Annotations: 9KQR

Cryo-EM Structure of Mature Semliki Forest Virus

External Resource: Annotation

Domain Annotation: SCOP2 Classification
Domain Annotation: ECOD Classification
Gene Ontology: Gene Product Annotation
InterPro: Protein Family Classification
Membrane Protein Annotation: MemProtMD

Domain Annotation: SCOP2 Classification SCOP2 Database Homepage

Chains	Type	Family Name	Domain Identifier	Family Identifier	Provenance Source (Version)
L [auth g]	SCOP2B Superfamily	E set domains	8054997	3000070	SCOP2B (2022-06-29)
L [auth g]	SCOP2B Superfamily	Viral glycoprotein, central and dimerisation domains	8037191	3000293	SCOP2B (2022-06-29)
I [auth d]	SCOP2B Superfamily	Viral glycoprotein, central and dimerisation domains	8037191	3000293	SCOP2B (2022-06-29)
I [auth d]	SCOP2B Superfamily	E set domains	8054997	3000070	SCOP2B (2022-06-29)
F [auth a]	SCOP2B Superfamily	E set domains	8054997	3000070	SCOP2B (2022-06-29)
F [auth a]	SCOP2B Superfamily	Viral glycoprotein, central and dimerisation domains	8037191	3000293	SCOP2B (2022-06-29)
C [auth j]	SCOP2B Superfamily	E set domains	8054997	3000070	SCOP2B (2022-06-29)
C [auth j]	SCOP2B Superfamily	Viral glycoprotein, central and dimerisation domains	8037191	3000293	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)
L [auth g]		e9kqrg1	A: alpha arrays	X: Hypothetical protein YqbG-like	H: Hypothetical protein YqbG-like	T: alpha/beta-Hydrolases	F:	ECOD (v295.2)
I [auth d]		e9kqrd1	A: alpha arrays	X: Hypothetical protein YqbG-like	H: Hypothetical protein YqbG-like	T: alpha/beta-Hydrolases	F:	ECOD (v295.2)
F [auth a]	tRNA-synt_2	e9kqra1	A: alpha arrays	X: Hypothetical protein YqbG-like	H: Hypothetical protein YqbG-like	T: alpha/beta-Hydrolases	F: tRNA-synt_2	ECOD (v295.2)
C [auth j]		e9kqrj1	A: alpha arrays	X: Hypothetical protein YqbG-like	H: Hypothetical protein YqbG-like	T: alpha/beta-Hydrolases	F:	ECOD (v295.2)
K [auth i]		e9kqri1	A: alpha arrays	X: Hypothetical protein YqbG-like	H: Hypothetical protein YqbG-like	T: alpha/beta-Hydrolases	F:	ECOD (v295.2)
H [auth f]		e9kqrf1	A: alpha arrays	X: Hypothetical protein YqbG-like	H: Hypothetical protein YqbG-like	T: alpha/beta-Hydrolases	F:	ECOD (v295.2)
E [auth c]	tRNA-synt_2	e9kqrc1	A: alpha arrays	X: Hypothetical protein YqbG-like	H: Hypothetical protein YqbG-like	T: alpha/beta-Hydrolases	F: tRNA-synt_2	ECOD (v295.2)
B [auth l]		e9kqrl1	A: alpha arrays	X: Hypothetical protein YqbG-like	H: Hypothetical protein YqbG-like	T: alpha/beta-Hydrolases	F:	ECOD (v295.2)
J [auth h]		e9kqrh1	A: alpha arrays	X: Hypothetical protein YqbG-like	H: Hypothetical protein YqbG-like	T: alpha/beta-Hydrolases	F:	ECOD (v295.2)
G [auth e]		e9kqre1	A: alpha arrays	X: Hypothetical protein YqbG-like	H: Hypothetical protein YqbG-like	T: alpha/beta-Hydrolases	F:	ECOD (v295.2)
D [auth b]	tRNA-synt_2	e9kqrb1	A: alpha arrays	X: Hypothetical protein YqbG-like	H: Hypothetical protein YqbG-like	T: alpha/beta-Hydrolases	F: tRNA-synt_2	ECOD (v295.2)
A [auth k]		e9kqrk1	A: alpha arrays	X: Hypothetical protein YqbG-like	H: Hypothetical protein YqbG-like	T: alpha/beta-Hydrolases	F:	ECOD (v295.2)

