6PPB

Kaposi's sarcoma-associated herpesvirus (KSHV), C5 portal vertex structure

External Resource: Annotation

Domain Annotation: ECOD Classification
Protein Family 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)
R [auth 2]	PF06112	e6ppb21	A: alpha bundles	X: Smallest capsid protein (SCP) (From Topology)	H: Smallest capsid protein (SCP) (From Topology)	T: Smallest capsid protein (SCP)	F: PF06112	ECOD (1.6)
P [auth 0]	PF06112	e6ppb01	A: alpha bundles	X: Smallest capsid protein (SCP) (From Topology)	H: Smallest capsid protein (SCP) (From Topology)	T: Smallest capsid protein (SCP)	F: PF06112	ECOD (1.6)
Q [auth 1]	PF06112	e6ppb11	A: alpha bundles	X: Smallest capsid protein (SCP) (From Topology)	H: Smallest capsid protein (SCP) (From Topology)	T: Smallest capsid protein (SCP)	F: PF06112	ECOD (1.6)
S [auth 3]	PF06112	e6ppb31	A: alpha bundles	X: Smallest capsid protein (SCP) (From Topology)	H: Smallest capsid protein (SCP) (From Topology)	T: Smallest capsid protein (SCP)	F: PF06112	ECOD (1.6)

Protein Family Annotation Pfam Database Homepage

Chains	Accession	Name	Description	Comments	Source
A [auth k]	PF04559	Herpesvirus UL17 protein (Herpes_UL17)	Herpesvirus UL17 protein	-	Family
B [auth l], C [auth m]	PF01499	Herpesvirus UL25 family (Herpes_UL25)	Herpesvirus UL25 family	-	Family
F [auth S], G [auth T], H [auth W], I [auth X]	PF03122	Herpes virus major capsid protein (Herpes_MCP)	Herpes virus major capsid protein	-	Family
J [auth b], M [auth 5]	PF03327	Herpesvirus capsid shell protein VP19C (Herpes_VP19C)	Herpesvirus capsid shell protein VP19C	-	Family
K [auth c], L [auth d], N [auth 6], O [auth 7]	PF01802	Herpesvirus VP23 like capsid protein (Herpes_V23)	Herpesvirus VP23 like capsid protein	-	Family
P [auth 0], Q [auth 1], R [auth 2], S [auth 3]	PF06112	Gammaherpesvirus capsid protein (Herpes_capsid)	Gammaherpesvirus capsid protein	-	Family

