8DWX | pdb_00008dwx

Chikungunya VLP in complex with neutralizing Fab 506.C01 (asymmetric unit)

External Resource: Annotation

Domain Annotation: SCOP2 Classification
Domain Annotation: ECOD Classification
Domain Annotation: CATH
SAbDab Antibody Annotation
Gene Ontology: Gene Product Annotation
InterPro: Protein Family Classification
Membrane Protein Annotation: OPM
Membrane Protein Annotation: PDBTM
Membrane Protein Annotation: MemProtMD

Domain Annotation: SCOP2 Classification SCOP2 Database Homepage

Chains	Type	Family Name	Domain Identifier	Family Identifier	Provenance Source (Version)
I [auth Q]	SCOP2B Superfamily	Trypsin-like serine proteases	8071557	3000114	SCOP2B (2022-06-29)
K [auth S]	SCOP2B Superfamily	Trypsin-like serine proteases	8071557	3000114	SCOP2B (2022-06-29)
L [auth T]	SCOP2B Superfamily	Trypsin-like serine proteases	8071557	3000114	SCOP2B (2022-06-29)
J [auth R]	SCOP2B Superfamily	Trypsin-like serine proteases	8071557	3000114	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	Polyketide_cyc2	e8dwxA1	A: a/b three-layered sandwiches	X: RNase A-like	H: RNase A-like	T: RNase A-like	F: Polyketide_cyc2	ECOD (v294.1)
B	Polyketide_cyc2	e8dwxB1	A: a/b three-layered sandwiches	X: RNase A-like	H: RNase A-like	T: RNase A-like	F: Polyketide_cyc2	ECOD (v294.1)
C	Polyketide_cyc2	e8dwxC1	A: a/b three-layered sandwiches	X: RNase A-like	H: RNase A-like	T: RNase A-like	F: Polyketide_cyc2	ECOD (v294.1)
D	Polyketide_cyc2	e8dwxD1	A: a/b three-layered sandwiches	X: RNase A-like	H: RNase A-like	T: RNase A-like	F: Polyketide_cyc2	ECOD (v294.1)
I [auth Q]	Polyketide_cyc2	e8dwxQ1	A: a/b three-layered sandwiches	X: RNase A-like	H: RNase A-like	T: RNase A-like	F: Polyketide_cyc2	ECOD (v294.1)
K [auth S]	Polyketide_cyc2	e8dwxS1	A: a/b three-layered sandwiches	X: RNase A-like	H: RNase A-like	T: RNase A-like	F: Polyketide_cyc2	ECOD (v294.1)
L [auth T]	Polyketide_cyc2	e8dwxT1	A: a/b three-layered sandwiches	X: RNase A-like	H: RNase A-like	T: RNase A-like	F: Polyketide_cyc2	ECOD (v294.1)
J [auth R]	Polyketide_cyc2	e8dwxR1	A: a/b three-layered sandwiches	X: RNase A-like	H: RNase A-like	T: RNase A-like	F: Polyketide_cyc2	ECOD (v294.1)
M [auth L]	Polyketide_cyc2	e8dwxL1	A: a/b three-layered sandwiches	X: RNase A-like	H: RNase A-like	T: RNase A-like	F: Polyketide_cyc2	ECOD (v294.1)
R [auth W]	Polyketide_cyc2	e8dwxW1	A: a/b three-layered sandwiches	X: RNase A-like	H: RNase A-like	T: RNase A-like	F: Polyketide_cyc2	ECOD (v294.1)
T [auth Y]	Polyketide_cyc2	e8dwxY1	A: a/b three-layered sandwiches	X: RNase A-like	H: RNase A-like	T: RNase A-like	F: Polyketide_cyc2	ECOD (v294.1)
P [auth U]	Polyketide_cyc2	e8dwxU1	A: a/b three-layered sandwiches	X: RNase A-like	H: RNase A-like	T: RNase A-like	F: Polyketide_cyc2	ECOD (v294.1)
N [auth H]	Polyketide_cyc2	e8dwxH1	A: a/b three-layered sandwiches	X: RNase A-like	H: RNase A-like	T: RNase A-like	F: Polyketide_cyc2	ECOD (v294.1)
O [auth V]	Polyketide_cyc2	e8dwxV1	A: a/b three-layered sandwiches	X: RNase A-like	H: RNase A-like	T: RNase A-like	F: Polyketide_cyc2	ECOD (v294.1)
Q [auth X]	Polyketide_cyc2	e8dwxX1	A: a/b three-layered sandwiches	X: RNase A-like	H: RNase A-like	T: RNase A-like	F: Polyketide_cyc2	ECOD (v294.1)
S [auth Z]	Polyketide_cyc2	e8dwxZ1	A: a/b three-layered sandwiches	X: RNase A-like	H: RNase A-like	T: RNase A-like	F: Polyketide_cyc2	ECOD (v294.1)

