7N1H | pdb_00007n1h

CryoEM structure of Venezuelan equine encephalitis virus VLP in complex with the LDLRAD3 receptor

External Resource: Annotation

Domain Annotation: ECOD Classification
Protein Family Annotation
Gene Ontology: Gene Product Annotation
InterPro: Protein Family Classification

Domain Annotation: ECOD Classification ECOD Database Homepage

Chains	Family Name	Domain Identifier	Architecture	Possible Homology	Homology	Topology	Family	Provenance Source (Version)
G [auth L]	Secretin_N	e7n1hL1	A: a/b three-layered sandwiches	X: RNase A-like	H: Immunoglobulin-related	T: Immunoglobulin/Fibronectin type III/E set domains/PapD-like	F: Secretin_N	ECOD (v294.1)
J [auth K]	Secretin_N	e7n1hK1	A: a/b three-layered sandwiches	X: RNase A-like	H: Immunoglobulin-related	T: Immunoglobulin/Fibronectin type III/E set domains/PapD-like	F: Secretin_N	ECOD (v294.1)
M [auth J]	Secretin_N	e7n1hJ1	A: a/b three-layered sandwiches	X: RNase A-like	H: Immunoglobulin-related	T: Immunoglobulin/Fibronectin type III/E set domains/PapD-like	F: Secretin_N	ECOD (v294.1)
P [auth I]	Secretin_N	e7n1hI1	A: a/b three-layered sandwiches	X: RNase A-like	H: Immunoglobulin-related	T: Immunoglobulin/Fibronectin type III/E set domains/PapD-like	F: Secretin_N	ECOD (v294.1)
N [auth A]	Secretin_N	e7n1hA1	A: a/b three-layered sandwiches	X: RNase A-like	H: Immunoglobulin-related	T: Immunoglobulin/Fibronectin type III/E set domains/PapD-like	F: Secretin_N	ECOD (v294.1)
K [auth B]	Secretin_N	e7n1hB1	A: a/b three-layered sandwiches	X: RNase A-like	H: Immunoglobulin-related	T: Immunoglobulin/Fibronectin type III/E set domains/PapD-like	F: Secretin_N	ECOD (v294.1)
H [auth C]	Secretin_N	e7n1hC1	A: a/b three-layered sandwiches	X: RNase A-like	H: Immunoglobulin-related	T: Immunoglobulin/Fibronectin type III/E set domains/PapD-like	F: Secretin_N	ECOD (v294.1)
E [auth D]	Secretin_N	e7n1hD1	A: a/b three-layered sandwiches	X: RNase A-like	H: Immunoglobulin-related	T: Immunoglobulin/Fibronectin type III/E set domains/PapD-like	F: Secretin_N	ECOD (v294.1)
B [auth M]	Secretin_N	e7n1hM1	A: a/b three-layered sandwiches	X: RNase A-like	H: Immunoglobulin-related	T: Immunoglobulin/Fibronectin type III/E set domains/PapD-like	F: Secretin_N	ECOD (v294.1)
D [auth P]	Secretin_N	e7n1hP1	A: a/b three-layered sandwiches	X: RNase A-like	H: Immunoglobulin-related	T: Immunoglobulin/Fibronectin type III/E set domains/PapD-like	F: Secretin_N	ECOD (v294.1)
C [auth N]	Secretin_N	e7n1hN1	A: a/b three-layered sandwiches	X: RNase A-like	H: Immunoglobulin-related	T: Immunoglobulin/Fibronectin type III/E set domains/PapD-like	F: Secretin_N	ECOD (v294.1)
A [auth O]	Secretin_N	e7n1hO1	A: a/b three-layered sandwiches	X: RNase A-like	H: Immunoglobulin-related	T: Immunoglobulin/Fibronectin type III/E set domains/PapD-like	F: Secretin_N	ECOD (v294.1)

Protein Family Annotation Pfam Database Homepage

Chains	Accession	Name	Description	Comments	Source
A [auth O], B [auth M], C [auth N], D [auth P]	PF00057	Low-density lipoprotein receptor domain class A (Ldl_recept_a)	Low-density lipoprotein receptor domain class A	-	Repeat

