6IGF | pdb_00006igf

Crystal structure of Human Papillomavirus type 52 pentamer

External Resource: Annotation

Domain Annotation: SCOP/SCOPe Classification
Domain Annotation: SCOP2 Classification
Domain Annotation: ECOD Classification
Domain Annotation: CATH
Gene Ontology: Gene Product Annotation
InterPro: Protein Family Classification

Domain Annotation: SCOP/SCOPe Classification SCOP-e Database Homepage

Chains	Domain Info	Class	Fold	Superfamily	Family	Domain	Species	Provenance Source (Version)
J	d6igfj_	All beta proteins	Nucleoplasmin-like/VP (viral coat and capsid proteins)	Group I dsDNA viruses	Papovaviridae-like VP	automated matches	(human papillomavirus 52 ) [TaxId: 10618 ],	SCOPe (2.08)
I	d6igfi_	All beta proteins	Nucleoplasmin-like/VP (viral coat and capsid proteins)	Group I dsDNA viruses	Papovaviridae-like VP	automated matches	(human papillomavirus 52 ) [TaxId: 10618 ],	SCOPe (2.08)
H	d6igfh_	All beta proteins	Nucleoplasmin-like/VP (viral coat and capsid proteins)	Group I dsDNA viruses	Papovaviridae-like VP	automated matches	(human papillomavirus 52 ) [TaxId: 10618 ],	SCOPe (2.08)
G	d6igfg_	All beta proteins	Nucleoplasmin-like/VP (viral coat and capsid proteins)	Group I dsDNA viruses	Papovaviridae-like VP	automated matches	(human papillomavirus 52 ) [TaxId: 10618 ],	SCOPe (2.08)
F	d6igff_	All beta proteins	Nucleoplasmin-like/VP (viral coat and capsid proteins)	Group I dsDNA viruses	Papovaviridae-like VP	automated matches	(human papillomavirus 52 ) [TaxId: 10618 ],	SCOPe (2.08)
E	d6igfe_	All beta proteins	Nucleoplasmin-like/VP (viral coat and capsid proteins)	Group I dsDNA viruses	Papovaviridae-like VP	automated matches	(human papillomavirus 52 ) [TaxId: 10618 ],	SCOPe (2.08)
D	d6igfd_	All beta proteins	Nucleoplasmin-like/VP (viral coat and capsid proteins)	Group I dsDNA viruses	Papovaviridae-like VP	automated matches	(human papillomavirus 52 ) [TaxId: 10618 ],	SCOPe (2.08)
C	d6igfc_	All beta proteins	Nucleoplasmin-like/VP (viral coat and capsid proteins)	Group I dsDNA viruses	Papovaviridae-like VP	automated matches	(human papillomavirus 52 ) [TaxId: 10618 ],	SCOPe (2.08)
B	d6igfb_	All beta proteins	Nucleoplasmin-like/VP (viral coat and capsid proteins)	Group I dsDNA viruses	Papovaviridae-like VP	automated matches	(human papillomavirus 52 ) [TaxId: 10618 ],	SCOPe (2.08)
A	d6igfa_	All beta proteins	Nucleoplasmin-like/VP (viral coat and capsid proteins)	Group I dsDNA viruses	Papovaviridae-like VP	automated matches	(human papillomavirus 52 ) [TaxId: 10618 ],	SCOPe (2.08)

