Annotations: 8SQN

CryoEM structure of Western equine encephalitis virus VLP in complex with the chimeric Du-D1-Mo-D2 MXRA8 receptor

External Resource: Annotation

Domain Annotation: ECOD Classification
Protein Family Annotation
Gene Ontology: Gene Product Annotation
InterPro: Protein Family Classification
Membrane Protein Annotation: PDBTM
Membrane Protein Annotation: MemProtMD

Domain Annotation: ECOD Classification ECOD Database Homepage

Chains	Family Name	Domain Identifier	Architecture	Possible Homology	Homology	Topology	Family	Provenance Source (Version)
C [auth D]	WD40	e8sqnD1	A: beta barrels	X: cradle loop barrel	H: RIFT-related	T: acid protease	F: WD40	ECOD (v294.2)
I [auth P]	WD40	e8sqnP1	A: beta barrels	X: cradle loop barrel	H: RIFT-related	T: acid protease	F: WD40	ECOD (v294.2)
G [auth L]	WD40	e8sqnL1	A: beta barrels	X: cradle loop barrel	H: RIFT-related	T: acid protease	F: WD40	ECOD (v294.2)
E [auth H]	WD40	e8sqnH1	A: beta barrels	X: cradle loop barrel	H: RIFT-related	T: acid protease	F: WD40	ECOD (v294.2)
H [auth N]	WD40	e8sqnN1	A: beta barrels	X: cradle loop barrel	H: RIFT-related	T: acid protease	F: WD40	ECOD (v294.2)
F [auth J]	WD40	e8sqnJ1	A: beta barrels	X: cradle loop barrel	H: RIFT-related	T: acid protease	F: WD40	ECOD (v294.2)
D [auth F]	WD40	e8sqnF1	A: beta barrels	X: cradle loop barrel	H: RIFT-related	T: acid protease	F: WD40	ECOD (v294.2)
B	WD40	e8sqnB1	A: beta barrels	X: cradle loop barrel	H: RIFT-related	T: acid protease	F: WD40	ECOD (v294.2)
A	WD40	e8sqnA1	A: beta barrels	X: cradle loop barrel	H: RIFT-related	T: acid protease	F: WD40	ECOD (v294.2)