Gene Ontology: Gene Product Annotation Gene Ontology Database Homepage

Chains	Polymer	Molecular Function	Biological Process	Cellular Component
G [auth L], J [auth K], M [auth J], P [auth I]	Capsid	peptidase activity catalytic activity, acting on a protein serine hydrolase activity serine-type peptidase activity hydrolase activity serine-type endopeptidase activity catalytic activity endopeptidase activity RNA binding binding nucleic acid binding structural molecule activity	viral process fusion of virus membrane with host endosome membrane membrane fusion involved in viral entry into host cell biological process involved in interspecies interaction between organisms symbiont entry into host cell symbiont entry into host viral life cycle biological process involved in interaction with host biological process involved in symbiotic interaction virion attachment to host cell adhesion of symbiont to host cell adhesion of symbiont to host proteolysis metabolic process viral process fusion of virus membrane with host endosome membrane membrane fusion involved in viral entry into host cell biological process involved in interspecies interaction between organisms symbiont entry into host cell symbiont entry into host viral life cycle biological process involved in interaction with host biological process involved in symbiotic interaction virion attachment to host cell adhesion of symbiont to host cell adhesion of symbiont to host proteolysis metabolic process cellular process primary metabolic process protein metabolic process macromolecule metabolic process	host cell plasma membrane host cellular component cellular anatomical structure host cell part host cell membrane other organism part host intracellular part host cell cytoplasm host intracellular region virion component virion membrane viral capsid icosahedral viral capsid T=4 icosahedral viral capsid host cell plasma membrane host cellular component cellular anatomical structure host cell part host cell membrane other organism part host intracellular part host cell cytoplasm host intracellular region virion component virion membrane viral capsid icosahedral viral capsid T=4 icosahedral viral capsid host intracellular membrane-bounded organelle host cell nucleus host intracellular organelle
F [auth H], I [auth G], L [auth F], O [auth E]	E2 envelope glycoprotein	peptidase activity catalytic activity, acting on a protein serine hydrolase activity serine-type peptidase activity hydrolase activity serine-type endopeptidase activity catalytic activity endopeptidase activity RNA binding binding nucleic acid binding structural molecule activity	viral process fusion of virus membrane with host endosome membrane membrane fusion involved in viral entry into host cell biological process involved in interspecies interaction between organisms symbiont entry into host cell symbiont entry into host viral life cycle biological process involved in interaction with host biological process involved in symbiotic interaction virion attachment to host cell adhesion of symbiont to host cell adhesion of symbiont to host proteolysis metabolic process viral process fusion of virus membrane with host endosome membrane membrane fusion involved in viral entry into host cell biological process involved in interspecies interaction between organisms symbiont entry into host cell symbiont entry into host viral life cycle biological process involved in interaction with host biological process involved in symbiotic interaction virion attachment to host cell adhesion of symbiont to host cell adhesion of symbiont to host proteolysis metabolic process cellular process primary metabolic process protein metabolic process macromolecule metabolic process	host cell plasma membrane host cellular component cellular anatomical structure host cell part host cell membrane other organism part host intracellular part host cell cytoplasm host intracellular region virion component virion membrane viral capsid icosahedral viral capsid T=4 icosahedral viral capsid host cell plasma membrane host cellular component cellular anatomical structure host cell part host cell membrane other organism part host intracellular part host cell cytoplasm host intracellular region virion component virion membrane viral capsid icosahedral viral capsid T=4 icosahedral viral capsid host intracellular membrane-bounded organelle host cell nucleus host intracellular organelle
E [auth D], H [auth C], K [auth B], N [auth A]	E1 envelope glycoprotein	peptidase activity catalytic activity, acting on a protein serine hydrolase activity serine-type peptidase activity hydrolase activity serine-type endopeptidase activity catalytic activity endopeptidase activity RNA binding binding nucleic acid binding structural molecule activity	viral process fusion of virus membrane with host endosome membrane membrane fusion involved in viral entry into host cell biological process involved in interspecies interaction between organisms symbiont entry into host cell symbiont entry into host viral life cycle biological process involved in interaction with host biological process involved in symbiotic interaction virion attachment to host cell adhesion of symbiont to host cell adhesion of symbiont to host proteolysis metabolic process viral process fusion of virus membrane with host endosome membrane membrane fusion involved in viral entry into host cell biological process involved in interspecies interaction between organisms symbiont entry into host cell symbiont entry into host viral life cycle biological process involved in interaction with host biological process involved in symbiotic interaction virion attachment to host cell adhesion of symbiont to host cell adhesion of symbiont to host proteolysis metabolic process cellular process primary metabolic process protein metabolic process macromolecule metabolic process	host cell plasma membrane host cellular component cellular anatomical structure host cell part host cell membrane other organism part host intracellular part host cell cytoplasm host intracellular region virion component virion membrane viral capsid icosahedral viral capsid T=4 icosahedral viral capsid host cell plasma membrane host cellular component cellular anatomical structure host cell part host cell membrane other organism part host intracellular part host cell cytoplasm host intracellular region virion component virion membrane viral capsid icosahedral viral capsid T=4 icosahedral viral capsid host intracellular membrane-bounded organelle host cell nucleus host intracellular organelle
A [auth O], B [auth M], C [auth N], D [auth P]	Low-density lipoprotein receptor class A domain-containing protein 3	amyloid-beta binding binding peptide binding	regulation of protein maturation regulation of cellular process regulation of primary metabolic process protein maturation regulation of proteolysis proteolysis protein metabolic process regulation of biosynthetic process regulation of biological process regulation of protein metabolic process biological regulation primary metabolic process regulation of macromolecule metabolic process gene expression regulation of protein maturation regulation of cellular process regulation of primary metabolic process protein maturation regulation of proteolysis proteolysis protein metabolic process regulation of biosynthetic process regulation of biological process regulation of protein metabolic process biological regulation primary metabolic process regulation of macromolecule metabolic process gene expression macromolecule biosynthetic process regulation of gene expression biosynthetic process regulation of protein processing protein processing metabolic process cellular process regulation of macromolecule biosynthetic process macromolecule metabolic process regulation of metabolic process localization import into cell transport receptor-mediated endocytosis endocytosis establishment of localization vesicle-mediated transport	cell periphery cellular anatomical structure plasma membrane membrane

