like (From Topology)	T: Hairpin loop containing domain-like	F: AMA-1_2nd	ECOD (1.6)
B	AMA-1_1st	e2z8wB1	A: few secondary structure elements	X: Hairpin loop containing domain-like (From Topology)	H: Hairpin loop containing domain-like (From Topology)	T: Hairpin loop containing domain-like	F: AMA-1_1st	ECOD (1.6)
B	AMA-1_2nd	e2z8wB2	A: few secondary structure elements	X: Hairpin loop containing domain-like (From Topology)	H: Hairpin loop containing domain-like (From Topology)	T: Hairpin loop containing domain-like	F: AMA-1_2nd	ECOD (1.6)
C	Beta-APP	e2z8wC1	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)
D	Beta-APP	e2z8wD1	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	3.50.4.10	Alpha Beta	3-Layer(bba) Sandwich	Hepatocyte Growth Factor	Hepatocyte Growth Factor	CATH (4.3.0)
B	3.50.4.10	Alpha Beta	3-Layer(bba) Sandwich	Hepatocyte Growth Factor	Hepatocyte Growth Factor	CATH (4.3.0)
C	2.60.40.10	Mainly Beta	Sandwich	Immunoglobulin-like	Immunoglobulins	CATH (4.3.0)
D	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
C, D	New antigen receptor variable domain	VH	Orectolobus maculatus (spotted wobbegong)	IGHV2S6*01, IGHJ5, IGHJ6	V-DOMAIN VH	IG	(VH)	IMGT (202449-0)

Protein Family Annotation Pfam Database Homepage

Chains	Accession	Name	Description	Comments	Source
A, B	PF02430	Apical membrane antigen 1 (AMA-1)	Apical membrane antigen 1	-	Family
C, D	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

Chains	Polymer	Molecular Function	Biological Process	Cellular Component
A, B	Apical membrane antigen 1	host cell surface binding binding	biological process involved in interspecies interaction between organisms symbiont entry into host biological process involved in interaction with host biological process involved in symbiotic interaction	cellular anatomical structure membrane membrane-bounded organelle intracellular organelle microneme intracellular anatomical structure apical part of cell organelle intracellular membrane-bounded organelle apical complex
C, D	New antigen receptor variable domain	-	-	-

InterPro: Protein Family Classification InterPro Database Homepage

Chains	Accession	Name	Type
A, B	IPR024056	Apical membrane antigen 1 domain superfamily	Homologous Superfamily
A, B	IPR003298	Apical membrane antigen 1	Family
C, D	IPR013783	Immunoglobulin-like fold	Homologous Superfamily
C, D	IPR036179	Immunoglobulin-like domain superfamily	Homologous Superfamily
C, D	IPR013106	Immunoglobulin V-set domain	Domain
C, D	IPR003599	Immunoglobulin domain subtype	Domain
C, D	IPR007110	Immunoglobulin-like domain	Domain

RCSB PDB Core Operations are funded by the U.S. National Science Foundation (DBI-2321666), the US Department of Energy (DE-SC0019749), and the National Cancer Institute, National Institute of Allergy and Infectious Diseases, and National Institute of General Medical Sciences of the National Institutes of Health under grant R01GM157729.