8X9B | pdb_00008x9b

Cryo-EM structure of coxsackievirus A16 empty particle in complex with Fab h1A6.2 (local refinement)

External Resource: Annotation

Domain Annotation: SCOP2 Classification
Domain Annotation: ECOD Classification
SAbDab Antibody Annotation
Gene Ontology: Gene Product Annotation
InterPro: Protein Family Classification

Domain Annotation: SCOP2 Classification SCOP2 Database Homepage

Chains	Type	Family Name	Domain Identifier	Family Identifier	Provenance Source (Version)
A [auth D]	SCOP2B Superfamily	Positive stranded ssRNA viruses-like	8101249	3000918	SCOP2B (2022-06-29)
B [auth E]	SCOP2B Superfamily	Positive stranded ssRNA viruses-like	8101249	3000918	SCOP2B (2022-06-29)
I [auth F]	SCOP2B Superfamily	Positive stranded ssRNA viruses-like	8101249	3000918	SCOP2B (2022-06-29)
J [auth H]	SCOP2B Superfamily	Positive stranded ssRNA viruses-like	8101249	3000918	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)
H [auth P]		e8x9bP01	A: alpha bundles	X: Helical bundle insertion in helicase domains	H: Helical bundle in Hef helicase	T: Helical bundle in Hef helicase	F:	ECOD (develop294)
G [auth O]		e8x9bO01	A: alpha bundles	X: Helical bundle insertion in helicase domains	H: Helical bundle in Hef helicase	T: Helical bundle in Hef helicase	F:	ECOD (develop294)

SAbDab Antibody Annotation SAbDab Database Homepage

Chain	Chain Class	Chain Subclass	Chain Type	Antigen Name(s)	Provenance Source
H [auth P], P [auth S]	Light Chain	IGKV1	Kappa	genome polyprotein \| capsid protein vp1	SAbDab (2026-03-20)
G [auth O], O [auth R]	Heavy Chain	IGHV14	-	genome polyprotein \| capsid protein vp1	SAbDab (2026-03-20)