Gene Ontology: Gene Product Annotation Gene Ontology Database Homepage

Chains	Polymer	Molecular Function	Biological Process	Cellular Component
A [auth k]	Capsid vertex component 1	-	cellular component organization organelle organization chromosome organization cellular process cellular component organization or biogenesis exit from host cell biological process involved in interspecies interaction between organisms viral process viral release from host cell viral life cycle biological process involved in interaction with host biological process involved in symbiotic interaction	viral capsid virion component host intracellular membrane-bounded organelle host cellular component host intracellular part host cell part host intracellular region cellular anatomical entity host cell nucleus host intracellular organelle
B [auth l], C [auth m]	Capsid vertex component 2	-	biological process involved in interspecies interaction between organisms symbiont entry into host cell viral process symbiont entry into host viral life cycle biological process involved in interaction with host biological process involved in symbiotic interaction exit from host cell viral release from host cell viral penetration into host nucleus intracellular transport of virus transport of virus virion assembly viral genome packaging	viral capsid virion component host intracellular membrane-bounded organelle host cellular component host intracellular part host cell part host intracellular region cellular anatomical entity host cell nucleus host intracellular organelle
D [auth n], E [auth o]	Large tegument protein deneddylase	cysteine-type peptidase activity ubiquitin-like protein peptidase activity peptidase activity cysteine-type deubiquitinase activity catalytic activity, acting on a protein hydrolase activity catalytic activity deubiquitinase activity	symbiont-mediated perturbation of host cellular process biological process involved in interspecies interaction between organisms symbiont-mediated perturbation of host ubiquitin-like protein modification modulation by symbiont of host process cellular process modulation of process of another organism biological process involved in interaction with host biological process involved in symbiotic interaction organic substance metabolic process organonitrogen compound metabolic process proteolysis metabolic process primary metabolic process protein metabolic process symbiont-mediated perturbation of host cellular process biological process involved in interspecies interaction between organisms symbiont-mediated perturbation of host ubiquitin-like protein modification modulation by symbiont of host process cellular process modulation of process of another organism biological process involved in interaction with host biological process involved in symbiotic interaction organic substance metabolic process organonitrogen compound metabolic process proteolysis metabolic process primary metabolic process protein metabolic process macromolecule metabolic process	viral capsid icosahedral viral capsid virion component host intracellular membrane-bounded organelle host cellular component host intracellular part host cell part host intracellular region cellular anatomical entity host cell nucleus host intracellular organelle viral membrane viral envelope host cell cytoplasm viral capsid icosahedral viral capsid virion component host intracellular membrane-bounded organelle host cellular component host intracellular part host cell part host intracellular region cellular anatomical entity host cell nucleus host intracellular organelle viral membrane viral envelope host cell cytoplasm viral tegument
F [auth S], G [auth T], H [auth W], I [auth X]	Major capsid protein	structural molecule activity	-	host intracellular membrane-bounded organelle host cellular component host intracellular part host cell part host intracellular region cellular anatomical entity host cell nucleus host intracellular organelle viral capsid icosahedral viral capsid virion component T=16 icosahedral viral capsid
J [auth b], M [auth 5]	Triplex capsid protein 1	DNA binding binding organic cyclic compound binding nucleic acid binding	virion assembly viral process viral capsid assembly viral life cycle	viral capsid virion component host intracellular membrane-bounded organelle host cellular component host intracellular part host cell part host intracellular region cellular anatomical entity host cell nucleus host intracellular organelle
K [auth c], L [auth d], N [auth 6], O [auth 7]	Triplex capsid protein 2	structural molecule activity	virion assembly viral process viral capsid assembly viral life cycle	viral capsid virion component host intracellular membrane-bounded organelle host cellular component host intracellular part host cell part host intracellular region cellular anatomical entity host cell nucleus host intracellular organelle
P [auth 0], Q [auth 1], R [auth 2], S [auth 3]	Small capsomere-interacting protein	-	viral process	viral capsid virion component host intracellular membrane-bounded organelle host cellular component host intracellular part host cell part host intracellular region cellular anatomical entity host cell nucleus host intracellular organelle

InterPro: Protein Family Classification InterPro Database Homepage

Chains	Accession	Name	Type
A [auth k]	IPR007640	Herpesvirus capsid vertex component 1	Family
B [auth l], C [auth m]	IPR002493	Herpesvirus UL25	Family
D [auth n], E [auth o]	IPR038765	Papain-like cysteine peptidase superfamily	Homologous Superfamily
D [auth n], E [auth o]	IPR006928	Herpesvirus large tegument protein, USP domain	Domain
D [auth n], E [auth o]	IPR034702	Large tegument protein deneddylase	Family
F [auth S], G [auth T], H [auth W], I [auth X]	IPR000912	Herpesvirus major capsid protein	Family
F [auth S], G [auth T], H [auth W], I [auth X]	IPR023233	Herpesvirus major capsid protein, upper domain superfamily	Homologous Superfamily
J [auth b], M [auth 5]	IPR004999	Herpesvirus capsid shell protein 1	Family
K [auth c], L [auth d], N [auth 6], O [auth 7]	IPR002690	Herpesvirus capsid protein 2	Family
P [auth 0], Q [auth 1], R [auth 2], S [auth 3]	IPR009299	Gammaherpesvirus capsid	Family

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 R01GM133198.