5IIA | pdb_00005iia

Crystal structure of red abalone egg VERL repeat 3 in complex with sperm lysin at 1.7 A resolution (crystal form I)

External Resource: Annotation

Domain Annotation: SCOP/SCOPe Classification
Domain Annotation: SCOP2 Classification
Domain Annotation: ECOD Classification
Domain Annotation: CATH
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)
G	d5iiag_	All alpha proteins	Fertilization protein	Fertilization protein	Fertilization protein	Lysin	California red abalone (Haliotis rufescens ) [TaxId: 6454 ],	SCOPe (2.08)
E	d5iiae_	All alpha proteins	Fertilization protein	Fertilization protein	Fertilization protein	Lysin	California red abalone (Haliotis rufescens ) [TaxId: 6454 ],	SCOPe (2.08)
C	d5iiac_	All alpha proteins	Fertilization protein	Fertilization protein	Fertilization protein	Lysin	California red abalone (Haliotis rufescens ) [TaxId: 6454 ],	SCOPe (2.08)
A	d5iiaa_	All alpha proteins	Fertilization protein	Fertilization protein	Fertilization protein	Lysin	California red abalone (Haliotis rufescens ) [TaxId: 6454 ],	SCOPe (2.08)

Domain Annotation: SCOP2 Classification SCOP2 Database Homepage

Chains	Type	Family Name	Domain Identifier	Family Identifier	Provenance Source (Version)
G	SCOP2B Superfamily	Fertilization protein	8036754	3001337	SCOP2B (2022-06-29)
E	SCOP2B Superfamily	Fertilization protein	8036754	3001337	SCOP2B (2022-06-29)
C	SCOP2B Superfamily	Fertilization protein	8036754	3001337	SCOP2B (2022-06-29)
A	SCOP2B Superfamily	Fertilization protein	8036754	3001337	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)
H	ECH_1	e5iiaH1	A: a/b three-layered sandwiches	X: P-loop domains-like	H: Immunoglobulin-related	T: HAD-like	F: ECH_1	ECOD (v294.1)
F	ECH_1	e5iiaF1	A: a/b three-layered sandwiches	X: P-loop domains-like	H: Immunoglobulin-related	T: HAD-like	F: ECH_1	ECOD (v294.1)
D	ECH_1	e5iiaD1	A: a/b three-layered sandwiches	X: P-loop domains-like	H: Immunoglobulin-related	T: HAD-like	F: ECH_1	ECOD (v294.1)
B	ILV_EDD_C	e5iiaB1	A: a/b three-layered sandwiches	X: HAD domain-like	H: The swivelling beta/beta/alpha domain	T: The swivelling beta/beta/alpha domain	F: ILV_EDD_C	ECOD (v294.1)
G	Aminotran_3	e5iiaG1	A: a/b three-layered sandwiches	X: HAD domain-like	H: The swivelling beta/beta/alpha domain	T: The swivelling beta/beta/alpha domain	F: Aminotran_3	ECOD (v294.1)
E	Aminotran_3	e5iiaE1	A: a/b three-layered sandwiches	X: HAD domain-like	H: The swivelling beta/beta/alpha domain	T: The swivelling beta/beta/alpha domain	F: Aminotran_3	ECOD (v294.1)
C	Aminotran_3	e5iiaC1	A: a/b three-layered sandwiches	X: HAD domain-like	H: The swivelling beta/beta/alpha domain	T: The swivelling beta/beta/alpha domain	F: Aminotran_3	ECOD (v294.1)
A	Aminotran_3	e5iiaA1	A: a/b three-layered sandwiches	X: HAD domain-like	H: The swivelling beta/beta/alpha domain	T: The swivelling beta/beta/alpha domain	F: Aminotran_3	ECOD (v294.1)

Domain Annotation: CATH CATH Database Homepage

Chain	Domain	Class	Architecture	Topology	Homology	Provenance Source (Version)
G	1.20.150.10	Mainly Alpha	Up-down Bundle	Lysin	Fertilization protein	CATH (4.3.0)
E	1.20.150.10	Mainly Alpha	Up-down Bundle	Lysin	Fertilization protein	CATH (4.3.0)
C	1.20.150.10	Mainly Alpha	Up-down Bundle	Lysin	Fertilization protein	CATH (4.3.0)
A	1.20.150.10	Mainly Alpha	Up-down Bundle	Lysin	Fertilization protein	CATH (4.3.0)

Gene Ontology: Gene Product Annotation Gene Ontology Database Homepage

Chains	Polymer	Molecular Function	Biological Process	Cellular Component
B, D, F, H	Vitelline envelope sperm lysin receptor	-	sperm-egg recognition sexual reproduction cell-cell recognition reproductive process fertilization cell recognition cellular process single fertilization	cell periphery cellular anatomical structure plasma membrane membrane vitelline envelope extracellular matrix external encapsulating structure egg coat specialized extracellular matrix
A, C, E, G	Egg-lysin	-	sexual reproduction reproductive process fertilization single fertilization	membrane-bounded organelle intracellular anatomical structure intracellular vesicle membrane-enclosed lumen lytic vacuole cytoplasmic vesicle lumen vacuolar lumen endomembrane system intracellular organelle lumen intracellular organelle cellular anatomical structure cytoplasmic vesicle vesicle lysosome membrane-bounded organelle intracellular anatomical structure intracellular vesicle membrane-enclosed lumen lytic vacuole cytoplasmic vesicle lumen vacuolar lumen endomembrane system intracellular organelle lumen intracellular organelle cellular anatomical structure cytoplasmic vesicle vesicle lysosome acrosomal vesicle vesicle lumen vacuole intracellular membrane-bounded organelle secretory granule lumen acrosomal lumen lysosomal lumen organelle lumen organelle secretory granule secretory vesicle cytoplasm

InterPro: Protein Family Classification InterPro Database Homepage

Chains	Accession	Name	Type
B, D, F, H	IPR001507	Zona pellucida domain	Domain
B, D, F, H	IPR021526	Vitelline envelope, lysin receptor	Family
B, D, F, H	IPR057371	Vitelline envelope sperm lysin receptor, C-terminal domain	Domain
A, C, E, G	IPR035916	Egg-lysin superfamily	Homologous Superfamily
A, C, E, G	IPR001379	Egg lysin (Sperm-lysin)	Family

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. RCSB PDB uses resources of the National Energy Research Scientific Computing Center (NERSC), a Department of Energy User Facility.