Protein Family Annotation Pfam Database Homepage

Chains	Accession	Name	Description	Comments	Source
A	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
C [auth D], E [auth H], G [auth L], I [auth P]	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 passive transmembrane transporter activity channel activity transporter activity 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 passive transmembrane transporter activity channel activity transporter activity transmembrane transporter activity structural molecule activity	viral process fusion of virus membrane with host endosome membrane membrane fusion involved in viral entry into host cell symbiont-mediated perturbation of host cellular process symbiont-mediated suppression of host gene expression biological process involved in interspecies interaction between organisms symbiont-mediated perturbation of host process symbiont-mediated perturbation of host gene expression modulation of process of another organism biological process involved in interaction with host biological process involved in symbiotic interaction symbiont entry into host cell symbiont entry into host viral life cycle viral process fusion of virus membrane with host endosome membrane membrane fusion involved in viral entry into host cell symbiont-mediated perturbation of host cellular process symbiont-mediated suppression of host gene expression biological process involved in interspecies interaction between organisms symbiont-mediated perturbation of host process symbiont-mediated perturbation of host gene expression modulation of process of another organism biological process involved in interaction with host biological process involved in symbiotic interaction symbiont entry into host cell symbiont entry into host viral life cycle symbiont-mediated suppression of host signal transduction pathway symbiont-mediated suppression of host toll-like receptor signaling pathway symbiont-mediated perturbation of host signal transduction pathway transmembrane transport localization transport monoatomic ion transmembrane transport monoatomic ion transport cellular process establishment of localization proteolysis metabolic process primary metabolic process protein metabolic process macromolecule metabolic process virion attachment to host cell receptor-mediated virion attachment to host cell adhesion of symbiont to host cell entry receptor-mediated virion attachment to host cell adhesion of symbiont to host	host intracellular membrane-bounded organelle host cellular component host intracellular part host cell endoplasmic reticulum other organism part host cell cytoplasm part host intracellular organelle cellular anatomical structure host cell cytoplasm host cell part host intracellular region host cell plasma membrane host cell membrane virion component host intracellular membrane-bounded organelle host cellular component host intracellular part host cell endoplasmic reticulum other organism part host cell cytoplasm part host intracellular organelle cellular anatomical structure host cell cytoplasm host cell part host intracellular region host cell plasma membrane host cell membrane virion component virion membrane viral capsid icosahedral viral capsid T=4 icosahedral viral capsid host cell Golgi apparatus host cell nucleus
B, D [auth F], F [auth J], H [auth N]	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 passive transmembrane transporter activity channel activity transporter activity 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 passive transmembrane transporter activity channel activity transporter activity transmembrane transporter activity structural molecule activity	viral process fusion of virus membrane with host endosome membrane membrane fusion involved in viral entry into host cell symbiont-mediated perturbation of host cellular process symbiont-mediated suppression of host gene expression biological process involved in interspecies interaction between organisms symbiont-mediated perturbation of host process symbiont-mediated perturbation of host gene expression modulation of process of another organism biological process involved in interaction with host biological process involved in symbiotic interaction symbiont entry into host cell symbiont entry into host viral life cycle viral process fusion of virus membrane with host endosome membrane membrane fusion involved in viral entry into host cell symbiont-mediated perturbation of host cellular process symbiont-mediated suppression of host gene expression biological process involved in interspecies interaction between organisms symbiont-mediated perturbation of host process symbiont-mediated perturbation of host gene expression modulation of process of another organism biological process involved in interaction with host biological process involved in symbiotic interaction symbiont entry into host cell symbiont entry into host viral life cycle symbiont-mediated suppression of host signal transduction pathway symbiont-mediated suppression of host toll-like receptor signaling pathway symbiont-mediated perturbation of host signal transduction pathway transmembrane transport localization transport monoatomic ion transmembrane transport monoatomic ion transport cellular process establishment of localization proteolysis metabolic process primary metabolic process protein metabolic process macromolecule metabolic process virion attachment to host cell receptor-mediated virion attachment to host cell adhesion of symbiont to host cell entry receptor-mediated virion attachment to host cell adhesion of symbiont to host	host intracellular membrane-bounded organelle host cellular component host intracellular part host cell endoplasmic reticulum other organism part host cell cytoplasm part host intracellular organelle cellular anatomical structure host cell cytoplasm host cell part host intracellular region host cell plasma membrane host cell membrane virion component host intracellular membrane-bounded organelle host cellular component host intracellular part host cell endoplasmic reticulum other organism part host cell cytoplasm part host intracellular organelle cellular anatomical structure host cell cytoplasm host cell part host intracellular region host cell plasma membrane host cell membrane virion component virion membrane viral capsid icosahedral viral capsid T=4 icosahedral viral capsid host cell Golgi apparatus host cell nucleus
A	DuD1MoD2 chimeric MXRA8	-	developmental process cellular developmental process cell differentiation cellular process cell adhesion multicellular organismal process establishment of blood-brain barrier cell development nervous system development glial cell development establishment of glial blood-brain barrier multicellular organism development neurogenesis central nervous system development developmental process cellular developmental process cell differentiation cellular process cell adhesion multicellular organismal process establishment of blood-brain barrier cell development nervous system development glial cell development establishment of glial blood-brain barrier multicellular organism development neurogenesis central nervous system development gliogenesis glial cell differentiation anatomical structure development system development	cell surface cellular anatomical structure cell periphery plasma membrane membrane cell-cell junction apical junction complex bicellular tight junction tight junction anchoring junction cell junction intracellular anatomical structure cytoplasm membrane-bounded organelle cell surface cellular anatomical structure cell periphery plasma membrane membrane cell-cell junction apical junction complex bicellular tight junction tight junction anchoring junction cell junction intracellular anatomical structure cytoplasm membrane-bounded organelle intracellular organelle organelle nucleus intracellular membrane-bounded organelle cilium ciliary membrane plasma membrane bounded cell projection cell projection bounding membrane of organelle plasma membrane region organelle membrane cell projection membrane