InterPro: Protein Family Classification InterPro Database Homepage

Chains	Accession	Name	Type
G [auth L], J [auth K], M [auth J], P [auth I]	IPR002533	Alphavirus E3 spike glycoprotein	Domain
G [auth L], J [auth K], M [auth J], P [auth I]	IPR038055	Flaviviral glycoprotein E, dimerisation domain	Homologous Superfamily
G [auth L], J [auth K], M [auth J], P [auth I]	IPR014756	Immunoglobulin E-set	Homologous Superfamily
G [auth L], J [auth K], M [auth J], P [auth I]	IPR042304	Alphavirus E2 glycoprotein, domain A	Homologous Superfamily
G [auth L], J [auth K], M [auth J], P [auth I]	IPR036253	Flavivirus glycoprotein, central and dimerisation domain superfamily	Homologous Superfamily
G [auth L], J [auth K], M [auth J], P [auth I]	IPR043504	Peptidase_S1_PA_chymotrypsin	Unknown
G [auth L], J [auth K], M [auth J], P [auth I]	IPR009003	Peptidase S1, PA clan	Homologous Superfamily
G [auth L], J [auth K], M [auth J], P [auth I]	IPR042305	Alphavirus E2 glycoprotein, domain B	Homologous Superfamily
G [auth L], J [auth K], M [auth J], P [auth I]	IPR042306	Alphavirus E2 glycoprotein, domain C	Homologous Superfamily
G [auth L], J [auth K], M [auth J], P [auth I]	IPR000936	Alphavirus E2 glycoprotein	Family
G [auth L], J [auth K], M [auth J], P [auth I]	IPR000930	Peptidase S3, togavirin	Domain
G [auth L], J [auth K], M [auth J], P [auth I]	IPR002548	Alphavirus E1 glycoprotein	Domain
G [auth L], J [auth K], M [auth J], P [auth I]	IPR000336	Flavivirus/Alphavirus glycoprotein, immunoglobulin-like domain superfamily	Homologous Superfamily
F [auth H], I [auth G], L [auth F], O [auth E]	IPR002533	Alphavirus E3 spike glycoprotein	Domain
F [auth H], I [auth G], L [auth F], O [auth E]	IPR038055	Flaviviral glycoprotein E, dimerisation domain	Homologous Superfamily
F [auth H], I [auth G], L [auth F], O [auth E]	IPR014756	Immunoglobulin E-set	Homologous Superfamily
F [auth H], I [auth G], L [auth F], O [auth E]	IPR042304	Alphavirus E2 glycoprotein, domain A	Homologous Superfamily
F [auth H], I [auth G], L [auth F], O [auth E]	IPR036253	Flavivirus glycoprotein, central and dimerisation domain superfamily	Homologous Superfamily
F [auth H], I [auth G], L [auth F], O [auth E]	IPR043504	Peptidase_S1_PA_chymotrypsin	Unknown
F [auth H], I [auth G], L [auth F], O [auth E]	IPR009003	Peptidase S1, PA clan	Homologous Superfamily
F [auth H], I [auth G], L [auth F], O [auth E]	IPR042305	Alphavirus E2 glycoprotein, domain B	Homologous Superfamily
