Annotations: 9BBN

Cryo-EM structure of Chikungunya virus asymmetric unit with Fab C9

External Resource: Annotation

Domain Annotation: ECOD Classification
SAbDab Antibody 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)
X [auth V]	Reovirus_L2_GTase	e9bbnV1	A: alpha arrays	X: HTH	H: HTH	T: Three-helical HTH	F: Reovirus_L2_GTase	ECOD (v295)
C [auth X]	Reovirus_L2_GTase	e9bbnX1	A: alpha arrays	X: HTH	H: HTH	T: Three-helical HTH	F: Reovirus_L2_GTase	ECOD (v295)
B [auth W]	Reovirus_L2_GTase	e9bbnW1	A: alpha arrays	X: HTH	H: HTH	T: Three-helical HTH	F: Reovirus_L2_GTase	ECOD (v295)
A [auth U]	Reovirus_L2_GTase	e9bbnU1	A: alpha arrays	X: HTH	H: HTH	T: Three-helical HTH	F: Reovirus_L2_GTase	ECOD (v295)
S [auth D]	Reovirus_L2_GTase	e9bbnD1	A: alpha arrays	X: HTH	H: HTH	T: Three-helical HTH	F: Reovirus_L2_GTase	ECOD (v295)
J [auth B]	Reovirus_L2_GTase	e9bbnB1	A: alpha arrays	X: HTH	H: HTH	T: Three-helical HTH	F: Reovirus_L2_GTase	ECOD (v295)
F [auth A]	Reovirus_L2_GTase	e9bbnA1	A: alpha arrays	X: HTH	H: HTH	T: Three-helical HTH	F: Reovirus_L2_GTase	ECOD (v295)
D [auth C]	Reovirus_L2_GTase	e9bbnC1	A: alpha arrays	X: HTH	H: HTH	T: Three-helical HTH	F: Reovirus_L2_GTase	ECOD (v295)
V [auth H]	Reovirus_L2_GTase	e9bbnH1	A: alpha arrays	X: HTH	H: HTH	T: Three-helical HTH	F: Reovirus_L2_GTase	ECOD (v295)
M [auth F]	Reovirus_L2_GTase	e9bbnF1	A: alpha arrays	X: HTH	H: HTH	T: Three-helical HTH	F: Reovirus_L2_GTase	ECOD (v295)
G [auth E]	Reovirus_L2_GTase	e9bbnE1	A: alpha arrays	X: HTH	H: HTH	T: Three-helical HTH	F: Reovirus_L2_GTase	ECOD (v295)
E [auth G]	Reovirus_L2_GTase	e9bbnG1	A: alpha arrays	X: HTH	H: HTH	T: Three-helical HTH	F: Reovirus_L2_GTase	ECOD (v295)
W [auth L]	Reovirus_L2_GTase	e9bbnL1	A: alpha arrays	X: HTH	H: HTH	T: Three-helical HTH	F: Reovirus_L2_GTase	ECOD (v295)
R [auth I]	Reovirus_L2_GTase	e9bbnI1	A: alpha arrays	X: HTH	H: HTH	T: Three-helical HTH	F: Reovirus_L2_GTase	ECOD (v295)
O [auth K]	Reovirus_L2_GTase	e9bbnK1	A: alpha arrays	X: HTH	H: HTH	T: Three-helical HTH	F: Reovirus_L2_GTase	ECOD (v295)
N [auth J]	Reovirus_L2_GTase	e9bbnJ1	A: alpha arrays	X: HTH	H: HTH	T: Three-helical HTH	F: Reovirus_L2_GTase	ECOD (v295)

SAbDab Antibody Annotation SAbDab Database Homepage

Chain	Chain Class	Chain Subclass	Chain Type	Antigen Name(s)	Provenance Source
H [auth M], K [auth O], P [auth Q], T [auth S]	Heavy Chain	IGHV1	-	e2 glycoprotein \| e3 glycoprotein \| e1 glycoprotein, e2 glycoprotein \| e1 glycoprotein \| e3 glycoprotein, e2 glycoprotein \| e3 glycoprotein	SAbDab (2026-06-26)
I [auth N], L [auth P], Q [auth R], U [auth T]	Light Chain	IGKV3	Kappa	e2 glycoprotein \| e3 glycoprotein \| e1 glycoprotein, e2 glycoprotein \| e1 glycoprotein \| e3 glycoprotein, e2 glycoprotein \| e3 glycoprotein	SAbDab (2026-06-26)

Gene Ontology: Gene Product Annotation Gene Ontology Database Homepage

Chains	Polymer	Molecular Function	Biological Process	Cellular Component
A [auth U], B [auth W], C [auth X], X [auth V]	E3 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 transmembrane transport localization transport monoatomic ion transmembrane transport monoatomic ion transport 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 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
D [auth C], F [auth A], J [auth B], S [auth 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 transmembrane transport localization transport monoatomic ion transmembrane transport monoatomic ion transport 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 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 G], G [auth E], M [auth F], V [auth H]	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 transmembrane transport localization transport monoatomic ion transmembrane transport monoatomic ion transport 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 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
H [auth M], K [auth O], P [auth Q], T [auth S]	Heavy chain of C9	-	-	-
I [auth N], L [auth P], Q [auth R], U [auth T]	Light chain of C9	-	-	-
N [auth J], O [auth K], R [auth I], W [auth L]	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 transmembrane transport localization transport monoatomic ion transmembrane transport monoatomic ion transport 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 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

InterPro: Protein Family Classification InterPro Database Homepage

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

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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.

9BBN | pdb_00009bbn

Cryo-EM structure of Chikungunya virus asymmetric unit with Fab C9

External Resource: Annotation

Domain Annotation: ECOD Classification ECOD Database Homepage

SAbDab Antibody Annotation SAbDab Database Homepage

Gene Ontology: Gene Product Annotation Gene Ontology Database Homepage

InterPro: Protein Family Classification InterPro Database Homepage