Domain Annotation: CATH CATH Database Homepage

Chain	Domain	Class	Architecture	Topology	Homology	Provenance Source (Version)
A	2.60.40.350	Mainly Beta	Sandwich	Immunoglobulin-like		CATH (utative)
B	2.60.40.350	Mainly Beta	Sandwich	Immunoglobulin-like		CATH (utative)
C	2.60.40.350	Mainly Beta	Sandwich	Immunoglobulin-like		CATH (utative)
D	2.60.40.350	Mainly Beta	Sandwich	Immunoglobulin-like		CATH (utative)
E [auth M]	2.60.40.3200	Mainly Beta	Sandwich	Immunoglobulin-like	Alphavirus E2 glycoprotein, A domain	CATH (utative)
F [auth N]	2.60.40.3200	Mainly Beta	Sandwich	Immunoglobulin-like	Alphavirus E2 glycoprotein, A domain	CATH (utative)
G [auth O]	2.60.40.3200	Mainly Beta	Sandwich	Immunoglobulin-like	Alphavirus E2 glycoprotein, A domain	CATH (utative)
H [auth P]	2.60.40.3200	Mainly Beta	Sandwich	Immunoglobulin-like	Alphavirus E2 glycoprotein, A domain	CATH (utative)
M [auth L]	2.60.40.10	Mainly Beta	Sandwich	Immunoglobulin-like	Immunoglobulins	CATH (utative)
R [auth W]	2.60.40.10	Mainly Beta	Sandwich	Immunoglobulin-like	Immunoglobulins	CATH (utative)
T [auth Y]	2.60.40.10	Mainly Beta	Sandwich	Immunoglobulin-like	Immunoglobulins	CATH (utative)
P [auth U]	2.60.40.10	Mainly Beta	Sandwich	Immunoglobulin-like	Immunoglobulins	CATH (utative)
N [auth H]	2.60.40.10	Mainly Beta	Sandwich	Immunoglobulin-like	Immunoglobulins	CATH (utative)
O [auth V]	2.60.40.10	Mainly Beta	Sandwich	Immunoglobulin-like	Immunoglobulins	CATH (utative)
Q [auth X]	2.60.40.10	Mainly Beta	Sandwich	Immunoglobulin-like	Immunoglobulins	CATH (utative)
S [auth Z]	2.60.40.10	Mainly Beta	Sandwich	Immunoglobulin-like	Immunoglobulins	CATH (utative)

SAbDab Antibody Annotation SAbDab Database Homepage

Chain	Chain Class	Chain Subclass	Chain Type	Antigen Name(s)	Provenance Source
M [auth L], P [auth U], R [auth W], T [auth Y]	Light Chain	IGKV1	Kappa	e2 glycoprotein	SAbDab (2026-04-10)
N [auth H], O [auth V], Q [auth X], S [auth Z]	Heavy Chain	IGHV4	-	e2 glycoprotein	SAbDab (2026-04-10)

Gene Ontology: Gene Product Annotation Gene Ontology Database Homepage

Chains	Polymer	Molecular Function	Biological Process	Cellular Component
A, B, C, D	E1 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 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 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 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 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 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
E [auth M], F [auth N], G [auth O], H [auth P]	E2 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 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 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 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 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 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
I [auth Q], J [auth R], K [auth S], L [auth T]	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 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 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 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 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 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 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
M [auth L], P [auth U], R [auth W], T [auth Y]	506.C01 light chain	-	-	-
N [auth H], O [auth V], Q [auth X], S [auth Z]	506.C01 heavy chain	-	-	-