F [auth H], I [auth G], L [auth F], O [auth E]	IPR042306	Alphavirus E2 glycoprotein, domain C	Homologous Superfamily
F [auth H], I [auth G], L [auth F], O [auth E]	IPR000936	Alphavirus E2 glycoprotein	Family
F [auth H], I [auth G], L [auth F], O [auth E]	IPR000930	Peptidase S3, togavirin	Domain
F [auth H], I [auth G], L [auth F], O [auth E]	IPR002548	Alphavirus E1 glycoprotein	Domain
F [auth H], I [auth G], L [auth F], O [auth E]	IPR000336	Flavivirus/Alphavirus glycoprotein, immunoglobulin-like domain superfamily	Homologous Superfamily
E [auth D], H [auth C], K [auth B], N [auth A]	IPR002533	Alphavirus E3 spike glycoprotein	Domain
E [auth D], H [auth C], K [auth B], N [auth A]	IPR038055	Flaviviral glycoprotein E, dimerisation domain	Homologous Superfamily
E [auth D], H [auth C], K [auth B], N [auth A]	IPR014756	Immunoglobulin E-set	Homologous Superfamily
E [auth D], H [auth C], K [auth B], N [auth A]	IPR042304	Alphavirus E2 glycoprotein, domain A	Homologous Superfamily
E [auth D], H [auth C], K [auth B], N [auth A]	IPR036253	Flavivirus glycoprotein, central and dimerisation domain superfamily	Homologous Superfamily
E [auth D], H [auth C], K [auth B], N [auth A]	IPR043504	Peptidase_S1_PA_chymotrypsin	Unknown
E [auth D], H [auth C], K [auth B], N [auth A]	IPR009003	Peptidase S1, PA clan	Homologous Superfamily
E [auth D], H [auth C], K [auth B], N [auth A]	IPR042305	Alphavirus E2 glycoprotein, domain B	Homologous Superfamily
E [auth D], H [auth C], K [auth B], N [auth A]	IPR042306	Alphavirus E2 glycoprotein, domain C	Homologous Superfamily
E [auth D], H [auth C], K [auth B], N [auth A]	IPR000936	Alphavirus E2 glycoprotein	Family
E [auth D], H [auth C], K [auth B], N [auth A]	IPR000930	Peptidase S3, togavirin	Domain
E [auth D], H [auth C], K [auth B], N [auth A]	IPR002548	Alphavirus E1 glycoprotein	Domain
E [auth D], H [auth C], K [auth B], N [auth A]	IPR000336	Flavivirus/Alphavirus glycoprotein, immunoglobulin-like domain superfamily	Homologous Superfamily
A [auth O], B [auth M], C [auth N], D [auth P]	IPR002172	Low-density lipoprotein (LDL) receptor class A repeat	Repeat
A [auth O], B [auth M], C [auth N], D [auth P]	IPR023415	Low-density lipoprotein (LDL) receptor class A, conserved site	Conserved Site
A [auth O], B [auth M], C [auth N], D [auth P]	IPR036055	LDL receptor-like superfamily	Homologous Superfamily
A [auth O], B [auth M], C [auth N], D [auth P]	IPR050685	Low-density lipoprotein receptor	Family