Gene Ontology: Gene Product Annotation Gene Ontology Database Homepage

Chains	Polymer	Molecular Function	Biological Process	Cellular Component
C [auth j], F [auth a], I [auth d], L [auth g]	Spike glycoprotein E1	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 small molecule binding passive transmembrane transporter activity channel 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 small molecule 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 virion assembly viral life cycle symbiont-mediated suppression of host signal transduction pathway symbiont-mediated perturbation of host cellular process biological process involved in interspecies interaction between organisms symbiont-mediated perturbation of host process symbiont-mediated suppression of host toll-like receptor signaling pathway symbiont-mediated perturbation of host signal transduction pathway modulation of process of another organism biological process involved in interaction with host biological process involved in symbiotic interaction viral process fusion of virus membrane with host endosome membrane membrane fusion involved in viral entry into host cell virion assembly viral life cycle symbiont-mediated suppression of host signal transduction pathway symbiont-mediated perturbation of host cellular process biological process involved in interspecies interaction between organisms symbiont-mediated perturbation of host process symbiont-mediated suppression of host toll-like receptor signaling pathway symbiont-mediated perturbation of host signal transduction pathway modulation of process of another organism biological process involved in interaction with host biological process involved in symbiotic interaction import into cell receptor-mediated endocytosis of virus by host cell transport establishment of localization vesicle-mediated transport localization symbiont entry into host cell clathrin-dependent endocytosis symbiont entry into host cellular process clathrin-dependent endocytosis of virus by host cell receptor-mediated endocytosis endocytosis endocytosis involved in viral entry into host cell viral gene expression viral translational frameshifting viral translation transmembrane transport monoatomic ion transmembrane transport monoatomic ion transport 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 endosome host cell nucleus viral membrane viral envelope
B [auth l], E [auth c], H [auth f], K [auth i]	Capsid protein	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 structural molecule activity	viral process fusion of virus membrane with host endosome membrane membrane fusion involved in viral entry into host cell virion attachment to host cell biological process involved in interspecies interaction between organisms adhesion of symbiont to host cell viral life cycle adhesion of symbiont to host biological process involved in interaction with host biological process involved in symbiotic interaction symbiont-mediated suppression of host signal transduction pathway symbiont-mediated perturbation of host cellular process symbiont-mediated perturbation of host process symbiont-mediated suppression of host toll-like receptor signaling pathway viral process fusion of virus membrane with host endosome membrane membrane fusion involved in viral entry into host cell virion attachment to host cell biological process involved in interspecies interaction between organisms adhesion of symbiont to host cell viral life cycle adhesion of symbiont to host biological process involved in interaction with host biological process involved in symbiotic interaction symbiont-mediated suppression of host signal transduction pathway symbiont-mediated perturbation of host cellular process symbiont-mediated perturbation of host process symbiont-mediated suppression of host toll-like receptor signaling pathway symbiont-mediated perturbation of host signal transduction pathway modulation of process of another organism import into cell receptor-mediated endocytosis of virus by host cell transport establishment of localization vesicle-mediated transport localization symbiont entry into host cell clathrin-dependent endocytosis symbiont entry into host cellular process clathrin-dependent endocytosis of virus by host cell receptor-mediated endocytosis endocytosis endocytosis involved in viral entry into host cell viral gene expression viral translational frameshifting viral translation proteolysis metabolic process primary metabolic process protein metabolic process macromolecule metabolic process	virion component virion membrane viral capsid icosahedral viral capsid T=4 icosahedral viral capsid host intracellular membrane-bounded organelle host cellular component host intracellular part cellular anatomical structure host cell part host intracellular region host cell nucleus other organism part host intracellular organelle virion component virion membrane viral capsid icosahedral viral capsid T=4 icosahedral viral capsid host intracellular membrane-bounded organelle host cellular component host intracellular part cellular anatomical structure host cell part host intracellular region host cell nucleus other organism part host intracellular organelle viral membrane viral envelope host cell plasma membrane host cell membrane host cell cytoplasm
A [auth k], D [auth b], G [auth e], J [auth h]	Envelope glycoprotein E2	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 structural molecule activity	viral process fusion of virus membrane with host endosome membrane membrane fusion involved in viral entry into host cell virion attachment to host cell biological process involved in interspecies interaction between organisms adhesion of symbiont to host cell viral life cycle adhesion of symbiont to host biological process involved in interaction with host biological process involved in symbiotic interaction symbiont-mediated suppression of host signal transduction pathway symbiont-mediated perturbation of host cellular process symbiont-mediated perturbation of host process symbiont-mediated suppression of host toll-like receptor signaling pathway viral process fusion of virus membrane with host endosome membrane membrane fusion involved in viral entry into host cell virion attachment to host cell biological process involved in interspecies interaction between organisms adhesion of symbiont to host cell viral life cycle adhesion of symbiont to host biological process involved in interaction with host biological process involved in symbiotic interaction symbiont-mediated suppression of host signal transduction pathway symbiont-mediated perturbation of host cellular process symbiont-mediated perturbation of host process symbiont-mediated suppression of host toll-like receptor signaling pathway symbiont-mediated perturbation of host signal transduction pathway modulation of process of another organism import into cell receptor-mediated endocytosis of virus by host cell transport establishment of localization vesicle-mediated transport localization symbiont entry into host cell clathrin-dependent endocytosis symbiont entry into host cellular process clathrin-dependent endocytosis of virus by host cell receptor-mediated endocytosis endocytosis endocytosis involved in viral entry into host cell viral gene expression viral translational frameshifting viral translation proteolysis metabolic process primary metabolic process protein metabolic process macromolecule metabolic process	virion component virion membrane viral capsid icosahedral viral capsid T=4 icosahedral viral capsid host intracellular membrane-bounded organelle host cellular component host intracellular part cellular anatomical structure host cell part host intracellular region host cell nucleus other organism part host intracellular organelle virion component virion membrane viral capsid icosahedral viral capsid T=4 icosahedral viral capsid host intracellular membrane-bounded organelle host cellular component host intracellular part cellular anatomical structure host cell part host intracellular region host cell nucleus other organism part host intracellular organelle viral membrane viral envelope host cell plasma membrane host cell membrane host cell cytoplasm