Domain Annotation: SCOP2 Classification SCOP2 Database Homepage

Chains	Type	Family Name	Domain Identifier	Family Identifier	Provenance Source (Version)
J	SCOP2B Superfamily	Group I dsDNA viruses	8071414	3000939	SCOP2B (2022-06-29)
I	SCOP2B Superfamily	Group I dsDNA viruses	8071414	3000939	SCOP2B (2022-06-29)
H	SCOP2B Superfamily	Group I dsDNA viruses	8071414	3000939	SCOP2B (2022-06-29)
G	SCOP2B Superfamily	Group I dsDNA viruses	8071414	3000939	SCOP2B (2022-06-29)
F	SCOP2B Superfamily	Group I dsDNA viruses	8071414	3000939	SCOP2B (2022-06-29)
E	SCOP2 Family	papovaviridae-like vp	8071413	4003485	SCOP2 (2022-06-29)
E	SCOP2 Superfamily	Group I dsDNA viruses	8071414	3000939	SCOP2 (2022-06-29)
D	SCOP2B Superfamily	Group I dsDNA viruses	8071414	3000939	SCOP2B (2022-06-29)
C	SCOP2B Superfamily	Group I dsDNA viruses	8071414	3000939	SCOP2B (2022-06-29)
B	SCOP2B Superfamily	Group I dsDNA viruses	8071414	3000939	SCOP2B (2022-06-29)
A	SCOP2B Superfamily	Group I dsDNA viruses	8071414	3000939	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)
J	Ribosomal_L1	e6igfJ1	A: alpha bundles	X: PriB N-terminal domain-like	H: HTH	T: SH3	F: Ribosomal_L1	ECOD (develop294)
I	Ribosomal_L1	e6igfI1	A: alpha bundles	X: PriB N-terminal domain-like	H: HTH	T: SH3	F: Ribosomal_L1	ECOD (develop294)
H	Ribosomal_L1	e6igfH1	A: alpha bundles	X: PriB N-terminal domain-like	H: HTH	T: SH3	F: Ribosomal_L1	ECOD (develop294)
G	Ribosomal_L1	e6igfG1	A: alpha bundles	X: PriB N-terminal domain-like	H: HTH	T: SH3	F: Ribosomal_L1	ECOD (develop294)
F	Ribosomal_L1	e6igfF1	A: alpha bundles	X: PriB N-terminal domain-like	H: HTH	T: SH3	F: Ribosomal_L1	ECOD (develop294)
E	Ribosomal_L1	e6igfE1	A: alpha bundles	X: PriB N-terminal domain-like	H: HTH	T: SH3	F: Ribosomal_L1	ECOD (develop294)
D	Ribosomal_L1	e6igfD1	A: alpha bundles	X: PriB N-terminal domain-like	H: HTH	T: SH3	F: Ribosomal_L1	ECOD (develop294)
C	Ribosomal_L1	e6igfC1	A: alpha bundles	X: PriB N-terminal domain-like	H: HTH	T: SH3	F: Ribosomal_L1	ECOD (develop294)
B	Ribosomal_L1	e6igfB1	A: alpha bundles	X: PriB N-terminal domain-like	H: HTH	T: SH3	F: Ribosomal_L1	ECOD (develop294)
A	Ribosomal_L1	e6igfA1	A: alpha bundles	X: PriB N-terminal domain-like	H: HTH	T: SH3	F: Ribosomal_L1	ECOD (develop294)

Domain Annotation: CATH CATH Database Homepage

Chain	Domain	Class	Architecture	Topology	Homology	Provenance Source (Version)
J	2.60.175.20	Mainly Beta	Sandwich	Polyomavirus Vp1	Chain A	CATH (4.3.0)
I	2.60.175.20	Mainly Beta	Sandwich	Polyomavirus Vp1	Chain A	CATH (4.3.0)
H	2.60.175.20	Mainly Beta	Sandwich	Polyomavirus Vp1	Chain A	CATH (4.3.0)
G	2.60.175.20	Mainly Beta	Sandwich	Polyomavirus Vp1	Chain A	CATH (4.3.0)
F	2.60.175.20	Mainly Beta	Sandwich	Polyomavirus Vp1	Chain A	CATH (4.3.0)
E	2.60.175.20	Mainly Beta	Sandwich	Polyomavirus Vp1	Chain A	CATH (4.3.0)
D	2.60.175.20	Mainly Beta	Sandwich	Polyomavirus Vp1	Chain A	CATH (4.3.0)
C	2.60.175.20	Mainly Beta	Sandwich	Polyomavirus Vp1	Chain A	CATH (4.3.0)
B	2.60.175.20	Mainly Beta	Sandwich	Polyomavirus Vp1	Chain A	CATH (4.3.0)
A	2.60.175.20	Mainly Beta	Sandwich	Polyomavirus Vp1	Chain A	CATH (4.3.0)

Gene Ontology: Gene Product Annotation Gene Ontology Database Homepage

Chains	Polymer	Molecular Function	Biological Process	Cellular Component
A, B, C, D, E A, B, C, D, E, F, G, H, I, J	Major capsid protein L1	structural molecule activity	virion attachment to host cell biological process involved in interspecies interaction between organisms adhesion of symbiont to host cell viral process viral life cycle adhesion of symbiont to host biological process involved in interaction with host biological process involved in symbiotic interaction symbiont entry into host cell symbiont entry into host endocytosis involved in viral entry into host cell	viral capsid icosahedral viral capsid T=7 icosahedral viral capsid virion component host intracellular membrane-bounded organelle host cellular component host intracellular part cellular anatomical structure host cell part host intracellular region host cell nucleus other organism part host intracellular organelle

InterPro: Protein Family Classification InterPro Database Homepage

Chains	Accession	Name	Type
A, B, C, D, E A, B, C, D, E, F, G, H, I, J	IPR036973	Major capsid L1 (late) superfamily, Papillomavirus	Homologous Superfamily
A, B, C, D, E A, B, C, D, E, F, G, H, I, J	IPR011222	Double-stranded DNA virus, group I, capsid	Homologous Superfamily
A, B, C, D, E A, B, C, D, E, F, G, H, I, J	IPR002210	Major capsid L1 (late) protein, Papillomavirus	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 R01GM157729. RCSB PDB uses resources of the National Energy Research Scientific Computing Center (NERSC), a Department of Energy User Facility.