Gene Ontology: Gene Product Annotation Gene Ontology Database Homepage

Chains	Polymer	Molecular Function	Biological Process	Cellular Component
H [auth P], P [auth S]	The light chain of Fab h1A6.2	-	-	-
G [auth O], O [auth R]	The heavy chain of Fab h1A6.2	-	-	-
E [auth K], F [auth M], M [auth N], N [auth Q]	Genome polyprotein	structural molecule activity	symbiont-mediated disruption of host anatomical structure biological process involved in interspecies interaction between organisms viral life cycle symbiont-mediated disruption of host cellular anatomical structure biological process involved in interaction with host biological process involved in symbiotic interaction symbiont-mediated perturbation of host membrane symbiont genome entry into host cell via pore formation in plasma membrane symbiont entry into host cell viral process symbiont entry into host disruption of anatomical structure in another organism virion attachment to host cell adhesion of symbiont to host cell symbiont-mediated disruption of host anatomical structure biological process involved in interspecies interaction between organisms viral life cycle symbiont-mediated disruption of host cellular anatomical structure biological process involved in interaction with host biological process involved in symbiotic interaction symbiont-mediated perturbation of host membrane symbiont genome entry into host cell via pore formation in plasma membrane symbiont entry into host cell viral process symbiont entry into host disruption of anatomical structure in another organism virion attachment to host cell adhesion of symbiont to host cell adhesion of symbiont to host symbiont-mediated perturbation of host cellular process symbiont-mediated suppression of host gene expression symbiont-mediated perturbation of host process symbiont-mediated perturbation of host gene expression modulation of process of another organism	viral capsid virion component host cellular component host intracellular part cellular anatomical structure host cell cytoplasm host cell part host intracellular region other organism part
C [auth G], D [auth I], K [auth J], L	Genome polyprotein	structural molecule activity	symbiont-mediated disruption of host anatomical structure biological process involved in interspecies interaction between organisms viral life cycle symbiont-mediated disruption of host cellular anatomical structure biological process involved in interaction with host biological process involved in symbiotic interaction symbiont-mediated perturbation of host membrane symbiont genome entry into host cell via pore formation in plasma membrane symbiont entry into host cell viral process symbiont entry into host disruption of anatomical structure in another organism virion attachment to host cell adhesion of symbiont to host cell symbiont-mediated disruption of host anatomical structure biological process involved in interspecies interaction between organisms viral life cycle symbiont-mediated disruption of host cellular anatomical structure biological process involved in interaction with host biological process involved in symbiotic interaction symbiont-mediated perturbation of host membrane symbiont genome entry into host cell via pore formation in plasma membrane symbiont entry into host cell viral process symbiont entry into host disruption of anatomical structure in another organism virion attachment to host cell adhesion of symbiont to host cell adhesion of symbiont to host symbiont-mediated perturbation of host cellular process symbiont-mediated suppression of host gene expression symbiont-mediated perturbation of host process symbiont-mediated perturbation of host gene expression modulation of process of another organism	viral capsid virion component host cellular component host intracellular part cellular anatomical structure host cell cytoplasm host cell part host intracellular region other organism part
A [auth D], B [auth E], I [auth F], J [auth H]	Capsid protein VP1	structural molecule activity	symbiont-mediated disruption of host anatomical structure biological process involved in interspecies interaction between organisms viral life cycle symbiont-mediated disruption of host cellular anatomical structure biological process involved in interaction with host biological process involved in symbiotic interaction symbiont-mediated perturbation of host membrane symbiont genome entry into host cell via pore formation in plasma membrane symbiont entry into host cell viral process symbiont entry into host disruption of anatomical structure in another organism virion attachment to host cell adhesion of symbiont to host cell symbiont-mediated disruption of host anatomical structure biological process involved in interspecies interaction between organisms viral life cycle symbiont-mediated disruption of host cellular anatomical structure biological process involved in interaction with host biological process involved in symbiotic interaction symbiont-mediated perturbation of host membrane symbiont genome entry into host cell via pore formation in plasma membrane symbiont entry into host cell viral process symbiont entry into host disruption of anatomical structure in another organism virion attachment to host cell adhesion of symbiont to host cell adhesion of symbiont to host symbiont-mediated perturbation of host cellular process symbiont-mediated suppression of host gene expression symbiont-mediated perturbation of host process symbiont-mediated perturbation of host gene expression modulation of process of another organism	viral capsid virion component host cellular component host intracellular part cellular anatomical structure host cell cytoplasm host cell part host intracellular region other organism part

InterPro: Protein Family Classification InterPro Database Homepage

Chains	Accession	Name	Type
E [auth K], F [auth M], M [auth N], N [auth Q]	IPR029053	Viral coat protein subunit	Homologous Superfamily
E [auth K], F [auth M], M [auth N], N [auth Q]	IPR003138	Picornavirus coat protein VP4	Family
E [auth K], F [auth M], M [auth N], N [auth Q]	IPR059138	Picornavirus capsid VP1	Domain
E [auth K], F [auth M], M [auth N], N [auth Q]	IPR001676	Picornavirus capsid	Domain
E [auth K], F [auth M], M [auth N], N [auth Q]	IPR033703	Picornavirus/Calicivirus coat protein	Domain
C [auth G], D [auth I], K [auth J], L	IPR029053	Viral coat protein subunit	Homologous Superfamily
C [auth G], D [auth I], K [auth J], L	IPR003138	Picornavirus coat protein VP4	Family
C [auth G], D [auth I], K [auth J], L	IPR059138	Picornavirus capsid VP1	Domain
C [auth G], D [auth I], K [auth J], L	IPR001676	Picornavirus capsid	Domain
C [auth G], D [auth I], K [auth J], L	IPR033703	Picornavirus/Calicivirus coat protein	Domain
A [auth D], B [auth E], I [auth F], J [auth H]	IPR029053	Viral coat protein subunit	Homologous Superfamily
A [auth D], B [auth E], I [auth F], J [auth H]	IPR003138	Picornavirus coat protein VP4	Family
A [auth D], B [auth E], I [auth F], J [auth H]	IPR059138	Picornavirus capsid VP1	Domain
A [auth D], B [auth E], I [auth F], J [auth H]	IPR001676	Picornavirus capsid	Domain
A [auth D], B [auth E], I [auth F], J [auth H]	IPR033703	Picornavirus/Calicivirus coat protein	Domain

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.