InterPro: Protein Family Classification InterPro Database Homepage

Chains	Accession	Name	Type
C [auth j], F [auth a], I [auth d], L [auth g]	IPR002533	Alphavirus E3 spike glycoprotein	Domain
C [auth j], F [auth a], I [auth d], L [auth g]	IPR038055	Flaviviral glycoprotein E, dimerisation domain	Homologous Superfamily
C [auth j], F [auth a], I [auth d], L [auth g]	IPR014756	Immunoglobulin E-set	Homologous Superfamily
C [auth j], F [auth a], I [auth d], L [auth g]	IPR042304	Alphavirus E2 glycoprotein, domain A	Homologous Superfamily
C [auth j], F [auth a], I [auth d], L [auth g]	IPR036253	Flavivirus glycoprotein, central and dimerisation domain superfamily	Homologous Superfamily
C [auth j], F [auth a], I [auth d], L [auth g]	IPR009003	Peptidase S1, PA clan	Homologous Superfamily
C [auth j], F [auth a], I [auth d], L [auth g]	IPR042305	Alphavirus E2 glycoprotein, domain B	Homologous Superfamily
C [auth j], F [auth a], I [auth d], L [auth g]	IPR042306	Alphavirus E2 glycoprotein, domain C	Homologous Superfamily
C [auth j], F [auth a], I [auth d], L [auth g]	IPR000936	Alphavirus E2 glycoprotein	Family
C [auth j], F [auth a], I [auth d], L [auth g]	IPR000930	Peptidase S3, togavirin	Domain
C [auth j], F [auth a], I [auth d], L [auth g]	IPR002548	Alphavirus E1 glycoprotein	Domain
C [auth j], F [auth a], I [auth d], L [auth g]	IPR000336	Flavivirus/Alphavirus glycoprotein, immunoglobulin-like domain superfamily	Homologous Superfamily
B [auth l], E [auth c], H [auth f], K [auth i]	IPR002533	Alphavirus E3 spike glycoprotein	Domain
B [auth l], E [auth c], H [auth f], K [auth i]	IPR009003	Peptidase S1, PA clan	Homologous Superfamily
B [auth l], E [auth c], H [auth f], K [auth i]	IPR042305	Alphavirus E2 glycoprotein, domain B	Homologous Superfamily
B [auth l], E [auth c], H [auth f], K [auth i]	IPR042306	Alphavirus E2 glycoprotein, domain C	Homologous Superfamily
B [auth l], E [auth c], H [auth f], K [auth i]	IPR000936	Alphavirus E2 glycoprotein	Family
B [auth l], E [auth c], H [auth f], K [auth i]	IPR000930	Peptidase S3, togavirin	Domain
B [auth l], E [auth c], H [auth f], K [auth i]	IPR042304	Alphavirus E2 glycoprotein, domain A	Homologous Superfamily
B [auth l], E [auth c], H [auth f], K [auth i]	IPR002548	Alphavirus E1 glycoprotein	Domain
A [auth k], D [auth b], G [auth e], J [auth h]	IPR002533	Alphavirus E3 spike glycoprotein	Domain
A [auth k], D [auth b], G [auth e], J [auth h]	IPR009003	Peptidase S1, PA clan	Homologous Superfamily
A [auth k], D [auth b], G [auth e], J [auth h]	IPR042305	Alphavirus E2 glycoprotein, domain B	Homologous Superfamily
A [auth k], D [auth b], G [auth e], J [auth h]	IPR042306	Alphavirus E2 glycoprotein, domain C	Homologous Superfamily
A [auth k], D [auth b], G [auth e], J [auth h]	IPR000936	Alphavirus E2 glycoprotein	Family
A [auth k], D [auth b], G [auth e], J [auth h]	IPR000930	Peptidase S3, togavirin	Domain
A [auth k], D [auth b], G [auth e], J [auth h]	IPR042304	Alphavirus E2 glycoprotein, domain A	Homologous Superfamily
A [auth k], D [auth b], G [auth e], J [auth h]	IPR002548	Alphavirus E1 glycoprotein	Domain

Membrane Protein Annotation: MemProtMD MemProtMD Database Homepage

Chains	External Link	Comment
A [auth k], B [auth l], C [auth j], D [auth b], E [auth c] A [auth k], B [auth l], C [auth j], D [auth b], E [auth c], F [auth a], G [auth e], H [auth f], I [auth d], J [auth h], K [auth i], L [auth g]	MemProtMD	Annotated as membrane protein by MemProtMD