8X9B

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

External Resource: Annotation

Domain Annotation: SCOP2 Classification
SAbDab Antibody Annotation
Protein Family 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)

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 (2024-11-08)
G [auth O], O [auth R]	Heavy Chain	IGHV14	-	genome polyprotein \| capsid protein vp1	SAbDab (2024-11-08)

Protein Family Annotation Pfam Database Homepage

Chains	Accession	Name	Description	Comments	Source
E [auth K], F [auth M], M [auth N], N [auth Q]	PF00073	picornavirus capsid protein (Rhv)	picornavirus capsid protein	CAUTION: This alignment is very weak. It can not be generated by clustalw. If a representative set is used for a seed, many so-called members are not recognised. The family should probably be split up into sub-families. Capsid proteins of picornavi ...	CAUTION: This alignment is very weak. It can not be generated by clustalw. If a representative set is used for a seed, many so-called members are not recognised. The family should probably be split up into sub-families. Capsid proteins of picornaviruses. Picornaviruses are non-enveloped plus-strand ssRNA animal viruses with icosahedral capsids. They include rhinovirus (common cold) and poliovirus. Common structure is an 8-stranded beta sandwich. Variations (one or two extra strands) occur.	Domain
C [auth G], D [auth I], K [auth J], L	PF00073	picornavirus capsid protein (Rhv)	picornavirus capsid protein	CAUTION: This alignment is very weak. It can not be generated by clustalw. If a representative set is used for a seed, many so-called members are not recognised. The family should probably be split up into sub-families. Capsid proteins of picornavi ...	CAUTION: This alignment is very weak. It can not be generated by clustalw. If a representative set is used for a seed, many so-called members are not recognised. The family should probably be split up into sub-families. Capsid proteins of picornaviruses. Picornaviruses are non-enveloped plus-strand ssRNA animal viruses with icosahedral capsids. They include rhinovirus (common cold) and poliovirus. Common structure is an 8-stranded beta sandwich. Variations (one or two extra strands) occur.	Domain

Gene Ontology: Gene Product Annotation Gene Ontology Database Homepage

Chains	Polymer	Molecular Function	Biological Process	Cellular Component
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 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-mediated disruption of host cellular anatomical entity 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 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-mediated disruption of host cellular anatomical entity 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 cellular process modulation of process of another organism	viral capsid virion component
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 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-mediated disruption of host cellular anatomical entity 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 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-mediated disruption of host cellular anatomical entity 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 cellular process modulation of process of another organism	viral capsid virion component
H [auth P], P [auth S]	The light chain of Fab h1A6.2	-	-	-
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 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-mediated disruption of host cellular anatomical entity 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 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-mediated disruption of host cellular anatomical entity 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 cellular process modulation of process of another organism	viral capsid virion component
G [auth O], O [auth R]	The heavy chain of Fab h1A6.2	-	-	-

InterPro: Protein Family Classification InterPro Database Homepage

Chains	Accession	Name	Type
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]	IPR001676	Picornavirus capsid	Domain
A [auth D], B [auth E], I [auth F], J [auth H]	IPR033703	Picornavirus/Calicivirus coat protein	Domain
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]	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	IPR001676	Picornavirus capsid	Domain
C [auth G], D [auth I], K [auth J], L	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.