InterPro: Protein Family Classification InterPro Database Homepage

Chains	Accession	Name	Type
C [auth D], E [auth H], G [auth L], I [auth P]	IPR002533	Alphavirus E3 spike glycoprotein	Domain
C [auth D], E [auth H], G [auth L], I [auth P]	IPR038055	Flaviviral glycoprotein E, dimerisation domain	Homologous Superfamily
C [auth D], E [auth H], G [auth L], I [auth P]	IPR014756	Immunoglobulin E-set	Homologous Superfamily
C [auth D], E [auth H], G [auth L], I [auth P]	IPR042304	Alphavirus E2 glycoprotein, domain A	Homologous Superfamily
C [auth D], E [auth H], G [auth L], I [auth P]	IPR036253	Flavivirus glycoprotein, central and dimerisation domain superfamily	Homologous Superfamily
C [auth D], E [auth H], G [auth L], I [auth P]	IPR043504	Peptidase_S1_PA_chymotrypsin	Unknown
C [auth D], E [auth H], G [auth L], I [auth P]	IPR009003	Peptidase S1, PA clan	Homologous Superfamily
C [auth D], E [auth H], G [auth L], I [auth P]	IPR042305	Alphavirus E2 glycoprotein, domain B	Homologous Superfamily
C [auth D], E [auth H], G [auth L], I [auth P]	IPR042306	Alphavirus E2 glycoprotein, domain C	Homologous Superfamily
C [auth D], E [auth H], G [auth L], I [auth P]	IPR000936	Alphavirus E2 glycoprotein	Family
C [auth D], E [auth H], G [auth L], I [auth P]	IPR000930	Peptidase S3, togavirin	Domain
C [auth D], E [auth H], G [auth L], I [auth P]	IPR002548	Alphavirus E1 glycoprotein	Domain
C [auth D], E [auth H], G [auth L], I [auth P]	IPR000336	Flavivirus/Alphavirus glycoprotein, immunoglobulin-like domain superfamily	Homologous Superfamily
B, D [auth F], F [auth J], H [auth N]	IPR002533	Alphavirus E3 spike glycoprotein	Domain
B, D [auth F], F [auth J], H [auth N]	IPR038055	Flaviviral glycoprotein E, dimerisation domain	Homologous Superfamily
B, D [auth F], F [auth J], H [auth N]	IPR014756	Immunoglobulin E-set	Homologous Superfamily
B, D [auth F], F [auth J], H [auth N]	IPR042304	Alphavirus E2 glycoprotein, domain A	Homologous Superfamily
B, D [auth F], F [auth J], H [auth N]	IPR036253	Flavivirus glycoprotein, central and dimerisation domain superfamily	Homologous Superfamily
B, D [auth F], F [auth J], H [auth N]	IPR043504	Peptidase_S1_PA_chymotrypsin	Unknown
B, D [auth F], F [auth J], H [auth N]	IPR009003	Peptidase S1, PA clan	Homologous Superfamily
B, D [auth F], F [auth J], H [auth N]	IPR042305	Alphavirus E2 glycoprotein, domain B	Homologous Superfamily
B, D [auth F], F [auth J], H [auth N]	IPR042306	Alphavirus E2 glycoprotein, domain C	Homologous Superfamily
B, D [auth F], F [auth J], H [auth N]	IPR000936	Alphavirus E2 glycoprotein	Family
B, D [auth F], F [auth J], H [auth N]	IPR000930	Peptidase S3, togavirin	Domain
B, D [auth F], F [auth J], H [auth N]	IPR002548	Alphavirus E1 glycoprotein	Domain
B, D [auth F], F [auth J], H [auth N]	IPR000336	Flavivirus/Alphavirus glycoprotein, immunoglobulin-like domain superfamily	Homologous Superfamily
A	IPR013783	Immunoglobulin-like fold	Homologous Superfamily
A	IPR042472	Matrix remodeling-associated protein 8	Family
A	IPR036179	Immunoglobulin-like domain superfamily	Homologous Superfamily
A	IPR013106	Immunoglobulin V-set domain	Domain
A	IPR003599	Immunoglobulin domain subtype	Domain
A	IPR007110	Immunoglobulin-like domain	Domain
A	IPR036179	Immunoglobulin-like domain superfamily	Homologous Superfamily
A	IPR013783	Immunoglobulin-like fold	Homologous Superfamily
A	IPR042472	Matrix remodeling-associated protein 8	Family
A	IPR013106	Immunoglobulin V-set domain	Domain
A	IPR003599	Immunoglobulin domain subtype	Domain
A	IPR007110	Immunoglobulin-like domain	Domain

Membrane Protein Annotation: PDBTM PDBTM Database Homepage

Chains	External Link	Comment
A, B, C [auth D], D [auth F], E [auth H] A, B, C [auth D], D [auth F], E [auth H], F [auth J], G [auth L], H [auth N], I [auth P]	PDBTM	Annotated as membrane protein by PDBTM

Membrane Protein Annotation: MemProtMD MemProtMD Database Homepage

Chains	External Link	Comment
A, B, C [auth D], D [auth F], E [auth H] A, B, C [auth D], D [auth F], E [auth H], F [auth J], G [auth L], H [auth N], I [auth P]	MemProtMD	Annotated as membrane protein by MemProtMD