InterPro: Protein Family Classification InterPro Database Homepage

Chains	Accession	Name	Type
A, B, C, D	IPR002533	Alphavirus E3 spike glycoprotein	Domain
A, B, C, D	IPR038055	Flaviviral glycoprotein E, dimerisation domain	Homologous Superfamily
A, B, C, D	IPR014756	Immunoglobulin E-set	Homologous Superfamily
A, B, C, D	IPR042304	Alphavirus E2 glycoprotein, domain A	Homologous Superfamily
A, B, C, D	IPR036253	Flavivirus glycoprotein, central and dimerisation domain superfamily	Homologous Superfamily
A, B, C, D	IPR043504	Peptidase_S1_PA_chymotrypsin	Unknown
A, B, C, D	IPR009003	Peptidase S1, PA clan	Homologous Superfamily
A, B, C, D	IPR042305	Alphavirus E2 glycoprotein, domain B	Homologous Superfamily
A, B, C, D	IPR042306	Alphavirus E2 glycoprotein, domain C	Homologous Superfamily
A, B, C, D	IPR000936	Alphavirus E2 glycoprotein	Family
A, B, C, D	IPR000930	Peptidase S3, togavirin	Domain
A, B, C, D	IPR002548	Alphavirus E1 glycoprotein	Domain
A, B, C, D	IPR000336	Flavivirus/Alphavirus glycoprotein, immunoglobulin-like domain superfamily	Homologous Superfamily
E [auth M], F [auth N], G [auth O], H [auth P]	IPR002533	Alphavirus E3 spike glycoprotein	Domain
E [auth M], F [auth N], G [auth O], H [auth P]	IPR038055	Flaviviral glycoprotein E, dimerisation domain	Homologous Superfamily
E [auth M], F [auth N], G [auth O], H [auth P]	IPR014756	Immunoglobulin E-set	Homologous Superfamily
E [auth M], F [auth N], G [auth O], H [auth P]	IPR042304	Alphavirus E2 glycoprotein, domain A	Homologous Superfamily
E [auth M], F [auth N], G [auth O], H [auth P]	IPR036253	Flavivirus glycoprotein, central and dimerisation domain superfamily	Homologous Superfamily
E [auth M], F [auth N], G [auth O], H [auth P]	IPR043504	Peptidase_S1_PA_chymotrypsin	Unknown
E [auth M], F [auth N], G [auth O], H [auth P]	IPR009003	Peptidase S1, PA clan	Homologous Superfamily
E [auth M], F [auth N], G [auth O], H [auth P]	IPR042305	Alphavirus E2 glycoprotein, domain B	Homologous Superfamily
E [auth M], F [auth N], G [auth O], H [auth P]	IPR042306	Alphavirus E2 glycoprotein, domain C	Homologous Superfamily
E [auth M], F [auth N], G [auth O], H [auth P]	IPR000936	Alphavirus E2 glycoprotein	Family
E [auth M], F [auth N], G [auth O], H [auth P]	IPR000930	Peptidase S3, togavirin	Domain
E [auth M], F [auth N], G [auth O], H [auth P]	IPR002548	Alphavirus E1 glycoprotein	Domain
E [auth M], F [auth N], G [auth O], H [auth P]	IPR000336	Flavivirus/Alphavirus glycoprotein, immunoglobulin-like domain superfamily	Homologous Superfamily
I [auth Q], J [auth R], K [auth S], L [auth T]	IPR002533	Alphavirus E3 spike glycoprotein	Domain
I [auth Q], J [auth R], K [auth S], L [auth T]	IPR038055	Flaviviral glycoprotein E, dimerisation domain	Homologous Superfamily
I [auth Q], J [auth R], K [auth S], L [auth T]	IPR014756	Immunoglobulin E-set	Homologous Superfamily
I [auth Q], J [auth R], K [auth S], L [auth T]	IPR042304	Alphavirus E2 glycoprotein, domain A	Homologous Superfamily
I [auth Q], J [auth R], K [auth S], L [auth T]	IPR036253	Flavivirus glycoprotein, central and dimerisation domain superfamily	Homologous Superfamily
I [auth Q], J [auth R], K [auth S], L [auth T]	IPR043504	Peptidase_S1_PA_chymotrypsin	Unknown
I [auth Q], J [auth R], K [auth S], L [auth T]	IPR009003	Peptidase S1, PA clan	Homologous Superfamily
I [auth Q], J [auth R], K [auth S], L [auth T]	IPR042305	Alphavirus E2 glycoprotein, domain B	Homologous Superfamily
I [auth Q], J [auth R], K [auth S], L [auth T]	IPR042306	Alphavirus E2 glycoprotein, domain C	Homologous Superfamily
I [auth Q], J [auth R], K [auth S], L [auth T]	IPR000936	Alphavirus E2 glycoprotein	Family
I [auth Q], J [auth R], K [auth S], L [auth T]	IPR000930	Peptidase S3, togavirin	Domain
I [auth Q], J [auth R], K [auth S], L [auth T]	IPR002548	Alphavirus E1 glycoprotein	Domain
I [auth Q], J [auth R], K [auth S], L [auth T]	IPR000336	Flavivirus/Alphavirus glycoprotein, immunoglobulin-like domain superfamily	Homologous Superfamily

Membrane Protein Annotation: OPM OPM Database Homepage

Chains	External Link	Type	Class	Superfamily	Family
A, B, C, D, E [auth M] A, B, C, D, E [auth M], F [auth N], G [auth O], H [auth P], I [auth Q], J [auth R], K [auth S], L [auth T]	OPM	Transmembrane	Bitopic proteins	Viral membrane fusion glycoprotein	Alphavirus E1 glycoprotein

Membrane Protein Annotation: PDBTM PDBTM Database Homepage

Chains	External Link	Comment
A, B, C, D, E [auth M] A, B, C, D, E [auth M], F [auth N], G [auth O], H [auth P], I [auth Q], J [auth R], K [auth S], L [auth T]	PDBTM	Annotated as membrane protein by PDBTM

Membrane Protein Annotation: MemProtMD MemProtMD Database Homepage

Chains	External Link	Comment
A, B, C, D, E [auth M] A, B, C, D, E [auth M], F [auth N], G [auth O], H [auth P], I [auth Q], J [auth R], K [auth S], L [auth T]	MemProtMD	Annotated as membrane protein by MemProtMD